From 8d26df701d49b89bb9431db1cfa99084be4eec27 Mon Sep 17 00:00:00 2001 From: Alexis Roche Date: Tue, 11 Nov 2014 12:25:32 +0100 Subject: [PATCH 1/3] remove linking with system lapack or lapack lite, implement on-the-fly import of lapack functions using scipy --- lib/fff/fff_base.c | 6 +- lib/fff/fff_base.h | 47 + lib/fff/fff_blas.c | 319 +- lib/fff/fff_blas.h | 5 +- lib/fff/fff_gen_stats.c | 15 +- lib/fff/fff_gen_stats.h | 3 +- lib/fff/fff_lapack.c | 65 +- lib/fff/fff_lapack.h | 11 +- lib/fff_python_wrapper/fff.pxd | 3 +- lib/fff_python_wrapper/fffpy.c | 10 + lib/fff_python_wrapper/fffpy.h | 6 + .../fffpy_import_lapack.pxi | 71 + nipy/labs/bindings/__init__.py | 2 +- nipy/labs/bindings/array.c | 3532 ++++---- nipy/labs/bindings/linalg.c | 7605 +++++++++-------- nipy/labs/bindings/linalg.pyx | 71 +- nipy/labs/bindings/setup.py | 17 +- nipy/labs/bindings/tests/test_blas3.py | 20 +- nipy/labs/bindings/wrapper.c | 4153 ++++----- nipy/labs/glm/kalman.c | 4804 ++++++----- nipy/labs/glm/kalman.pyx | 4 +- nipy/labs/glm/setup.py | 12 +- nipy/labs/group/glm_twolevel.c | 5094 ++++++----- nipy/labs/group/glm_twolevel.pyx | 2 + nipy/labs/group/onesample.c | 5501 +++++++----- nipy/labs/group/onesample.pyx | 3 +- nipy/labs/group/setup.py | 37 +- nipy/labs/group/twosample.c | 5036 ++++++----- nipy/labs/group/twosample.pyx | 3 +- nipy/labs/setup.py | 57 +- nipy/labs/utils/routines.c | 6676 +-------------- nipy/labs/utils/routines.pyx | 15 +- nipy/labs/utils/setup.py | 18 +- nipy/labs/utils/tests/test_misc.py | 18 +- 34 files changed, 20328 insertions(+), 22913 deletions(-) create mode 100644 lib/fff_python_wrapper/fffpy_import_lapack.pxi diff --git a/lib/fff/fff_base.c b/lib/fff/fff_base.c index 8afc879109..e4d6441a39 100644 --- a/lib/fff/fff_base.c +++ b/lib/fff/fff_base.c @@ -44,7 +44,11 @@ unsigned int fff_nbytes(fff_datatype type) } - +void fff_import_external_func(void* func_ptr, int k) +{ + FFF_EXTERNAL_FUNC[k] = func_ptr; + return; +} int fff_is_integer(fff_datatype type) { diff --git a/lib/fff/fff_base.h b/lib/fff/fff_base.h index 0a2c9ebdc2..204acb0c4b 100644 --- a/lib/fff/fff_base.h +++ b/lib/fff/fff_base.h @@ -153,6 +153,53 @@ extern "C" { } fff_datatype; + /* Global array of external function pointers */ + void* FFF_EXTERNAL_FUNC[29]; + typedef enum { + FFF_BLAS_DDOT=0, + FFF_BLAS_DNRM2=1, + FFF_BLAS_DASUM=2, + FFF_BLAS_IDAMAX=3, + FFF_BLAS_DSWAP=4, + FFF_BLAS_DCOPY=5, + FFF_BLAS_DAXPY=6, + FFF_BLAS_DSCAL=7, + FFF_BLAS_DROT=8, + FFF_BLAS_DROTG=9, + FFF_BLAS_DROTMG=10, + FFF_BLAS_DROTM=11, + FFF_BLAS_DGEMV=12, + FFF_BLAS_DTRMV=13, + FFF_BLAS_DTRSV=14, + FFF_BLAS_DSYMV=15, + FFF_BLAS_DGER=16, + FFF_BLAS_DSYR=17, + FFF_BLAS_DSYR2=18, + FFF_BLAS_DGEMM=19, + FFF_BLAS_DSYMM=20, + FFF_BLAS_DTRMM=21, + FFF_BLAS_DTRSM=22, + FFF_BLAS_DSYRK=23, + FFF_BLAS_DSYR2K=24, + FFF_LAPACK_DGETRF=25, + FFF_LAPACK_DPOTRF=26, + FFF_LAPACK_DPOTRS=27, + FFF_LAPACK_DGESDD=28, + FFF_LAPACK_DGEQRF=29 + } fff_external_func_key; + + /* + Lapack functions: + dgetrf : LU decomp + dpotrf: Cholesky decomp + dpotrs: solve linear system using Cholesky decomp + dgesdd: SVD decomp + dgeqrf: QR decomp + */ + + /* Import function */ + extern void fff_import_external_func(void* func_ptr, int k); + /*! \brief Return the byte length of a given data type \param type input data type diff --git a/lib/fff/fff_blas.c b/lib/fff/fff_blas.c index daa8862d65..8db8d1b3ff 100644 --- a/lib/fff/fff_blas.c +++ b/lib/fff/fff_blas.c @@ -20,71 +20,6 @@ -/* BLAS 1 */ -extern double FNAME(ddot)(int* n, double* dx, int* incx, double* dy, - int* incy); -extern double FNAME(dnrm2)(int* n, double* x, int* incx); -extern double FNAME(dasum)(int* n, double* dx, int* incx); -extern int FNAME(idamax)(int* n, double* dx, int* incx); -extern int FNAME(dswap)(int* n, double* dx, int* incx, - double* dy, int* incy); -extern int FNAME(dcopy)(int* n, double* dx, int* incx, - double* dy, int* incy); -extern int FNAME(daxpy)(int* n, double* da, double* dx, - int* incx, double* dy, int* incy); -extern int FNAME(dscal)(int* n, double* da, double* dx, - int* incx); -extern int FNAME(drotg)(double* da, double* db, double* c__, - double* s); -extern int FNAME(drot)(int* n, double* dx, int* incx, - double* dy, int* incy, double* c__, double* s); -extern int FNAME(drotmg)(double* dd1, double* dd2, double* - dx1, double* dy1, double* dparam); -extern int FNAME(drotm)(int* n, double* dx, int* incx, - double* dy, int* incy, double* dparam); - -/* BLAS 2 */ -extern int FNAME(dgemv)(char *trans, int* m, int* n, double* - alpha, double* a, int* lda, double* x, int* incx, - double* beta, double* y, int* incy); -extern int FNAME(dtrmv)(char *uplo, char *trans, char *diag, int* n, - double* a, int* lda, double* x, int* incx); -extern int FNAME(dtrsv)(char *uplo, char *trans, char *diag, int* n, - double* a, int* lda, double* x, int* incx); -extern int FNAME(dsymv)(char *uplo, int* n, double* alpha, - double* a, int* lda, double* x, int* incx, double - *beta, double* y, int* incy); -extern int FNAME(dger)(int* m, int* n, double* alpha, - double* x, int* incx, double* y, int* incy, - double* a, int* lda); -extern int FNAME(dsyr)(char *uplo, int* n, double* alpha, - double* x, int* incx, double* a, int* lda); -extern int FNAME(dsyr2)(char *uplo, int* n, double* alpha, - double* x, int* incx, double* y, int* incy, - double* a, int* lda); - -/* BLAS 3 */ -extern int FNAME(dgemm)(char *transa, char *transb, int* m, int* - n, int* k, double* alpha, double* a, int* lda, - double* b, int* ldb, double* beta, double* c__, - int* ldc); -extern int FNAME(dsymm)(char *side, char *uplo, int* m, int* n, - double* alpha, double* a, int* lda, double* b, - int* ldb, double* beta, double* c__, int* ldc); -extern int FNAME(dtrmm)(char *side, char *uplo, char *transa, char *diag, - int* m, int* n, double* alpha, double* a, int* - lda, double* b, int* ldb); -extern int FNAME(dtrsm)(char *side, char *uplo, char *transa, char *diag, - int* m, int* n, double* alpha, double* a, int* - lda, double* b, int* ldb); -extern int FNAME(dsyrk)(char *uplo, char *trans, int* n, int* k, - double* alpha, double* a, int* lda, double* beta, - double* c__, int* ldc); -extern int FNAME(dsyr2k)(char *uplo, char *trans, int* n, int* k, - double* alpha, double* a, int* lda, double* b, - int* ldb, double* beta, double* c__, int* ldc); - - /****** BLAS 1 ******/ /* Compute the scalar product x^T y for the vectors x and y, returning the result in result.*/ @@ -93,11 +28,14 @@ double fff_blas_ddot (const fff_vector * x, const fff_vector * y) int n = (int) x->size; int incx = (int) x->stride; int incy = (int) y->stride; + double (*ddot)(int* n, double* dx, int* incx, double* dy, int* incy); + + ddot = FFF_EXTERNAL_FUNC[FFF_BLAS_DDOT]; if ( n != y->size ) return 1; - return( FNAME(ddot)(&n, x->data, &incx, y->data, &incy) ); + return( (*ddot)(&n, x->data, &incx, y->data, &incy) ); } /* Compute the Euclidean norm ||x||_2 = \sqrt {\sum x_i^2} of the vector x. */ @@ -105,8 +43,11 @@ double fff_blas_dnrm2 (const fff_vector * x) { int n = (int) x->size; int incx = (int) x->stride; + double (*dnrm2)(int* n, double* x, int* incx); + + dnrm2 = FFF_EXTERNAL_FUNC[FFF_BLAS_DNRM2]; - return( FNAME(dnrm2)(&n, x->data, &incx) ); + return( (*dnrm2)(&n, x->data, &incx) ); } /* Compute the absolute sum \sum |x_i| of the elements of the vector x.*/ @@ -114,8 +55,11 @@ double fff_blas_dasum (const fff_vector * x) { int n = (int) x->size; int incx = (int) x->stride; + double (*dasum)(int* n, double* dx, int* incx); - return( FNAME(dasum)(&n, x->data, &incx) ); + dasum = FFF_EXTERNAL_FUNC[FFF_BLAS_DASUM]; + + return( (*dasum)(&n, x->data, &incx) ); } /* @@ -128,8 +72,11 @@ CBLAS_INDEX_t fff_blas_idamax (const fff_vector * x) { int n = (int) x->size; int incx = (int) x->stride; + int (*idamax)(int* n, double* dx, int* incx); + + idamax = FFF_EXTERNAL_FUNC[FFF_BLAS_IDAMAX]; - return( (CBLAS_INDEX_t)(FNAME(idamax)(&n, x->data, &incx) - 1) ); + return( (CBLAS_INDEX_t)((*idamax)(&n, x->data, &incx) - 1) ); } /* Exchange the elements of the vectors x and y.*/ @@ -138,11 +85,15 @@ int fff_blas_dswap (fff_vector * x, fff_vector * y) int n = (int) x->size; int incx = (int) x->stride; int incy = (int) y->stride; + int (*dswap)(int* n, double* dx, int* incx, + double* dy, int* incy); + + dswap = FFF_EXTERNAL_FUNC[FFF_BLAS_DSWAP]; if ( n != y->size ) return 1; - return( FNAME(dswap)(&n, x->data, &incx, y->data, &incy) ); + return( (*dswap)(&n, x->data, &incx, y->data, &incy) ); } /* Copy the elements of the vector x into the vector y */ @@ -151,11 +102,15 @@ int fff_blas_dcopy (const fff_vector * x, fff_vector * y) int n = (int) x->size; int incx = (int) x->stride; int incy = (int) y->stride; - + int (*dcopy)(int* n, double* dx, int* incx, + double* dy, int* incy); + + dcopy = FFF_EXTERNAL_FUNC[FFF_BLAS_DCOPY]; + if ( n != y->size ) return 1; - return( FNAME(dcopy)(&n, x->data, &incx, y->data, &incy) ); + return( (*dcopy)(&n, x->data, &incx, y->data, &incy) ); } /* Compute the sum y = \alpha x + y for the vectors x and y */ @@ -164,11 +119,15 @@ int fff_blas_daxpy (double alpha, const fff_vector * x, fff_vector * y) int n = (int) x->size; int incx = (int) x->stride; int incy = (int) y->stride; - + int (*daxpy)(int* n, double* da, double* dx, + int* incx, double* dy, int* incy); + if ( n != y->size ) return 1; + + daxpy = FFF_EXTERNAL_FUNC[FFF_BLAS_DAXPY]; - return( FNAME(daxpy)(&n, &alpha, x->data, &incx, y->data, &incy) ); + return( (*daxpy)(&n, &alpha, x->data, &incx, y->data, &incy) ); } /* Rescale the vector x by the multiplicative factor alpha. */ @@ -176,8 +135,12 @@ int fff_blas_dscal (double alpha, fff_vector * x) { int n = (int) x->size; int incx = (int) x->stride; + int (*dscal)(int* n, double* da, double* dx, + int* incx); - return( FNAME(dscal)(&n, &alpha, x->data, &incx) ); + dscal = FFF_EXTERNAL_FUNC[FFF_BLAS_DSCAL]; + + return( (*dscal)(&n, &alpha, x->data, &incx) ); } @@ -187,9 +150,15 @@ int fff_blas_dscal (double alpha, fff_vector * x) [ -s c ] [ b ] [ 0 ] The variables a and b are overwritten by the routine. */ + int fff_blas_drotg (double a[], double b[], double c[], double s[]) { - return( FNAME(drotg)(a, b, c, s) ); + int (*drotg)(double* da, double* db, double* c__, + double* s); + + drotg = FFF_EXTERNAL_FUNC[FFF_BLAS_DROTG]; + + return( (*drotg)(a, b, c, s) ); } /* Apply a Givens rotation (x', y') = (c x + s y, -s x + c y) to the vectors x, y.*/ @@ -198,11 +167,15 @@ int fff_blas_drot (fff_vector * x, fff_vector * y, double c, double s) int n = (int) x->size; int incx = (int) x->stride; int incy = (int) y->stride; + int (*drot)(int* n, double* dx, int* incx, + double* dy, int* incy, double* c__, double* s); + + drot = FFF_EXTERNAL_FUNC[FFF_BLAS_DROT]; if ( n != y->size ) return 1; - return( FNAME(drot)(&n, x->data, &incx, y->data, &incy, &c, &s) ); + return( (*drot)(&n, x->data, &incx, y->data, &incy, &c, &s) ); } /* Compute a modified Givens transformation. The modified Givens @@ -210,7 +183,12 @@ int fff_blas_drot (fff_vector * x, fff_vector * y, double c, double s) specification. */ int fff_blas_drotmg (double d1[], double d2[], double b1[], double b2, double P[]) { - return( FNAME(drotmg)(d1, d2, b1, &b2, P) ); + int (*drotmg)(double* dd1, double* dd2, double* + dx1, double* dy1, double* dparam); + + drotmg = FFF_EXTERNAL_FUNC[FFF_BLAS_DROTMG]; + + return( (*drotmg)(d1, d2, b1, &b2, P) ); } @@ -220,17 +198,22 @@ int fff_blas_drotm (fff_vector * x, fff_vector * y, const double P[]) int n = (int) x->size; int incx = (int) x->stride; int incy = (int) y->stride; + int (*drotm)(int* n, double* dx, int* incx, + double* dy, int* incy, double* dparam); + + drotm = FFF_EXTERNAL_FUNC[FFF_BLAS_DROTM]; if ( n != y->size ) return 1; - return( FNAME(drotm)(&n, x->data, &incx, y->data, &incy, (double*)P) ); + return( (*drotm)(&n, x->data, &incx, y->data, &incy, (double*)P) ); } /****** BLAS 2 ******/ + /* Compute the matrix-vector product and sum y = \alpha op(A) x + \beta y, where op(A) = A, A^T, A^H for TransA = CblasNoTrans, CblasTrans, CblasConjTrans. */ @@ -243,13 +226,18 @@ int fff_blas_dgemv (CBLAS_TRANSPOSE_t TransA, double alpha, int m = (int) A->size2; int n = (int) A->size1; int lda = (int) A->tda; - - return( FNAME(dgemv)(trans, &m, &n, - &alpha, - A->data, &lda, - x->data, &incx, - &beta, - y->data, &incy) ); + int (*dgemv)(char *trans, int* m, int* n, double* + alpha, double* a, int* lda, double* x, int* incx, + double* beta, double* y, int* incy); + + dgemv = FFF_EXTERNAL_FUNC[FFF_BLAS_DGEMV]; + + return( (*dgemv)(trans, &m, &n, + &alpha, + A->data, &lda, + x->data, &incx, + &beta, + y->data, &incy) ); } @@ -270,10 +258,14 @@ int fff_blas_dtrmv (CBLAS_UPLO_t Uplo, CBLAS_TRANSPOSE_t TransA, CBLAS_DIAG_t Di int incx = (int) x->stride; int n = (int) A->size1; int lda = (int) A->tda; + int (*dtrmv)(char *uplo, char *trans, char *diag, int* n, + double* a, int* lda, double* x, int* incx); + + dtrmv = FFF_EXTERNAL_FUNC[FFF_BLAS_DTRMV]; - return( FNAME(dtrmv)(uplo, trans, diag, &n, - A->data, &lda, - x->data, &incx) ); + return( (*dtrmv)(uplo, trans, diag, &n, + A->data, &lda, + x->data, &incx) ); } @@ -294,10 +286,14 @@ int fff_blas_dtrsv (CBLAS_UPLO_t Uplo, CBLAS_TRANSPOSE_t TransA, CBLAS_DIAG_t Di int incx = (int) x->stride; int n = (int) A->size1; int lda = (int) A->tda; + int (*dtrsv)(char *uplo, char *trans, char *diag, int* n, + double* a, int* lda, double* x, int* incx); - return( FNAME(dtrsv)(uplo, trans, diag, &n, - A->data, &lda, - x->data, &incx) ); + dtrsv = FFF_EXTERNAL_FUNC[FFF_BLAS_DTRSV]; + + return( (*dtrsv)(uplo, trans, diag, &n, + A->data, &lda, + x->data, &incx) ); } /* @@ -307,7 +303,6 @@ half or lower half need to be stored. When Uplo is CblasUpper then the upper triangle and diagonal of A are used, and when Uplo is CblasLower then the lower triangle and diagonal of A are used. */ - int fff_blas_dsymv (CBLAS_UPLO_t Uplo, double alpha, const fff_matrix * A, const fff_vector * x, double beta, fff_vector * y) @@ -317,15 +312,21 @@ int fff_blas_dsymv (CBLAS_UPLO_t Uplo, int incy = (int) y->stride; int n = (int) A->size1; int lda = (int) A->tda; + int (*dsymv)(char *uplo, int* n, double* alpha, + double* a, int* lda, double* x, int* incx, double + *beta, double* y, int* incy); - return( FNAME(dsymv)(uplo, &n, - &alpha, - A->data, &lda, - x->data, &incx, - &beta, - y->data, &incy) ); + dsymv = FFF_EXTERNAL_FUNC[FFF_BLAS_DSYMV]; + + return( (*dsymv)(uplo, &n, + &alpha, + A->data, &lda, + x->data, &incx, + &beta, + y->data, &incy) ); } + /* Compute the rank-1 update A = \alpha x y^T + A of the matrix A.*/ int fff_blas_dger (double alpha, const fff_vector * x, const fff_vector * y, fff_matrix * A) { @@ -334,12 +335,17 @@ int fff_blas_dger (double alpha, const fff_vector * x, const fff_vector * y, fff int m = (int) A->size2; int n = (int) A->size1; int lda = (int) A->tda; + int (*dger)(int* m, int* n, double* alpha, + double* x, int* incx, double* y, int* incy, + double* a, int* lda); - return( FNAME(dger)(&m, &n, - &alpha, - y->data, &incy, - x->data, &incx, - A->data, &lda) ); + dger = FFF_EXTERNAL_FUNC[FFF_BLAS_DGER]; + + return( (*dger)(&m, &n, + &alpha, + y->data, &incy, + x->data, &incx, + A->data, &lda) ); } /* @@ -355,11 +361,15 @@ int fff_blas_dsyr (CBLAS_UPLO_t Uplo, double alpha, const fff_vector * x, fff_ma int incx = (int) x->stride; int n = (int) A->size1; int lda = (int) A->tda; + int (*dsyr)(char *uplo, int* n, double* alpha, + double* x, int* incx, double* a, int* lda); - return( FNAME(dsyr)(uplo, &n, - &alpha, - x->data, &incx, - A->data, &lda ) ); + dsyr = FFF_EXTERNAL_FUNC[FFF_BLAS_DSYR]; + + return( (*dsyr)(uplo, &n, + &alpha, + x->data, &incx, + A->data, &lda ) ); } /* @@ -378,12 +388,17 @@ int fff_blas_dsyr2 (CBLAS_UPLO_t Uplo, double alpha, int incy = (int) y->stride; int n = (int) A->size1; int lda = (int) A->tda; + int (*dsyr2)(char *uplo, int* n, double* alpha, + double* x, int* incx, double* y, int* incy, + double* a, int* lda); + + dsyr2 = FFF_EXTERNAL_FUNC[FFF_BLAS_DSYR2]; - return( FNAME(dsyr2)(uplo, &n, - &alpha, - y->data, &incy, - x->data, &incx, - A->data, &lda) ); + return( (*dsyr2)(uplo, &n, + &alpha, + y->data, &incy, + x->data, &incx, + A->data, &lda) ); } @@ -415,8 +430,14 @@ int fff_blas_dgemm (CBLAS_TRANSPOSE_t TransA, CBLAS_TRANSPOSE_t TransB, int ldb = (int) B->tda; int ldc = (int) C->tda; int k = (TransB == CblasNoTrans) ? (int)B->size1 : (int)B->size2; + int (*dgemm)(char *transa, char *transb, int* m, int* + n, int* k, double* alpha, double* a, int* lda, + double* b, int* ldb, double* beta, double* c__, + int* ldc); - return( FNAME(dgemm)(transb, transa, &m, &n, &k, &alpha, + dgemm = FFF_EXTERNAL_FUNC[FFF_BLAS_DGEMM]; + + return( (*dgemm)(transb, transa, &m, &n, &k, &alpha, B->data, &ldb, A->data, &lda, &beta, @@ -440,13 +461,18 @@ int fff_blas_dsymm (CBLAS_SIDE_t Side, CBLAS_UPLO_t Uplo, int lda = (int) A->tda; int ldb = (int) B->tda; int ldc = (int) C->tda; - - return ( FNAME(dsymm)(side, uplo, &m, &n, - &alpha, - A->data, &lda, - B->data, &ldb, - &beta, - C->data, &ldc) ); + int (*dsymm)(char *side, char *uplo, int* m, int* n, + double* alpha, double* a, int* lda, double* b, + int* ldb, double* beta, double* c__, int* ldc); + + dsymm = FFF_EXTERNAL_FUNC[FFF_BLAS_DSYMM]; + + return ( (*dsymm)(side, uplo, &m, &n, + &alpha, + A->data, &lda, + B->data, &ldb, + &beta, + C->data, &ldc) ); } /* @@ -470,12 +496,16 @@ int fff_blas_dtrmm (CBLAS_SIDE_t Side, CBLAS_UPLO_t Uplo, CBLAS_TRANSPOSE_t Tran int n = B->size1; int lda = (int) A->tda; int ldb = (int) B->tda; - + int (*dtrmm)(char *side, char *uplo, char *transa, char *diag, + int* m, int* n, double* alpha, double* a, int* + lda, double* b, int* ldb); - return( FNAME(dtrmm)(side, uplo, transa, diag, &m, &n, - &alpha, - A->data, &lda, - B->data, &ldb) ); + dtrmm = FFF_EXTERNAL_FUNC[FFF_BLAS_DTRMM]; + + return( (*dtrmm)(side, uplo, transa, diag, &m, &n, + &alpha, + A->data, &lda, + B->data, &ldb) ); } @@ -501,11 +531,16 @@ int fff_blas_dtrsm (CBLAS_SIDE_t Side, CBLAS_UPLO_t Uplo, CBLAS_TRANSPOSE_t Tran int n = B->size1; int lda = (int) A->tda; int ldb = (int) B->tda; + int (*dtrsm)(char *side, char *uplo, char *transa, char *diag, + int* m, int* n, double* alpha, double* a, int* + lda, double* b, int* ldb); + + dtrsm = FFF_EXTERNAL_FUNC[FFF_BLAS_DTRSM]; - return( FNAME(dtrsm)(side, uplo, transa, diag, &m, &n, - &alpha, - A->data, &lda, - B->data, &ldb) ); + return( (*dtrsm)(side, uplo, transa, diag, &m, &n, + &alpha, + A->data, &lda, + B->data, &ldb) ); } @@ -526,12 +561,17 @@ int fff_blas_dsyrk (CBLAS_UPLO_t Uplo, CBLAS_TRANSPOSE_t Trans, int k = (Trans == CblasNoTrans) ? (int)A->size1 : (int)A->size2; int lda = (int) A->tda; int ldc = (int) C->tda; + int (*dsyrk)(char *uplo, char *trans, int* n, int* k, + double* alpha, double* a, int* lda, double* beta, + double* c__, int* ldc); - return( FNAME(dsyrk)(uplo, trans, &n, &k, - &alpha, - A->data, &lda, - &beta, - C->data, &ldc) ); + dsyrk = FFF_EXTERNAL_FUNC[FFF_BLAS_DSYRK]; + + return( (*dsyrk)(uplo, trans, &n, &k, + &alpha, + A->data, &lda, + &beta, + C->data, &ldc) ); } /* @@ -553,8 +593,13 @@ int fff_blas_dsyr2k (CBLAS_UPLO_t Uplo, CBLAS_TRANSPOSE_t Trans, int lda = (int) A->tda; int ldb = (int) B->tda; int ldc = (int) C->tda; - - return( FNAME(dsyr2k)(uplo, trans, &n, &k, + int (*dsyr2k)(char *uplo, char *trans, int* n, int* k, + double* alpha, double* a, int* lda, double* b, + int* ldb, double* beta, double* c__, int* ldc); + + dsyr2k = FFF_EXTERNAL_FUNC[FFF_BLAS_DSYR2K]; + + return( (*dsyr2k)(uplo, trans, &n, &k, &alpha, B->data, &ldb, A->data, &lda, diff --git a/lib/fff/fff_blas.h b/lib/fff/fff_blas.h index 7e6e1655b7..f4923beb93 100644 --- a/lib/fff/fff_blas.h +++ b/lib/fff/fff_blas.h @@ -25,7 +25,10 @@ extern "C" { typedef enum {CblasUpper=121, CblasLower=122} CBLAS_UPLO_t; typedef enum {CblasNonUnit=131, CblasUnit=132} CBLAS_DIAG_t; typedef enum {CblasLeft=141, CblasRight=142} CBLAS_SIDE_t; - + + /* Import function */ + extern void fff_blas_import_func(void* func_ptr, int k); + /* BLAS 1 */ extern double fff_blas_ddot (const fff_vector * x, const fff_vector * y); extern double fff_blas_dnrm2 (const fff_vector * x); diff --git a/lib/fff/fff_gen_stats.c b/lib/fff/fff_gen_stats.c index d92ed477ba..6a258b473c 100644 --- a/lib/fff/fff_gen_stats.c +++ b/lib/fff/fff_gen_stats.c @@ -103,19 +103,18 @@ extern void fff_combination(unsigned int* x, unsigned int k, unsigned int n, uns Squared mahalanobis distance: d2 = x' S^-1 x Beware: x is not const */ -extern double fff_mahalanobis(fff_vector* x, fff_matrix* S, fff_matrix* Saux) +extern double fff_mahalanobis(fff_vector* x, fff_matrix* S, fff_vector* xaux, fff_vector* Saux) { double d2; - double m = 0.0; - /* Cholesky decomposition: S = L L^t, L lower triangular */ - fff_lapack_dpotrf(CblasLower, S, Saux); + /* Copy x into xaux */ + fff_vector_memcpy(xaux, x); - /* Compute S^-1 x */ - fff_blas_dtrsv(CblasLower, CblasNoTrans, CblasNonUnit, S, x); /* L^-1 x */ - + /* Compute: xaux = S^-1 x using Cholesky decomposition */ + fff_lapack_solve_chol(S, xaux, Saux); + /* Compute x' S^-1 x */ - d2 = (double) fff_vector_ssd(x, &m, 1); + d2 = fff_blas_ddot (x, xaux); return d2; } diff --git a/lib/fff/fff_gen_stats.h b/lib/fff/fff_gen_stats.h index b256c97735..d9dbb2535f 100644 --- a/lib/fff/fff_gen_stats.h +++ b/lib/fff/fff_gen_stats.h @@ -23,6 +23,7 @@ extern "C" { \brief Squared Mahalanobis distance \param x input data vector (beware: gets modified) \param S associated variance matrix + \param xaux auxiliary vector, same size as \a x, must be contiguous \param Saux auxiliary matrix, same size as \a S Compute the squared Mahalanobis distance \f$ d^2 = x^t S^{-1} x @@ -30,7 +31,7 @@ extern "C" { \f$ where \a L is lower triangular, and then exploits the fact that \f$ d^2 = \| L^{-1}x \|^2 \f$. */ - extern double fff_mahalanobis( fff_vector* x, fff_matrix* S, fff_matrix* Saux ); + extern double fff_mahalanobis(fff_vector* x, fff_matrix* S, fff_vector* xaux, fff_vector* Saux); /* \brief Generate a permutation from \a [0..n-1] diff --git a/lib/fff/fff_lapack.c b/lib/fff/fff_lapack.c index 5861caaae9..ee32bb6a34 100644 --- a/lib/fff/fff_lapack.c +++ b/lib/fff/fff_lapack.c @@ -3,14 +3,6 @@ #include -#define FNAME FFF_FNAME - -/* -dgetrf : LU decomp -dpotrf: Cholesky decomp -dgesdd: SVD decomp -dgeqrf: QR decomp -*/ #define CHECK_SQUARE(A) \ if ( (A->size1) != (A->size2) ) \ @@ -19,12 +11,6 @@ dgeqrf: QR decomp #define LAPACK_UPLO(Uplo) ( (Uplo)==(CblasUpper) ? "U" : "L" ) -extern int FNAME(dgetrf)(int* m, int* n, double* a, int* lda, int* ipiv, int* info); -extern int FNAME(dpotrf)(char *uplo, int* n, double* a, int* lda, int* info); -extern int FNAME(dgesdd)(char *jobz, int* m, int* n, double* a, int* lda, double* s, double* u, int* ldu, - double* vt, int* ldvt, double* work, int* lwork, int* iwork, int* info); -extern int FNAME(dgeqrf)(int* m, int* n, double* a, int* lda, double* tau, double* work, int* lwork, int* info); - /* Cholesky decomposition */ /*** Aux needs be square with the same size as A ***/ @@ -34,11 +20,12 @@ int fff_lapack_dpotrf( CBLAS_UPLO_t Uplo, fff_matrix* A, fff_matrix* Aux ) int info; int n = (int)A->size1; /* Assumed squared */ int lda = (int)Aux->tda; + int (*dpotrf)(char *uplo, int* n, double* a, int* lda, int* info); CHECK_SQUARE(A); fff_matrix_transpose( Aux, A ); - FNAME(dpotrf)(uplo, &n, Aux->data, &lda, &info); + (*dpotrf)(uplo, &n, Aux->data, &lda, &info); fff_matrix_transpose( A, Aux ); return info; @@ -53,7 +40,10 @@ int fff_lapack_dgetrf( fff_matrix* A, fff_array* ipiv, fff_matrix* Aux ) int m = (int)A->size1; int n = (int)A->size2; int lda = (int)Aux->tda; + int (*dgetrf)(int* m, int* n, double* a, int* lda, int* ipiv, int* info); + dgetrf = FFF_EXTERNAL_FUNC[FFF_LAPACK_DGETRF]; + if ( (ipiv->ndims != 1) || (ipiv->datatype != FFF_INT) || (ipiv->dimX != FFF_MIN(m,n)) || @@ -61,12 +51,13 @@ int fff_lapack_dgetrf( fff_matrix* A, fff_array* ipiv, fff_matrix* Aux ) FFF_ERROR("Invalid array: Ipiv", EDOM); fff_matrix_transpose( Aux, A ); - FNAME(dgetrf)(&m, &n, Aux->data, &lda, (int*)ipiv->data, &info); + (*dgetrf)(&m, &n, Aux->data, &lda, (int*)ipiv->data, &info); fff_matrix_transpose( A, Aux ); return info; } + /* QR decomposition */ /*** Aux needs be m x n with m=A->size2 and n=A->size1 ***/ /*** tau needs be contiguous with size min(m,n) ***/ @@ -78,6 +69,9 @@ int fff_lapack_dgeqrf( fff_matrix* A, fff_vector* tau, fff_vector* work, fff_mat int n = (int)A->size2; int lda = (int)Aux->tda; int lwork = (int)work->size; + int (*dgeqrf)(int* m, int* n, double* a, int* lda, double* tau, double* work, int* lwork, int* info); + + dgeqrf = FFF_EXTERNAL_FUNC[FFF_LAPACK_DGEQRF]; if ( (tau->size != FFF_MIN(m,n)) || (tau->stride != 1) ) @@ -92,7 +86,7 @@ int fff_lapack_dgeqrf( fff_matrix* A, fff_vector* tau, fff_vector* work, fff_mat FFF_ERROR("Invalid vector: work", EDOM); fff_matrix_transpose( Aux, A ); - FNAME(dgeqrf)(&m, &n, Aux->data, &lda, tau->data, work->data, &lwork, &info); + (*dgeqrf)(&m, &n, Aux->data, &lda, tau->data, work->data, &lwork, &info); fff_matrix_transpose( A, Aux ); return info; @@ -127,6 +121,10 @@ int fff_lapack_dgesdd( fff_matrix* A, fff_vector* s, fff_matrix* U, fff_matrix* int ldu = (int)U->tda; int ldvt = (int)Vt->tda; int lwork = work->size; + int (*dgesdd)(char *jobz, int* m, int* n, double* a, int* lda, double* s, double* u, int* ldu, + double* vt, int* ldvt, double* work, int* lwork, int* iwork, int* info); + + dgesdd = FFF_EXTERNAL_FUNC[FFF_LAPACK_DGESDD]; fff_matrix Aux_mm, Aux_nn; @@ -163,10 +161,10 @@ int fff_lapack_dgesdd( fff_matrix* A, fff_vector* s, fff_matrix* U, fff_matrix* => U = V*, V = U*, s = s* so we just need to swap m <-> n, and U <-> Vt in the input line */ - FNAME(dgesdd)("A", &n, &m, A->data, &lda, - s->data, Vt->data, &ldvt, U->data, &ldu, - work->data, &lwork, (int*)iwork->data, &info); - + (*dgesdd)("A", &n, &m, A->data, &lda, + s->data, Vt->data, &ldvt, U->data, &ldu, + work->data, &lwork, (int*)iwork->data, &info); + /* At this point, both U and V are in Fortran order, so we need to transpose */ Aux_mm = fff_matrix_block( Aux, 0, m, 0, m ); @@ -253,3 +251,28 @@ extern int fff_lapack_inv_sym(fff_matrix* iA, fff_matrix *A) return info; } + +/* Solve linear system: Ax = y using Cholesky decomposition */ +/*** y needs be contiguous ***/ +int fff_lapack_solve_chol( const fff_matrix* A, fff_vector* y, fff_matrix* Aux ) +{ + char* uplo = LAPACK_UPLO(CblasLower); + int info; + int nrhs = 1; + int n = (int)A->size1; /* Assumed squared */ + int lda = (int)Aux->tda; + int ldb = (int)y->size; + int (*dpotrf)(char *uplo, int* n, double* a, int* lda, int* info); + int (*dpotrs)(char *uplo, int* n, int* nrhs, double* a, int* lda, double* b, int* ldb, int* info); + + dpotrf = FFF_EXTERNAL_FUNC[FFF_LAPACK_DPOTRF]; + dpotrs = FFF_EXTERNAL_FUNC[FFF_LAPACK_DPOTRS]; + + CHECK_SQUARE(A); + + fff_matrix_transpose( Aux, A ); + (*dpotrf)(uplo, &n, Aux->data, &lda, &info); + (*dpotrs)(uplo, &n, &nrhs, Aux->data, &lda, y->data, &ldb, &info); + + return info; +} diff --git a/lib/fff/fff_lapack.h b/lib/fff/fff_lapack.h index 90c992673f..cbb7b2323a 100644 --- a/lib/fff/fff_lapack.h +++ b/lib/fff/fff_lapack.h @@ -32,6 +32,10 @@ extern "C" { #include "fff_blas.h" #include "fff_array.h" + + /* Import function */ + extern void fff_lapack_import_func(void* func_ptr, int k); + /*! \brief Cholesky decomposition \param Uplo flag @@ -56,7 +60,6 @@ extern "C" { */ extern int fff_lapack_dpotrf( CBLAS_UPLO_t Uplo, fff_matrix* A, fff_matrix* Aux ); - /*! \brief LU decomposition \param A M-by-N matrix @@ -159,7 +162,11 @@ extern "C" { Caveat : no check is performed -- untested version */ - extern int fff_lapack_inv_sym(fff_matrix* iA, fff_matrix *A); + extern int fff_lapack_inv_sym(fff_matrix* iA, fff_matrix *A); + + /* Solve linear system: Ax = y using Cholesky decomposition */ + extern int fff_lapack_solve_chol( const fff_matrix* A, fff_vector* y, fff_matrix* Aux ); + #ifdef __cplusplus } diff --git a/lib/fff_python_wrapper/fff.pxd b/lib/fff_python_wrapper/fff.pxd index bb16eb0c71..ed061f3753 100644 --- a/lib/fff_python_wrapper/fff.pxd +++ b/lib/fff_python_wrapper/fff.pxd @@ -2,13 +2,13 @@ # :Author: Alexis Roche + # Include numpy defines via Cython from numpy cimport ndarray, import_array, npy_intp # Redefine size_t ctypedef unsigned long int size_t - # Exports from fff_base.h cdef extern from "fff_base.h": @@ -171,4 +171,3 @@ cdef extern from "fffpy.h": void fffpy_multi_iterator_update(fffpy_multi_iterator* thisone) void fffpy_multi_iterator_reset(fffpy_multi_iterator* thisone) - diff --git a/lib/fff_python_wrapper/fffpy.c b/lib/fff_python_wrapper/fffpy.c index 315a1fb0c3..fb25d0c505 100644 --- a/lib/fff_python_wrapper/fffpy.c +++ b/lib/fff_python_wrapper/fffpy.c @@ -15,6 +15,16 @@ void fffpy_import_array(void) { } +/* + Function to import required blas/lapack functions on the fly. +*/ +void fffpy_import_external_func(const PyObject* ptr, int key) +{ + fff_import_external_func((void*)PyCObject_AsVoidPtr((PyObject*)ptr), key); + return; +} + + /* Static functions */ static npy_intp _PyArray_main_axis(const PyArrayObject* x, int* ok); static fff_vector* _fff_vector_new_from_buffer(const char* data, npy_intp dim, npy_intp stride, int type, int itemsize); diff --git a/lib/fff_python_wrapper/fffpy.h b/lib/fff_python_wrapper/fffpy.h index 11dd6945ea..fd047e6f3f 100644 --- a/lib/fff_python_wrapper/fffpy.h +++ b/lib/fff_python_wrapper/fffpy.h @@ -1,5 +1,6 @@ #include #include +#include #include #include #include @@ -33,6 +34,11 @@ */ extern void fffpy_import_array(void); +/* + Function to import a C-function on the fly from a Python C-object + representing the function pointer. + */ +extern void fffpy_import_external_func(const PyObject* ptr, int key); /*! \brief Convert \c PyArrayObject to \c fff_vector diff --git a/lib/fff_python_wrapper/fffpy_import_lapack.pxi b/lib/fff_python_wrapper/fffpy_import_lapack.pxi new file mode 100644 index 0000000000..6b47de0784 --- /dev/null +++ b/lib/fff_python_wrapper/fffpy_import_lapack.pxi @@ -0,0 +1,71 @@ +# -*- Mode: Python -*- Not really, but the syntax is close enough +from scipy.linalg._fblas import (ddot, dnrm2, dasum, idamax, dswap, + dcopy, daxpy, dscal, drot, drotg, + drotmg, drotm, dgemv, dtrmv, dsymv, + dger, dgemm, dsymm, dsyrk, dsyr2k) +from scipy.linalg._flapack import (dgetrf, dpotrf, dpotrs, dgesdd, dgeqrf) + +cdef extern from "fff_base.h": + + ctypedef enum fff_external_func_key: + FFF_BLAS_DDOT = 0, + FFF_BLAS_DNRM2 = 1, + FFF_BLAS_DASUM = 2, + FFF_BLAS_IDAMAX = 3, + FFF_BLAS_DSWAP = 4, + FFF_BLAS_DCOPY = 5, + FFF_BLAS_DAXPY = 6, + FFF_BLAS_DSCAL = 7, + FFF_BLAS_DROT = 8, + FFF_BLAS_DROTG = 9, + FFF_BLAS_DROTMG = 10, + FFF_BLAS_DROTM = 11, + FFF_BLAS_DGEMV = 12, + FFF_BLAS_DTRMV = 13, + FFF_BLAS_DTRSV = 14, + FFF_BLAS_DSYMV = 15, + FFF_BLAS_DGER = 16, + FFF_BLAS_DSYR = 17, + FFF_BLAS_DSYR2 = 18, + FFF_BLAS_DGEMM = 19, + FFF_BLAS_DSYMM = 20, + FFF_BLAS_DTRMM = 21, + FFF_BLAS_DTRSM = 22, + FFF_BLAS_DSYRK = 23, + FFF_BLAS_DSYR2K = 24, + FFF_LAPACK_DGETRF = 25, + FFF_LAPACK_DPOTRF = 26, + FFF_LAPACK_DPOTRS = 27, + FFF_LAPACK_DGESDD = 28, + FFF_LAPACK_DGEQRF = 29 + + +cdef extern from "fffpy.h": + void fffpy_import_external_func(object ptr, int key) + +def fffpy_import_lapack(): + fffpy_import_external_func(ddot._cpointer, FFF_BLAS_DDOT) + fffpy_import_external_func(dnrm2._cpointer, FFF_BLAS_DNRM2) + fffpy_import_external_func(dasum._cpointer, FFF_BLAS_DASUM) + fffpy_import_external_func(idamax._cpointer, FFF_BLAS_IDAMAX) + fffpy_import_external_func(dswap._cpointer, FFF_BLAS_DSWAP) + fffpy_import_external_func(dcopy._cpointer, FFF_BLAS_DCOPY) + fffpy_import_external_func(daxpy._cpointer, FFF_BLAS_DAXPY) + fffpy_import_external_func(dscal._cpointer, FFF_BLAS_DSCAL) + fffpy_import_external_func(drot._cpointer, FFF_BLAS_DROT) + fffpy_import_external_func(drotg._cpointer, FFF_BLAS_DROTG) + fffpy_import_external_func(drotmg._cpointer, FFF_BLAS_DROTMG) + fffpy_import_external_func(drotm._cpointer, FFF_BLAS_DROTM) + fffpy_import_external_func(dgemv._cpointer, FFF_BLAS_DGEMV) + fffpy_import_external_func(dtrmv._cpointer, FFF_BLAS_DTRMV) + fffpy_import_external_func(dsymv._cpointer, FFF_BLAS_DSYMV) + fffpy_import_external_func(dger._cpointer, FFF_BLAS_DGER) + fffpy_import_external_func(dgemm._cpointer, FFF_BLAS_DGEMM) + fffpy_import_external_func(dsymm._cpointer, FFF_BLAS_DSYMM) + fffpy_import_external_func(dsyrk._cpointer, FFF_BLAS_DSYRK) + fffpy_import_external_func(dsyr2k._cpointer, FFF_BLAS_DSYR2K) + fffpy_import_external_func(dgetrf._cpointer, FFF_LAPACK_DGETRF) + fffpy_import_external_func(dpotrf._cpointer, FFF_LAPACK_DPOTRF) + fffpy_import_external_func(dpotrs._cpointer, FFF_LAPACK_DPOTRS) + fffpy_import_external_func(dgesdd._cpointer, FFF_LAPACK_DGESDD) + fffpy_import_external_func(dgeqrf._cpointer, FFF_LAPACK_DGEQRF) diff --git a/nipy/labs/bindings/__init__.py b/nipy/labs/bindings/__init__.py index 1e6abbe579..d118961cb8 100644 --- a/nipy/labs/bindings/__init__.py +++ b/nipy/labs/bindings/__init__.py @@ -1,7 +1,7 @@ # emacs: -*- mode: python; py-indent-offset: 4; indent-tabs-mode: nil -*- # vi: set ft=python sts=4 ts=4 sw=4 et: from .linalg import (blas_dnrm2, blas_dasum, blas_ddot, blas_daxpy, blas_dscal, - blas_dgemm, blas_dsymm, blas_dtrmm, blas_dtrsm, blas_dsyrk, + blas_dgemm, blas_dsymm, blas_dsyrk, blas_dsyr2k, matrix_add, matrix_get, matrix_transpose, vector_get, vector_set, vector_add, vector_sub, vector_mul, vector_div, vector_sum) diff --git a/nipy/labs/bindings/array.c b/nipy/labs/bindings/array.c index 59a91bf3cb..ca4a5251c2 100644 --- a/nipy/labs/bindings/array.c +++ b/nipy/labs/bindings/array.c @@ -1,12 +1,25 @@ -/* Generated by Cython 0.17.4 on Sat Jan 12 17:27:32 2013 */ +/* Generated by Cython 0.20.1post0 (Debian 0.20.1+git90-g0e6e38e-1ubuntu2) on Mon Nov 10 15:43:41 2014 */ #define PY_SSIZE_T_CLEAN +#ifndef CYTHON_USE_PYLONG_INTERNALS +#ifdef PYLONG_BITS_IN_DIGIT +#define CYTHON_USE_PYLONG_INTERNALS 0 +#else +#include "pyconfig.h" +#ifdef PYLONG_BITS_IN_DIGIT +#define CYTHON_USE_PYLONG_INTERNALS 1 +#else +#define CYTHON_USE_PYLONG_INTERNALS 0 +#endif +#endif +#endif #include "Python.h" #ifndef Py_PYTHON_H #error Python headers needed to compile C extensions, please install development version of Python. #elif PY_VERSION_HEX < 0x02040000 #error Cython requires Python 2.4+. #else +#define CYTHON_ABI "0_20_1post0" #include /* For offsetof */ #ifndef offsetof #define offsetof(type, member) ( (size_t) & ((type*)0) -> member ) @@ -41,6 +54,9 @@ #define CYTHON_COMPILING_IN_PYPY 0 #define CYTHON_COMPILING_IN_CPYTHON 1 #endif +#if CYTHON_COMPILING_IN_PYPY +#define Py_OptimizeFlag 0 +#endif #if PY_VERSION_HEX < 0x02050000 typedef int Py_ssize_t; #define PY_SSIZE_T_MAX INT_MAX @@ -48,7 +64,7 @@ #define PY_FORMAT_SIZE_T "" #define CYTHON_FORMAT_SSIZE_T "" #define PyInt_FromSsize_t(z) PyInt_FromLong(z) - #define PyInt_AsSsize_t(o) __Pyx_PyInt_AsInt(o) + #define PyInt_AsSsize_t(o) __Pyx_PyInt_As_int(o) #define PyNumber_Index(o) ((PyNumber_Check(o) && !PyFloat_Check(o)) ? PyNumber_Int(o) : \ (PyErr_Format(PyExc_TypeError, \ "expected index value, got %.200s", Py_TYPE(o)->tp_name), \ @@ -100,13 +116,15 @@ #if PY_MAJOR_VERSION < 3 #define __Pyx_BUILTIN_MODULE_NAME "__builtin__" #define __Pyx_PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) \ - PyCode_New(a, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) + PyCode_New(a+k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) + #define __Pyx_DefaultClassType PyClass_Type #else #define __Pyx_BUILTIN_MODULE_NAME "builtins" #define __Pyx_PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) \ PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) + #define __Pyx_DefaultClassType PyType_Type #endif -#if PY_MAJOR_VERSION < 3 && PY_MINOR_VERSION < 6 +#if PY_VERSION_HEX < 0x02060000 #define PyUnicode_FromString(s) PyUnicode_Decode(s, strlen(s), "UTF-8", "strict") #endif #if PY_MAJOR_VERSION >= 3 @@ -116,19 +134,47 @@ #if (PY_VERSION_HEX < 0x02060000) || (PY_MAJOR_VERSION >= 3) #define Py_TPFLAGS_HAVE_NEWBUFFER 0 #endif +#if PY_VERSION_HEX < 0x02060000 + #define Py_TPFLAGS_HAVE_VERSION_TAG 0 +#endif +#if PY_VERSION_HEX < 0x02060000 && !defined(Py_TPFLAGS_IS_ABSTRACT) + #define Py_TPFLAGS_IS_ABSTRACT 0 +#endif +#if PY_VERSION_HEX < 0x030400a1 && !defined(Py_TPFLAGS_HAVE_FINALIZE) + #define Py_TPFLAGS_HAVE_FINALIZE 0 +#endif #if PY_VERSION_HEX > 0x03030000 && defined(PyUnicode_KIND) #define CYTHON_PEP393_ENABLED 1 #define __Pyx_PyUnicode_READY(op) (likely(PyUnicode_IS_READY(op)) ? \ 0 : _PyUnicode_Ready((PyObject *)(op))) #define __Pyx_PyUnicode_GET_LENGTH(u) PyUnicode_GET_LENGTH(u) #define __Pyx_PyUnicode_READ_CHAR(u, i) PyUnicode_READ_CHAR(u, i) + #define __Pyx_PyUnicode_KIND(u) PyUnicode_KIND(u) + #define __Pyx_PyUnicode_DATA(u) PyUnicode_DATA(u) #define __Pyx_PyUnicode_READ(k, d, i) PyUnicode_READ(k, d, i) #else #define CYTHON_PEP393_ENABLED 0 #define __Pyx_PyUnicode_READY(op) (0) #define __Pyx_PyUnicode_GET_LENGTH(u) PyUnicode_GET_SIZE(u) #define __Pyx_PyUnicode_READ_CHAR(u, i) ((Py_UCS4)(PyUnicode_AS_UNICODE(u)[i])) - #define __Pyx_PyUnicode_READ(k, d, i) ((k=k), (Py_UCS4)(((Py_UNICODE*)d)[i])) + #define __Pyx_PyUnicode_KIND(u) (sizeof(Py_UNICODE)) + #define __Pyx_PyUnicode_DATA(u) ((void*)PyUnicode_AS_UNICODE(u)) + #define __Pyx_PyUnicode_READ(k, d, i) ((void)(k), (Py_UCS4)(((Py_UNICODE*)d)[i])) +#endif +#if CYTHON_COMPILING_IN_PYPY + #define __Pyx_PyUnicode_Concat(a, b) PyNumber_Add(a, b) + #define __Pyx_PyUnicode_ConcatSafe(a, b) PyNumber_Add(a, b) +#else + #define __Pyx_PyUnicode_Concat(a, b) PyUnicode_Concat(a, b) + #define __Pyx_PyUnicode_ConcatSafe(a, b) ((unlikely((a) == Py_None) || unlikely((b) == Py_None)) ? \ + PyNumber_Add(a, b) : __Pyx_PyUnicode_Concat(a, b)) +#endif +#define __Pyx_PyString_FormatSafe(a, b) ((unlikely((a) == Py_None)) ? PyNumber_Remainder(a, b) : __Pyx_PyString_Format(a, b)) +#define __Pyx_PyUnicode_FormatSafe(a, b) ((unlikely((a) == Py_None)) ? PyNumber_Remainder(a, b) : PyUnicode_Format(a, b)) +#if PY_MAJOR_VERSION >= 3 + #define __Pyx_PyString_Format(a, b) PyUnicode_Format(a, b) +#else + #define __Pyx_PyString_Format(a, b) PyString_Format(a, b) #endif #if PY_MAJOR_VERSION >= 3 #define PyBaseString_Type PyUnicode_Type @@ -155,6 +201,14 @@ #define PyBytes_Concat PyString_Concat #define PyBytes_ConcatAndDel PyString_ConcatAndDel #endif +#if PY_MAJOR_VERSION >= 3 + #define __Pyx_PyBaseString_Check(obj) PyUnicode_Check(obj) + #define __Pyx_PyBaseString_CheckExact(obj) PyUnicode_CheckExact(obj) +#else + #define __Pyx_PyBaseString_Check(obj) (PyString_CheckExact(obj) || PyUnicode_CheckExact(obj) || \ + PyString_Check(obj) || PyUnicode_Check(obj)) + #define __Pyx_PyBaseString_CheckExact(obj) (PyString_CheckExact(obj) || PyUnicode_CheckExact(obj)) +#endif #if PY_VERSION_HEX < 0x02060000 #define PySet_Check(obj) PyObject_TypeCheck(obj, &PySet_Type) #define PyFrozenSet_Check(obj) PyObject_TypeCheck(obj, &PyFrozenSet_Type) @@ -178,11 +232,12 @@ #define PyInt_AsSsize_t PyLong_AsSsize_t #define PyInt_AsUnsignedLongMask PyLong_AsUnsignedLongMask #define PyInt_AsUnsignedLongLongMask PyLong_AsUnsignedLongLongMask + #define PyNumber_Int PyNumber_Long #endif #if PY_MAJOR_VERSION >= 3 #define PyBoolObject PyLongObject #endif -#if PY_VERSION_HEX < 0x03020000 +#if PY_VERSION_HEX < 0x030200A4 typedef long Py_hash_t; #define __Pyx_PyInt_FromHash_t PyInt_FromLong #define __Pyx_PyInt_AsHash_t PyInt_AsLong @@ -227,6 +282,46 @@ #define __Pyx_NAMESTR(n) (n) #define __Pyx_DOCSTR(n) (n) #endif +#ifndef CYTHON_INLINE + #if defined(__GNUC__) + #define CYTHON_INLINE __inline__ + #elif defined(_MSC_VER) + #define CYTHON_INLINE __inline + #elif defined (__STDC_VERSION__) && __STDC_VERSION__ >= 199901L + #define CYTHON_INLINE inline + #else + #define CYTHON_INLINE + #endif +#endif +#ifndef CYTHON_RESTRICT + #if defined(__GNUC__) + #define CYTHON_RESTRICT __restrict__ + #elif defined(_MSC_VER) && _MSC_VER >= 1400 + #define CYTHON_RESTRICT __restrict + #elif defined (__STDC_VERSION__) && __STDC_VERSION__ >= 199901L + #define CYTHON_RESTRICT restrict + #else + #define CYTHON_RESTRICT + #endif +#endif +#ifdef NAN +#define __PYX_NAN() ((float) NAN) +#else +static CYTHON_INLINE float __PYX_NAN() { + /* Initialize NaN. The sign is irrelevant, an exponent with all bits 1 and + a nonzero mantissa means NaN. If the first bit in the mantissa is 1, it is + a quiet NaN. */ + float value; + memset(&value, 0xFF, sizeof(value)); + return value; +} +#endif +#ifdef __cplusplus +template +void __Pyx_call_destructor(T* x) { + x->~T(); +} +#endif #if PY_MAJOR_VERSION >= 3 @@ -251,6 +346,7 @@ #include #define __PYX_HAVE__nipy__labs__bindings__array #define __PYX_HAVE_API__nipy__labs__bindings__array +#include "string.h" #include "stdio.h" #include "stdlib.h" #include "numpy/arrayobject.h" @@ -268,21 +364,6 @@ #define CYTHON_WITHOUT_ASSERTIONS #endif - -/* inline attribute */ -#ifndef CYTHON_INLINE - #if defined(__GNUC__) - #define CYTHON_INLINE __inline__ - #elif defined(_MSC_VER) - #define CYTHON_INLINE __inline - #elif defined (__STDC_VERSION__) && __STDC_VERSION__ >= 199901L - #define CYTHON_INLINE inline - #else - #define CYTHON_INLINE - #endif -#endif - -/* unused attribute */ #ifndef CYTHON_UNUSED # if defined(__GNUC__) # if !(defined(__cplusplus)) || (__GNUC__ > 3 || (__GNUC__ == 3 && __GNUC_MINOR__ >= 4)) @@ -296,46 +377,155 @@ # define CYTHON_UNUSED # endif #endif - -typedef struct {PyObject **p; char *s; const long n; const char* encoding; const char is_unicode; const char is_str; const char intern; } __Pyx_StringTabEntry; /*proto*/ - - -/* Type Conversion Predeclarations */ - -#define __Pyx_PyBytes_FromUString(s) PyBytes_FromString((char*)s) -#define __Pyx_PyBytes_AsUString(s) ((unsigned char*) PyBytes_AsString(s)) - +typedef struct {PyObject **p; char *s; const Py_ssize_t n; const char* encoding; + const char is_unicode; const char is_str; const char intern; } __Pyx_StringTabEntry; /*proto*/ + +#define __PYX_DEFAULT_STRING_ENCODING_IS_ASCII 0 +#define __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT 0 +#define __PYX_DEFAULT_STRING_ENCODING "" +#define __Pyx_PyObject_FromString __Pyx_PyBytes_FromString +#define __Pyx_PyObject_FromStringAndSize __Pyx_PyBytes_FromStringAndSize +#define __Pyx_fits_Py_ssize_t(v, type, is_signed) ( \ + (sizeof(type) < sizeof(Py_ssize_t)) || \ + (sizeof(type) > sizeof(Py_ssize_t) && \ + likely(v < (type)PY_SSIZE_T_MAX || \ + v == (type)PY_SSIZE_T_MAX) && \ + (!is_signed || likely(v > (type)PY_SSIZE_T_MIN || \ + v == (type)PY_SSIZE_T_MIN))) || \ + (sizeof(type) == sizeof(Py_ssize_t) && \ + (is_signed || likely(v < (type)PY_SSIZE_T_MAX || \ + v == (type)PY_SSIZE_T_MAX))) ) +static CYTHON_INLINE char* __Pyx_PyObject_AsString(PyObject*); +static CYTHON_INLINE char* __Pyx_PyObject_AsStringAndSize(PyObject*, Py_ssize_t* length); +#define __Pyx_PyByteArray_FromString(s) PyByteArray_FromStringAndSize((const char*)s, strlen((const char*)s)) +#define __Pyx_PyByteArray_FromStringAndSize(s, l) PyByteArray_FromStringAndSize((const char*)s, l) +#define __Pyx_PyBytes_FromString PyBytes_FromString +#define __Pyx_PyBytes_FromStringAndSize PyBytes_FromStringAndSize +static CYTHON_INLINE PyObject* __Pyx_PyUnicode_FromString(const char*); +#if PY_MAJOR_VERSION < 3 + #define __Pyx_PyStr_FromString __Pyx_PyBytes_FromString + #define __Pyx_PyStr_FromStringAndSize __Pyx_PyBytes_FromStringAndSize +#else + #define __Pyx_PyStr_FromString __Pyx_PyUnicode_FromString + #define __Pyx_PyStr_FromStringAndSize __Pyx_PyUnicode_FromStringAndSize +#endif +#define __Pyx_PyObject_AsSString(s) ((signed char*) __Pyx_PyObject_AsString(s)) +#define __Pyx_PyObject_AsUString(s) ((unsigned char*) __Pyx_PyObject_AsString(s)) +#define __Pyx_PyObject_FromUString(s) __Pyx_PyObject_FromString((const char*)s) +#define __Pyx_PyBytes_FromUString(s) __Pyx_PyBytes_FromString((const char*)s) +#define __Pyx_PyByteArray_FromUString(s) __Pyx_PyByteArray_FromString((const char*)s) +#define __Pyx_PyStr_FromUString(s) __Pyx_PyStr_FromString((const char*)s) +#define __Pyx_PyUnicode_FromUString(s) __Pyx_PyUnicode_FromString((const char*)s) +#if PY_MAJOR_VERSION < 3 +static CYTHON_INLINE size_t __Pyx_Py_UNICODE_strlen(const Py_UNICODE *u) +{ + const Py_UNICODE *u_end = u; + while (*u_end++) ; + return u_end - u - 1; +} +#else +#define __Pyx_Py_UNICODE_strlen Py_UNICODE_strlen +#endif +#define __Pyx_PyUnicode_FromUnicode(u) PyUnicode_FromUnicode(u, __Pyx_Py_UNICODE_strlen(u)) +#define __Pyx_PyUnicode_FromUnicodeAndLength PyUnicode_FromUnicode +#define __Pyx_PyUnicode_AsUnicode PyUnicode_AsUnicode #define __Pyx_Owned_Py_None(b) (Py_INCREF(Py_None), Py_None) #define __Pyx_PyBool_FromLong(b) ((b) ? (Py_INCREF(Py_True), Py_True) : (Py_INCREF(Py_False), Py_False)) static CYTHON_INLINE int __Pyx_PyObject_IsTrue(PyObject*); static CYTHON_INLINE PyObject* __Pyx_PyNumber_Int(PyObject* x); - static CYTHON_INLINE Py_ssize_t __Pyx_PyIndex_AsSsize_t(PyObject*); static CYTHON_INLINE PyObject * __Pyx_PyInt_FromSize_t(size_t); -static CYTHON_INLINE size_t __Pyx_PyInt_AsSize_t(PyObject*); - #if CYTHON_COMPILING_IN_CPYTHON #define __pyx_PyFloat_AsDouble(x) (PyFloat_CheckExact(x) ? PyFloat_AS_DOUBLE(x) : PyFloat_AsDouble(x)) #else #define __pyx_PyFloat_AsDouble(x) PyFloat_AsDouble(x) #endif #define __pyx_PyFloat_AsFloat(x) ((float) __pyx_PyFloat_AsDouble(x)) +#if PY_MAJOR_VERSION < 3 && __PYX_DEFAULT_STRING_ENCODING_IS_ASCII +static int __Pyx_sys_getdefaultencoding_not_ascii; +static int __Pyx_init_sys_getdefaultencoding_params(void) { + PyObject* sys = NULL; + PyObject* default_encoding = NULL; + PyObject* ascii_chars_u = NULL; + PyObject* ascii_chars_b = NULL; + sys = PyImport_ImportModule("sys"); + if (sys == NULL) goto bad; + default_encoding = PyObject_CallMethod(sys, (char*) (const char*) "getdefaultencoding", NULL); + if (default_encoding == NULL) goto bad; + if (strcmp(PyBytes_AsString(default_encoding), "ascii") == 0) { + __Pyx_sys_getdefaultencoding_not_ascii = 0; + } else { + const char* default_encoding_c = PyBytes_AS_STRING(default_encoding); + char ascii_chars[128]; + int c; + for (c = 0; c < 128; c++) { + ascii_chars[c] = c; + } + __Pyx_sys_getdefaultencoding_not_ascii = 1; + ascii_chars_u = PyUnicode_DecodeASCII(ascii_chars, 128, NULL); + if (ascii_chars_u == NULL) goto bad; + ascii_chars_b = PyUnicode_AsEncodedString(ascii_chars_u, default_encoding_c, NULL); + if (ascii_chars_b == NULL || strncmp(ascii_chars, PyBytes_AS_STRING(ascii_chars_b), 128) != 0) { + PyErr_Format( + PyExc_ValueError, + "This module compiled with c_string_encoding=ascii, but default encoding '%.200s' is not a superset of ascii.", + default_encoding_c); + goto bad; + } + } + Py_XDECREF(sys); + Py_XDECREF(default_encoding); + Py_XDECREF(ascii_chars_u); + Py_XDECREF(ascii_chars_b); + return 0; +bad: + Py_XDECREF(sys); + Py_XDECREF(default_encoding); + Py_XDECREF(ascii_chars_u); + Py_XDECREF(ascii_chars_b); + return -1; +} +#endif +#if __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT && PY_MAJOR_VERSION >= 3 +#define __Pyx_PyUnicode_FromStringAndSize(c_str, size) PyUnicode_DecodeUTF8(c_str, size, NULL) +#else +#define __Pyx_PyUnicode_FromStringAndSize(c_str, size) PyUnicode_Decode(c_str, size, __PYX_DEFAULT_STRING_ENCODING, NULL) +#if __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT +static char* __PYX_DEFAULT_STRING_ENCODING; +static int __Pyx_init_sys_getdefaultencoding_params(void) { + PyObject* sys = NULL; + PyObject* default_encoding = NULL; + char* default_encoding_c; + sys = PyImport_ImportModule("sys"); + if (sys == NULL) goto bad; + default_encoding = PyObject_CallMethod(sys, (char*) (const char*) "getdefaultencoding", NULL); + if (default_encoding == NULL) goto bad; + default_encoding_c = PyBytes_AS_STRING(default_encoding); + __PYX_DEFAULT_STRING_ENCODING = (char*) malloc(strlen(default_encoding_c)); + strcpy(__PYX_DEFAULT_STRING_ENCODING, default_encoding_c); + Py_DECREF(sys); + Py_DECREF(default_encoding); + return 0; +bad: + Py_XDECREF(sys); + Py_XDECREF(default_encoding); + return -1; +} +#endif +#endif + -#ifdef __GNUC__ - /* Test for GCC > 2.95 */ - #if __GNUC__ > 2 || (__GNUC__ == 2 && (__GNUC_MINOR__ > 95)) - #define likely(x) __builtin_expect(!!(x), 1) - #define unlikely(x) __builtin_expect(!!(x), 0) - #else /* __GNUC__ > 2 ... */ - #define likely(x) (x) - #define unlikely(x) (x) - #endif /* __GNUC__ > 2 ... */ -#else /* __GNUC__ */ +/* Test for GCC > 2.95 */ +#if defined(__GNUC__) && (__GNUC__ > 2 || (__GNUC__ == 2 && (__GNUC_MINOR__ > 95))) + #define likely(x) __builtin_expect(!!(x), 1) + #define unlikely(x) __builtin_expect(!!(x), 0) +#else /* !__GNUC__ or GCC < 2.95 */ #define likely(x) (x) #define unlikely(x) (x) #endif /* __GNUC__ */ - + static PyObject *__pyx_m; +static PyObject *__pyx_d; static PyObject *__pyx_b; static PyObject *__pyx_empty_tuple; static PyObject *__pyx_empty_bytes; @@ -368,11 +558,11 @@ static const char *__pyx_filename; static const char *__pyx_f[] = { "array.pyx", - "numpy.pxd", + "__init__.pxd", "type.pxd", }; -/* "numpy.pxd":723 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":723 * # in Cython to enable them only on the right systems. * * ctypedef npy_int8 int8_t # <<<<<<<<<<<<<< @@ -381,7 +571,7 @@ static const char *__pyx_f[] = { */ typedef npy_int8 __pyx_t_5numpy_int8_t; -/* "numpy.pxd":724 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":724 * * ctypedef npy_int8 int8_t * ctypedef npy_int16 int16_t # <<<<<<<<<<<<<< @@ -390,7 +580,7 @@ typedef npy_int8 __pyx_t_5numpy_int8_t; */ typedef npy_int16 __pyx_t_5numpy_int16_t; -/* "numpy.pxd":725 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":725 * ctypedef npy_int8 int8_t * ctypedef npy_int16 int16_t * ctypedef npy_int32 int32_t # <<<<<<<<<<<<<< @@ -399,7 +589,7 @@ typedef npy_int16 __pyx_t_5numpy_int16_t; */ typedef npy_int32 __pyx_t_5numpy_int32_t; -/* "numpy.pxd":726 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":726 * ctypedef npy_int16 int16_t * ctypedef npy_int32 int32_t * ctypedef npy_int64 int64_t # <<<<<<<<<<<<<< @@ -408,7 +598,7 @@ typedef npy_int32 __pyx_t_5numpy_int32_t; */ typedef npy_int64 __pyx_t_5numpy_int64_t; -/* "numpy.pxd":730 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":730 * #ctypedef npy_int128 int128_t * * ctypedef npy_uint8 uint8_t # <<<<<<<<<<<<<< @@ -417,7 +607,7 @@ typedef npy_int64 __pyx_t_5numpy_int64_t; */ typedef npy_uint8 __pyx_t_5numpy_uint8_t; -/* "numpy.pxd":731 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":731 * * ctypedef npy_uint8 uint8_t * ctypedef npy_uint16 uint16_t # <<<<<<<<<<<<<< @@ -426,7 +616,7 @@ typedef npy_uint8 __pyx_t_5numpy_uint8_t; */ typedef npy_uint16 __pyx_t_5numpy_uint16_t; -/* "numpy.pxd":732 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":732 * ctypedef npy_uint8 uint8_t * ctypedef npy_uint16 uint16_t * ctypedef npy_uint32 uint32_t # <<<<<<<<<<<<<< @@ -435,7 +625,7 @@ typedef npy_uint16 __pyx_t_5numpy_uint16_t; */ typedef npy_uint32 __pyx_t_5numpy_uint32_t; -/* "numpy.pxd":733 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":733 * ctypedef npy_uint16 uint16_t * ctypedef npy_uint32 uint32_t * ctypedef npy_uint64 uint64_t # <<<<<<<<<<<<<< @@ -444,7 +634,7 @@ typedef npy_uint32 __pyx_t_5numpy_uint32_t; */ typedef npy_uint64 __pyx_t_5numpy_uint64_t; -/* "numpy.pxd":737 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":737 * #ctypedef npy_uint128 uint128_t * * ctypedef npy_float32 float32_t # <<<<<<<<<<<<<< @@ -453,7 +643,7 @@ typedef npy_uint64 __pyx_t_5numpy_uint64_t; */ typedef npy_float32 __pyx_t_5numpy_float32_t; -/* "numpy.pxd":738 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":738 * * ctypedef npy_float32 float32_t * ctypedef npy_float64 float64_t # <<<<<<<<<<<<<< @@ -462,7 +652,7 @@ typedef npy_float32 __pyx_t_5numpy_float32_t; */ typedef npy_float64 __pyx_t_5numpy_float64_t; -/* "numpy.pxd":747 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":747 * # The int types are mapped a bit surprising -- * # numpy.int corresponds to 'l' and numpy.long to 'q' * ctypedef npy_long int_t # <<<<<<<<<<<<<< @@ -471,7 +661,7 @@ typedef npy_float64 __pyx_t_5numpy_float64_t; */ typedef npy_long __pyx_t_5numpy_int_t; -/* "numpy.pxd":748 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":748 * # numpy.int corresponds to 'l' and numpy.long to 'q' * ctypedef npy_long int_t * ctypedef npy_longlong long_t # <<<<<<<<<<<<<< @@ -480,7 +670,7 @@ typedef npy_long __pyx_t_5numpy_int_t; */ typedef npy_longlong __pyx_t_5numpy_long_t; -/* "numpy.pxd":749 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":749 * ctypedef npy_long int_t * ctypedef npy_longlong long_t * ctypedef npy_longlong longlong_t # <<<<<<<<<<<<<< @@ -489,7 +679,7 @@ typedef npy_longlong __pyx_t_5numpy_long_t; */ typedef npy_longlong __pyx_t_5numpy_longlong_t; -/* "numpy.pxd":751 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":751 * ctypedef npy_longlong longlong_t * * ctypedef npy_ulong uint_t # <<<<<<<<<<<<<< @@ -498,7 +688,7 @@ typedef npy_longlong __pyx_t_5numpy_longlong_t; */ typedef npy_ulong __pyx_t_5numpy_uint_t; -/* "numpy.pxd":752 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":752 * * ctypedef npy_ulong uint_t * ctypedef npy_ulonglong ulong_t # <<<<<<<<<<<<<< @@ -507,7 +697,7 @@ typedef npy_ulong __pyx_t_5numpy_uint_t; */ typedef npy_ulonglong __pyx_t_5numpy_ulong_t; -/* "numpy.pxd":753 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":753 * ctypedef npy_ulong uint_t * ctypedef npy_ulonglong ulong_t * ctypedef npy_ulonglong ulonglong_t # <<<<<<<<<<<<<< @@ -516,7 +706,7 @@ typedef npy_ulonglong __pyx_t_5numpy_ulong_t; */ typedef npy_ulonglong __pyx_t_5numpy_ulonglong_t; -/* "numpy.pxd":755 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":755 * ctypedef npy_ulonglong ulonglong_t * * ctypedef npy_intp intp_t # <<<<<<<<<<<<<< @@ -525,7 +715,7 @@ typedef npy_ulonglong __pyx_t_5numpy_ulonglong_t; */ typedef npy_intp __pyx_t_5numpy_intp_t; -/* "numpy.pxd":756 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":756 * * ctypedef npy_intp intp_t * ctypedef npy_uintp uintp_t # <<<<<<<<<<<<<< @@ -534,7 +724,7 @@ typedef npy_intp __pyx_t_5numpy_intp_t; */ typedef npy_uintp __pyx_t_5numpy_uintp_t; -/* "numpy.pxd":758 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":758 * ctypedef npy_uintp uintp_t * * ctypedef npy_double float_t # <<<<<<<<<<<<<< @@ -543,7 +733,7 @@ typedef npy_uintp __pyx_t_5numpy_uintp_t; */ typedef npy_double __pyx_t_5numpy_float_t; -/* "numpy.pxd":759 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":759 * * ctypedef npy_double float_t * ctypedef npy_double double_t # <<<<<<<<<<<<<< @@ -552,7 +742,7 @@ typedef npy_double __pyx_t_5numpy_float_t; */ typedef npy_double __pyx_t_5numpy_double_t; -/* "numpy.pxd":760 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":760 * ctypedef npy_double float_t * ctypedef npy_double double_t * ctypedef npy_longdouble longdouble_t # <<<<<<<<<<<<<< @@ -561,12 +751,12 @@ typedef npy_double __pyx_t_5numpy_double_t; */ typedef npy_longdouble __pyx_t_5numpy_longdouble_t; -/* "fff.pxd":9 +/* "fff.pxd":10 * * # Redefine size_t * ctypedef unsigned long int size_t # <<<<<<<<<<<<<< * - * + * # Exports from fff_base.h */ typedef unsigned long __pyx_t_3fff_size_t; #if CYTHON_CCOMPLEX @@ -592,7 +782,7 @@ typedef unsigned long __pyx_t_3fff_size_t; /*--- Type declarations ---*/ -/* "numpy.pxd":762 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":762 * ctypedef npy_longdouble longdouble_t * * ctypedef npy_cfloat cfloat_t # <<<<<<<<<<<<<< @@ -601,7 +791,7 @@ typedef unsigned long __pyx_t_3fff_size_t; */ typedef npy_cfloat __pyx_t_5numpy_cfloat_t; -/* "numpy.pxd":763 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":763 * * ctypedef npy_cfloat cfloat_t * ctypedef npy_cdouble cdouble_t # <<<<<<<<<<<<<< @@ -610,7 +800,7 @@ typedef npy_cfloat __pyx_t_5numpy_cfloat_t; */ typedef npy_cdouble __pyx_t_5numpy_cdouble_t; -/* "numpy.pxd":764 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":764 * ctypedef npy_cfloat cfloat_t * ctypedef npy_cdouble cdouble_t * ctypedef npy_clongdouble clongdouble_t # <<<<<<<<<<<<<< @@ -619,7 +809,7 @@ typedef npy_cdouble __pyx_t_5numpy_cdouble_t; */ typedef npy_clongdouble __pyx_t_5numpy_clongdouble_t; -/* "numpy.pxd":766 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":766 * ctypedef npy_clongdouble clongdouble_t * * ctypedef npy_cdouble complex_t # <<<<<<<<<<<<<< @@ -678,6 +868,14 @@ typedef npy_cdouble __pyx_t_5numpy_complex_t; #define __Pyx_XGOTREF(r) #define __Pyx_XGIVEREF(r) #endif /* CYTHON_REFNANNY */ +#define __Pyx_XDECREF_SET(r, v) do { \ + PyObject *tmp = (PyObject *) r; \ + r = v; __Pyx_XDECREF(tmp); \ + } while (0) +#define __Pyx_DECREF_SET(r, v) do { \ + PyObject *tmp = (PyObject *) r; \ + r = v; __Pyx_DECREF(tmp); \ + } while (0) #define __Pyx_CLEAR(r) do { PyObject* tmp = ((PyObject*)(r)); r = NULL; __Pyx_DECREF(tmp);} while(0) #define __Pyx_XCLEAR(r) do { if((r) != NULL) {PyObject* tmp = ((PyObject*)(r)); r = NULL; __Pyx_DECREF(tmp);}} while(0) @@ -692,7 +890,28 @@ static int __Pyx_ParseOptionalKeywords(PyObject *kwds, PyObject **argnames[], \ static CYTHON_INLINE int __Pyx_TypeTest(PyObject *obj, PyTypeObject *type); /*proto*/ -static PyObject *__Pyx_GetName(PyObject *dict, PyObject *name); /*proto*/ +#if CYTHON_COMPILING_IN_CPYTHON +static CYTHON_INLINE PyObject* __Pyx_PyObject_GetAttrStr(PyObject* obj, PyObject* attr_name) { + PyTypeObject* tp = Py_TYPE(obj); + if (likely(tp->tp_getattro)) + return tp->tp_getattro(obj, attr_name); +#if PY_MAJOR_VERSION < 3 + if (likely(tp->tp_getattr)) + return tp->tp_getattr(obj, PyString_AS_STRING(attr_name)); +#endif + return PyObject_GetAttr(obj, attr_name); +} +#else +#define __Pyx_PyObject_GetAttrStr(o,n) PyObject_GetAttr(o,n) +#endif + +static PyObject *__Pyx_GetBuiltinName(PyObject *name); /*proto*/ + +#if CYTHON_COMPILING_IN_CPYTHON +static CYTHON_INLINE PyObject* __Pyx_PyObject_Call(PyObject *func, PyObject *arg, PyObject *kw); /*proto*/ +#else +#define __Pyx_PyObject_Call(func, arg, kw) PyObject_Call(func, arg, kw) +#endif static CYTHON_INLINE void __Pyx_ErrRestore(PyObject *type, PyObject *value, PyObject *tb); /*proto*/ static CYTHON_INLINE void __Pyx_ErrFetch(PyObject **type, PyObject **value, PyObject **tb); /*proto*/ @@ -705,11 +924,9 @@ static CYTHON_INLINE void __Pyx_RaiseNeedMoreValuesError(Py_ssize_t index); static CYTHON_INLINE void __Pyx_RaiseNoneNotIterableError(void); -static CYTHON_INLINE int __Pyx_IterFinish(void); /*proto*/ - -static int __Pyx_IternextUnpackEndCheck(PyObject *retval, Py_ssize_t expected); /*proto*/ +static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, int level); /*proto*/ -static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, long level); /*proto*/ +static CYTHON_INLINE size_t __Pyx_PyInt_As_size_t(PyObject *); #if CYTHON_CCOMPLEX #ifdef __cplusplus @@ -723,7 +940,7 @@ static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, long level); #define __Pyx_CREAL(z) ((z).real) #define __Pyx_CIMAG(z) ((z).imag) #endif -#if defined(_WIN32) && defined(__cplusplus) && CYTHON_CCOMPLEX +#if (defined(_WIN32) || defined(__clang__)) && defined(__cplusplus) && CYTHON_CCOMPLEX #define __Pyx_SET_CREAL(z,x) ((z).real(x)) #define __Pyx_SET_CIMAG(z,y) ((z).imag(y)) #else @@ -809,37 +1026,13 @@ static CYTHON_INLINE __pyx_t_double_complex __pyx_t_double_complex_from_parts(do #endif #endif -static CYTHON_INLINE unsigned char __Pyx_PyInt_AsUnsignedChar(PyObject *); - -static CYTHON_INLINE unsigned short __Pyx_PyInt_AsUnsignedShort(PyObject *); - -static CYTHON_INLINE unsigned int __Pyx_PyInt_AsUnsignedInt(PyObject *); - -static CYTHON_INLINE char __Pyx_PyInt_AsChar(PyObject *); - -static CYTHON_INLINE short __Pyx_PyInt_AsShort(PyObject *); - -static CYTHON_INLINE int __Pyx_PyInt_AsInt(PyObject *); - -static CYTHON_INLINE signed char __Pyx_PyInt_AsSignedChar(PyObject *); - -static CYTHON_INLINE signed short __Pyx_PyInt_AsSignedShort(PyObject *); - -static CYTHON_INLINE signed int __Pyx_PyInt_AsSignedInt(PyObject *); - -static CYTHON_INLINE int __Pyx_PyInt_AsLongDouble(PyObject *); - -static CYTHON_INLINE unsigned long __Pyx_PyInt_AsUnsignedLong(PyObject *); +static CYTHON_INLINE PyObject* __Pyx_PyInt_From_int(int value); -static CYTHON_INLINE unsigned PY_LONG_LONG __Pyx_PyInt_AsUnsignedLongLong(PyObject *); +static CYTHON_INLINE int __Pyx_PyInt_As_int(PyObject *); -static CYTHON_INLINE long __Pyx_PyInt_AsLong(PyObject *); +static CYTHON_INLINE PyObject* __Pyx_PyInt_From_long(long value); -static CYTHON_INLINE PY_LONG_LONG __Pyx_PyInt_AsLongLong(PyObject *); - -static CYTHON_INLINE signed long __Pyx_PyInt_AsSignedLong(PyObject *); - -static CYTHON_INLINE signed PY_LONG_LONG __Pyx_PyInt_AsSignedLongLong(PyObject *); +static CYTHON_INLINE long __Pyx_PyInt_As_long(PyObject *); static int __Pyx_check_binary_version(void); @@ -879,6 +1072,8 @@ static int __Pyx_InitStrings(__Pyx_StringTabEntry *t); /*proto*/ /* Module declarations from 'cpython.ref' */ +/* Module declarations from 'libc.string' */ + /* Module declarations from 'libc.stdio' */ /* Module declarations from 'cpython.object' */ @@ -918,135 +1113,144 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_5array_8array_sub(CYTHON_UNUSED static PyObject *__pyx_pf_4nipy_4labs_8bindings_5array_10array_div(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_A, PyObject *__pyx_v_B); /* proto */ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, Py_buffer *__pyx_v_info, int __pyx_v_flags); /* proto */ static void __pyx_pf_5numpy_7ndarray_2__releasebuffer__(PyArrayObject *__pyx_v_self, Py_buffer *__pyx_v_info); /* proto */ -static char __pyx_k_1[] = "ndarray is not C contiguous"; -static char __pyx_k_3[] = "ndarray is not Fortran contiguous"; -static char __pyx_k_5[] = "Non-native byte order not supported"; -static char __pyx_k_7[] = "unknown dtype code in numpy.pxd (%d)"; -static char __pyx_k_8[] = "Format string allocated too short, see comment in numpy.pxd"; -static char __pyx_k_11[] = "Format string allocated too short."; -static char __pyx_k_13[] = "\nPython access to core fff functions written in C. This module is\nmainly used for unitary tests.\n\nAuthor: Alexis Roche, 2008.\n"; -static char __pyx_k_14[] = "0.1"; -static char __pyx_k_17[] = "/Users/mb312/dev_trees/nipy/nipy/labs/bindings/array.pyx"; -static char __pyx_k_18[] = "nipy.labs.bindings.array"; -static char __pyx_k__A[] = "A"; -static char __pyx_k__B[] = "B"; -static char __pyx_k__C[] = "C"; -static char __pyx_k__H[] = "H"; -static char __pyx_k__I[] = "I"; -static char __pyx_k__L[] = "L"; -static char __pyx_k__O[] = "O"; -static char __pyx_k__Q[] = "Q"; -static char __pyx_k__a[] = "a"; -static char __pyx_k__b[] = "b"; -static char __pyx_k__c[] = "c"; -static char __pyx_k__d[] = "d"; -static char __pyx_k__f[] = "f"; -static char __pyx_k__g[] = "g"; -static char __pyx_k__h[] = "h"; -static char __pyx_k__i[] = "i"; -static char __pyx_k__l[] = "l"; -static char __pyx_k__q[] = "q"; -static char __pyx_k__t[] = "t"; -static char __pyx_k__x[] = "x"; -static char __pyx_k__y[] = "y"; -static char __pyx_k__z[] = "z"; -static char __pyx_k__Zd[] = "Zd"; -static char __pyx_k__Zf[] = "Zf"; -static char __pyx_k__Zg[] = "Zg"; -static char __pyx_k__fT[] = "fT"; -static char __pyx_k__fX[] = "fX"; -static char __pyx_k__fY[] = "fY"; -static char __pyx_k__fZ[] = "fZ"; -static char __pyx_k__np[] = "np"; -static char __pyx_k__t0[] = "t0"; -static char __pyx_k__t1[] = "t1"; -static char __pyx_k__va[] = "va"; -static char __pyx_k__x0[] = "x0"; -static char __pyx_k__x1[] = "x1"; -static char __pyx_k__y0[] = "y0"; -static char __pyx_k__y1[] = "y1"; -static char __pyx_k__z0[] = "z0"; -static char __pyx_k__z1[] = "z1"; -static char __pyx_k__asub[] = "asub"; -static char __pyx_k__numpy[] = "numpy"; -static char __pyx_k__range[] = "range"; -static char __pyx_k____main__[] = "__main__"; -static char __pyx_k____test__[] = "__test__"; -static char __pyx_k__array_add[] = "array_add"; -static char __pyx_k__array_div[] = "array_div"; -static char __pyx_k__array_get[] = "array_get"; -static char __pyx_k__array_mul[] = "array_mul"; -static char __pyx_k__array_sub[] = "array_sub"; 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This module is\nmainly used for unitary tests.\n\nAuthor: Alexis Roche, 2008.\n"; +static char __pyx_k_home_roche_git_nipy_nipy_labs_b[] = "/home/roche/git/nipy/nipy/labs/bindings/array.pyx"; +static char __pyx_k_unknown_dtype_code_in_numpy_pxd[] = "unknown dtype code in numpy.pxd (%d)"; +static char __pyx_k_Format_string_allocated_too_shor[] = "Format string allocated too short, see comment in numpy.pxd"; +static char __pyx_k_Non_native_byte_order_not_suppor[] = "Non-native byte order not supported"; +static char __pyx_k_ndarray_is_not_Fortran_contiguou[] = "ndarray is not Fortran contiguous"; +static char __pyx_k_Format_string_allocated_too_shor_2[] = "Format string allocated too short."; +static PyObject *__pyx_kp_s_0_1; +static PyObject *__pyx_n_s_A; +static PyObject *__pyx_n_s_B; +static PyObject *__pyx_n_s_C; +static PyObject *__pyx_kp_u_Format_string_allocated_too_shor; +static PyObject *__pyx_kp_u_Format_string_allocated_too_shor_2; +static PyObject *__pyx_kp_u_Non_native_byte_order_not_suppor; +static PyObject *__pyx_n_s_RuntimeError; +static PyObject *__pyx_n_s_ValueError; +static PyObject *__pyx_n_s_a; +static PyObject *__pyx_n_s_array_add; +static PyObject *__pyx_n_s_array_div; +static PyObject *__pyx_n_s_array_get; +static PyObject *__pyx_n_s_array_get_block; +static PyObject *__pyx_n_s_array_mul; +static PyObject *__pyx_n_s_array_sub; +static PyObject *__pyx_n_s_asub; +static PyObject *__pyx_n_s_b; +static PyObject *__pyx_n_s_c; +static PyObject *__pyx_n_s_fT; +static PyObject *__pyx_n_s_fX; +static PyObject *__pyx_n_s_fY; +static PyObject *__pyx_n_s_fZ; +static PyObject *__pyx_kp_s_home_roche_git_nipy_nipy_labs_b; +static PyObject *__pyx_n_s_import; +static PyObject *__pyx_n_s_main; +static PyObject *__pyx_kp_u_ndarray_is_not_C_contiguous; +static PyObject *__pyx_kp_u_ndarray_is_not_Fortran_contiguou; +static PyObject *__pyx_n_s_nipy_labs_bindings_array; +static PyObject *__pyx_n_s_np; +static PyObject *__pyx_n_s_numpy; +static PyObject *__pyx_n_s_range; +static PyObject *__pyx_n_s_t; 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+static PyObject *__pyx_codeobj__14; +static PyObject *__pyx_codeobj__16; +static PyObject *__pyx_codeobj__18; + +/* "nipy/labs/bindings/array.pyx":21 + * + * # Binded routines + * def array_get(A, size_t x, size_t y=0, size_t z=0, size_t t=0): # <<<<<<<<<<<<<< + * """ + * Get array element. + */ /* Python wrapper */ static PyObject *__pyx_pw_4nipy_4labs_8bindings_5array_1array_get(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/ @@ -1058,11 +1262,14 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_5array_1array_get(PyObject *__py size_t __pyx_v_y; size_t __pyx_v_z; size_t __pyx_v_t; + int __pyx_lineno = 0; + const char *__pyx_filename = NULL; + int __pyx_clineno = 0; PyObject *__pyx_r = 0; __Pyx_RefNannyDeclarations __Pyx_RefNannySetupContext("array_get (wrapper)", 0); { - static PyObject **__pyx_pyargnames[] = {&__pyx_n_s__A,&__pyx_n_s__x,&__pyx_n_s__y,&__pyx_n_s__z,&__pyx_n_s__t,0}; + static PyObject **__pyx_pyargnames[] = {&__pyx_n_s_A,&__pyx_n_s_x,&__pyx_n_s_y,&__pyx_n_s_z,&__pyx_n_s_t,0}; PyObject* values[5] = {0,0,0,0,0}; if (unlikely(__pyx_kwds)) { Py_ssize_t kw_args; @@ -1079,26 +1286,26 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_5array_1array_get(PyObject *__py kw_args = PyDict_Size(__pyx_kwds); switch (pos_args) { case 0: - if (likely((values[0] = PyDict_GetItem(__pyx_kwds, __pyx_n_s__A)) != 0)) kw_args--; + if (likely((values[0] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_A)) != 0)) kw_args--; else goto __pyx_L5_argtuple_error; case 1: - if (likely((values[1] = PyDict_GetItem(__pyx_kwds, __pyx_n_s__x)) != 0)) kw_args--; + if (likely((values[1] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_x)) != 0)) kw_args--; else { __Pyx_RaiseArgtupleInvalid("array_get", 0, 2, 5, 1); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 21; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } case 2: if (kw_args > 0) { - PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s__y); + PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s_y); if (value) { values[2] = value; kw_args--; } } case 3: if (kw_args > 0) { - PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s__z); + PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s_z); if (value) { values[3] = value; kw_args--; } } case 4: if (kw_args > 0) { - PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s__t); + PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s_t); if (value) { values[4] = value; kw_args--; } } } @@ -1117,19 +1324,19 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_5array_1array_get(PyObject *__py } } __pyx_v_A = values[0]; - __pyx_v_x = __Pyx_PyInt_AsSize_t(values[1]); if (unlikely((__pyx_v_x == (size_t)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 21; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_x = __Pyx_PyInt_As_size_t(values[1]); if (unlikely((__pyx_v_x == (size_t)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 21; __pyx_clineno = __LINE__; goto __pyx_L3_error;} if (values[2]) { - __pyx_v_y = __Pyx_PyInt_AsSize_t(values[2]); if (unlikely((__pyx_v_y == (size_t)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 21; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_y = __Pyx_PyInt_As_size_t(values[2]); if (unlikely((__pyx_v_y == (size_t)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 21; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } else { __pyx_v_y = ((size_t)0); } if (values[3]) { - __pyx_v_z = __Pyx_PyInt_AsSize_t(values[3]); if (unlikely((__pyx_v_z == (size_t)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 21; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_z = __Pyx_PyInt_As_size_t(values[3]); if (unlikely((__pyx_v_z == (size_t)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 21; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } else { __pyx_v_z = ((size_t)0); } if (values[4]) { - __pyx_v_t = __Pyx_PyInt_AsSize_t(values[4]); if (unlikely((__pyx_v_t == (size_t)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 21; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_t = __Pyx_PyInt_As_size_t(values[4]); if (unlikely((__pyx_v_t == (size_t)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 21; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } else { __pyx_v_t = ((size_t)0); } @@ -1143,18 +1350,12 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_5array_1array_get(PyObject *__py return NULL; __pyx_L4_argument_unpacking_done:; __pyx_r = __pyx_pf_4nipy_4labs_8bindings_5array_array_get(__pyx_self, __pyx_v_A, __pyx_v_x, __pyx_v_y, __pyx_v_z, __pyx_v_t); + + /* function exit code */ __Pyx_RefNannyFinishContext(); return __pyx_r; } -/* "nipy/labs/bindings/array.pyx":21 - * - * # Binded routines - * def array_get(A, size_t x, size_t y=0, size_t z=0, size_t t=0): # <<<<<<<<<<<<<< - * """ - * Get array element. - */ - static PyObject *__pyx_pf_4nipy_4labs_8bindings_5array_array_get(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_A, size_t __pyx_v_x, size_t __pyx_v_y, size_t __pyx_v_z, size_t __pyx_v_t) { fff_array *__pyx_v_a; double __pyx_v_va; @@ -1174,10 +1375,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_5array_array_get(CYTHON_UNUSED P * fff_array_delete(a) */ if (!(likely(((__pyx_v_A) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_A, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 28; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __pyx_t_1 = __pyx_v_A; - __Pyx_INCREF(__pyx_t_1); - __pyx_v_a = fff_array_fromPyArray(((PyArrayObject *)__pyx_t_1)); - __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; + __pyx_v_a = fff_array_fromPyArray(((PyArrayObject *)__pyx_v_A)); /* "nipy/labs/bindings/array.pyx":29 * cdef double va @@ -1211,8 +1409,15 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_5array_array_get(CYTHON_UNUSED P __pyx_t_1 = 0; goto __pyx_L0; - __pyx_r = Py_None; __Pyx_INCREF(Py_None); - goto __pyx_L0; + /* "nipy/labs/bindings/array.pyx":21 + * + * # Binded routines + * def array_get(A, size_t x, size_t y=0, size_t z=0, size_t t=0): # <<<<<<<<<<<<<< + * """ + * Get array element. + */ + + /* function exit code */ __pyx_L1_error:; __Pyx_XDECREF(__pyx_t_1); __Pyx_AddTraceback("nipy.labs.bindings.array.array_get", __pyx_clineno, __pyx_lineno, __pyx_filename); @@ -1223,6 +1428,14 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_5array_array_get(CYTHON_UNUSED P return __pyx_r; } +/* "nipy/labs/bindings/array.pyx":34 + * + * + * def array_get_block( A, size_t x0, size_t x1, size_t fX=1, # <<<<<<<<<<<<<< + * size_t y0=0, size_t y1=0, size_t fY=1, + * size_t z0=0, size_t z1=0, size_t fZ=1, + */ + /* Python wrapper */ static PyObject *__pyx_pw_4nipy_4labs_8bindings_5array_3array_get_block(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/ static char __pyx_doc_4nipy_4labs_8bindings_5array_2array_get_block[] = "\n Get block\n Asub = array_get_block( A, size_t x0, size_t x1, size_t fX=1,\n size_t y0=0, size_t y1=0, size_t fY=1,\n size_t z0=0, size_t z1=0, size_t fZ=1,\n size_t t0=0, size_t t1=0, size_t fT=1 )\n "; @@ -1241,11 +1454,14 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_5array_3array_get_block(PyObject size_t __pyx_v_t0; size_t __pyx_v_t1; size_t __pyx_v_fT; + int __pyx_lineno = 0; + const char *__pyx_filename = NULL; + int __pyx_clineno = 0; PyObject *__pyx_r = 0; __Pyx_RefNannyDeclarations __Pyx_RefNannySetupContext("array_get_block (wrapper)", 0); { - static PyObject **__pyx_pyargnames[] = {&__pyx_n_s__A,&__pyx_n_s__x0,&__pyx_n_s__x1,&__pyx_n_s__fX,&__pyx_n_s__y0,&__pyx_n_s__y1,&__pyx_n_s__fY,&__pyx_n_s__z0,&__pyx_n_s__z1,&__pyx_n_s__fZ,&__pyx_n_s__t0,&__pyx_n_s__t1,&__pyx_n_s__fT,0}; + static PyObject **__pyx_pyargnames[] = {&__pyx_n_s_A,&__pyx_n_s_x0,&__pyx_n_s_x1,&__pyx_n_s_fX,&__pyx_n_s_y0,&__pyx_n_s_y1,&__pyx_n_s_fY,&__pyx_n_s_z0,&__pyx_n_s_z1,&__pyx_n_s_fZ,&__pyx_n_s_t0,&__pyx_n_s_t1,&__pyx_n_s_fT,0}; PyObject* values[13] = {0,0,0,0,0,0,0,0,0,0,0,0,0}; if (unlikely(__pyx_kwds)) { Py_ssize_t kw_args; @@ -1270,66 +1486,66 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_5array_3array_get_block(PyObject kw_args = PyDict_Size(__pyx_kwds); switch (pos_args) { case 0: - if (likely((values[0] = PyDict_GetItem(__pyx_kwds, __pyx_n_s__A)) != 0)) kw_args--; + if (likely((values[0] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_A)) != 0)) kw_args--; else goto __pyx_L5_argtuple_error; case 1: - if (likely((values[1] = PyDict_GetItem(__pyx_kwds, __pyx_n_s__x0)) != 0)) kw_args--; + if (likely((values[1] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_x0)) != 0)) kw_args--; else { __Pyx_RaiseArgtupleInvalid("array_get_block", 0, 3, 13, 1); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 34; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } case 2: - if (likely((values[2] = PyDict_GetItem(__pyx_kwds, __pyx_n_s__x1)) != 0)) kw_args--; + if (likely((values[2] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_x1)) != 0)) kw_args--; else { __Pyx_RaiseArgtupleInvalid("array_get_block", 0, 3, 13, 2); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 34; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } case 3: if (kw_args > 0) { - PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s__fX); + PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s_fX); if (value) { values[3] = value; kw_args--; } } case 4: if (kw_args > 0) { - PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s__y0); + PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s_y0); if (value) { values[4] = value; kw_args--; } } case 5: if (kw_args > 0) { - PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s__y1); + PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s_y1); if (value) { values[5] = value; kw_args--; } } case 6: if (kw_args > 0) { - PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s__fY); + PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s_fY); if (value) { values[6] = value; kw_args--; } } case 7: if (kw_args > 0) { - PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s__z0); + PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s_z0); if (value) { values[7] = value; kw_args--; } } case 8: if (kw_args > 0) { - PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s__z1); + PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s_z1); if (value) { values[8] = value; kw_args--; } } case 9: if (kw_args > 0) { - PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s__fZ); + PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s_fZ); if (value) { values[9] = value; kw_args--; } } case 10: if (kw_args > 0) { - PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s__t0); + PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s_t0); if (value) { values[10] = value; kw_args--; } } case 11: if (kw_args > 0) { - PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s__t1); + PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s_t1); if (value) { values[11] = value; kw_args--; } } case 12: if (kw_args > 0) { - PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s__fT); + PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s_fT); if (value) { values[12] = value; kw_args--; } } } @@ -1356,55 +1572,55 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_5array_3array_get_block(PyObject } } __pyx_v_A = values[0]; - __pyx_v_x0 = __Pyx_PyInt_AsSize_t(values[1]); if (unlikely((__pyx_v_x0 == (size_t)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 34; __pyx_clineno = __LINE__; goto __pyx_L3_error;} - __pyx_v_x1 = __Pyx_PyInt_AsSize_t(values[2]); if (unlikely((__pyx_v_x1 == (size_t)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 34; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_x0 = __Pyx_PyInt_As_size_t(values[1]); if (unlikely((__pyx_v_x0 == (size_t)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 34; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_x1 = __Pyx_PyInt_As_size_t(values[2]); if (unlikely((__pyx_v_x1 == (size_t)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 34; __pyx_clineno = __LINE__; goto __pyx_L3_error;} if (values[3]) { - __pyx_v_fX = __Pyx_PyInt_AsSize_t(values[3]); if (unlikely((__pyx_v_fX == (size_t)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 34; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_fX = __Pyx_PyInt_As_size_t(values[3]); if (unlikely((__pyx_v_fX == (size_t)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 34; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } else { __pyx_v_fX = ((size_t)1); } if (values[4]) { - __pyx_v_y0 = __Pyx_PyInt_AsSize_t(values[4]); if (unlikely((__pyx_v_y0 == (size_t)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 35; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_y0 = __Pyx_PyInt_As_size_t(values[4]); if (unlikely((__pyx_v_y0 == (size_t)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 35; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } else { __pyx_v_y0 = ((size_t)0); } if (values[5]) { - __pyx_v_y1 = __Pyx_PyInt_AsSize_t(values[5]); if (unlikely((__pyx_v_y1 == (size_t)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 35; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_y1 = __Pyx_PyInt_As_size_t(values[5]); if (unlikely((__pyx_v_y1 == (size_t)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 35; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } else { __pyx_v_y1 = ((size_t)0); } if (values[6]) { - __pyx_v_fY = __Pyx_PyInt_AsSize_t(values[6]); if (unlikely((__pyx_v_fY == (size_t)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 35; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_fY = __Pyx_PyInt_As_size_t(values[6]); if (unlikely((__pyx_v_fY == (size_t)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 35; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } else { __pyx_v_fY = ((size_t)1); } if (values[7]) { - __pyx_v_z0 = __Pyx_PyInt_AsSize_t(values[7]); if (unlikely((__pyx_v_z0 == (size_t)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 36; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_z0 = __Pyx_PyInt_As_size_t(values[7]); if (unlikely((__pyx_v_z0 == (size_t)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 36; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } else { __pyx_v_z0 = ((size_t)0); } if (values[8]) { - __pyx_v_z1 = __Pyx_PyInt_AsSize_t(values[8]); if (unlikely((__pyx_v_z1 == (size_t)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 36; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_z1 = __Pyx_PyInt_As_size_t(values[8]); if (unlikely((__pyx_v_z1 == (size_t)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 36; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } else { __pyx_v_z1 = ((size_t)0); } if (values[9]) { - __pyx_v_fZ = __Pyx_PyInt_AsSize_t(values[9]); if (unlikely((__pyx_v_fZ == (size_t)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 36; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_fZ = __Pyx_PyInt_As_size_t(values[9]); if (unlikely((__pyx_v_fZ == (size_t)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 36; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } else { __pyx_v_fZ = ((size_t)1); } if (values[10]) { - __pyx_v_t0 = __Pyx_PyInt_AsSize_t(values[10]); if (unlikely((__pyx_v_t0 == (size_t)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 37; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_t0 = __Pyx_PyInt_As_size_t(values[10]); if (unlikely((__pyx_v_t0 == (size_t)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 37; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } else { __pyx_v_t0 = ((size_t)0); } if (values[11]) { - __pyx_v_t1 = __Pyx_PyInt_AsSize_t(values[11]); if (unlikely((__pyx_v_t1 == (size_t)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 37; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_t1 = __Pyx_PyInt_As_size_t(values[11]); if (unlikely((__pyx_v_t1 == (size_t)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 37; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } else { __pyx_v_t1 = ((size_t)0); } if (values[12]) { - __pyx_v_fT = __Pyx_PyInt_AsSize_t(values[12]); if (unlikely((__pyx_v_fT == (size_t)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 37; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_fT = __Pyx_PyInt_As_size_t(values[12]); if (unlikely((__pyx_v_fT == (size_t)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 37; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } else { __pyx_v_fT = ((size_t)1); } @@ -1418,18 +1634,12 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_5array_3array_get_block(PyObject return NULL; 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__pyx_lineno = 47; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __pyx_t_1 = __pyx_v_A; - __Pyx_INCREF(__pyx_t_1); - __pyx_v_a = fff_array_fromPyArray(((PyArrayObject *)__pyx_t_1)); - __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; + __pyx_v_a = fff_array_fromPyArray(((PyArrayObject *)__pyx_v_A)); /* "nipy/labs/bindings/array.pyx":48 * cdef fff_array asub @@ -1516,8 +1723,15 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_5array_2array_get_block(CYTHON_U __pyx_r = ((PyObject *)__pyx_v_B); goto __pyx_L0; - __pyx_r = Py_None; __Pyx_INCREF(Py_None); - goto __pyx_L0; + /* "nipy/labs/bindings/array.pyx":34 + * + * + * def array_get_block( A, size_t x0, size_t x1, size_t fX=1, # <<<<<<<<<<<<<< + * size_t y0=0, size_t y1=0, size_t fY=1, + * size_t z0=0, size_t z1=0, size_t fZ=1, + */ + + /* function exit code */ __pyx_L1_error:; __Pyx_XDECREF(__pyx_t_1); __Pyx_AddTraceback("nipy.labs.bindings.array.array_get_block", __pyx_clineno, __pyx_lineno, __pyx_filename); @@ -1529,6 +1743,14 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_5array_2array_get_block(CYTHON_U return __pyx_r; } +/* "nipy/labs/bindings/array.pyx":56 + * + * + * def array_add(A, B): # <<<<<<<<<<<<<< + * """ + * C = A + B + */ + /* Python wrapper */ static PyObject *__pyx_pw_4nipy_4labs_8bindings_5array_5array_add(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/ static char __pyx_doc_4nipy_4labs_8bindings_5array_4array_add[] = "\n C = A + B \n "; @@ -1536,11 +1758,14 @@ static PyMethodDef __pyx_mdef_4nipy_4labs_8bindings_5array_5array_add = {__Pyx_N static PyObject *__pyx_pw_4nipy_4labs_8bindings_5array_5array_add(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds) { PyObject *__pyx_v_A = 0; PyObject *__pyx_v_B = 0; + int __pyx_lineno = 0; + const char *__pyx_filename = NULL; + int __pyx_clineno = 0; PyObject *__pyx_r = 0; __Pyx_RefNannyDeclarations __Pyx_RefNannySetupContext("array_add (wrapper)", 0); { - static PyObject **__pyx_pyargnames[] = {&__pyx_n_s__A,&__pyx_n_s__B,0}; + static PyObject **__pyx_pyargnames[] = {&__pyx_n_s_A,&__pyx_n_s_B,0}; PyObject* values[2] = {0,0}; if (unlikely(__pyx_kwds)) { Py_ssize_t kw_args; @@ -1554,10 +1779,10 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_5array_5array_add(PyObject *__py kw_args = PyDict_Size(__pyx_kwds); switch (pos_args) { case 0: - if (likely((values[0] = PyDict_GetItem(__pyx_kwds, __pyx_n_s__A)) != 0)) kw_args--; + if (likely((values[0] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_A)) != 0)) kw_args--; else goto __pyx_L5_argtuple_error; case 1: - if (likely((values[1] = PyDict_GetItem(__pyx_kwds, __pyx_n_s__B)) != 0)) kw_args--; + if (likely((values[1] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_B)) != 0)) kw_args--; else { __Pyx_RaiseArgtupleInvalid("array_add", 1, 2, 2, 1); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 56; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } @@ -1583,18 +1808,12 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_5array_5array_add(PyObject *__py return NULL; __pyx_L4_argument_unpacking_done:; __pyx_r = __pyx_pf_4nipy_4labs_8bindings_5array_4array_add(__pyx_self, __pyx_v_A, __pyx_v_B); 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- /* "numpy.pxd":206 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":206 * cdef bint little_endian = ((&endian_detector)[0] != 0) * * ndim = PyArray_NDIM(self) # <<<<<<<<<<<<<< @@ -2366,17 +2604,17 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ __pyx_v_ndim = PyArray_NDIM(__pyx_v_self); - /* "numpy.pxd":208 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":208 * ndim = PyArray_NDIM(self) * * if sizeof(npy_intp) != sizeof(Py_ssize_t): # <<<<<<<<<<<<<< * copy_shape = 1 * else: */ - __pyx_t_1 = ((sizeof(npy_intp)) != (sizeof(Py_ssize_t))); + __pyx_t_1 = (((sizeof(npy_intp)) != (sizeof(Py_ssize_t))) != 0); if (__pyx_t_1) { - /* "numpy.pxd":209 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":209 * * if sizeof(npy_intp) != sizeof(Py_ssize_t): * copy_shape = 1 # <<<<<<<<<<<<<< @@ -2388,7 +2626,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P } /*else*/ { - /* "numpy.pxd":211 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":211 * copy_shape = 1 * else: * copy_shape = 0 # <<<<<<<<<<<<<< @@ -2399,87 +2637,83 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P } __pyx_L4:; 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if (__pyx_t_3) { - /* "numpy.pxd":218 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":218 * * if ((flags & pybuf.PyBUF_F_CONTIGUOUS == pybuf.PyBUF_F_CONTIGUOUS) * and not PyArray_CHKFLAGS(self, NPY_F_CONTIGUOUS)): # <<<<<<<<<<<<<< * raise ValueError(u"ndarray is not Fortran contiguous") * */ - __pyx_t_1 = (!PyArray_CHKFLAGS(__pyx_v_self, NPY_F_CONTIGUOUS)); + __pyx_t_1 = ((!(PyArray_CHKFLAGS(__pyx_v_self, NPY_F_CONTIGUOUS) != 0)) != 0); __pyx_t_2 = __pyx_t_1; } else { __pyx_t_2 = __pyx_t_3; } if (__pyx_t_2) { - /* "numpy.pxd":219 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":219 * if ((flags & pybuf.PyBUF_F_CONTIGUOUS == pybuf.PyBUF_F_CONTIGUOUS) * and not PyArray_CHKFLAGS(self, NPY_F_CONTIGUOUS)): * raise ValueError(u"ndarray is not Fortran contiguous") # <<<<<<<<<<<<<< * * info.buf = PyArray_DATA(self) */ - __pyx_t_4 = PyObject_Call(__pyx_builtin_ValueError, ((PyObject *)__pyx_k_tuple_4), NULL); if (unlikely(!__pyx_t_4)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 219; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_4 = __Pyx_PyObject_Call(__pyx_builtin_ValueError, __pyx_tuple__2, NULL); if (unlikely(!__pyx_t_4)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 219; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_4); __Pyx_Raise(__pyx_t_4, 0, 0, 0); __Pyx_DECREF(__pyx_t_4); __pyx_t_4 = 0; {__pyx_filename = __pyx_f[1]; __pyx_lineno = 219; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - goto __pyx_L6; } - __pyx_L6:; - /* "numpy.pxd":221 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":221 * raise ValueError(u"ndarray is not Fortran contiguous") * * info.buf = PyArray_DATA(self) # <<<<<<<<<<<<<< @@ -2488,7 +2722,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ __pyx_v_info->buf = PyArray_DATA(__pyx_v_self); - /* "numpy.pxd":222 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":222 * * info.buf = PyArray_DATA(self) * info.ndim = ndim # <<<<<<<<<<<<<< @@ -2497,16 +2731,17 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ __pyx_v_info->ndim = __pyx_v_ndim; 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- /* "numpy.pxd":228 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":228 * info.strides = stdlib.malloc(sizeof(Py_ssize_t) * ndim * 2) * info.shape = info.strides + ndim * for i in range(ndim): # <<<<<<<<<<<<<< @@ -2535,7 +2770,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P for (__pyx_t_6 = 0; __pyx_t_6 < __pyx_t_5; __pyx_t_6+=1) { __pyx_v_i = __pyx_t_6; - /* "numpy.pxd":229 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":229 * info.shape = info.strides + ndim * for i in range(ndim): * info.strides[i] = PyArray_STRIDES(self)[i] # <<<<<<<<<<<<<< @@ -2544,7 +2779,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ (__pyx_v_info->strides[__pyx_v_i]) = (PyArray_STRIDES(__pyx_v_self)[__pyx_v_i]); - /* "numpy.pxd":230 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":230 * for i in range(ndim): * info.strides[i] = PyArray_STRIDES(self)[i] * info.shape[i] = PyArray_DIMS(self)[i] # <<<<<<<<<<<<<< @@ -2557,7 +2792,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P } /*else*/ { - /* "numpy.pxd":232 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":232 * info.shape[i] = PyArray_DIMS(self)[i] * else: * info.strides = PyArray_STRIDES(self) # <<<<<<<<<<<<<< @@ -2566,7 +2801,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ __pyx_v_info->strides = ((Py_ssize_t *)PyArray_STRIDES(__pyx_v_self)); - /* "numpy.pxd":233 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":233 * else: * info.strides = PyArray_STRIDES(self) * info.shape = PyArray_DIMS(self) # <<<<<<<<<<<<<< @@ -2577,7 +2812,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P } __pyx_L7:; - /* "numpy.pxd":234 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":234 * info.strides = PyArray_STRIDES(self) * info.shape = PyArray_DIMS(self) * info.suboffsets = NULL # <<<<<<<<<<<<<< @@ -2586,7 +2821,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ __pyx_v_info->suboffsets = NULL; - /* "numpy.pxd":235 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":235 * info.shape = PyArray_DIMS(self) * info.suboffsets = NULL * info.itemsize = PyArray_ITEMSIZE(self) # <<<<<<<<<<<<<< @@ -2595,16 +2830,16 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ __pyx_v_info->itemsize = PyArray_ITEMSIZE(__pyx_v_self); - /* "numpy.pxd":236 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":236 * info.suboffsets = NULL * info.itemsize = PyArray_ITEMSIZE(self) * info.readonly = not PyArray_ISWRITEABLE(self) # <<<<<<<<<<<<<< * * cdef int t */ - __pyx_v_info->readonly = (!PyArray_ISWRITEABLE(__pyx_v_self)); + __pyx_v_info->readonly = (!(PyArray_ISWRITEABLE(__pyx_v_self) != 0)); - /* "numpy.pxd":239 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":239 * * cdef int t * cdef char* f = NULL # <<<<<<<<<<<<<< @@ -2613,7 +2848,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ __pyx_v_f = NULL; - /* "numpy.pxd":240 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":240 * cdef int t * cdef char* f = NULL * cdef dtype descr = self.descr # <<<<<<<<<<<<<< @@ -2625,7 +2860,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P __pyx_v_descr = ((PyArray_Descr *)__pyx_t_4); __pyx_t_4 = 0; - /* "numpy.pxd":244 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":244 * cdef int offset * * cdef bint hasfields = PyDataType_HASFIELDS(descr) # <<<<<<<<<<<<<< @@ -2634,23 +2869,23 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ __pyx_v_hasfields = PyDataType_HASFIELDS(__pyx_v_descr); - /* "numpy.pxd":246 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":246 * cdef bint hasfields = PyDataType_HASFIELDS(descr) * * if not hasfields and not copy_shape: # <<<<<<<<<<<<<< * # do not call releasebuffer * info.obj = None */ - __pyx_t_2 = (!__pyx_v_hasfields); + __pyx_t_2 = ((!(__pyx_v_hasfields != 0)) != 0); if (__pyx_t_2) { - __pyx_t_3 = (!__pyx_v_copy_shape); + __pyx_t_3 = ((!(__pyx_v_copy_shape != 0)) != 0); __pyx_t_1 = __pyx_t_3; } else { __pyx_t_1 = __pyx_t_2; } if (__pyx_t_1) { - /* "numpy.pxd":248 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":248 * if not hasfields and not copy_shape: * # do not call releasebuffer * info.obj = None # <<<<<<<<<<<<<< @@ -2666,7 +2901,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P } /*else*/ { - /* "numpy.pxd":251 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":251 * else: * # need to call releasebuffer * info.obj = self # <<<<<<<<<<<<<< @@ -2681,17 +2916,17 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P } __pyx_L10:; - /* "numpy.pxd":253 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":253 * info.obj = self * * if not hasfields: # <<<<<<<<<<<<<< * t = descr.type_num * if ((descr.byteorder == c'>' and little_endian) or */ - __pyx_t_1 = (!__pyx_v_hasfields); + __pyx_t_1 = ((!(__pyx_v_hasfields != 0)) != 0); if (__pyx_t_1) { - /* "numpy.pxd":254 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":254 * * if not hasfields: * t = descr.type_num # <<<<<<<<<<<<<< @@ -2701,31 +2936,31 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P __pyx_t_5 = __pyx_v_descr->type_num; __pyx_v_t = __pyx_t_5; - /* "numpy.pxd":255 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":255 * if not hasfields: * t = descr.type_num * if ((descr.byteorder == c'>' and little_endian) or # <<<<<<<<<<<<<< * (descr.byteorder == c'<' and not little_endian)): * raise ValueError(u"Non-native byte order not supported") */ - __pyx_t_1 = (__pyx_v_descr->byteorder == '>'); + __pyx_t_1 = ((__pyx_v_descr->byteorder == '>') != 0); if (__pyx_t_1) { - __pyx_t_2 = __pyx_v_little_endian; + __pyx_t_2 = (__pyx_v_little_endian != 0); } else { __pyx_t_2 = __pyx_t_1; } if (!__pyx_t_2) { - /* "numpy.pxd":256 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":256 * t = descr.type_num * if ((descr.byteorder == c'>' and little_endian) or * (descr.byteorder == c'<' and not little_endian)): # <<<<<<<<<<<<<< * raise ValueError(u"Non-native byte order not supported") * if t == NPY_BYTE: f = "b" */ - __pyx_t_1 = (__pyx_v_descr->byteorder == '<'); + __pyx_t_1 = ((__pyx_v_descr->byteorder == '<') != 0); if (__pyx_t_1) { - __pyx_t_3 = (!__pyx_v_little_endian); + __pyx_t_3 = ((!(__pyx_v_little_endian != 0)) != 0); __pyx_t_7 = __pyx_t_3; } else { __pyx_t_7 = __pyx_t_1; @@ -2736,271 +2971,244 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P } if (__pyx_t_1) { - /* "numpy.pxd":257 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":257 * if ((descr.byteorder == c'>' and little_endian) or * (descr.byteorder == c'<' and not little_endian)): * raise ValueError(u"Non-native byte order not supported") # <<<<<<<<<<<<<< * if t == NPY_BYTE: f = "b" * elif t == NPY_UBYTE: f = "B" */ - __pyx_t_4 = PyObject_Call(__pyx_builtin_ValueError, ((PyObject *)__pyx_k_tuple_6), NULL); if (unlikely(!__pyx_t_4)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 257; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_4 = __Pyx_PyObject_Call(__pyx_builtin_ValueError, __pyx_tuple__3, NULL); if (unlikely(!__pyx_t_4)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 257; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_4); __Pyx_Raise(__pyx_t_4, 0, 0, 0); __Pyx_DECREF(__pyx_t_4); __pyx_t_4 = 0; {__pyx_filename = __pyx_f[1]; __pyx_lineno = 257; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - goto __pyx_L12; } - __pyx_L12:; - /* "numpy.pxd":258 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":274 + * elif t == NPY_CDOUBLE: f = "Zd" + * elif t == NPY_CLONGDOUBLE: f = "Zg" + * elif t == NPY_OBJECT: f = "O" # <<<<<<<<<<<<<< + * else: + * raise ValueError(u"unknown dtype code in numpy.pxd (%d)" % t) + */ + switch (__pyx_v_t) { + + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":258 * (descr.byteorder == c'<' and not little_endian)): * raise ValueError(u"Non-native byte order not supported") * if t == NPY_BYTE: f = "b" # <<<<<<<<<<<<<< * elif t == NPY_UBYTE: f = "B" * elif t == NPY_SHORT: f = "h" */ - __pyx_t_1 = (__pyx_v_t == NPY_BYTE); - if (__pyx_t_1) { - __pyx_v_f = __pyx_k__b; - goto __pyx_L13; - } + case NPY_BYTE: + __pyx_v_f = __pyx_k_b; + break; - /* "numpy.pxd":259 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":259 * raise ValueError(u"Non-native byte order not supported") * if t == NPY_BYTE: f = "b" * elif t == NPY_UBYTE: f = "B" # <<<<<<<<<<<<<< * elif t == NPY_SHORT: f = "h" * elif t == NPY_USHORT: f = "H" */ - __pyx_t_1 = (__pyx_v_t == NPY_UBYTE); - if (__pyx_t_1) { - __pyx_v_f = __pyx_k__B; - goto __pyx_L13; - } + case NPY_UBYTE: + __pyx_v_f = __pyx_k_B; + break; - /* "numpy.pxd":260 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":260 * if t == NPY_BYTE: f = "b" * elif t == NPY_UBYTE: f = "B" * elif t == NPY_SHORT: f = "h" # <<<<<<<<<<<<<< * elif t == NPY_USHORT: f = "H" * elif t == NPY_INT: f = "i" */ - __pyx_t_1 = (__pyx_v_t == NPY_SHORT); - if (__pyx_t_1) { - __pyx_v_f = __pyx_k__h; - goto __pyx_L13; - } + case NPY_SHORT: + __pyx_v_f = __pyx_k_h; + break; - /* "numpy.pxd":261 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":261 * elif t == NPY_UBYTE: f = "B" * elif t == NPY_SHORT: f = "h" * elif t == NPY_USHORT: f = "H" # <<<<<<<<<<<<<< * elif t == NPY_INT: f = "i" * elif t == NPY_UINT: f = "I" */ - __pyx_t_1 = (__pyx_v_t == NPY_USHORT); - if (__pyx_t_1) { - __pyx_v_f = __pyx_k__H; - goto __pyx_L13; - } + case NPY_USHORT: + __pyx_v_f = __pyx_k_H; + break; - /* "numpy.pxd":262 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":262 * elif t == NPY_SHORT: f = "h" * elif t == NPY_USHORT: f = "H" * elif t == NPY_INT: f = "i" # <<<<<<<<<<<<<< * elif t == NPY_UINT: f = "I" * elif t == NPY_LONG: f = "l" */ - __pyx_t_1 = (__pyx_v_t == NPY_INT); - if (__pyx_t_1) { - __pyx_v_f = __pyx_k__i; - goto __pyx_L13; - } + case NPY_INT: + __pyx_v_f = __pyx_k_i; + break; - /* "numpy.pxd":263 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":263 * elif t == NPY_USHORT: f = "H" * elif t == NPY_INT: f = "i" * elif t == NPY_UINT: f = "I" # <<<<<<<<<<<<<< * elif t == NPY_LONG: f = "l" * elif t == NPY_ULONG: f = "L" */ - __pyx_t_1 = (__pyx_v_t == NPY_UINT); - if (__pyx_t_1) { - __pyx_v_f = __pyx_k__I; - goto __pyx_L13; - } + case NPY_UINT: + __pyx_v_f = __pyx_k_I; + break; - /* "numpy.pxd":264 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":264 * elif t == NPY_INT: f = "i" * elif t == NPY_UINT: f = "I" * elif t == NPY_LONG: f = "l" # <<<<<<<<<<<<<< * elif t == NPY_ULONG: f = "L" * elif t == NPY_LONGLONG: f = "q" */ - __pyx_t_1 = (__pyx_v_t == NPY_LONG); - if (__pyx_t_1) { - __pyx_v_f = __pyx_k__l; - goto __pyx_L13; - } + case NPY_LONG: + __pyx_v_f = __pyx_k_l; + break; - /* "numpy.pxd":265 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":265 * elif t == NPY_UINT: f = "I" * elif t == NPY_LONG: f = "l" * elif t == NPY_ULONG: f = "L" # <<<<<<<<<<<<<< * elif t == NPY_LONGLONG: f = "q" * elif t == NPY_ULONGLONG: f = "Q" */ - __pyx_t_1 = (__pyx_v_t == NPY_ULONG); - if (__pyx_t_1) { - __pyx_v_f = __pyx_k__L; - goto __pyx_L13; - } + case NPY_ULONG: + __pyx_v_f = __pyx_k_L; + break; - /* "numpy.pxd":266 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":266 * elif t == NPY_LONG: f = "l" * elif t == NPY_ULONG: f = "L" * elif t == NPY_LONGLONG: f = "q" # <<<<<<<<<<<<<< * elif t == NPY_ULONGLONG: f = "Q" * elif t == NPY_FLOAT: f = "f" */ - __pyx_t_1 = (__pyx_v_t == NPY_LONGLONG); - if (__pyx_t_1) { - __pyx_v_f = __pyx_k__q; - goto __pyx_L13; - } + case NPY_LONGLONG: + __pyx_v_f = __pyx_k_q; + break; - /* "numpy.pxd":267 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":267 * elif t == NPY_ULONG: f = "L" * elif t == NPY_LONGLONG: f = "q" * elif t == NPY_ULONGLONG: f = "Q" # <<<<<<<<<<<<<< * elif t == NPY_FLOAT: f = "f" * elif t == NPY_DOUBLE: f = "d" */ - __pyx_t_1 = (__pyx_v_t == NPY_ULONGLONG); - if (__pyx_t_1) { - __pyx_v_f = __pyx_k__Q; - goto __pyx_L13; - } + case NPY_ULONGLONG: + __pyx_v_f = __pyx_k_Q; + break; - /* "numpy.pxd":268 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":268 * elif t == NPY_LONGLONG: f = "q" * elif t == NPY_ULONGLONG: f = "Q" * elif t == NPY_FLOAT: f = "f" # <<<<<<<<<<<<<< * elif t == NPY_DOUBLE: f = "d" * elif t == NPY_LONGDOUBLE: f = "g" */ - __pyx_t_1 = (__pyx_v_t == NPY_FLOAT); - if (__pyx_t_1) { - __pyx_v_f = __pyx_k__f; - goto __pyx_L13; - } + case NPY_FLOAT: + __pyx_v_f = __pyx_k_f; + break; - /* "numpy.pxd":269 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":269 * elif t == NPY_ULONGLONG: f = "Q" * elif t == NPY_FLOAT: f = "f" * elif t == NPY_DOUBLE: f = "d" # <<<<<<<<<<<<<< * elif t == NPY_LONGDOUBLE: f = "g" * elif t == NPY_CFLOAT: f = "Zf" */ - __pyx_t_1 = (__pyx_v_t == NPY_DOUBLE); - if (__pyx_t_1) { - __pyx_v_f = __pyx_k__d; - goto __pyx_L13; - } + case NPY_DOUBLE: + __pyx_v_f = __pyx_k_d; + break; - /* "numpy.pxd":270 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":270 * elif t == NPY_FLOAT: f = "f" * elif t == NPY_DOUBLE: f = "d" * elif t == NPY_LONGDOUBLE: f = "g" # <<<<<<<<<<<<<< * elif t == NPY_CFLOAT: f = "Zf" * elif t == NPY_CDOUBLE: f = "Zd" */ - __pyx_t_1 = (__pyx_v_t == NPY_LONGDOUBLE); - if (__pyx_t_1) { - __pyx_v_f = __pyx_k__g; - goto __pyx_L13; - } + case NPY_LONGDOUBLE: + __pyx_v_f = __pyx_k_g; + break; - /* "numpy.pxd":271 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":271 * elif t == NPY_DOUBLE: f = "d" * elif t == NPY_LONGDOUBLE: f = "g" * elif t == NPY_CFLOAT: f = "Zf" # <<<<<<<<<<<<<< * elif t == NPY_CDOUBLE: f = "Zd" * elif t == NPY_CLONGDOUBLE: f = "Zg" */ - __pyx_t_1 = (__pyx_v_t == NPY_CFLOAT); - if (__pyx_t_1) { - __pyx_v_f = __pyx_k__Zf; - goto __pyx_L13; - } + case NPY_CFLOAT: + __pyx_v_f = __pyx_k_Zf; + break; - /* "numpy.pxd":272 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":272 * elif t == NPY_LONGDOUBLE: f = "g" * elif t == NPY_CFLOAT: f = "Zf" * elif t == NPY_CDOUBLE: f = "Zd" # <<<<<<<<<<<<<< * elif t == NPY_CLONGDOUBLE: f = "Zg" * elif t == NPY_OBJECT: f = "O" */ - __pyx_t_1 = (__pyx_v_t == NPY_CDOUBLE); - if (__pyx_t_1) { - __pyx_v_f = __pyx_k__Zd; - goto __pyx_L13; - } + case NPY_CDOUBLE: + __pyx_v_f = __pyx_k_Zd; + break; - /* "numpy.pxd":273 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":273 * elif t == NPY_CFLOAT: f = "Zf" * elif t == NPY_CDOUBLE: f = "Zd" * elif t == NPY_CLONGDOUBLE: f = "Zg" # <<<<<<<<<<<<<< * elif t == NPY_OBJECT: f = "O" * else: */ - __pyx_t_1 = (__pyx_v_t == NPY_CLONGDOUBLE); - if (__pyx_t_1) { - __pyx_v_f = __pyx_k__Zg; - goto __pyx_L13; - } + case NPY_CLONGDOUBLE: + __pyx_v_f = __pyx_k_Zg; + break; - /* "numpy.pxd":274 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":274 * elif t == NPY_CDOUBLE: f = "Zd" * elif t == NPY_CLONGDOUBLE: f = "Zg" * elif t == NPY_OBJECT: f = "O" # <<<<<<<<<<<<<< * else: * raise ValueError(u"unknown dtype code in numpy.pxd (%d)" % t) */ - __pyx_t_1 = (__pyx_v_t == NPY_OBJECT); - if (__pyx_t_1) { - __pyx_v_f = __pyx_k__O; - goto __pyx_L13; - } - /*else*/ { + case NPY_OBJECT: + __pyx_v_f = __pyx_k_O; + break; + default: - /* "numpy.pxd":276 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":276 * elif t == NPY_OBJECT: f = "O" * else: * raise ValueError(u"unknown dtype code in numpy.pxd (%d)" % t) # <<<<<<<<<<<<<< * info.format = f * return */ - __pyx_t_4 = PyInt_FromLong(__pyx_v_t); if (unlikely(!__pyx_t_4)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 276; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_4 = __Pyx_PyInt_From_int(__pyx_v_t); if (unlikely(!__pyx_t_4)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 276; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_4); - __pyx_t_8 = PyNumber_Remainder(((PyObject *)__pyx_kp_u_7), __pyx_t_4); if (unlikely(!__pyx_t_8)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 276; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_GOTREF(((PyObject *)__pyx_t_8)); + __pyx_t_8 = PyUnicode_Format(__pyx_kp_u_unknown_dtype_code_in_numpy_pxd, __pyx_t_4); if (unlikely(!__pyx_t_8)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 276; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_GOTREF(__pyx_t_8); __Pyx_DECREF(__pyx_t_4); __pyx_t_4 = 0; __pyx_t_4 = PyTuple_New(1); if (unlikely(!__pyx_t_4)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 276; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_4); - PyTuple_SET_ITEM(__pyx_t_4, 0, ((PyObject *)__pyx_t_8)); - __Pyx_GIVEREF(((PyObject *)__pyx_t_8)); + PyTuple_SET_ITEM(__pyx_t_4, 0, __pyx_t_8); + __Pyx_GIVEREF(__pyx_t_8); __pyx_t_8 = 0; - __pyx_t_8 = PyObject_Call(__pyx_builtin_ValueError, ((PyObject *)__pyx_t_4), NULL); if (unlikely(!__pyx_t_8)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 276; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_8 = __Pyx_PyObject_Call(__pyx_builtin_ValueError, __pyx_t_4, NULL); if (unlikely(!__pyx_t_8)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 276; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_8); - __Pyx_DECREF(((PyObject *)__pyx_t_4)); __pyx_t_4 = 0; + __Pyx_DECREF(__pyx_t_4); __pyx_t_4 = 0; __Pyx_Raise(__pyx_t_8, 0, 0, 0); __Pyx_DECREF(__pyx_t_8); __pyx_t_8 = 0; {__pyx_filename = __pyx_f[1]; __pyx_lineno = 276; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + break; } - __pyx_L13:; - /* "numpy.pxd":277 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":277 * else: * raise ValueError(u"unknown dtype code in numpy.pxd (%d)" % t) * info.format = f # <<<<<<<<<<<<<< @@ -3009,7 +3217,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ __pyx_v_info->format = __pyx_v_f; - /* "numpy.pxd":278 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":278 * raise ValueError(u"unknown dtype code in numpy.pxd (%d)" % t) * info.format = f * return # <<<<<<<<<<<<<< @@ -3018,11 +3226,10 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ __pyx_r = 0; goto __pyx_L0; - goto __pyx_L11; } /*else*/ { - /* "numpy.pxd":280 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":280 * return * else: * info.format = stdlib.malloc(_buffer_format_string_len) # <<<<<<<<<<<<<< @@ -3031,7 +3238,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ __pyx_v_info->format = ((char *)malloc(255)); - /* "numpy.pxd":281 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":281 * else: * info.format = stdlib.malloc(_buffer_format_string_len) * info.format[0] = c'^' # Native data types, manual alignment # <<<<<<<<<<<<<< @@ -3040,7 +3247,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ (__pyx_v_info->format[0]) = '^'; - /* "numpy.pxd":282 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":282 * info.format = stdlib.malloc(_buffer_format_string_len) * info.format[0] = c'^' # Native data types, manual alignment * offset = 0 # <<<<<<<<<<<<<< @@ -3049,17 +3256,17 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ __pyx_v_offset = 0; - /* "numpy.pxd":285 - * f = _util_dtypestring(descr, info.format + 1, + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":283 + * info.format[0] = c'^' # Native data types, manual alignment + * offset = 0 + * f = _util_dtypestring(descr, info.format + 1, # <<<<<<<<<<<<<< * info.format + _buffer_format_string_len, - * &offset) # <<<<<<<<<<<<<< - * f[0] = c'\0' # Terminate format string - * + * &offset) */ __pyx_t_9 = __pyx_f_5numpy__util_dtypestring(__pyx_v_descr, (__pyx_v_info->format + 1), (__pyx_v_info->format + 255), (&__pyx_v_offset)); if (unlikely(__pyx_t_9 == NULL)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 283; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __pyx_v_f = __pyx_t_9; - /* "numpy.pxd":286 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":286 * info.format + _buffer_format_string_len, * &offset) * f[0] = c'\0' # Terminate format string # <<<<<<<<<<<<<< @@ -3068,8 +3275,16 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ (__pyx_v_f[0]) = '\x00'; } - __pyx_L11:; + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":194 + * # experimental exception made for __getbuffer__ and __releasebuffer__ + * # -- the details of this may change. + * def __getbuffer__(ndarray self, Py_buffer* info, int flags): # <<<<<<<<<<<<<< + * # This implementation of getbuffer is geared towards Cython + * # requirements, and does not yet fullfill the PEP. + */ + + /* function exit code */ __pyx_r = 0; goto __pyx_L0; __pyx_L1_error:; @@ -3093,39 +3308,41 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P return __pyx_r; } +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":288 + * f[0] = c'\0' # Terminate format string + * + * def __releasebuffer__(ndarray self, Py_buffer* info): # <<<<<<<<<<<<<< + * if PyArray_HASFIELDS(self): + * stdlib.free(info.format) + */ + /* Python wrapper */ static CYTHON_UNUSED void __pyx_pw_5numpy_7ndarray_3__releasebuffer__(PyObject *__pyx_v_self, Py_buffer *__pyx_v_info); /*proto*/ static CYTHON_UNUSED void __pyx_pw_5numpy_7ndarray_3__releasebuffer__(PyObject *__pyx_v_self, Py_buffer *__pyx_v_info) { __Pyx_RefNannyDeclarations __Pyx_RefNannySetupContext("__releasebuffer__ (wrapper)", 0); __pyx_pf_5numpy_7ndarray_2__releasebuffer__(((PyArrayObject *)__pyx_v_self), ((Py_buffer *)__pyx_v_info)); + + /* function exit code */ __Pyx_RefNannyFinishContext(); } -/* "numpy.pxd":288 - * f[0] = c'\0' # Terminate format string - * - * def __releasebuffer__(ndarray self, Py_buffer* info): # <<<<<<<<<<<<<< - * if PyArray_HASFIELDS(self): - * stdlib.free(info.format) - */ - static void __pyx_pf_5numpy_7ndarray_2__releasebuffer__(PyArrayObject *__pyx_v_self, Py_buffer *__pyx_v_info) { __Pyx_RefNannyDeclarations int __pyx_t_1; __Pyx_RefNannySetupContext("__releasebuffer__", 0); - /* "numpy.pxd":289 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":289 * * def __releasebuffer__(ndarray self, Py_buffer* info): * if PyArray_HASFIELDS(self): # <<<<<<<<<<<<<< * stdlib.free(info.format) * if sizeof(npy_intp) != sizeof(Py_ssize_t): */ - __pyx_t_1 = PyArray_HASFIELDS(__pyx_v_self); 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+ /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":288 + * f[0] = c'\0' # Terminate format string + * + * def __releasebuffer__(ndarray self, Py_buffer* info): # <<<<<<<<<<<<<< + * if PyArray_HASFIELDS(self): + * stdlib.free(info.format) + */ + + /* function exit code */ __Pyx_RefNannyFinishContext(); } -/* "numpy.pxd":768 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":768 * ctypedef npy_cdouble complex_t * * cdef inline object PyArray_MultiIterNew1(a): # <<<<<<<<<<<<<< @@ -3179,7 +3405,7 @@ static CYTHON_INLINE PyObject *__pyx_f_5numpy_PyArray_MultiIterNew1(PyObject *__ int __pyx_clineno = 0; __Pyx_RefNannySetupContext("PyArray_MultiIterNew1", 0); - /* "numpy.pxd":769 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":769 * * cdef inline object PyArray_MultiIterNew1(a): * return PyArray_MultiIterNew(1, a) # <<<<<<<<<<<<<< @@ -3193,8 +3419,15 @@ static CYTHON_INLINE PyObject *__pyx_f_5numpy_PyArray_MultiIterNew1(PyObject *__ __pyx_t_1 = 0; 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goto __pyx_L0; - __pyx_r = Py_None; __Pyx_INCREF(Py_None); - goto __pyx_L0; + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":771 + * return PyArray_MultiIterNew(1, a) + * + * cdef inline object PyArray_MultiIterNew2(a, b): # <<<<<<<<<<<<<< + * return PyArray_MultiIterNew(2, a, b) + * + */ + + /* function exit code */ __pyx_L1_error:; __Pyx_XDECREF(__pyx_t_1); __Pyx_AddTraceback("numpy.PyArray_MultiIterNew2", __pyx_clineno, __pyx_lineno, __pyx_filename); @@ -3248,7 +3488,7 @@ static CYTHON_INLINE PyObject *__pyx_f_5numpy_PyArray_MultiIterNew2(PyObject *__ return __pyx_r; } -/* "numpy.pxd":774 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":774 * return PyArray_MultiIterNew(2, a, b) * * cdef inline object PyArray_MultiIterNew3(a, b, c): # <<<<<<<<<<<<<< @@ -3265,7 +3505,7 @@ static CYTHON_INLINE PyObject *__pyx_f_5numpy_PyArray_MultiIterNew3(PyObject *__ int __pyx_clineno = 0; __Pyx_RefNannySetupContext("PyArray_MultiIterNew3", 0); - /* "numpy.pxd":775 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":775 * * cdef inline object PyArray_MultiIterNew3(a, b, c): * return PyArray_MultiIterNew(3, a, b, c) # <<<<<<<<<<<<<< @@ -3279,8 +3519,15 @@ static CYTHON_INLINE PyObject *__pyx_f_5numpy_PyArray_MultiIterNew3(PyObject *__ __pyx_t_1 = 0; 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__pyx_t_1 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_8bindings_5array_11array_div, NULL, __pyx_n_s_18); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 107; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_8bindings_5array_11array_div, NULL, __pyx_n_s_nipy_labs_bindings_array); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 107; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); - if (PyObject_SetAttr(__pyx_m, __pyx_n_s__array_div, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 107; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (PyDict_SetItem(__pyx_d, __pyx_n_s_array_div, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 107; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; /* "nipy/labs/bindings/array.pyx":1 @@ -4848,11 +4945,11 @@ PyMODINIT_FUNC PyInit_array(void) * """ */ __pyx_t_1 = PyDict_New(); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 1; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_GOTREF(((PyObject *)__pyx_t_1)); - if (PyObject_SetAttr(__pyx_m, __pyx_n_s____test__, ((PyObject *)__pyx_t_1)) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 1; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_DECREF(((PyObject *)__pyx_t_1)); __pyx_t_1 = 0; + __Pyx_GOTREF(__pyx_t_1); + if (PyDict_SetItem(__pyx_d, __pyx_n_s_test, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 1; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; - /* "numpy.pxd":975 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":976 * arr.base = baseptr * * cdef inline object get_array_base(ndarray arr): # <<<<<<<<<<<<<< @@ -4914,7 +5011,7 @@ static void __Pyx_RaiseArgtupleInvalid( more_or_less = "exactly"; } PyErr_Format(PyExc_TypeError, - "%s() takes %s %" CYTHON_FORMAT_SSIZE_T "d positional argument%s (%" CYTHON_FORMAT_SSIZE_T "d given)", + "%.200s() takes %.8s %" CYTHON_FORMAT_SSIZE_T "d positional argument%.1s (%" CYTHON_FORMAT_SSIZE_T "d given)", func_name, more_or_less, num_expected, (num_expected == 1) ? "" : "s", num_found); } @@ -5018,12 +5115,12 @@ static int __Pyx_ParseOptionalKeywords( goto bad; invalid_keyword_type: PyErr_Format(PyExc_TypeError, - "%s() keywords must be strings", function_name); + "%.200s() keywords must be strings", function_name); goto bad; invalid_keyword: PyErr_Format(PyExc_TypeError, #if PY_MAJOR_VERSION < 3 - "%s() got an unexpected keyword argument '%s'", + "%.200s() got an unexpected keyword argument '%.200s'", function_name, PyString_AsString(key)); #else "%s() got an unexpected keyword argument '%U'", @@ -5035,7 +5132,7 @@ static int __Pyx_ParseOptionalKeywords( static CYTHON_INLINE int __Pyx_TypeTest(PyObject *obj, PyTypeObject *type) { if (unlikely(!type)) { - PyErr_Format(PyExc_SystemError, "Missing type object"); + PyErr_SetString(PyExc_SystemError, "Missing type object"); return 0; } if (likely(PyObject_TypeCheck(obj, type))) @@ -5045,20 +5142,41 @@ static CYTHON_INLINE int __Pyx_TypeTest(PyObject *obj, PyTypeObject *type) { return 0; } -static PyObject *__Pyx_GetName(PyObject *dict, PyObject *name) { +static PyObject *__Pyx_GetBuiltinName(PyObject *name) { + PyObject* result = __Pyx_PyObject_GetAttrStr(__pyx_b, name); + if (unlikely(!result)) { + PyErr_Format(PyExc_NameError, +#if PY_MAJOR_VERSION >= 3 + "name '%U' is not defined", name); +#else + "name '%.200s' is not defined", PyString_AS_STRING(name)); +#endif + } + return result; +} + +#if CYTHON_COMPILING_IN_CPYTHON +static CYTHON_INLINE PyObject* __Pyx_PyObject_Call(PyObject *func, PyObject *arg, PyObject *kw) { PyObject *result; - result = PyObject_GetAttr(dict, name); - if (!result) { - if (dict != __pyx_b) { - PyErr_Clear(); - result = PyObject_GetAttr(__pyx_b, name); - } - if (!result) { - PyErr_SetObject(PyExc_NameError, name); - } + ternaryfunc call = func->ob_type->tp_call; + if (unlikely(!call)) + return PyObject_Call(func, arg, kw); +#if PY_VERSION_HEX >= 0x02060000 + if (unlikely(Py_EnterRecursiveCall((char*)" while calling a Python object"))) + return NULL; +#endif + result = (*call)(func, arg, kw); +#if PY_VERSION_HEX >= 0x02060000 + Py_LeaveRecursiveCall(); +#endif + if (unlikely(!result) && unlikely(!PyErr_Occurred())) { + PyErr_SetString( + PyExc_SystemError, + "NULL result without error in PyObject_Call"); } return result; } +#endif static CYTHON_INLINE void __Pyx_ErrRestore(PyObject *type, PyObject *value, PyObject *tb) { #if CYTHON_COMPILING_IN_CPYTHON @@ -5129,24 +5247,23 @@ static void __Pyx_Raise(PyObject *type, PyObject *value, PyObject *tb, } value = type; #if PY_VERSION_HEX < 0x02050000 - if (PyInstance_Check(type)) { - type = (PyObject*) ((PyInstanceObject*)type)->in_class; - Py_INCREF(type); - } - else { - type = 0; - PyErr_SetString(PyExc_TypeError, - "raise: exception must be an old-style class or instance"); - goto raise_error; - } - #else - type = (PyObject*) Py_TYPE(type); + if (PyInstance_Check(type)) { + type = (PyObject*) ((PyInstanceObject*)type)->in_class; Py_INCREF(type); - if (!PyType_IsSubtype((PyTypeObject *)type, (PyTypeObject *)PyExc_BaseException)) { - PyErr_SetString(PyExc_TypeError, - "raise: exception class must be a subclass of BaseException"); - goto raise_error; - } + } else { + type = 0; + PyErr_SetString(PyExc_TypeError, + "raise: exception must be an old-style class or instance"); + goto raise_error; + } + #else + type = (PyObject*) Py_TYPE(type); + Py_INCREF(type); + if (!PyType_IsSubtype((PyTypeObject *)type, (PyTypeObject *)PyExc_BaseException)) { + PyErr_SetString(PyExc_TypeError, + "raise: exception class must be a subclass of BaseException"); + goto raise_error; + } #endif } __Pyx_ErrRestore(type, value, tb); @@ -5178,46 +5295,62 @@ static void __Pyx_Raise(PyObject *type, PyObject *value, PyObject *tb, PyObject value = type; type = (PyObject*) Py_TYPE(value); } else if (PyExceptionClass_Check(type)) { - PyObject *args; - if (!value) - args = PyTuple_New(0); - else if (PyTuple_Check(value)) { - Py_INCREF(value); - args = value; + PyObject *instance_class = NULL; + if (value && PyExceptionInstance_Check(value)) { + instance_class = (PyObject*) Py_TYPE(value); + if (instance_class != type) { + if (PyObject_IsSubclass(instance_class, type)) { + type = instance_class; + } else { + instance_class = NULL; + } + } } - else - args = PyTuple_Pack(1, value); - if (!args) - goto bad; - owned_instance = PyEval_CallObject(type, args); - Py_DECREF(args); - if (!owned_instance) - goto bad; - value = owned_instance; - if (!PyExceptionInstance_Check(value)) { - PyErr_Format(PyExc_TypeError, - "calling %R should have returned an instance of " - "BaseException, not %R", - type, Py_TYPE(value)); - goto bad; + if (!instance_class) { + PyObject *args; + if (!value) + args = PyTuple_New(0); + else if (PyTuple_Check(value)) { + Py_INCREF(value); + args = value; + } else + args = PyTuple_Pack(1, value); + if (!args) + goto bad; + owned_instance = PyObject_Call(type, args, NULL); + Py_DECREF(args); + if (!owned_instance) + goto bad; + value = owned_instance; + if (!PyExceptionInstance_Check(value)) { + PyErr_Format(PyExc_TypeError, + "calling %R should have returned an instance of " + "BaseException, not %R", + type, Py_TYPE(value)); + goto bad; + } } } else { PyErr_SetString(PyExc_TypeError, "raise: exception class must be a subclass of BaseException"); goto bad; } +#if PY_VERSION_HEX >= 0x03030000 + if (cause) { +#else if (cause && cause != Py_None) { +#endif PyObject *fixed_cause; - if (PyExceptionClass_Check(cause)) { + if (cause == Py_None) { + fixed_cause = NULL; + } else if (PyExceptionClass_Check(cause)) { fixed_cause = PyObject_CallObject(cause, NULL); if (fixed_cause == NULL) goto bad; - } - else if (PyExceptionInstance_Check(cause)) { + } else if (PyExceptionInstance_Check(cause)) { fixed_cause = cause; Py_INCREF(fixed_cause); - } - else { + } else { PyErr_SetString(PyExc_TypeError, "exception causes must derive from " "BaseException"); @@ -5248,7 +5381,7 @@ static CYTHON_INLINE void __Pyx_RaiseTooManyValuesError(Py_ssize_t expected) { static CYTHON_INLINE void __Pyx_RaiseNeedMoreValuesError(Py_ssize_t index) { PyErr_Format(PyExc_ValueError, - "need more than %" CYTHON_FORMAT_SSIZE_T "d value%s to unpack", + "need more than %" CYTHON_FORMAT_SSIZE_T "d value%.1s to unpack", index, (index == 1) ? "" : "s"); } @@ -5256,61 +5389,18 @@ static CYTHON_INLINE void __Pyx_RaiseNoneNotIterableError(void) { PyErr_SetString(PyExc_TypeError, "'NoneType' object is not iterable"); } -static CYTHON_INLINE int __Pyx_IterFinish(void) { -#if CYTHON_COMPILING_IN_CPYTHON - PyThreadState *tstate = PyThreadState_GET(); - PyObject* exc_type = tstate->curexc_type; - if (unlikely(exc_type)) { - if (likely(exc_type == PyExc_StopIteration) || PyErr_GivenExceptionMatches(exc_type, PyExc_StopIteration)) { - PyObject *exc_value, *exc_tb; - exc_value = tstate->curexc_value; - exc_tb = tstate->curexc_traceback; - tstate->curexc_type = 0; - tstate->curexc_value = 0; - tstate->curexc_traceback = 0; - Py_DECREF(exc_type); - Py_XDECREF(exc_value); - Py_XDECREF(exc_tb); - return 0; - } else { - return -1; - } - } - return 0; -#else - if (unlikely(PyErr_Occurred())) { - if (likely(PyErr_ExceptionMatches(PyExc_StopIteration))) { - PyErr_Clear(); - return 0; - } else { - return -1; - } - } - return 0; -#endif -} - -static int __Pyx_IternextUnpackEndCheck(PyObject *retval, Py_ssize_t expected) { - if (unlikely(retval)) { - Py_DECREF(retval); - __Pyx_RaiseTooManyValuesError(expected); - return -1; - } else { - return __Pyx_IterFinish(); - } - return 0; -} - -static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, long level) { - PyObject *py_import = 0; +static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, int level) { PyObject *empty_list = 0; PyObject *module = 0; PyObject *global_dict = 0; PyObject *empty_dict = 0; PyObject *list; - py_import = __Pyx_GetAttrString(__pyx_b, "__import__"); + #if PY_VERSION_HEX < 0x03030000 + PyObject *py_import; + py_import = __Pyx_PyObject_GetAttrStr(__pyx_b, __pyx_n_s_import); if (!py_import) goto bad; + #endif if (from_list) list = from_list; else { @@ -5330,13 +5420,17 @@ static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, long level) { #if PY_MAJOR_VERSION >= 3 if (level == -1) { if (strchr(__Pyx_MODULE_NAME, '.')) { - /* try package relative import first */ + #if PY_VERSION_HEX < 0x03030000 PyObject *py_level = PyInt_FromLong(1); if (!py_level) goto bad; module = PyObject_CallFunctionObjArgs(py_import, name, global_dict, empty_dict, list, py_level, NULL); Py_DECREF(py_level); + #else + module = PyImport_ImportModuleLevelObject( + name, global_dict, empty_dict, list, 1); + #endif if (!module) { if (!PyErr_ExceptionMatches(PyExc_ImportError)) goto bad; @@ -5347,12 +5441,17 @@ static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, long level) { } #endif if (!module) { + #if PY_VERSION_HEX < 0x03030000 PyObject *py_level = PyInt_FromLong(level); if (!py_level) goto bad; module = PyObject_CallFunctionObjArgs(py_import, name, global_dict, empty_dict, list, py_level, NULL); Py_DECREF(py_level); + #else + module = PyImport_ImportModuleLevelObject( + name, global_dict, empty_dict, list, level); + #endif } } #else @@ -5364,12 +5463,130 @@ static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, long level) { name, global_dict, empty_dict, list, NULL); #endif bad: - Py_XDECREF(empty_list); + #if PY_VERSION_HEX < 0x03030000 Py_XDECREF(py_import); + #endif + Py_XDECREF(empty_list); Py_XDECREF(empty_dict); return module; } +#define __PYX_VERIFY_RETURN_INT(target_type, func_type, func) \ + { \ + func_type value = func(x); \ + if (sizeof(target_type) < sizeof(func_type)) { \ + if (unlikely(value != (func_type) (target_type) value)) { \ + func_type zero = 0; \ + PyErr_SetString(PyExc_OverflowError, \ + (is_unsigned && unlikely(value < zero)) ? \ + "can't convert negative value to " #target_type : \ + "value too large to convert to " #target_type); \ + return (target_type) -1; \ + } \ + } \ + return (target_type) value; \ + } + +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + #include "longintrepr.h" + #endif +#endif +static CYTHON_INLINE size_t __Pyx_PyInt_As_size_t(PyObject *x) { + const size_t neg_one = (size_t) -1, const_zero = 0; + const int is_unsigned = neg_one > const_zero; +#if PY_MAJOR_VERSION < 3 + if (likely(PyInt_Check(x))) { + if (sizeof(size_t) < sizeof(long)) { + __PYX_VERIFY_RETURN_INT(size_t, long, PyInt_AS_LONG) + } else { + long val = PyInt_AS_LONG(x); + if (is_unsigned && unlikely(val < 0)) { + PyErr_SetString(PyExc_OverflowError, + "can't convert negative value to size_t"); + return (size_t) -1; + } + return (size_t) val; + } + } else +#endif + if (likely(PyLong_Check(x))) { + if (is_unsigned) { +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + if (sizeof(digit) <= sizeof(size_t)) { + switch (Py_SIZE(x)) { + case 0: return 0; + case 1: return (size_t) ((PyLongObject*)x)->ob_digit[0]; + } + } + #endif +#endif + if (unlikely(Py_SIZE(x) < 0)) { + PyErr_SetString(PyExc_OverflowError, + "can't convert negative value to size_t"); + return (size_t) -1; + } + if (sizeof(size_t) <= sizeof(unsigned long)) { + __PYX_VERIFY_RETURN_INT(size_t, unsigned long, PyLong_AsUnsignedLong) + } else if (sizeof(size_t) <= sizeof(unsigned long long)) { + __PYX_VERIFY_RETURN_INT(size_t, unsigned long long, PyLong_AsUnsignedLongLong) + } + } else { +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + if (sizeof(digit) <= sizeof(size_t)) { + switch (Py_SIZE(x)) { + case 0: return 0; + case 1: return +(size_t) ((PyLongObject*)x)->ob_digit[0]; + case -1: return -(size_t) ((PyLongObject*)x)->ob_digit[0]; + } + } + #endif +#endif + if (sizeof(size_t) <= sizeof(long)) { + __PYX_VERIFY_RETURN_INT(size_t, long, PyLong_AsLong) + } else if (sizeof(size_t) <= sizeof(long long)) { + __PYX_VERIFY_RETURN_INT(size_t, long long, PyLong_AsLongLong) + } + } + { +#if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) + PyErr_SetString(PyExc_RuntimeError, + "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); +#else + size_t val; + PyObject *v = __Pyx_PyNumber_Int(x); + #if PY_MAJOR_VERSION < 3 + if (likely(v) && !PyLong_Check(v)) { + PyObject *tmp = v; + v = PyNumber_Long(tmp); + Py_DECREF(tmp); + } + #endif + if (likely(v)) { + int one = 1; int is_little = (int)*(unsigned char *)&one; + unsigned char *bytes = (unsigned char *)&val; + int ret = _PyLong_AsByteArray((PyLongObject *)v, + bytes, sizeof(val), + is_little, !is_unsigned); + Py_DECREF(v); + if (likely(!ret)) + return val; + } +#endif + return (size_t) -1; + } + } else { + size_t val; + PyObject *tmp = __Pyx_PyNumber_Int(x); + if (!tmp) return (size_t) -1; + val = __Pyx_PyInt_As_size_t(tmp); + Py_DECREF(tmp); + return val; + } +} + #if CYTHON_CCOMPLEX #ifdef __cplusplus static CYTHON_INLINE __pyx_t_float_complex __pyx_t_float_complex_from_parts(float x, float y) { @@ -5610,401 +5827,253 @@ static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, long level) { #endif #endif -static CYTHON_INLINE unsigned char __Pyx_PyInt_AsUnsignedChar(PyObject* x) { - const unsigned char neg_one = (unsigned char)-1, const_zero = 0; +static CYTHON_INLINE PyObject* __Pyx_PyInt_From_int(int value) { + const int neg_one = (int) -1, const_zero = 0; const int is_unsigned = neg_one > const_zero; - if (sizeof(unsigned char) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(unsigned char)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to unsigned char" : - "value too large to convert to unsigned char"); - } - return (unsigned char)-1; + if (is_unsigned) { + if (sizeof(int) < sizeof(long)) { + return PyInt_FromLong((long) value); + } else if (sizeof(int) <= sizeof(unsigned long)) { + return PyLong_FromUnsignedLong((unsigned long) value); + } else if (sizeof(int) <= sizeof(unsigned long long)) { + return PyLong_FromUnsignedLongLong((unsigned long long) value); } - return (unsigned char)val; - } - return (unsigned char)__Pyx_PyInt_AsUnsignedLong(x); -} - -static CYTHON_INLINE unsigned short __Pyx_PyInt_AsUnsignedShort(PyObject* x) { - const unsigned short neg_one = (unsigned short)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(unsigned short) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(unsigned short)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to unsigned short" : - "value too large to convert to unsigned short"); - } - return (unsigned short)-1; + } else { + if (sizeof(int) <= sizeof(long)) { + return PyInt_FromLong((long) value); + } else if (sizeof(int) <= sizeof(long long)) { + return PyLong_FromLongLong((long long) value); } - return (unsigned short)val; } - return (unsigned short)__Pyx_PyInt_AsUnsignedLong(x); -} - -static CYTHON_INLINE unsigned int __Pyx_PyInt_AsUnsignedInt(PyObject* x) { - const unsigned int neg_one = (unsigned int)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(unsigned int) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(unsigned int)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to unsigned int" : - "value too large to convert to unsigned int"); - } - return (unsigned int)-1; - } - return (unsigned int)val; + { + int one = 1; int little = (int)*(unsigned char *)&one; + unsigned char *bytes = (unsigned char *)&value; + return _PyLong_FromByteArray(bytes, sizeof(int), + little, !is_unsigned); } - return (unsigned int)__Pyx_PyInt_AsUnsignedLong(x); } -static CYTHON_INLINE char __Pyx_PyInt_AsChar(PyObject* x) { - const char neg_one = (char)-1, const_zero = 0; +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + #include "longintrepr.h" + #endif +#endif +static CYTHON_INLINE int __Pyx_PyInt_As_int(PyObject *x) { + const int neg_one = (int) -1, const_zero = 0; const int is_unsigned = neg_one > const_zero; - if (sizeof(char) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(char)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { +#if PY_MAJOR_VERSION < 3 + if (likely(PyInt_Check(x))) { + if (sizeof(int) < sizeof(long)) { + __PYX_VERIFY_RETURN_INT(int, long, PyInt_AS_LONG) + } else { + long val = PyInt_AS_LONG(x); + if (is_unsigned && unlikely(val < 0)) { PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to char" : - "value too large to convert to char"); + "can't convert negative value to int"); + return (int) -1; } - return (char)-1; + return (int) val; } - return (char)val; - } - return (char)__Pyx_PyInt_AsLong(x); -} - -static CYTHON_INLINE short __Pyx_PyInt_AsShort(PyObject* x) { - const short neg_one = (short)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(short) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(short)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to short" : - "value too large to convert to short"); + } else +#endif + if (likely(PyLong_Check(x))) { + if (is_unsigned) { +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + if (sizeof(digit) <= sizeof(int)) { + switch (Py_SIZE(x)) { + case 0: return 0; + case 1: return (int) ((PyLongObject*)x)->ob_digit[0]; + } } - return (short)-1; - } - return (short)val; - } - return (short)__Pyx_PyInt_AsLong(x); -} - -static CYTHON_INLINE int __Pyx_PyInt_AsInt(PyObject* x) { - const int neg_one = (int)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(int) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(int)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { + #endif +#endif + if (unlikely(Py_SIZE(x) < 0)) { PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to int" : - "value too large to convert to int"); + "can't convert negative value to int"); + return (int) -1; } - return (int)-1; - } - return (int)val; - } - return (int)__Pyx_PyInt_AsLong(x); -} - -static CYTHON_INLINE signed char __Pyx_PyInt_AsSignedChar(PyObject* x) { - const signed char neg_one = (signed char)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(signed char) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(signed char)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to signed char" : - "value too large to convert to signed char"); + if (sizeof(int) <= sizeof(unsigned long)) { + __PYX_VERIFY_RETURN_INT(int, unsigned long, PyLong_AsUnsignedLong) + } else if (sizeof(int) <= sizeof(unsigned long long)) { + __PYX_VERIFY_RETURN_INT(int, unsigned long long, PyLong_AsUnsignedLongLong) } - return (signed char)-1; - } - return (signed char)val; - } - return (signed char)__Pyx_PyInt_AsSignedLong(x); -} - -static CYTHON_INLINE signed short __Pyx_PyInt_AsSignedShort(PyObject* x) { - const signed short neg_one = (signed short)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(signed short) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(signed short)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to signed short" : - "value too large to convert to signed short"); + } else { +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + if (sizeof(digit) <= sizeof(int)) { + switch (Py_SIZE(x)) { + case 0: return 0; + case 1: return +(int) ((PyLongObject*)x)->ob_digit[0]; + case -1: return -(int) ((PyLongObject*)x)->ob_digit[0]; + } } - return (signed short)-1; - } - return (signed short)val; - } - return (signed short)__Pyx_PyInt_AsSignedLong(x); -} - -static CYTHON_INLINE signed int __Pyx_PyInt_AsSignedInt(PyObject* x) { - const signed int neg_one = (signed int)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(signed int) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(signed int)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to signed int" : - "value too large to convert to signed int"); + #endif +#endif + if (sizeof(int) <= sizeof(long)) { + __PYX_VERIFY_RETURN_INT(int, long, PyLong_AsLong) + } else if (sizeof(int) <= sizeof(long long)) { + __PYX_VERIFY_RETURN_INT(int, long long, PyLong_AsLongLong) } - return (signed int)-1; } - return (signed int)val; - } - return (signed int)__Pyx_PyInt_AsSignedLong(x); -} - -static CYTHON_INLINE int __Pyx_PyInt_AsLongDouble(PyObject* x) { - const int neg_one = (int)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(int) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(int)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to int" : - "value too large to convert to int"); + { +#if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) + PyErr_SetString(PyExc_RuntimeError, + "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); +#else + int val; + PyObject *v = __Pyx_PyNumber_Int(x); + #if PY_MAJOR_VERSION < 3 + if (likely(v) && !PyLong_Check(v)) { + PyObject *tmp = v; + v = PyNumber_Long(tmp); + Py_DECREF(tmp); } - return (int)-1; - } - return (int)val; - } - return (int)__Pyx_PyInt_AsLong(x); -} - -static CYTHON_INLINE unsigned long __Pyx_PyInt_AsUnsignedLong(PyObject* x) { - const unsigned long neg_one = (unsigned long)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; -#if PY_VERSION_HEX < 0x03000000 - if (likely(PyInt_Check(x))) { - long val = PyInt_AS_LONG(x); - if (is_unsigned && unlikely(val < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to unsigned long"); - return (unsigned long)-1; - } - return (unsigned long)val; - } else -#endif - if (likely(PyLong_Check(x))) { - if (is_unsigned) { - if (unlikely(Py_SIZE(x) < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to unsigned long"); - return (unsigned long)-1; + #endif + if (likely(v)) { + int one = 1; int is_little = (int)*(unsigned char *)&one; + unsigned char *bytes = (unsigned char *)&val; + int ret = _PyLong_AsByteArray((PyLongObject *)v, + bytes, sizeof(val), + is_little, !is_unsigned); + Py_DECREF(v); + if (likely(!ret)) + return val; } - return (unsigned long)PyLong_AsUnsignedLong(x); - } else { - return (unsigned long)PyLong_AsLong(x); +#endif + return (int) -1; } } else { - unsigned long val; + int val; PyObject *tmp = __Pyx_PyNumber_Int(x); - if (!tmp) return (unsigned long)-1; - val = __Pyx_PyInt_AsUnsignedLong(tmp); + if (!tmp) return (int) -1; + val = __Pyx_PyInt_As_int(tmp); Py_DECREF(tmp); return val; } } -static CYTHON_INLINE unsigned PY_LONG_LONG __Pyx_PyInt_AsUnsignedLongLong(PyObject* x) { - const unsigned PY_LONG_LONG neg_one = (unsigned PY_LONG_LONG)-1, const_zero = 0; +static CYTHON_INLINE PyObject* __Pyx_PyInt_From_long(long value) { + const long neg_one = (long) -1, const_zero = 0; const int is_unsigned = neg_one > const_zero; -#if PY_VERSION_HEX < 0x03000000 - if (likely(PyInt_Check(x))) { - long val = PyInt_AS_LONG(x); - if (is_unsigned && unlikely(val < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to unsigned PY_LONG_LONG"); - return (unsigned PY_LONG_LONG)-1; - } - return (unsigned PY_LONG_LONG)val; - } else -#endif - if (likely(PyLong_Check(x))) { - if (is_unsigned) { - if (unlikely(Py_SIZE(x) < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to unsigned PY_LONG_LONG"); - return (unsigned PY_LONG_LONG)-1; - } - return (unsigned PY_LONG_LONG)PyLong_AsUnsignedLongLong(x); - } else { - return (unsigned PY_LONG_LONG)PyLong_AsLongLong(x); + if (is_unsigned) { + if (sizeof(long) < sizeof(long)) { + return PyInt_FromLong((long) value); + } else if (sizeof(long) <= sizeof(unsigned long)) { + return PyLong_FromUnsignedLong((unsigned long) value); + } else if (sizeof(long) <= sizeof(unsigned long long)) { + return PyLong_FromUnsignedLongLong((unsigned long long) value); } } else { - unsigned PY_LONG_LONG val; - PyObject *tmp = __Pyx_PyNumber_Int(x); - if (!tmp) return (unsigned PY_LONG_LONG)-1; - val = __Pyx_PyInt_AsUnsignedLongLong(tmp); - Py_DECREF(tmp); - return val; + if (sizeof(long) <= sizeof(long)) { + return PyInt_FromLong((long) value); + } else if (sizeof(long) <= sizeof(long long)) { + return PyLong_FromLongLong((long long) value); + } + } + { + int one = 1; int little = (int)*(unsigned char *)&one; + unsigned char *bytes = (unsigned char *)&value; + return _PyLong_FromByteArray(bytes, sizeof(long), + little, !is_unsigned); } } -static CYTHON_INLINE long __Pyx_PyInt_AsLong(PyObject* x) { - const long neg_one = (long)-1, const_zero = 0; +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + #include "longintrepr.h" + #endif +#endif +static CYTHON_INLINE long __Pyx_PyInt_As_long(PyObject *x) { + const long neg_one = (long) -1, const_zero = 0; const int is_unsigned = neg_one > const_zero; -#if PY_VERSION_HEX < 0x03000000 +#if PY_MAJOR_VERSION < 3 if (likely(PyInt_Check(x))) { - long val = PyInt_AS_LONG(x); - if (is_unsigned && unlikely(val < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to long"); - return (long)-1; - } - return (long)val; - } else -#endif - if (likely(PyLong_Check(x))) { - if (is_unsigned) { - if (unlikely(Py_SIZE(x) < 0)) { + if (sizeof(long) < sizeof(long)) { + __PYX_VERIFY_RETURN_INT(long, long, PyInt_AS_LONG) + } else { + long val = PyInt_AS_LONG(x); + if (is_unsigned && unlikely(val < 0)) { PyErr_SetString(PyExc_OverflowError, "can't convert negative value to long"); - return (long)-1; + return (long) -1; } - return (long)PyLong_AsUnsignedLong(x); - } else { - return (long)PyLong_AsLong(x); - } - } else { - long val; - PyObject *tmp = __Pyx_PyNumber_Int(x); - if (!tmp) return (long)-1; - val = __Pyx_PyInt_AsLong(tmp); - Py_DECREF(tmp); - return val; - } -} - -static CYTHON_INLINE PY_LONG_LONG __Pyx_PyInt_AsLongLong(PyObject* x) { - const PY_LONG_LONG neg_one = (PY_LONG_LONG)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; -#if PY_VERSION_HEX < 0x03000000 - if (likely(PyInt_Check(x))) { - long val = PyInt_AS_LONG(x); - if (is_unsigned && unlikely(val < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to PY_LONG_LONG"); - return (PY_LONG_LONG)-1; + return (long) val; } - return (PY_LONG_LONG)val; } else #endif if (likely(PyLong_Check(x))) { if (is_unsigned) { - if (unlikely(Py_SIZE(x) < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to PY_LONG_LONG"); - return (PY_LONG_LONG)-1; +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + if (sizeof(digit) <= sizeof(long)) { + switch (Py_SIZE(x)) { + case 0: return 0; + case 1: return (long) ((PyLongObject*)x)->ob_digit[0]; + } } - return (PY_LONG_LONG)PyLong_AsUnsignedLongLong(x); - } else { - return (PY_LONG_LONG)PyLong_AsLongLong(x); - } - } else { - PY_LONG_LONG val; - PyObject *tmp = __Pyx_PyNumber_Int(x); - if (!tmp) return (PY_LONG_LONG)-1; - val = __Pyx_PyInt_AsLongLong(tmp); - Py_DECREF(tmp); - return val; - } -} - -static CYTHON_INLINE signed long __Pyx_PyInt_AsSignedLong(PyObject* x) { - const signed long neg_one = (signed long)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; -#if PY_VERSION_HEX < 0x03000000 - if (likely(PyInt_Check(x))) { - long val = PyInt_AS_LONG(x); - if (is_unsigned && unlikely(val < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to signed long"); - return (signed long)-1; - } - return (signed long)val; - } else + #endif #endif - if (likely(PyLong_Check(x))) { - if (is_unsigned) { if (unlikely(Py_SIZE(x) < 0)) { PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to signed long"); - return (signed long)-1; + "can't convert negative value to long"); + return (long) -1; + } + if (sizeof(long) <= sizeof(unsigned long)) { + __PYX_VERIFY_RETURN_INT(long, unsigned long, PyLong_AsUnsignedLong) + } else if (sizeof(long) <= sizeof(unsigned long long)) { + __PYX_VERIFY_RETURN_INT(long, unsigned long long, PyLong_AsUnsignedLongLong) } - return (signed long)PyLong_AsUnsignedLong(x); } else { - return (signed long)PyLong_AsLong(x); - } - } else { - signed long val; - PyObject *tmp = __Pyx_PyNumber_Int(x); - if (!tmp) return (signed long)-1; - val = __Pyx_PyInt_AsSignedLong(tmp); - Py_DECREF(tmp); - return val; - } -} - -static CYTHON_INLINE signed PY_LONG_LONG __Pyx_PyInt_AsSignedLongLong(PyObject* x) { - const signed PY_LONG_LONG neg_one = (signed PY_LONG_LONG)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; -#if PY_VERSION_HEX < 0x03000000 - if (likely(PyInt_Check(x))) { - long val = PyInt_AS_LONG(x); - if (is_unsigned && unlikely(val < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to signed PY_LONG_LONG"); - return (signed PY_LONG_LONG)-1; - } - return (signed PY_LONG_LONG)val; - } else +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + if (sizeof(digit) <= sizeof(long)) { + switch (Py_SIZE(x)) { + case 0: return 0; + case 1: return +(long) ((PyLongObject*)x)->ob_digit[0]; + case -1: return -(long) ((PyLongObject*)x)->ob_digit[0]; + } + } + #endif #endif - if (likely(PyLong_Check(x))) { - if (is_unsigned) { - if (unlikely(Py_SIZE(x) < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to signed PY_LONG_LONG"); - return (signed PY_LONG_LONG)-1; + if (sizeof(long) <= sizeof(long)) { + __PYX_VERIFY_RETURN_INT(long, long, PyLong_AsLong) + } else if (sizeof(long) <= sizeof(long long)) { + __PYX_VERIFY_RETURN_INT(long, long long, PyLong_AsLongLong) } - return (signed PY_LONG_LONG)PyLong_AsUnsignedLongLong(x); - } else { - return (signed PY_LONG_LONG)PyLong_AsLongLong(x); + } + { +#if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) + PyErr_SetString(PyExc_RuntimeError, + "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); +#else + long val; + PyObject *v = __Pyx_PyNumber_Int(x); + #if PY_MAJOR_VERSION < 3 + if (likely(v) && !PyLong_Check(v)) { + PyObject *tmp = v; + v = PyNumber_Long(tmp); + Py_DECREF(tmp); + } + #endif + if (likely(v)) { + int one = 1; int is_little = (int)*(unsigned char *)&one; + unsigned char *bytes = (unsigned char *)&val; + int ret = _PyLong_AsByteArray((PyLongObject *)v, + bytes, sizeof(val), + is_little, !is_unsigned); + Py_DECREF(v); + if (likely(!ret)) + return val; + } +#endif + return (long) -1; } } else { - signed PY_LONG_LONG val; + long val; PyObject *tmp = __Pyx_PyNumber_Int(x); - if (!tmp) return (signed PY_LONG_LONG)-1; - val = __Pyx_PyInt_AsSignedLongLong(tmp); + if (!tmp) return (long) -1; + val = __Pyx_PyInt_As_long(tmp); Py_DECREF(tmp); return val; } @@ -6055,6 +6124,10 @@ static PyTypeObject *__Pyx_ImportType(const char *module_name, const char *class PyObject *result = 0; PyObject *py_name = 0; char warning[200]; + Py_ssize_t basicsize; +#ifdef Py_LIMITED_API + PyObject *py_basicsize; +#endif py_module = __Pyx_ImportModule(module_name); if (!py_module) goto bad; @@ -6070,11 +6143,23 @@ static PyTypeObject *__Pyx_ImportType(const char *module_name, const char *class goto bad; if (!PyType_Check(result)) { PyErr_Format(PyExc_TypeError, - "%s.%s is not a type object", + "%.200s.%.200s is not a type object", module_name, class_name); goto bad; } - if (!strict && (size_t)((PyTypeObject *)result)->tp_basicsize > size) { +#ifndef Py_LIMITED_API + basicsize = ((PyTypeObject *)result)->tp_basicsize; +#else + py_basicsize = PyObject_GetAttrString(result, "__basicsize__"); + if (!py_basicsize) + goto bad; + basicsize = PyLong_AsSsize_t(py_basicsize); + Py_DECREF(py_basicsize); + py_basicsize = 0; + if (basicsize == (Py_ssize_t)-1 && PyErr_Occurred()) + goto bad; +#endif + if (!strict && (size_t)basicsize > size) { PyOS_snprintf(warning, sizeof(warning), "%s.%s size changed, may indicate binary incompatibility", module_name, class_name); @@ -6084,9 +6169,9 @@ static PyTypeObject *__Pyx_ImportType(const char *module_name, const char *class if (PyErr_WarnEx(NULL, warning, 0) < 0) goto bad; #endif } - else if ((size_t)((PyTypeObject *)result)->tp_basicsize != size) { + else if ((size_t)basicsize != size) { PyErr_Format(PyExc_ValueError, - "%s.%s has the wrong size, try recompiling", + "%.200s.%.200s has the wrong size, try recompiling", module_name, class_name); goto bad; } @@ -6290,27 +6375,90 @@ static int __Pyx_InitStrings(__Pyx_StringTabEntry *t) { return 0; } - -/* Type Conversion Functions */ - +static CYTHON_INLINE PyObject* __Pyx_PyUnicode_FromString(const char* c_str) { + return __Pyx_PyUnicode_FromStringAndSize(c_str, strlen(c_str)); +} +static CYTHON_INLINE char* __Pyx_PyObject_AsString(PyObject* o) { + Py_ssize_t ignore; + return __Pyx_PyObject_AsStringAndSize(o, &ignore); +} +static CYTHON_INLINE char* __Pyx_PyObject_AsStringAndSize(PyObject* o, Py_ssize_t *length) { +#if __PYX_DEFAULT_STRING_ENCODING_IS_ASCII || __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT + if ( +#if PY_MAJOR_VERSION < 3 && __PYX_DEFAULT_STRING_ENCODING_IS_ASCII + __Pyx_sys_getdefaultencoding_not_ascii && +#endif + PyUnicode_Check(o)) { +#if PY_VERSION_HEX < 0x03030000 + char* defenc_c; + PyObject* defenc = _PyUnicode_AsDefaultEncodedString(o, NULL); + if (!defenc) return NULL; + defenc_c = PyBytes_AS_STRING(defenc); +#if __PYX_DEFAULT_STRING_ENCODING_IS_ASCII + { + char* end = defenc_c + PyBytes_GET_SIZE(defenc); + char* c; + for (c = defenc_c; c < end; c++) { + if ((unsigned char) (*c) >= 128) { + PyUnicode_AsASCIIString(o); + return NULL; + } + } + } +#endif /*__PYX_DEFAULT_STRING_ENCODING_IS_ASCII*/ + *length = PyBytes_GET_SIZE(defenc); + return defenc_c; +#else /* PY_VERSION_HEX < 0x03030000 */ + if (PyUnicode_READY(o) == -1) return NULL; +#if __PYX_DEFAULT_STRING_ENCODING_IS_ASCII + if (PyUnicode_IS_ASCII(o)) { + *length = PyUnicode_GET_LENGTH(o); + return PyUnicode_AsUTF8(o); + } else { + PyUnicode_AsASCIIString(o); + return NULL; + } +#else /* __PYX_DEFAULT_STRING_ENCODING_IS_ASCII */ + return PyUnicode_AsUTF8AndSize(o, length); +#endif /* __PYX_DEFAULT_STRING_ENCODING_IS_ASCII */ +#endif /* PY_VERSION_HEX < 0x03030000 */ + } else +#endif /* __PYX_DEFAULT_STRING_ENCODING_IS_ASCII || __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT */ +#if !CYTHON_COMPILING_IN_PYPY +#if PY_VERSION_HEX >= 0x02060000 + if (PyByteArray_Check(o)) { + *length = PyByteArray_GET_SIZE(o); + return PyByteArray_AS_STRING(o); + } else +#endif +#endif + { + char* result; + int r = PyBytes_AsStringAndSize(o, &result, length); + if (unlikely(r < 0)) { + return NULL; + } else { + return result; + } + } +} static CYTHON_INLINE int __Pyx_PyObject_IsTrue(PyObject* x) { int is_true = x == Py_True; if (is_true | (x == Py_False) | (x == Py_None)) return is_true; else return PyObject_IsTrue(x); } - static CYTHON_INLINE PyObject* __Pyx_PyNumber_Int(PyObject* x) { PyNumberMethods *m; const char *name = NULL; PyObject *res = NULL; -#if PY_VERSION_HEX < 0x03000000 +#if PY_MAJOR_VERSION < 3 if (PyInt_Check(x) || PyLong_Check(x)) #else if (PyLong_Check(x)) #endif return Py_INCREF(x), x; m = Py_TYPE(x)->tp_as_number; -#if PY_VERSION_HEX < 0x03000000 +#if PY_MAJOR_VERSION < 3 if (m && m->nb_int) { name = "int"; res = PyNumber_Int(x); @@ -6326,13 +6474,13 @@ static CYTHON_INLINE PyObject* __Pyx_PyNumber_Int(PyObject* x) { } #endif if (res) { -#if PY_VERSION_HEX < 0x03000000 +#if PY_MAJOR_VERSION < 3 if (!PyInt_Check(res) && !PyLong_Check(res)) { #else if (!PyLong_Check(res)) { #endif PyErr_Format(PyExc_TypeError, - "__%s__ returned non-%s (type %.200s)", + "__%.4s__ returned non-%.4s (type %.200s)", name, name, Py_TYPE(res)->tp_name); Py_DECREF(res); return NULL; @@ -6344,16 +6492,40 @@ static CYTHON_INLINE PyObject* __Pyx_PyNumber_Int(PyObject* x) { } return res; } - +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + #include "longintrepr.h" + #endif +#endif static CYTHON_INLINE Py_ssize_t __Pyx_PyIndex_AsSsize_t(PyObject* b) { Py_ssize_t ival; - PyObject* x = PyNumber_Index(b); + PyObject *x; +#if PY_MAJOR_VERSION < 3 + if (likely(PyInt_CheckExact(b))) + return PyInt_AS_LONG(b); +#endif + if (likely(PyLong_CheckExact(b))) { + #if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + switch (Py_SIZE(b)) { + case -1: return -(sdigit)((PyLongObject*)b)->ob_digit[0]; + case 0: return 0; + case 1: return ((PyLongObject*)b)->ob_digit[0]; + } + #endif + #endif + #if PY_VERSION_HEX < 0x02060000 + return PyInt_AsSsize_t(b); + #else + return PyLong_AsSsize_t(b); + #endif + } + x = PyNumber_Index(b); if (!x) return -1; ival = PyInt_AsSsize_t(x); Py_DECREF(x); return ival; } - static CYTHON_INLINE PyObject * __Pyx_PyInt_FromSize_t(size_t ival) { #if PY_VERSION_HEX < 0x02050000 if (ival <= LONG_MAX) @@ -6368,17 +6540,5 @@ static CYTHON_INLINE PyObject * __Pyx_PyInt_FromSize_t(size_t ival) { #endif } -static CYTHON_INLINE size_t __Pyx_PyInt_AsSize_t(PyObject* x) { - unsigned PY_LONG_LONG val = __Pyx_PyInt_AsUnsignedLongLong(x); - if (unlikely(val == (unsigned PY_LONG_LONG)-1 && PyErr_Occurred())) { - return (size_t)-1; - } else if (unlikely(val != (unsigned PY_LONG_LONG)(size_t)val)) { - PyErr_SetString(PyExc_OverflowError, - "value too large to convert to size_t"); - return (size_t)-1; - } - return (size_t)val; -} - #endif /* Py_PYTHON_H */ diff --git a/nipy/labs/bindings/linalg.c b/nipy/labs/bindings/linalg.c index ccd8c95cd7..f73e38d077 100644 --- a/nipy/labs/bindings/linalg.c +++ b/nipy/labs/bindings/linalg.c @@ -1,12 +1,25 @@ -/* Generated by Cython 0.17.4 on Sat Jan 12 17:27:33 2013 */ +/* Generated by Cython 0.20.1post0 (Debian 0.20.1+git90-g0e6e38e-1ubuntu2) on Mon Nov 10 15:43:53 2014 */ #define PY_SSIZE_T_CLEAN +#ifndef CYTHON_USE_PYLONG_INTERNALS +#ifdef PYLONG_BITS_IN_DIGIT +#define CYTHON_USE_PYLONG_INTERNALS 0 +#else +#include "pyconfig.h" +#ifdef PYLONG_BITS_IN_DIGIT +#define CYTHON_USE_PYLONG_INTERNALS 1 +#else +#define CYTHON_USE_PYLONG_INTERNALS 0 +#endif +#endif +#endif #include "Python.h" #ifndef Py_PYTHON_H #error Python headers needed to compile C extensions, please install development version of Python. #elif PY_VERSION_HEX < 0x02040000 #error Cython requires Python 2.4+. #else +#define CYTHON_ABI "0_20_1post0" #include /* For offsetof */ #ifndef offsetof #define offsetof(type, member) ( (size_t) & ((type*)0) -> member ) @@ -41,6 +54,9 @@ #define CYTHON_COMPILING_IN_PYPY 0 #define CYTHON_COMPILING_IN_CPYTHON 1 #endif +#if CYTHON_COMPILING_IN_PYPY +#define Py_OptimizeFlag 0 +#endif #if PY_VERSION_HEX < 0x02050000 typedef int Py_ssize_t; #define PY_SSIZE_T_MAX INT_MAX @@ -48,7 +64,7 @@ #define PY_FORMAT_SIZE_T "" #define CYTHON_FORMAT_SSIZE_T "" #define PyInt_FromSsize_t(z) PyInt_FromLong(z) - #define PyInt_AsSsize_t(o) __Pyx_PyInt_AsInt(o) + #define PyInt_AsSsize_t(o) __Pyx_PyInt_As_int(o) #define PyNumber_Index(o) ((PyNumber_Check(o) && !PyFloat_Check(o)) ? PyNumber_Int(o) : \ (PyErr_Format(PyExc_TypeError, \ "expected index value, got %.200s", Py_TYPE(o)->tp_name), \ @@ -100,13 +116,15 @@ #if PY_MAJOR_VERSION < 3 #define __Pyx_BUILTIN_MODULE_NAME "__builtin__" #define __Pyx_PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) \ - PyCode_New(a, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) + PyCode_New(a+k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) + #define __Pyx_DefaultClassType PyClass_Type #else #define __Pyx_BUILTIN_MODULE_NAME "builtins" #define __Pyx_PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) \ PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) + #define __Pyx_DefaultClassType PyType_Type #endif -#if PY_MAJOR_VERSION < 3 && PY_MINOR_VERSION < 6 +#if PY_VERSION_HEX < 0x02060000 #define PyUnicode_FromString(s) PyUnicode_Decode(s, strlen(s), "UTF-8", "strict") #endif #if PY_MAJOR_VERSION >= 3 @@ -116,19 +134,47 @@ #if (PY_VERSION_HEX < 0x02060000) || (PY_MAJOR_VERSION >= 3) #define Py_TPFLAGS_HAVE_NEWBUFFER 0 #endif +#if PY_VERSION_HEX < 0x02060000 + #define Py_TPFLAGS_HAVE_VERSION_TAG 0 +#endif +#if PY_VERSION_HEX < 0x02060000 && !defined(Py_TPFLAGS_IS_ABSTRACT) + #define Py_TPFLAGS_IS_ABSTRACT 0 +#endif +#if PY_VERSION_HEX < 0x030400a1 && !defined(Py_TPFLAGS_HAVE_FINALIZE) + #define Py_TPFLAGS_HAVE_FINALIZE 0 +#endif #if PY_VERSION_HEX > 0x03030000 && defined(PyUnicode_KIND) #define CYTHON_PEP393_ENABLED 1 #define __Pyx_PyUnicode_READY(op) (likely(PyUnicode_IS_READY(op)) ? \ 0 : _PyUnicode_Ready((PyObject *)(op))) #define __Pyx_PyUnicode_GET_LENGTH(u) PyUnicode_GET_LENGTH(u) #define __Pyx_PyUnicode_READ_CHAR(u, i) PyUnicode_READ_CHAR(u, i) + #define __Pyx_PyUnicode_KIND(u) PyUnicode_KIND(u) + #define __Pyx_PyUnicode_DATA(u) PyUnicode_DATA(u) #define __Pyx_PyUnicode_READ(k, d, i) PyUnicode_READ(k, d, i) #else #define CYTHON_PEP393_ENABLED 0 #define __Pyx_PyUnicode_READY(op) (0) #define __Pyx_PyUnicode_GET_LENGTH(u) PyUnicode_GET_SIZE(u) #define __Pyx_PyUnicode_READ_CHAR(u, i) ((Py_UCS4)(PyUnicode_AS_UNICODE(u)[i])) - #define __Pyx_PyUnicode_READ(k, d, i) ((k=k), (Py_UCS4)(((Py_UNICODE*)d)[i])) + #define __Pyx_PyUnicode_KIND(u) (sizeof(Py_UNICODE)) + #define __Pyx_PyUnicode_DATA(u) ((void*)PyUnicode_AS_UNICODE(u)) + #define __Pyx_PyUnicode_READ(k, d, i) ((void)(k), (Py_UCS4)(((Py_UNICODE*)d)[i])) +#endif +#if CYTHON_COMPILING_IN_PYPY + #define __Pyx_PyUnicode_Concat(a, b) PyNumber_Add(a, b) + #define __Pyx_PyUnicode_ConcatSafe(a, b) PyNumber_Add(a, b) +#else + #define __Pyx_PyUnicode_Concat(a, b) PyUnicode_Concat(a, b) + #define __Pyx_PyUnicode_ConcatSafe(a, b) ((unlikely((a) == Py_None) || unlikely((b) == Py_None)) ? \ + PyNumber_Add(a, b) : __Pyx_PyUnicode_Concat(a, b)) +#endif +#define __Pyx_PyString_FormatSafe(a, b) ((unlikely((a) == Py_None)) ? PyNumber_Remainder(a, b) : __Pyx_PyString_Format(a, b)) +#define __Pyx_PyUnicode_FormatSafe(a, b) ((unlikely((a) == Py_None)) ? PyNumber_Remainder(a, b) : PyUnicode_Format(a, b)) +#if PY_MAJOR_VERSION >= 3 + #define __Pyx_PyString_Format(a, b) PyUnicode_Format(a, b) +#else + #define __Pyx_PyString_Format(a, b) PyString_Format(a, b) #endif #if PY_MAJOR_VERSION >= 3 #define PyBaseString_Type PyUnicode_Type @@ -155,6 +201,14 @@ #define PyBytes_Concat PyString_Concat #define PyBytes_ConcatAndDel PyString_ConcatAndDel #endif +#if PY_MAJOR_VERSION >= 3 + #define __Pyx_PyBaseString_Check(obj) PyUnicode_Check(obj) + #define __Pyx_PyBaseString_CheckExact(obj) PyUnicode_CheckExact(obj) +#else + #define __Pyx_PyBaseString_Check(obj) (PyString_CheckExact(obj) || PyUnicode_CheckExact(obj) || \ + PyString_Check(obj) || PyUnicode_Check(obj)) + #define __Pyx_PyBaseString_CheckExact(obj) (PyString_CheckExact(obj) || PyUnicode_CheckExact(obj)) +#endif #if PY_VERSION_HEX < 0x02060000 #define PySet_Check(obj) PyObject_TypeCheck(obj, &PySet_Type) #define PyFrozenSet_Check(obj) PyObject_TypeCheck(obj, &PyFrozenSet_Type) @@ -178,11 +232,12 @@ #define PyInt_AsSsize_t PyLong_AsSsize_t #define PyInt_AsUnsignedLongMask PyLong_AsUnsignedLongMask #define PyInt_AsUnsignedLongLongMask PyLong_AsUnsignedLongLongMask + #define PyNumber_Int PyNumber_Long #endif #if PY_MAJOR_VERSION >= 3 #define PyBoolObject PyLongObject #endif -#if PY_VERSION_HEX < 0x03020000 +#if PY_VERSION_HEX < 0x030200A4 typedef long Py_hash_t; #define __Pyx_PyInt_FromHash_t PyInt_FromLong #define __Pyx_PyInt_AsHash_t PyInt_AsLong @@ -227,6 +282,46 @@ #define __Pyx_NAMESTR(n) (n) #define __Pyx_DOCSTR(n) (n) #endif +#ifndef CYTHON_INLINE + #if defined(__GNUC__) + #define CYTHON_INLINE __inline__ + #elif defined(_MSC_VER) + #define CYTHON_INLINE __inline + #elif defined (__STDC_VERSION__) && __STDC_VERSION__ >= 199901L + #define CYTHON_INLINE inline + #else + #define CYTHON_INLINE + #endif +#endif +#ifndef CYTHON_RESTRICT + #if defined(__GNUC__) + #define CYTHON_RESTRICT __restrict__ + #elif defined(_MSC_VER) && _MSC_VER >= 1400 + #define CYTHON_RESTRICT __restrict + #elif defined (__STDC_VERSION__) && __STDC_VERSION__ >= 199901L + #define CYTHON_RESTRICT restrict + #else + #define CYTHON_RESTRICT + #endif +#endif +#ifdef NAN +#define __PYX_NAN() ((float) NAN) +#else +static CYTHON_INLINE float __PYX_NAN() { + /* Initialize NaN. The sign is irrelevant, an exponent with all bits 1 and + a nonzero mantissa means NaN. If the first bit in the mantissa is 1, it is + a quiet NaN. */ + float value; + memset(&value, 0xFF, sizeof(value)); + return value; +} +#endif +#ifdef __cplusplus +template +void __Pyx_call_destructor(T* x) { + x->~T(); +} +#endif #if PY_MAJOR_VERSION >= 3 @@ -251,6 +346,7 @@ #include #define __PYX_HAVE__nipy__labs__bindings__linalg #define __PYX_HAVE_API__nipy__labs__bindings__linalg +#include "string.h" #include "stdio.h" #include "stdlib.h" #include "numpy/arrayobject.h" @@ -269,21 +365,6 @@ #define CYTHON_WITHOUT_ASSERTIONS #endif - -/* inline attribute */ -#ifndef CYTHON_INLINE - #if defined(__GNUC__) - #define CYTHON_INLINE __inline__ - #elif defined(_MSC_VER) - #define CYTHON_INLINE __inline - #elif defined (__STDC_VERSION__) && __STDC_VERSION__ >= 199901L - #define CYTHON_INLINE inline - #else - #define CYTHON_INLINE - #endif -#endif - -/* unused attribute */ #ifndef CYTHON_UNUSED # if defined(__GNUC__) # if !(defined(__cplusplus)) || (__GNUC__ > 3 || (__GNUC__ == 3 && __GNUC_MINOR__ >= 4)) @@ -297,46 +378,155 @@ # define CYTHON_UNUSED # endif #endif - -typedef struct {PyObject **p; char *s; const long n; const char* encoding; const char is_unicode; const char is_str; const char intern; } __Pyx_StringTabEntry; /*proto*/ - - -/* Type Conversion Predeclarations */ - -#define __Pyx_PyBytes_FromUString(s) PyBytes_FromString((char*)s) -#define __Pyx_PyBytes_AsUString(s) ((unsigned char*) PyBytes_AsString(s)) - +typedef struct {PyObject **p; char *s; const Py_ssize_t n; const char* encoding; + const char is_unicode; const char is_str; const char intern; } __Pyx_StringTabEntry; /*proto*/ + +#define __PYX_DEFAULT_STRING_ENCODING_IS_ASCII 0 +#define __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT 0 +#define __PYX_DEFAULT_STRING_ENCODING "" +#define __Pyx_PyObject_FromString __Pyx_PyBytes_FromString +#define __Pyx_PyObject_FromStringAndSize __Pyx_PyBytes_FromStringAndSize +#define __Pyx_fits_Py_ssize_t(v, type, is_signed) ( \ + (sizeof(type) < sizeof(Py_ssize_t)) || \ + (sizeof(type) > sizeof(Py_ssize_t) && \ + likely(v < (type)PY_SSIZE_T_MAX || \ + v == (type)PY_SSIZE_T_MAX) && \ + (!is_signed || likely(v > (type)PY_SSIZE_T_MIN || \ + v == (type)PY_SSIZE_T_MIN))) || \ + (sizeof(type) == sizeof(Py_ssize_t) && \ + (is_signed || likely(v < (type)PY_SSIZE_T_MAX || \ + v == (type)PY_SSIZE_T_MAX))) ) +static CYTHON_INLINE char* __Pyx_PyObject_AsString(PyObject*); +static CYTHON_INLINE char* __Pyx_PyObject_AsStringAndSize(PyObject*, Py_ssize_t* length); +#define __Pyx_PyByteArray_FromString(s) PyByteArray_FromStringAndSize((const char*)s, strlen((const char*)s)) +#define __Pyx_PyByteArray_FromStringAndSize(s, l) PyByteArray_FromStringAndSize((const char*)s, l) +#define __Pyx_PyBytes_FromString PyBytes_FromString +#define __Pyx_PyBytes_FromStringAndSize PyBytes_FromStringAndSize +static CYTHON_INLINE PyObject* __Pyx_PyUnicode_FromString(const char*); +#if PY_MAJOR_VERSION < 3 + #define __Pyx_PyStr_FromString __Pyx_PyBytes_FromString + #define __Pyx_PyStr_FromStringAndSize __Pyx_PyBytes_FromStringAndSize +#else + #define __Pyx_PyStr_FromString __Pyx_PyUnicode_FromString + #define __Pyx_PyStr_FromStringAndSize __Pyx_PyUnicode_FromStringAndSize +#endif +#define __Pyx_PyObject_AsSString(s) ((signed char*) __Pyx_PyObject_AsString(s)) +#define __Pyx_PyObject_AsUString(s) ((unsigned char*) __Pyx_PyObject_AsString(s)) +#define __Pyx_PyObject_FromUString(s) __Pyx_PyObject_FromString((const char*)s) +#define __Pyx_PyBytes_FromUString(s) __Pyx_PyBytes_FromString((const char*)s) +#define __Pyx_PyByteArray_FromUString(s) __Pyx_PyByteArray_FromString((const char*)s) +#define __Pyx_PyStr_FromUString(s) __Pyx_PyStr_FromString((const char*)s) +#define __Pyx_PyUnicode_FromUString(s) __Pyx_PyUnicode_FromString((const char*)s) +#if PY_MAJOR_VERSION < 3 +static CYTHON_INLINE size_t __Pyx_Py_UNICODE_strlen(const Py_UNICODE *u) +{ + const Py_UNICODE *u_end = u; + while (*u_end++) ; + return u_end - u - 1; +} +#else +#define __Pyx_Py_UNICODE_strlen Py_UNICODE_strlen +#endif +#define __Pyx_PyUnicode_FromUnicode(u) PyUnicode_FromUnicode(u, __Pyx_Py_UNICODE_strlen(u)) +#define __Pyx_PyUnicode_FromUnicodeAndLength PyUnicode_FromUnicode +#define __Pyx_PyUnicode_AsUnicode PyUnicode_AsUnicode #define __Pyx_Owned_Py_None(b) (Py_INCREF(Py_None), Py_None) #define __Pyx_PyBool_FromLong(b) ((b) ? (Py_INCREF(Py_True), Py_True) : (Py_INCREF(Py_False), Py_False)) static CYTHON_INLINE int __Pyx_PyObject_IsTrue(PyObject*); static CYTHON_INLINE PyObject* __Pyx_PyNumber_Int(PyObject* x); - static CYTHON_INLINE Py_ssize_t __Pyx_PyIndex_AsSsize_t(PyObject*); static CYTHON_INLINE PyObject * __Pyx_PyInt_FromSize_t(size_t); -static CYTHON_INLINE size_t __Pyx_PyInt_AsSize_t(PyObject*); - #if CYTHON_COMPILING_IN_CPYTHON #define __pyx_PyFloat_AsDouble(x) (PyFloat_CheckExact(x) ? PyFloat_AS_DOUBLE(x) : PyFloat_AsDouble(x)) #else #define __pyx_PyFloat_AsDouble(x) PyFloat_AsDouble(x) #endif #define __pyx_PyFloat_AsFloat(x) ((float) __pyx_PyFloat_AsDouble(x)) +#if PY_MAJOR_VERSION < 3 && __PYX_DEFAULT_STRING_ENCODING_IS_ASCII +static int __Pyx_sys_getdefaultencoding_not_ascii; +static int __Pyx_init_sys_getdefaultencoding_params(void) { + PyObject* sys = NULL; + PyObject* default_encoding = NULL; + PyObject* ascii_chars_u = NULL; + PyObject* ascii_chars_b = NULL; + sys = PyImport_ImportModule("sys"); + if (sys == NULL) goto bad; + default_encoding = PyObject_CallMethod(sys, (char*) (const char*) "getdefaultencoding", NULL); + if (default_encoding == NULL) goto bad; + if (strcmp(PyBytes_AsString(default_encoding), "ascii") == 0) { + __Pyx_sys_getdefaultencoding_not_ascii = 0; + } else { + const char* default_encoding_c = PyBytes_AS_STRING(default_encoding); + char ascii_chars[128]; + int c; + for (c = 0; c < 128; c++) { + ascii_chars[c] = c; + } + __Pyx_sys_getdefaultencoding_not_ascii = 1; + ascii_chars_u = PyUnicode_DecodeASCII(ascii_chars, 128, NULL); + if (ascii_chars_u == NULL) goto bad; + ascii_chars_b = PyUnicode_AsEncodedString(ascii_chars_u, default_encoding_c, NULL); + if (ascii_chars_b == NULL || strncmp(ascii_chars, PyBytes_AS_STRING(ascii_chars_b), 128) != 0) { + PyErr_Format( + PyExc_ValueError, + "This module compiled with c_string_encoding=ascii, but default encoding '%.200s' is not a superset of ascii.", + default_encoding_c); + goto bad; + } + } + Py_XDECREF(sys); + Py_XDECREF(default_encoding); + Py_XDECREF(ascii_chars_u); + Py_XDECREF(ascii_chars_b); + return 0; +bad: + Py_XDECREF(sys); + Py_XDECREF(default_encoding); + Py_XDECREF(ascii_chars_u); + Py_XDECREF(ascii_chars_b); + return -1; +} +#endif +#if __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT && PY_MAJOR_VERSION >= 3 +#define __Pyx_PyUnicode_FromStringAndSize(c_str, size) PyUnicode_DecodeUTF8(c_str, size, NULL) +#else +#define __Pyx_PyUnicode_FromStringAndSize(c_str, size) PyUnicode_Decode(c_str, size, __PYX_DEFAULT_STRING_ENCODING, NULL) +#if __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT +static char* __PYX_DEFAULT_STRING_ENCODING; +static int __Pyx_init_sys_getdefaultencoding_params(void) { + PyObject* sys = NULL; + PyObject* default_encoding = NULL; + char* default_encoding_c; + sys = PyImport_ImportModule("sys"); + if (sys == NULL) goto bad; + default_encoding = PyObject_CallMethod(sys, (char*) (const char*) "getdefaultencoding", NULL); + if (default_encoding == NULL) goto bad; + default_encoding_c = PyBytes_AS_STRING(default_encoding); + __PYX_DEFAULT_STRING_ENCODING = (char*) malloc(strlen(default_encoding_c)); + strcpy(__PYX_DEFAULT_STRING_ENCODING, default_encoding_c); + Py_DECREF(sys); + Py_DECREF(default_encoding); + return 0; +bad: + Py_XDECREF(sys); + Py_XDECREF(default_encoding); + return -1; +} +#endif +#endif + -#ifdef __GNUC__ - /* Test for GCC > 2.95 */ - #if __GNUC__ > 2 || (__GNUC__ == 2 && (__GNUC_MINOR__ > 95)) - #define likely(x) __builtin_expect(!!(x), 1) - #define unlikely(x) __builtin_expect(!!(x), 0) - #else /* __GNUC__ > 2 ... */ - #define likely(x) (x) - #define unlikely(x) (x) - #endif /* __GNUC__ > 2 ... */ -#else /* __GNUC__ */ +/* Test for GCC > 2.95 */ +#if defined(__GNUC__) && (__GNUC__ > 2 || (__GNUC__ == 2 && (__GNUC_MINOR__ > 95))) + #define likely(x) __builtin_expect(!!(x), 1) + #define unlikely(x) __builtin_expect(!!(x), 0) +#else /* !__GNUC__ or GCC < 2.95 */ #define likely(x) (x) #define unlikely(x) (x) #endif /* __GNUC__ */ - + static PyObject *__pyx_m; +static PyObject *__pyx_d; static PyObject *__pyx_b; static PyObject *__pyx_empty_tuple; static PyObject *__pyx_empty_bytes; @@ -368,12 +558,13 @@ static const char *__pyx_filename; static const char *__pyx_f[] = { + "fffpy_import_lapack.pxi", "linalg.pyx", - "numpy.pxd", + "__init__.pxd", "type.pxd", }; -/* "numpy.pxd":723 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":723 * # in Cython to enable them only on the right systems. * * ctypedef npy_int8 int8_t # <<<<<<<<<<<<<< @@ -382,7 +573,7 @@ static const char *__pyx_f[] = { */ typedef npy_int8 __pyx_t_5numpy_int8_t; -/* "numpy.pxd":724 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":724 * * ctypedef npy_int8 int8_t * ctypedef npy_int16 int16_t # <<<<<<<<<<<<<< @@ -391,7 +582,7 @@ typedef npy_int8 __pyx_t_5numpy_int8_t; */ typedef npy_int16 __pyx_t_5numpy_int16_t; -/* "numpy.pxd":725 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":725 * ctypedef npy_int8 int8_t * ctypedef npy_int16 int16_t * ctypedef npy_int32 int32_t # <<<<<<<<<<<<<< @@ -400,7 +591,7 @@ typedef npy_int16 __pyx_t_5numpy_int16_t; */ typedef npy_int32 __pyx_t_5numpy_int32_t; -/* "numpy.pxd":726 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":726 * ctypedef npy_int16 int16_t * ctypedef npy_int32 int32_t * ctypedef npy_int64 int64_t # <<<<<<<<<<<<<< @@ -409,7 +600,7 @@ typedef npy_int32 __pyx_t_5numpy_int32_t; */ typedef npy_int64 __pyx_t_5numpy_int64_t; -/* "numpy.pxd":730 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":730 * #ctypedef npy_int128 int128_t * * ctypedef npy_uint8 uint8_t # <<<<<<<<<<<<<< @@ -418,7 +609,7 @@ typedef npy_int64 __pyx_t_5numpy_int64_t; */ typedef npy_uint8 __pyx_t_5numpy_uint8_t; -/* "numpy.pxd":731 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":731 * * ctypedef npy_uint8 uint8_t * ctypedef npy_uint16 uint16_t # <<<<<<<<<<<<<< @@ -427,7 +618,7 @@ typedef npy_uint8 __pyx_t_5numpy_uint8_t; */ typedef npy_uint16 __pyx_t_5numpy_uint16_t; -/* "numpy.pxd":732 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":732 * ctypedef npy_uint8 uint8_t * ctypedef npy_uint16 uint16_t * ctypedef npy_uint32 uint32_t # <<<<<<<<<<<<<< @@ -436,7 +627,7 @@ typedef npy_uint16 __pyx_t_5numpy_uint16_t; */ typedef npy_uint32 __pyx_t_5numpy_uint32_t; -/* "numpy.pxd":733 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":733 * ctypedef npy_uint16 uint16_t * ctypedef npy_uint32 uint32_t * ctypedef npy_uint64 uint64_t # <<<<<<<<<<<<<< @@ -445,7 +636,7 @@ typedef npy_uint32 __pyx_t_5numpy_uint32_t; */ typedef npy_uint64 __pyx_t_5numpy_uint64_t; -/* "numpy.pxd":737 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":737 * #ctypedef npy_uint128 uint128_t * * ctypedef npy_float32 float32_t # <<<<<<<<<<<<<< @@ -454,7 +645,7 @@ typedef npy_uint64 __pyx_t_5numpy_uint64_t; */ typedef npy_float32 __pyx_t_5numpy_float32_t; -/* "numpy.pxd":738 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":738 * * ctypedef npy_float32 float32_t * ctypedef npy_float64 float64_t # <<<<<<<<<<<<<< @@ -463,7 +654,7 @@ typedef npy_float32 __pyx_t_5numpy_float32_t; */ typedef npy_float64 __pyx_t_5numpy_float64_t; -/* "numpy.pxd":747 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":747 * # The int types are mapped a bit surprising -- * # numpy.int corresponds to 'l' and numpy.long to 'q' * ctypedef npy_long int_t # <<<<<<<<<<<<<< @@ -472,7 +663,7 @@ typedef npy_float64 __pyx_t_5numpy_float64_t; */ typedef npy_long __pyx_t_5numpy_int_t; -/* "numpy.pxd":748 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":748 * # numpy.int corresponds to 'l' and numpy.long to 'q' * ctypedef npy_long int_t * ctypedef npy_longlong long_t # <<<<<<<<<<<<<< @@ -481,7 +672,7 @@ typedef npy_long __pyx_t_5numpy_int_t; */ typedef npy_longlong __pyx_t_5numpy_long_t; -/* "numpy.pxd":749 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":749 * ctypedef npy_long int_t * ctypedef npy_longlong long_t * ctypedef npy_longlong longlong_t # <<<<<<<<<<<<<< @@ -490,7 +681,7 @@ typedef npy_longlong __pyx_t_5numpy_long_t; */ typedef npy_longlong __pyx_t_5numpy_longlong_t; -/* "numpy.pxd":751 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":751 * ctypedef npy_longlong longlong_t * * ctypedef npy_ulong uint_t # <<<<<<<<<<<<<< @@ -499,7 +690,7 @@ typedef npy_longlong __pyx_t_5numpy_longlong_t; */ typedef npy_ulong __pyx_t_5numpy_uint_t; -/* "numpy.pxd":752 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":752 * * ctypedef npy_ulong uint_t * ctypedef npy_ulonglong ulong_t # <<<<<<<<<<<<<< @@ -508,7 +699,7 @@ typedef npy_ulong __pyx_t_5numpy_uint_t; */ typedef npy_ulonglong __pyx_t_5numpy_ulong_t; -/* "numpy.pxd":753 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":753 * ctypedef npy_ulong uint_t * ctypedef npy_ulonglong ulong_t * ctypedef npy_ulonglong ulonglong_t # <<<<<<<<<<<<<< @@ -517,7 +708,7 @@ typedef npy_ulonglong __pyx_t_5numpy_ulong_t; */ typedef npy_ulonglong __pyx_t_5numpy_ulonglong_t; -/* "numpy.pxd":755 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":755 * ctypedef npy_ulonglong ulonglong_t * * ctypedef npy_intp intp_t # <<<<<<<<<<<<<< @@ -526,7 +717,7 @@ typedef npy_ulonglong __pyx_t_5numpy_ulonglong_t; */ typedef npy_intp __pyx_t_5numpy_intp_t; -/* "numpy.pxd":756 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":756 * * ctypedef npy_intp intp_t * ctypedef npy_uintp uintp_t # <<<<<<<<<<<<<< @@ -535,7 +726,7 @@ typedef npy_intp __pyx_t_5numpy_intp_t; */ typedef npy_uintp __pyx_t_5numpy_uintp_t; -/* "numpy.pxd":758 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":758 * ctypedef npy_uintp uintp_t * * ctypedef npy_double float_t # <<<<<<<<<<<<<< @@ -544,7 +735,7 @@ typedef npy_uintp __pyx_t_5numpy_uintp_t; */ typedef npy_double __pyx_t_5numpy_float_t; -/* "numpy.pxd":759 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":759 * * ctypedef npy_double float_t * ctypedef npy_double double_t # <<<<<<<<<<<<<< @@ -553,7 +744,7 @@ typedef npy_double __pyx_t_5numpy_float_t; */ typedef npy_double __pyx_t_5numpy_double_t; -/* "numpy.pxd":760 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":760 * ctypedef npy_double float_t * ctypedef npy_double double_t * ctypedef npy_longdouble longdouble_t # <<<<<<<<<<<<<< @@ -562,12 +753,12 @@ typedef npy_double __pyx_t_5numpy_double_t; */ typedef npy_longdouble __pyx_t_5numpy_longdouble_t; -/* "fff.pxd":9 +/* "fff.pxd":10 * * # Redefine size_t * ctypedef unsigned long int size_t # <<<<<<<<<<<<<< * - * + * # Exports from fff_base.h */ typedef unsigned long __pyx_t_3fff_size_t; #if CYTHON_CCOMPLEX @@ -593,7 +784,7 @@ typedef unsigned long __pyx_t_3fff_size_t; /*--- Type declarations ---*/ -/* "numpy.pxd":762 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":762 * ctypedef npy_longdouble longdouble_t * * ctypedef npy_cfloat cfloat_t # <<<<<<<<<<<<<< @@ -602,7 +793,7 @@ typedef unsigned long __pyx_t_3fff_size_t; */ typedef npy_cfloat __pyx_t_5numpy_cfloat_t; -/* "numpy.pxd":763 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":763 * * ctypedef npy_cfloat cfloat_t * ctypedef npy_cdouble cdouble_t # <<<<<<<<<<<<<< @@ -611,7 +802,7 @@ typedef npy_cfloat __pyx_t_5numpy_cfloat_t; */ typedef npy_cdouble __pyx_t_5numpy_cdouble_t; -/* "numpy.pxd":764 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":764 * ctypedef npy_cfloat cfloat_t * ctypedef npy_cdouble cdouble_t * ctypedef npy_clongdouble clongdouble_t # <<<<<<<<<<<<<< @@ -620,7 +811,7 @@ typedef npy_cdouble __pyx_t_5numpy_cdouble_t; */ typedef npy_clongdouble __pyx_t_5numpy_clongdouble_t; -/* "numpy.pxd":766 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":766 * ctypedef npy_clongdouble clongdouble_t * * ctypedef npy_cdouble complex_t # <<<<<<<<<<<<<< @@ -679,9 +870,36 @@ typedef npy_cdouble __pyx_t_5numpy_complex_t; #define __Pyx_XGOTREF(r) #define __Pyx_XGIVEREF(r) #endif /* CYTHON_REFNANNY */ +#define __Pyx_XDECREF_SET(r, v) do { \ + PyObject *tmp = (PyObject *) r; \ + r = v; __Pyx_XDECREF(tmp); \ + } while (0) +#define __Pyx_DECREF_SET(r, v) do { \ + PyObject *tmp = (PyObject *) r; \ + r = v; __Pyx_DECREF(tmp); \ + } while (0) #define __Pyx_CLEAR(r) do { PyObject* tmp = ((PyObject*)(r)); r = NULL; __Pyx_DECREF(tmp);} while(0) #define __Pyx_XCLEAR(r) do { if((r) != NULL) {PyObject* tmp = ((PyObject*)(r)); r = NULL; __Pyx_DECREF(tmp);}} while(0) +#if CYTHON_COMPILING_IN_CPYTHON +static CYTHON_INLINE PyObject* __Pyx_PyObject_GetAttrStr(PyObject* obj, PyObject* attr_name) { + PyTypeObject* tp = Py_TYPE(obj); + if (likely(tp->tp_getattro)) + return tp->tp_getattro(obj, attr_name); +#if PY_MAJOR_VERSION < 3 + if (likely(tp->tp_getattr)) + return tp->tp_getattr(obj, PyString_AS_STRING(attr_name)); +#endif + return PyObject_GetAttr(obj, attr_name); +} +#else +#define __Pyx_PyObject_GetAttrStr(o,n) PyObject_GetAttr(o,n) +#endif + +static PyObject *__Pyx_GetBuiltinName(PyObject *name); /*proto*/ + +static CYTHON_INLINE PyObject *__Pyx_GetModuleGlobalName(PyObject *name); /*proto*/ + static void __Pyx_RaiseArgtupleInvalid(const char* func_name, int exact, Py_ssize_t num_min, Py_ssize_t num_max, Py_ssize_t num_found); /*proto*/ @@ -693,7 +911,11 @@ static int __Pyx_ParseOptionalKeywords(PyObject *kwds, PyObject **argnames[], \ static CYTHON_INLINE int __Pyx_TypeTest(PyObject *obj, PyTypeObject *type); /*proto*/ -static PyObject *__Pyx_GetName(PyObject *dict, PyObject *name); /*proto*/ +#if CYTHON_COMPILING_IN_CPYTHON +static CYTHON_INLINE PyObject* __Pyx_PyObject_Call(PyObject *func, PyObject *arg, PyObject *kw); /*proto*/ +#else +#define __Pyx_PyObject_Call(func, arg, kw) PyObject_Call(func, arg, kw) +#endif static CYTHON_INLINE void __Pyx_ErrRestore(PyObject *type, PyObject *value, PyObject *tb); /*proto*/ static CYTHON_INLINE void __Pyx_ErrFetch(PyObject **type, PyObject **value, PyObject **tb); /*proto*/ @@ -706,11 +928,13 @@ static CYTHON_INLINE void __Pyx_RaiseNeedMoreValuesError(Py_ssize_t index); static CYTHON_INLINE void __Pyx_RaiseNoneNotIterableError(void); -static CYTHON_INLINE int __Pyx_IterFinish(void); /*proto*/ +static PyObject* __Pyx_ImportFrom(PyObject* module, PyObject* name); /*proto*/ -static int __Pyx_IternextUnpackEndCheck(PyObject *retval, Py_ssize_t expected); /*proto*/ +static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, int level); /*proto*/ -static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, long level); /*proto*/ +static CYTHON_INLINE size_t __Pyx_PyInt_As_size_t(PyObject *); + +static CYTHON_INLINE int __Pyx_PyInt_As_int(PyObject *); #if CYTHON_CCOMPLEX #ifdef __cplusplus @@ -724,7 +948,7 @@ static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, long level); #define __Pyx_CREAL(z) ((z).real) #define __Pyx_CIMAG(z) ((z).imag) #endif -#if defined(_WIN32) && defined(__cplusplus) && CYTHON_CCOMPLEX +#if (defined(_WIN32) || defined(__clang__)) && defined(__cplusplus) && CYTHON_CCOMPLEX #define __Pyx_SET_CREAL(z,x) ((z).real(x)) #define __Pyx_SET_CIMAG(z,y) ((z).imag(y)) #else @@ -810,37 +1034,11 @@ static CYTHON_INLINE __pyx_t_double_complex __pyx_t_double_complex_from_parts(do #endif #endif -static CYTHON_INLINE unsigned char __Pyx_PyInt_AsUnsignedChar(PyObject *); - -static CYTHON_INLINE unsigned short __Pyx_PyInt_AsUnsignedShort(PyObject *); - -static CYTHON_INLINE unsigned int __Pyx_PyInt_AsUnsignedInt(PyObject *); - -static CYTHON_INLINE char __Pyx_PyInt_AsChar(PyObject *); - -static CYTHON_INLINE short __Pyx_PyInt_AsShort(PyObject *); - -static CYTHON_INLINE int __Pyx_PyInt_AsInt(PyObject *); - -static CYTHON_INLINE signed char __Pyx_PyInt_AsSignedChar(PyObject *); - -static CYTHON_INLINE signed short __Pyx_PyInt_AsSignedShort(PyObject *); - -static CYTHON_INLINE signed int __Pyx_PyInt_AsSignedInt(PyObject *); - -static CYTHON_INLINE int __Pyx_PyInt_AsLongDouble(PyObject *); +static CYTHON_INLINE PyObject* __Pyx_PyInt_From_int(int value); -static CYTHON_INLINE unsigned long __Pyx_PyInt_AsUnsignedLong(PyObject *); +static CYTHON_INLINE PyObject* __Pyx_PyInt_From_long(long value); -static CYTHON_INLINE unsigned PY_LONG_LONG __Pyx_PyInt_AsUnsignedLongLong(PyObject *); - -static CYTHON_INLINE long __Pyx_PyInt_AsLong(PyObject *); - -static CYTHON_INLINE PY_LONG_LONG __Pyx_PyInt_AsLongLong(PyObject *); - -static CYTHON_INLINE signed long __Pyx_PyInt_AsSignedLong(PyObject *); - -static CYTHON_INLINE signed PY_LONG_LONG __Pyx_PyInt_AsSignedLongLong(PyObject *); +static CYTHON_INLINE long __Pyx_PyInt_As_long(PyObject *); static int __Pyx_check_binary_version(void); @@ -880,6 +1078,8 @@ static int __Pyx_InitStrings(__Pyx_StringTabEntry *t); /*proto*/ /* Module declarations from 'cpython.ref' */ +/* Module declarations from 'libc.string' */ + /* Module declarations from 'libc.stdio' */ /* Module declarations from 'cpython.object' */ @@ -904,9 +1104,9 @@ static CYTHON_INLINE char *__pyx_f_5numpy__util_dtypestring(PyArray_Descr *, cha /* Module declarations from 'fff' */ /* Module declarations from 'nipy.labs.bindings.linalg' */ +static PyObject *__pyx_f_4nipy_4labs_8bindings_6linalg_fffpy_import_lapack(void); /*proto*/ static CBLAS_TRANSPOSE_t __pyx_f_4nipy_4labs_8bindings_6linalg_flag_transpose(int); /*proto*/ static CBLAS_UPLO_t __pyx_f_4nipy_4labs_8bindings_6linalg_flag_uplo(int); /*proto*/ -static CBLAS_DIAG_t __pyx_f_4nipy_4labs_8bindings_6linalg_flag_diag(int); /*proto*/ static CBLAS_SIDE_t __pyx_f_4nipy_4labs_8bindings_6linalg_flag_side(int); /*proto*/ #define __Pyx_MODULE_NAME "nipy.labs.bindings.linalg" int __pyx_module_is_main_nipy__labs__bindings__linalg = 0; @@ -939,242 +1139,721 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_40blas_daxpy(CYTHON_UNUS static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_42blas_dscal(CYTHON_UNUSED PyObject *__pyx_self, double __pyx_v_alpha, PyObject *__pyx_v_X); /* proto */ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_44blas_dgemm(CYTHON_UNUSED PyObject *__pyx_self, int __pyx_v_TransA, int __pyx_v_TransB, double __pyx_v_alpha, PyObject *__pyx_v_A, PyObject *__pyx_v_B, double __pyx_v_beta, PyObject *__pyx_v_C); /* proto */ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_46blas_dsymm(CYTHON_UNUSED PyObject *__pyx_self, int __pyx_v_Side, int __pyx_v_Uplo, double __pyx_v_alpha, PyObject *__pyx_v_A, PyObject *__pyx_v_B, PyObject *__pyx_v_beta, PyObject *__pyx_v_C); /* proto */ -static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_48blas_dtrmm(CYTHON_UNUSED PyObject *__pyx_self, int __pyx_v_Side, int __pyx_v_Uplo, int __pyx_v_TransA, int __pyx_v_Diag, double __pyx_v_alpha, PyObject *__pyx_v_A, PyObject *__pyx_v_B); /* proto */ -static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_50blas_dtrsm(CYTHON_UNUSED PyObject *__pyx_self, int __pyx_v_Side, int __pyx_v_Uplo, int __pyx_v_TransA, int __pyx_v_Diag, double __pyx_v_alpha, PyObject *__pyx_v_A, PyObject *__pyx_v_B); /* proto */ -static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_52blas_dsyrk(CYTHON_UNUSED PyObject *__pyx_self, int __pyx_v_Uplo, int __pyx_v_Trans, double __pyx_v_alpha, PyObject *__pyx_v_A, double __pyx_v_beta, PyObject *__pyx_v_C); /* proto */ -static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_54blas_dsyr2k(CYTHON_UNUSED PyObject *__pyx_self, int __pyx_v_Uplo, int __pyx_v_Trans, double __pyx_v_alpha, PyObject *__pyx_v_A, PyObject *__pyx_v_B, double __pyx_v_beta, PyObject *__pyx_v_C); /* proto */ +static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_48blas_dsyrk(CYTHON_UNUSED PyObject *__pyx_self, int __pyx_v_Uplo, int __pyx_v_Trans, double __pyx_v_alpha, PyObject *__pyx_v_A, double __pyx_v_beta, PyObject *__pyx_v_C); /* proto */ +static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_50blas_dsyr2k(CYTHON_UNUSED PyObject *__pyx_self, int __pyx_v_Uplo, int __pyx_v_Trans, double __pyx_v_alpha, PyObject *__pyx_v_A, PyObject *__pyx_v_B, double __pyx_v_beta, PyObject *__pyx_v_C); /* proto */ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, Py_buffer *__pyx_v_info, int __pyx_v_flags); /* proto */ static void __pyx_pf_5numpy_7ndarray_2__releasebuffer__(PyArrayObject *__pyx_v_self, Py_buffer *__pyx_v_info); /* proto */ -static char __pyx_k_1[] = "ndarray is not C contiguous"; -static char __pyx_k_3[] = "ndarray is not Fortran contiguous"; -static char __pyx_k_5[] = "Non-native byte order not supported"; -static char __pyx_k_7[] = "unknown dtype code in numpy.pxd (%d)"; -static char __pyx_k_8[] = "Format string allocated too short, see comment in numpy.pxd"; -static char __pyx_k_11[] = "Format string allocated too short."; -static char __pyx_k_13[] = "\nPython access to core fff functions written in C. This module is\nmainly used for unitary tests.\n\nAuthor: Alexis Roche, 2008.\n"; -static char __pyx_k_14[] = "0.1"; -static char __pyx_k_17[] = "/Users/mb312/dev_trees/nipy/nipy/labs/bindings/linalg.pyx"; -static char __pyx_k_18[] = "nipy.labs.bindings.linalg"; -static char __pyx_k__A[] = "A"; -static char __pyx_k__B[] = "B"; -static char __pyx_k__C[] = "C"; -static char __pyx_k__D[] = "D"; -static char __pyx_k__H[] = "H"; -static char __pyx_k__I[] = "I"; -static char __pyx_k__L[] = "L"; -static char __pyx_k__O[] = "O"; -static char __pyx_k__Q[] = "Q"; -static char __pyx_k__X[] = "X"; -static char __pyx_k__Y[] = "Y"; -static char __pyx_k__Z[] = "Z"; -static char __pyx_k__a[] = "a"; -static char __pyx_k__b[] = "b"; -static char __pyx_k__c[] = "c"; -static char __pyx_k__d[] = "d"; -static char __pyx_k__f[] = "f"; -static char __pyx_k__g[] = "g"; -static char __pyx_k__h[] = "h"; -static char __pyx_k__i[] = "i"; -static char __pyx_k__j[] = "j"; -static char __pyx_k__l[] = "l"; -static char __pyx_k__m[] = "m"; -static char __pyx_k__q[] = "q"; -static char __pyx_k__r[] = "r"; -static char __pyx_k__s[] = "s"; -static char __pyx_k__x[] = "x"; -static char __pyx_k__y[] = "y"; -static char __pyx_k__z[] = "z"; -static char __pyx_k__Zd[] = "Zd"; -static char __pyx_k__Zf[] = "Zf"; -static char __pyx_k__Zg[] = "Zg"; -static char __pyx_k__np[] = "np"; -static char __pyx_k__xi[] = "xi"; -static char __pyx_k__aij[] = "aij"; -static char __pyx_k__Diag[] = "Diag"; -static char __pyx_k__Side[] = "Side"; -static char __pyx_k__Uplo[] = "Uplo"; -static char __pyx_k__beta[] = "beta"; -static char __pyx_k__Trans[] = "Trans"; -static char __pyx_k__alpha[] = "alpha"; -static char __pyx_k__fixed[] = "fixed"; -static char __pyx_k__numpy[] = "numpy"; -static char __pyx_k__range[] = "range"; -static char __pyx_k__TransA[] = "TransA"; -static char __pyx_k__TransB[] = "TransB"; -static char __pyx_k__interp[] = "interp"; -static char __pyx_k____main__[] = "__main__"; -static char __pyx_k____test__[] = "__test__"; -static char __pyx_k__blas_ddot[] = "blas_ddot"; -static char __pyx_k__ValueError[] = "ValueError"; -static char __pyx_k__blas_dasum[] = "blas_dasum"; -static char __pyx_k__blas_daxpy[] = "blas_daxpy"; -static char __pyx_k__blas_dgemm[] = "blas_dgemm"; -static char __pyx_k__blas_dnrm2[] = "blas_dnrm2"; -static char __pyx_k__blas_dscal[] = "blas_dscal"; -static char __pyx_k__blas_dsymm[] = "blas_dsymm"; -static char __pyx_k__blas_dsyrk[] = "blas_dsyrk"; -static char __pyx_k__blas_dtrmm[] = "blas_dtrmm"; -static char __pyx_k__blas_dtrsm[] = "blas_dtrsm"; -static char __pyx_k__matrix_add[] = "matrix_add"; -static char __pyx_k__matrix_get[] = "matrix_get"; -static char __pyx_k__vector_add[] = "vector_add"; -static char __pyx_k__vector_div[] = "vector_div"; -static char __pyx_k__vector_get[] = "vector_get"; -static char __pyx_k__vector_mul[] = "vector_mul"; -static char __pyx_k__vector_sad[] = "vector_sad"; -static char __pyx_k__vector_set[] = "vector_set"; -static char __pyx_k__vector_ssd[] = "vector_ssd"; -static char __pyx_k__vector_sub[] = "vector_sub"; -static char __pyx_k__vector_sum[] = "vector_sum"; -static char __pyx_k____version__[] = "__version__"; -static char __pyx_k__blas_dsyr2k[] = "blas_dsyr2k"; -static char __pyx_k__RuntimeError[] = "RuntimeError"; -static char __pyx_k__vector_scale[] = "vector_scale"; -static char __pyx_k__vector_median[] = "vector_median"; -static char __pyx_k__vector_set_all[] = "vector_set_all"; -static char __pyx_k__vector_quantile[] = "vector_quantile"; -static char __pyx_k__matrix_transpose[] = "matrix_transpose"; -static char __pyx_k__vector_add_constant[] = "vector_add_constant"; -static PyObject *__pyx_kp_u_1; -static PyObject *__pyx_kp_u_11; -static PyObject *__pyx_kp_s_14; -static PyObject *__pyx_kp_s_17; -static PyObject *__pyx_n_s_18; -static PyObject *__pyx_kp_u_3; -static PyObject *__pyx_kp_u_5; -static PyObject *__pyx_kp_u_7; -static PyObject *__pyx_kp_u_8; -static PyObject *__pyx_n_s__A; -static PyObject *__pyx_n_s__B; -static PyObject *__pyx_n_s__C; -static PyObject *__pyx_n_s__D; -static PyObject *__pyx_n_s__Diag; -static PyObject *__pyx_n_s__RuntimeError; -static PyObject *__pyx_n_s__Side; -static PyObject *__pyx_n_s__Trans; -static PyObject *__pyx_n_s__TransA; -static PyObject *__pyx_n_s__TransB; -static PyObject *__pyx_n_s__Uplo; -static PyObject *__pyx_n_s__ValueError; -static PyObject *__pyx_n_s__X; -static PyObject *__pyx_n_s__Y; -static PyObject *__pyx_n_s__Z; -static PyObject *__pyx_n_s____main__; -static PyObject *__pyx_n_s____test__; -static PyObject *__pyx_n_s____version__; -static PyObject *__pyx_n_s__a; -static PyObject *__pyx_n_s__aij; -static PyObject *__pyx_n_s__alpha; -static PyObject *__pyx_n_s__b; -static PyObject *__pyx_n_s__beta; -static PyObject *__pyx_n_s__blas_dasum; -static PyObject *__pyx_n_s__blas_daxpy; -static PyObject *__pyx_n_s__blas_ddot; -static PyObject *__pyx_n_s__blas_dgemm; -static PyObject *__pyx_n_s__blas_dnrm2; -static PyObject *__pyx_n_s__blas_dscal; -static PyObject *__pyx_n_s__blas_dsymm; -static PyObject *__pyx_n_s__blas_dsyr2k; -static PyObject *__pyx_n_s__blas_dsyrk; -static PyObject *__pyx_n_s__blas_dtrmm; -static PyObject *__pyx_n_s__blas_dtrsm; -static PyObject *__pyx_n_s__c; -static PyObject *__pyx_n_s__d; -static PyObject *__pyx_n_s__fixed; -static PyObject *__pyx_n_s__i; -static PyObject *__pyx_n_s__interp; -static PyObject *__pyx_n_s__j; -static PyObject *__pyx_n_s__m; -static PyObject *__pyx_n_s__matrix_add; -static PyObject *__pyx_n_s__matrix_get; -static PyObject *__pyx_n_s__matrix_transpose; -static PyObject *__pyx_n_s__np; -static PyObject *__pyx_n_s__numpy; -static PyObject *__pyx_n_s__q; -static PyObject *__pyx_n_s__r; -static PyObject *__pyx_n_s__range; -static PyObject *__pyx_n_s__s; -static PyObject *__pyx_n_s__vector_add; -static PyObject *__pyx_n_s__vector_add_constant; -static PyObject *__pyx_n_s__vector_div; -static PyObject *__pyx_n_s__vector_get; -static PyObject *__pyx_n_s__vector_median; -static PyObject *__pyx_n_s__vector_mul; -static PyObject *__pyx_n_s__vector_quantile; -static PyObject *__pyx_n_s__vector_sad; -static PyObject *__pyx_n_s__vector_scale; -static PyObject *__pyx_n_s__vector_set; -static PyObject *__pyx_n_s__vector_set_all; -static PyObject *__pyx_n_s__vector_ssd; -static PyObject *__pyx_n_s__vector_sub; -static PyObject *__pyx_n_s__vector_sum; -static PyObject *__pyx_n_s__x; -static PyObject *__pyx_n_s__xi; -static PyObject *__pyx_n_s__y; -static PyObject *__pyx_n_s__z; -static PyObject *__pyx_int_15; -static PyObject *__pyx_k_tuple_2; -static PyObject *__pyx_k_tuple_4; -static PyObject *__pyx_k_tuple_6; -static PyObject *__pyx_k_tuple_9; -static PyObject *__pyx_k_tuple_10; -static PyObject *__pyx_k_tuple_12; -static PyObject *__pyx_k_tuple_15; -static PyObject *__pyx_k_tuple_19; -static PyObject *__pyx_k_tuple_21; -static PyObject *__pyx_k_tuple_23; -static PyObject *__pyx_k_tuple_25; -static PyObject *__pyx_k_tuple_27; -static PyObject *__pyx_k_tuple_29; -static PyObject *__pyx_k_tuple_31; -static PyObject *__pyx_k_tuple_33; -static PyObject *__pyx_k_tuple_35; -static PyObject *__pyx_k_tuple_37; -static PyObject *__pyx_k_tuple_39; -static PyObject *__pyx_k_tuple_41; -static PyObject *__pyx_k_tuple_43; -static PyObject *__pyx_k_tuple_45; -static PyObject *__pyx_k_tuple_47; -static PyObject *__pyx_k_tuple_49; -static PyObject *__pyx_k_tuple_51; -static PyObject *__pyx_k_tuple_53; -static PyObject *__pyx_k_tuple_55; -static PyObject *__pyx_k_tuple_57; -static PyObject *__pyx_k_tuple_59; -static PyObject *__pyx_k_tuple_61; -static PyObject *__pyx_k_tuple_63; -static PyObject *__pyx_k_tuple_65; -static PyObject *__pyx_k_tuple_67; -static PyObject *__pyx_k_tuple_69; -static PyObject *__pyx_k_tuple_71; -static PyObject *__pyx_k_codeobj_16; -static PyObject *__pyx_k_codeobj_20; -static PyObject *__pyx_k_codeobj_22; -static PyObject *__pyx_k_codeobj_24; -static PyObject *__pyx_k_codeobj_26; -static PyObject *__pyx_k_codeobj_28; -static PyObject *__pyx_k_codeobj_30; -static PyObject *__pyx_k_codeobj_32; -static PyObject *__pyx_k_codeobj_34; -static PyObject *__pyx_k_codeobj_36; -static PyObject *__pyx_k_codeobj_38; -static PyObject *__pyx_k_codeobj_40; -static PyObject *__pyx_k_codeobj_42; -static PyObject *__pyx_k_codeobj_44; -static PyObject *__pyx_k_codeobj_46; -static PyObject *__pyx_k_codeobj_48; -static PyObject *__pyx_k_codeobj_50; -static PyObject *__pyx_k_codeobj_52; -static PyObject *__pyx_k_codeobj_54; -static PyObject *__pyx_k_codeobj_56; -static PyObject *__pyx_k_codeobj_58; -static PyObject *__pyx_k_codeobj_60; -static PyObject *__pyx_k_codeobj_62; -static PyObject *__pyx_k_codeobj_64; -static PyObject *__pyx_k_codeobj_66; -static PyObject *__pyx_k_codeobj_68; -static PyObject *__pyx_k_codeobj_70; -static PyObject *__pyx_k_codeobj_72; +static char __pyx_k_A[] = "A"; +static char __pyx_k_B[] = "B"; +static char __pyx_k_C[] = "C"; +static char __pyx_k_D[] = "D"; +static char __pyx_k_H[] = "H"; +static char __pyx_k_I[] = "I"; +static char __pyx_k_L[] = "L"; +static char __pyx_k_O[] = "O"; +static char __pyx_k_Q[] = "Q"; +static char __pyx_k_X[] = "X"; +static char __pyx_k_Y[] = "Y"; +static char __pyx_k_Z[] = "Z"; +static char __pyx_k_a[] = "a"; +static char __pyx_k_b[] = "b"; +static char __pyx_k_c[] = "c"; +static char __pyx_k_d[] = "d"; +static char __pyx_k_f[] = "f"; +static char __pyx_k_g[] = "g"; +static char __pyx_k_h[] = "h"; +static char __pyx_k_i[] = "i"; +static char __pyx_k_j[] = "j"; +static char __pyx_k_l[] = "l"; +static char __pyx_k_m[] = "m"; +static char __pyx_k_q[] = "q"; +static char __pyx_k_r[] = "r"; +static char __pyx_k_s[] = "s"; +static char __pyx_k_x[] = "x"; +static char __pyx_k_y[] = "y"; +static char __pyx_k_z[] = "z"; +static char __pyx_k_Zd[] = "Zd"; +static char __pyx_k_Zf[] = "Zf"; +static char __pyx_k_Zg[] = "Zg"; +static char __pyx_k_np[] = "np"; +static char __pyx_k_xi[] = "xi"; +static char __pyx_k_0_1[] = "0.1"; +static char __pyx_k_aij[] = "aij"; +static char __pyx_k_Side[] = "Side"; +static char __pyx_k_Uplo[] = "Uplo"; +static char __pyx_k_beta[] = "beta"; +static char __pyx_k_ddot[] = "ddot"; +static char __pyx_k_dger[] = "dger"; +static char __pyx_k_drot[] = "drot"; +static char __pyx_k_main[] = "__main__"; +static char __pyx_k_test[] = "__test__"; +static char __pyx_k_Trans[] = "Trans"; +static char __pyx_k_alpha[] = "alpha"; +static char __pyx_k_dasum[] = "dasum"; +static char __pyx_k_daxpy[] = "daxpy"; +static char __pyx_k_dcopy[] = "dcopy"; +static char __pyx_k_dgemm[] = "dgemm"; +static char __pyx_k_dgemv[] = "dgemv"; +static char __pyx_k_dnrm2[] = "dnrm2"; +static char __pyx_k_drotg[] = "drotg"; +static char __pyx_k_drotm[] = "drotm"; +static char __pyx_k_dscal[] = "dscal"; +static char __pyx_k_dswap[] = "dswap"; +static char __pyx_k_dsymm[] = "dsymm"; +static char __pyx_k_dsymv[] = "dsymv"; +static char __pyx_k_dsyrk[] = "dsyrk"; +static char __pyx_k_dtrmv[] = "dtrmv"; +static char __pyx_k_fixed[] = "fixed"; +static char __pyx_k_numpy[] = "numpy"; +static char __pyx_k_range[] = "range"; +static char __pyx_k_TransA[] = "TransA"; +static char __pyx_k_TransB[] = "TransB"; +static char __pyx_k_dgeqrf[] = "dgeqrf"; +static char __pyx_k_dgesdd[] = "dgesdd"; +static char __pyx_k_dgetrf[] = "dgetrf"; +static char __pyx_k_dpotrf[] = "dpotrf"; +static char __pyx_k_drotmg[] = "drotmg"; +static char __pyx_k_dsyr2k[] = "dsyr2k"; +static char __pyx_k_idamax[] = "idamax"; +static char __pyx_k_import[] = "__import__"; +static char __pyx_k_interp[] = "interp"; +static char __pyx_k_version[] = "__version__"; +static char __pyx_k_cpointer[] = "_cpointer"; +static char __pyx_k_blas_ddot[] = "blas_ddot"; +static char __pyx_k_ValueError[] = "ValueError"; +static char __pyx_k_blas_dasum[] = "blas_dasum"; +static char __pyx_k_blas_daxpy[] = "blas_daxpy"; +static char __pyx_k_blas_dgemm[] = "blas_dgemm"; +static char __pyx_k_blas_dnrm2[] = "blas_dnrm2"; +static char __pyx_k_blas_dscal[] = "blas_dscal"; +static char __pyx_k_blas_dsymm[] = "blas_dsymm"; +static char __pyx_k_blas_dsyrk[] = "blas_dsyrk"; +static char __pyx_k_matrix_add[] = "matrix_add"; +static char __pyx_k_matrix_get[] = "matrix_get"; +static char __pyx_k_vector_add[] = "vector_add"; +static char __pyx_k_vector_div[] = "vector_div"; +static char __pyx_k_vector_get[] = "vector_get"; +static char __pyx_k_vector_mul[] = "vector_mul"; +static char __pyx_k_vector_sad[] = "vector_sad"; +static char __pyx_k_vector_set[] = "vector_set"; +static char __pyx_k_vector_ssd[] = "vector_ssd"; +static char __pyx_k_vector_sub[] = "vector_sub"; +static char __pyx_k_vector_sum[] = "vector_sum"; +static char __pyx_k_blas_dsyr2k[] = "blas_dsyr2k"; +static char __pyx_k_RuntimeError[] = "RuntimeError"; +static char __pyx_k_vector_scale[] = "vector_scale"; +static char __pyx_k_vector_median[] = "vector_median"; +static char __pyx_k_vector_set_all[] = "vector_set_all"; +static char __pyx_k_vector_quantile[] = "vector_quantile"; +static char __pyx_k_matrix_transpose[] = "matrix_transpose"; +static char __pyx_k_scipy_linalg__fblas[] = "scipy.linalg._fblas"; +static char __pyx_k_vector_add_constant[] = "vector_add_constant"; +static char __pyx_k_scipy_linalg__flapack[] = "scipy.linalg._flapack"; +static char __pyx_k_nipy_labs_bindings_linalg[] = "nipy.labs.bindings.linalg"; +static char __pyx_k_ndarray_is_not_C_contiguous[] = "ndarray is not C contiguous"; +static char __pyx_k_Python_access_to_core_fff_funct[] = "\nPython access to core fff functions written in C. This module is\nmainly used for unitary tests.\n\nAuthor: Alexis Roche, 2008.\n"; +static char __pyx_k_home_roche_git_nipy_nipy_labs_b[] = "/home/roche/git/nipy/nipy/labs/bindings/linalg.pyx"; +static char __pyx_k_unknown_dtype_code_in_numpy_pxd[] = "unknown dtype code in numpy.pxd (%d)"; +static char __pyx_k_Format_string_allocated_too_shor[] = "Format string allocated too short, see comment in numpy.pxd"; +static char __pyx_k_Non_native_byte_order_not_suppor[] = "Non-native byte order not supported"; +static char __pyx_k_ndarray_is_not_Fortran_contiguou[] = "ndarray is not Fortran contiguous"; +static char __pyx_k_Format_string_allocated_too_shor_2[] = "Format string allocated too short."; +static PyObject *__pyx_kp_s_0_1; +static PyObject *__pyx_n_s_A; +static PyObject *__pyx_n_s_B; +static PyObject *__pyx_n_s_C; +static PyObject *__pyx_n_s_D; +static PyObject *__pyx_kp_u_Format_string_allocated_too_shor; +static PyObject *__pyx_kp_u_Format_string_allocated_too_shor_2; +static PyObject *__pyx_kp_u_Non_native_byte_order_not_suppor; +static PyObject *__pyx_n_s_RuntimeError; +static PyObject *__pyx_n_s_Side; +static PyObject *__pyx_n_s_Trans; +static PyObject *__pyx_n_s_TransA; +static PyObject *__pyx_n_s_TransB; +static PyObject *__pyx_n_s_Uplo; +static PyObject *__pyx_n_s_ValueError; +static PyObject *__pyx_n_s_X; +static PyObject *__pyx_n_s_Y; +static PyObject *__pyx_n_s_Z; +static PyObject *__pyx_n_s_a; +static PyObject *__pyx_n_s_aij; +static PyObject *__pyx_n_s_alpha; +static PyObject *__pyx_n_s_b; +static PyObject *__pyx_n_s_beta; +static PyObject *__pyx_n_s_blas_dasum; +static PyObject *__pyx_n_s_blas_daxpy; +static PyObject *__pyx_n_s_blas_ddot; +static PyObject *__pyx_n_s_blas_dgemm; +static PyObject *__pyx_n_s_blas_dnrm2; +static PyObject *__pyx_n_s_blas_dscal; +static PyObject *__pyx_n_s_blas_dsymm; +static PyObject *__pyx_n_s_blas_dsyr2k; +static PyObject *__pyx_n_s_blas_dsyrk; +static PyObject *__pyx_n_s_c; +static PyObject *__pyx_n_s_cpointer; +static PyObject *__pyx_n_s_d; +static PyObject *__pyx_n_s_dasum; +static PyObject *__pyx_n_s_daxpy; +static PyObject *__pyx_n_s_dcopy; +static PyObject *__pyx_n_s_ddot; +static PyObject *__pyx_n_s_dgemm; +static PyObject *__pyx_n_s_dgemv; +static PyObject *__pyx_n_s_dgeqrf; +static PyObject *__pyx_n_s_dger; +static PyObject *__pyx_n_s_dgesdd; +static PyObject *__pyx_n_s_dgetrf; +static PyObject *__pyx_n_s_dnrm2; +static PyObject *__pyx_n_s_dpotrf; +static PyObject *__pyx_n_s_drot; +static PyObject *__pyx_n_s_drotg; +static PyObject *__pyx_n_s_drotm; +static PyObject *__pyx_n_s_drotmg; +static PyObject *__pyx_n_s_dscal; +static PyObject *__pyx_n_s_dswap; +static PyObject *__pyx_n_s_dsymm; +static PyObject *__pyx_n_s_dsymv; +static PyObject *__pyx_n_s_dsyr2k; +static PyObject *__pyx_n_s_dsyrk; +static PyObject *__pyx_n_s_dtrmv; +static PyObject *__pyx_n_s_fixed; +static PyObject *__pyx_kp_s_home_roche_git_nipy_nipy_labs_b; +static PyObject *__pyx_n_s_i; +static PyObject *__pyx_n_s_idamax; +static PyObject *__pyx_n_s_import; +static PyObject *__pyx_n_s_interp; 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goto __pyx_L0; - __pyx_r = Py_None; __Pyx_INCREF(Py_None); - goto __pyx_L0; + /* "nipy/labs/bindings/linalg.pyx":96 + * return xi + * + * def vector_set(X, size_t i, double a): # <<<<<<<<<<<<<< + * """ + * Set i-th element. + */ + + /* function exit code */ __pyx_L1_error:; __Pyx_XDECREF(__pyx_t_1); __Pyx_AddTraceback("nipy.labs.bindings.linalg.vector_set", __pyx_clineno, __pyx_lineno, __pyx_filename); @@ -1483,6 +2172,14 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_2vector_set(CYTHON_UNUSE return __pyx_r; } +/* "nipy/labs/bindings/linalg.pyx":110 + * return Y + * + * def vector_set_all(X, double a): # <<<<<<<<<<<<<< + * """ + * Set to a constant value. + */ + /* Python wrapper */ static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_5vector_set_all(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/ static char __pyx_doc_4nipy_4labs_8bindings_6linalg_4vector_set_all[] = "\n Set to a constant value.\n vector_set_all(x, a)\n "; @@ -1490,11 +2187,14 @@ static PyMethodDef __pyx_mdef_4nipy_4labs_8bindings_6linalg_5vector_set_all = {_ static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_5vector_set_all(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds) { PyObject *__pyx_v_X = 0; double __pyx_v_a; + int __pyx_lineno = 0; + const char *__pyx_filename = NULL; + int __pyx_clineno = 0; PyObject *__pyx_r = 0; __Pyx_RefNannyDeclarations __Pyx_RefNannySetupContext("vector_set_all (wrapper)", 0); { - static PyObject **__pyx_pyargnames[] = {&__pyx_n_s__X,&__pyx_n_s__a,0}; + static PyObject **__pyx_pyargnames[] = {&__pyx_n_s_X,&__pyx_n_s_a,0}; PyObject* values[2] = {0,0}; if (unlikely(__pyx_kwds)) { Py_ssize_t kw_args; @@ -1508,16 +2208,16 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_5vector_set_all(PyObject kw_args = PyDict_Size(__pyx_kwds); switch (pos_args) { case 0: - if (likely((values[0] = PyDict_GetItem(__pyx_kwds, __pyx_n_s__X)) != 0)) kw_args--; + if (likely((values[0] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_X)) != 0)) kw_args--; else goto __pyx_L5_argtuple_error; case 1: - if (likely((values[1] = PyDict_GetItem(__pyx_kwds, __pyx_n_s__a)) != 0)) kw_args--; + if (likely((values[1] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_a)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("vector_set_all", 1, 2, 2, 1); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 117; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("vector_set_all", 1, 2, 2, 1); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 110; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } if (unlikely(kw_args > 0)) { - if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "vector_set_all") < 0)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 117; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "vector_set_all") < 0)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 110; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } else if (PyTuple_GET_SIZE(__pyx_args) != 2) { goto __pyx_L5_argtuple_error; @@ -1526,29 +2226,23 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_5vector_set_all(PyObject values[1] = PyTuple_GET_ITEM(__pyx_args, 1); } __pyx_v_X = values[0]; - __pyx_v_a = __pyx_PyFloat_AsDouble(values[1]); 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- /* "nipy/labs/bindings/linalg.pyx":138 + /* "nipy/labs/bindings/linalg.pyx":131 * cdef fff_vector *x, *y * x = fff_vector_fromPyArray(X) * y = fff_vector_new(x.size) # <<<<<<<<<<<<<< @@ -1747,7 +2447,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_6vector_scale(CYTHON_UNU */ __pyx_v_y = fff_vector_new(__pyx_v_x->size); - /* "nipy/labs/bindings/linalg.pyx":139 + /* "nipy/labs/bindings/linalg.pyx":132 * x = fff_vector_fromPyArray(X) * y = fff_vector_new(x.size) * fff_vector_memcpy(y, x) # <<<<<<<<<<<<<< @@ -1756,7 +2456,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_6vector_scale(CYTHON_UNU */ fff_vector_memcpy(__pyx_v_y, __pyx_v_x); - /* "nipy/labs/bindings/linalg.pyx":140 + /* "nipy/labs/bindings/linalg.pyx":133 * y = fff_vector_new(x.size) * fff_vector_memcpy(y, x) * fff_vector_scale(y, a) # <<<<<<<<<<<<<< @@ -1765,7 +2465,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_6vector_scale(CYTHON_UNU */ fff_vector_scale(__pyx_v_y, __pyx_v_a); - /* "nipy/labs/bindings/linalg.pyx":141 + /* "nipy/labs/bindings/linalg.pyx":134 * fff_vector_memcpy(y, x) * fff_vector_scale(y, a) * fff_vector_delete(x) # <<<<<<<<<<<<<< @@ -1774,19 +2474,19 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_6vector_scale(CYTHON_UNU */ fff_vector_delete(__pyx_v_x); 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double __pyx_v_a; + int __pyx_lineno = 0; + const char *__pyx_filename = NULL; + int __pyx_clineno = 0; PyObject *__pyx_r = 0; __Pyx_RefNannyDeclarations __Pyx_RefNannySetupContext("vector_add_constant (wrapper)", 0); { - static PyObject **__pyx_pyargnames[] = {&__pyx_n_s__X,&__pyx_n_s__a,0}; + static PyObject **__pyx_pyargnames[] = {&__pyx_n_s_X,&__pyx_n_s_a,0}; PyObject* values[2] = {0,0}; if (unlikely(__pyx_kwds)) { Py_ssize_t kw_args; @@ -1836,16 +2554,16 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_9vector_add_constant(PyO kw_args = PyDict_Size(__pyx_kwds); switch (pos_args) { case 0: - if (likely((values[0] = PyDict_GetItem(__pyx_kwds, __pyx_n_s__X)) != 0)) kw_args--; + if (likely((values[0] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_X)) != 0)) kw_args--; else goto __pyx_L5_argtuple_error; case 1: - if (likely((values[1] = PyDict_GetItem(__pyx_kwds, __pyx_n_s__a)) != 0)) kw_args--; + if (likely((values[1] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_a)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("vector_add_constant", 1, 2, 2, 1); 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__pyx_lineno = 200; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } if (unlikely(kw_args > 0)) { - if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "vector_div") < 0)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 207; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "vector_div") < 0)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 200; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } else if (PyTuple_GET_SIZE(__pyx_args) != 2) { goto __pyx_L5_argtuple_error; @@ -2583,25 +3328,19 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_17vector_div(PyObject *_ } goto __pyx_L4_argument_unpacking_done; __pyx_L5_argtuple_error:; - __Pyx_RaiseArgtupleInvalid("vector_div", 1, 2, 2, PyTuple_GET_SIZE(__pyx_args)); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 207; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("vector_div", 1, 2, 2, PyTuple_GET_SIZE(__pyx_args)); 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+ if (likely((values[0] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_X)) != 0)) kw_args--; else goto __pyx_L5_argtuple_error; case 1: if (kw_args > 0) { - PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s__m); + PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s_m); if (value) { values[1] = value; kw_args--; } } case 2: if (kw_args > 0) { - PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s__fixed); + PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s_fixed); if (value) { values[2] = value; kw_args--; } } } if (unlikely(kw_args > 0)) { - if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "vector_ssd") < 0)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 236; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "vector_ssd") < 0)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 229; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } else { switch (PyTuple_GET_SIZE(__pyx_args)) { @@ -2866,33 +3623,27 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_21vector_ssd(PyObject *_ } __pyx_v_X = values[0]; 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{ - static PyObject **__pyx_pyargnames[] = {&__pyx_n_s__X,&__pyx_n_s__r,&__pyx_n_s__interp,0}; + static PyObject **__pyx_pyargnames[] = {&__pyx_n_s_X,&__pyx_n_s_r,&__pyx_n_s_interp,0}; PyObject* values[3] = {0,0,0}; if (unlikely(__pyx_kwds)) { Py_ssize_t kw_args; @@ -3221,21 +4002,21 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_27vector_quantile(PyObje kw_args = PyDict_Size(__pyx_kwds); switch (pos_args) { case 0: - if (likely((values[0] = PyDict_GetItem(__pyx_kwds, __pyx_n_s__X)) != 0)) kw_args--; + if (likely((values[0] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_X)) != 0)) kw_args--; else goto __pyx_L5_argtuple_error; case 1: - if (likely((values[1] = PyDict_GetItem(__pyx_kwds, __pyx_n_s__r)) != 0)) kw_args--; + if (likely((values[1] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_r)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("vector_quantile", 1, 3, 3, 1); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 272; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("vector_quantile", 1, 3, 3, 1); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 265; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } case 2: - if (likely((values[2] = PyDict_GetItem(__pyx_kwds, __pyx_n_s__interp)) != 0)) kw_args--; + if (likely((values[2] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_interp)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("vector_quantile", 1, 3, 3, 2); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 272; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("vector_quantile", 1, 3, 3, 2); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 265; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } if (unlikely(kw_args > 0)) { - if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "vector_quantile") < 0)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 272; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "vector_quantile") < 0)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 265; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } else if (PyTuple_GET_SIZE(__pyx_args) != 3) { goto __pyx_L5_argtuple_error; @@ -3245,30 +4026,24 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_27vector_quantile(PyObje values[2] = PyTuple_GET_ITEM(__pyx_args, 2); } __pyx_v_X = values[0]; - __pyx_v_r = __pyx_PyFloat_AsDouble(values[1]); if (unlikely((__pyx_v_r == (double)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 272; __pyx_clineno = __LINE__; goto __pyx_L3_error;} - __pyx_v_interp = __Pyx_PyInt_AsInt(values[2]); if (unlikely((__pyx_v_interp == (int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 272; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_r = __pyx_PyFloat_AsDouble(values[1]); if (unlikely((__pyx_v_r == (double)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 265; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_interp = __Pyx_PyInt_As_int(values[2]); if (unlikely((__pyx_v_interp == (int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[1]; 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- /* "nipy/labs/bindings/linalg.pyx":280 + /* "nipy/labs/bindings/linalg.pyx":273 * cdef double q * x = fff_vector_fromPyArray(X) * q = fff_vector_quantile(x, r, interp) # <<<<<<<<<<<<<< @@ -3302,7 +4074,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_26vector_quantile(CYTHON */ __pyx_v_q = fff_vector_quantile(__pyx_v_x, __pyx_v_r, __pyx_v_interp); - /* "nipy/labs/bindings/linalg.pyx":281 + /* "nipy/labs/bindings/linalg.pyx":274 * x = fff_vector_fromPyArray(X) * q = fff_vector_quantile(x, r, interp) * fff_vector_delete(x) # <<<<<<<<<<<<<< @@ -3311,7 +4083,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_26vector_quantile(CYTHON */ fff_vector_delete(__pyx_v_x); - /* "nipy/labs/bindings/linalg.pyx":282 + /* "nipy/labs/bindings/linalg.pyx":275 * q = fff_vector_quantile(x, r, interp) * fff_vector_delete(x) * return q # <<<<<<<<<<<<<< @@ -3319,14 +4091,21 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_26vector_quantile(CYTHON * */ __Pyx_XDECREF(__pyx_r); 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+ if (likely((values[0] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_A)) != 0)) kw_args--; else goto __pyx_L5_argtuple_error; case 1: - if (likely((values[1] = PyDict_GetItem(__pyx_kwds, __pyx_n_s__i)) != 0)) kw_args--; + if (likely((values[1] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_i)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("matrix_get", 1, 3, 3, 1); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 286; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("matrix_get", 1, 3, 3, 1); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 279; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } case 2: - if (likely((values[2] = PyDict_GetItem(__pyx_kwds, __pyx_n_s__j)) != 0)) kw_args--; + if (likely((values[2] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_j)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("matrix_get", 1, 3, 3, 2); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 286; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("matrix_get", 1, 3, 3, 2); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 279; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } if (unlikely(kw_args > 0)) { - if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "matrix_get") < 0)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 286; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "matrix_get") < 0)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 279; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } else if (PyTuple_GET_SIZE(__pyx_args) != 3) { goto __pyx_L5_argtuple_error; @@ -3388,30 +4178,24 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_29matrix_get(PyObject *_ values[2] = PyTuple_GET_ITEM(__pyx_args, 2); } __pyx_v_A = values[0]; - __pyx_v_i = __Pyx_PyInt_AsSize_t(values[1]); if (unlikely((__pyx_v_i == (size_t)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 286; __pyx_clineno = __LINE__; goto __pyx_L3_error;} - __pyx_v_j = __Pyx_PyInt_AsSize_t(values[2]); 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return __pyx_r; } -/* "nipy/labs/bindings/linalg.pyx":298 - * return aij - * - * def matrix_transpose(A): # <<<<<<<<<<<<<< - * """ - * Transpose a matrix. - */ - static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_30matrix_transpose(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_A) { fff_matrix *__pyx_v_a; fff_matrix *__pyx_v_b; @@ -3513,20 +4303,17 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_30matrix_transpose(CYTHO int __pyx_clineno = 0; __Pyx_RefNannySetupContext("matrix_transpose", 0); - /* "nipy/labs/bindings/linalg.pyx":304 + /* "nipy/labs/bindings/linalg.pyx":297 * """ * cdef fff_matrix *a, *b * a = fff_matrix_fromPyArray(A) # <<<<<<<<<<<<<< * b = fff_matrix_new(a.size2, a.size1) * fff_matrix_transpose(b, a) */ - if (!(likely(((__pyx_v_A) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_A, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 304; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __pyx_t_1 = __pyx_v_A; - __Pyx_INCREF(__pyx_t_1); - __pyx_v_a = fff_matrix_fromPyArray(((PyArrayObject *)__pyx_t_1)); - __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; + if (!(likely(((__pyx_v_A) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_A, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 297; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_v_a = fff_matrix_fromPyArray(((PyArrayObject *)__pyx_v_A)); - /* "nipy/labs/bindings/linalg.pyx":305 + /* "nipy/labs/bindings/linalg.pyx":298 * cdef fff_matrix *a, *b * a = fff_matrix_fromPyArray(A) * b = fff_matrix_new(a.size2, a.size1) # <<<<<<<<<<<<<< @@ -3535,7 +4322,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_30matrix_transpose(CYTHO */ __pyx_v_b = fff_matrix_new(__pyx_v_a->size2, __pyx_v_a->size1); - /* "nipy/labs/bindings/linalg.pyx":306 + /* "nipy/labs/bindings/linalg.pyx":299 * a = fff_matrix_fromPyArray(A) * b = fff_matrix_new(a.size2, a.size1) * fff_matrix_transpose(b, a) # <<<<<<<<<<<<<< @@ -3544,7 +4331,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_30matrix_transpose(CYTHO */ fff_matrix_transpose(__pyx_v_b, __pyx_v_a); 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goto __pyx_L0; - __pyx_r = Py_None; __Pyx_INCREF(Py_None); - goto __pyx_L0; + /* "nipy/labs/bindings/linalg.pyx":291 + * return aij + * + * def matrix_transpose(A): # <<<<<<<<<<<<<< + * """ + * Transpose a matrix. + */ + + /* function exit code */ __pyx_L1_error:; __Pyx_XDECREF(__pyx_t_1); __Pyx_AddTraceback("nipy.labs.bindings.linalg.matrix_transpose", __pyx_clineno, __pyx_lineno, __pyx_filename); @@ -3590,6 +4384,14 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_30matrix_transpose(CYTHO return __pyx_r; } +/* "nipy/labs/bindings/linalg.pyx":304 + * return B + * + * def matrix_add(A, B): # <<<<<<<<<<<<<< + * """ + * C = matrix_add(A, B) + */ + /* Python wrapper */ static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_33matrix_add(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/ static char __pyx_doc_4nipy_4labs_8bindings_6linalg_32matrix_add[] = "\n C = matrix_add(A, B)\n "; @@ -3597,11 +4399,14 @@ static PyMethodDef __pyx_mdef_4nipy_4labs_8bindings_6linalg_33matrix_add = {__Py static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_33matrix_add(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds) { PyObject *__pyx_v_A = 0; PyObject *__pyx_v_B = 0; + int __pyx_lineno = 0; + const char *__pyx_filename = NULL; + int __pyx_clineno = 0; PyObject *__pyx_r = 0; __Pyx_RefNannyDeclarations __Pyx_RefNannySetupContext("matrix_add (wrapper)", 0); { - static PyObject **__pyx_pyargnames[] = {&__pyx_n_s__A,&__pyx_n_s__B,0}; + static PyObject **__pyx_pyargnames[] = {&__pyx_n_s_A,&__pyx_n_s_B,0}; PyObject* values[2] = {0,0}; if (unlikely(__pyx_kwds)) { Py_ssize_t kw_args; @@ -3615,16 +4420,16 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_33matrix_add(PyObject *_ kw_args = PyDict_Size(__pyx_kwds); switch (pos_args) { case 0: - if (likely((values[0] = PyDict_GetItem(__pyx_kwds, __pyx_n_s__A)) != 0)) kw_args--; + if (likely((values[0] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_A)) != 0)) kw_args--; else goto __pyx_L5_argtuple_error; case 1: - if (likely((values[1] = PyDict_GetItem(__pyx_kwds, __pyx_n_s__B)) != 0)) kw_args--; + if (likely((values[1] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_B)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("matrix_add", 1, 2, 2, 1); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 311; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("matrix_add", 1, 2, 2, 1); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 304; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } if (unlikely(kw_args > 0)) { - if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "matrix_add") < 0)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 311; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "matrix_add") < 0)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 304; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } else if (PyTuple_GET_SIZE(__pyx_args) != 2) { goto __pyx_L5_argtuple_error; @@ -3637,25 +4442,19 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_33matrix_add(PyObject *_ } goto __pyx_L4_argument_unpacking_done; __pyx_L5_argtuple_error:; - __Pyx_RaiseArgtupleInvalid("matrix_add", 1, 2, 2, PyTuple_GET_SIZE(__pyx_args)); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 311; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("matrix_add", 1, 2, 2, PyTuple_GET_SIZE(__pyx_args)); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 304; __pyx_clineno = __LINE__; goto __pyx_L3_error;} __pyx_L3_error:; __Pyx_AddTraceback("nipy.labs.bindings.linalg.matrix_add", __pyx_clineno, __pyx_lineno, __pyx_filename); __Pyx_RefNannyFinishContext(); return NULL; __pyx_L4_argument_unpacking_done:; __pyx_r = __pyx_pf_4nipy_4labs_8bindings_6linalg_32matrix_add(__pyx_self, __pyx_v_A, __pyx_v_B); + + /* function exit code */ __Pyx_RefNannyFinishContext(); return __pyx_r; } -/* "nipy/labs/bindings/linalg.pyx":311 - * return B - * - * def matrix_add(A, B): # <<<<<<<<<<<<<< - * """ - * C = matrix_add(A, B) - */ - static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_32matrix_add(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_A, PyObject *__pyx_v_B) { fff_matrix *__pyx_v_a; fff_matrix *__pyx_v_b; @@ -3669,33 +4468,27 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_32matrix_add(CYTHON_UNUS int __pyx_clineno = 0; 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+ if (likely((values[1] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_X)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("blas_dscal", 1, 2, 2, 1); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 386; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("blas_dscal", 1, 2, 2, 1); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 379; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } if (unlikely(kw_args > 0)) { - if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "blas_dscal") < 0)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 386; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "blas_dscal") < 0)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 379; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } else if (PyTuple_GET_SIZE(__pyx_args) != 2) { goto __pyx_L5_argtuple_error; @@ -4495,30 +5366,24 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_43blas_dscal(PyObject *_ values[0] = PyTuple_GET_ITEM(__pyx_args, 0); values[1] = PyTuple_GET_ITEM(__pyx_args, 1); } - __pyx_v_alpha = __pyx_PyFloat_AsDouble(values[0]); if (unlikely((__pyx_v_alpha == (double)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 386; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_alpha = __pyx_PyFloat_AsDouble(values[0]); if (unlikely((__pyx_v_alpha == (double)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 379; __pyx_clineno = __LINE__; goto __pyx_L3_error;} __pyx_v_X = values[1]; } goto __pyx_L4_argument_unpacking_done; __pyx_L5_argtuple_error:; - __Pyx_RaiseArgtupleInvalid("blas_dscal", 1, 2, 2, PyTuple_GET_SIZE(__pyx_args)); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 386; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("blas_dscal", 1, 2, 2, PyTuple_GET_SIZE(__pyx_args)); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 379; __pyx_clineno = __LINE__; goto __pyx_L3_error;} __pyx_L3_error:; __Pyx_AddTraceback("nipy.labs.bindings.linalg.blas_dscal", __pyx_clineno, __pyx_lineno, __pyx_filename); 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__pyx_lineno = 388; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __pyx_t_1 = __pyx_v_X; - __Pyx_INCREF(__pyx_t_1); - __pyx_v_x = fff_vector_fromPyArray(((PyArrayObject *)__pyx_t_1)); - __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; + if (!(likely(((__pyx_v_X) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_X, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 381; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_v_x = fff_vector_fromPyArray(((PyArrayObject *)__pyx_v_X)); - /* "nipy/labs/bindings/linalg.pyx":389 + /* "nipy/labs/bindings/linalg.pyx":382 * cdef fff_vector *x, *y * x = fff_vector_fromPyArray(X) * y = fff_vector_new(x.size) # <<<<<<<<<<<<<< @@ -4553,7 +5415,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_42blas_dscal(CYTHON_UNUS */ __pyx_v_y = fff_vector_new(__pyx_v_x->size); - /* "nipy/labs/bindings/linalg.pyx":390 + /* "nipy/labs/bindings/linalg.pyx":383 * x = fff_vector_fromPyArray(X) * y = fff_vector_new(x.size) * fff_vector_memcpy(y, x) # <<<<<<<<<<<<<< @@ -4562,7 +5424,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_42blas_dscal(CYTHON_UNUS */ fff_vector_memcpy(__pyx_v_y, __pyx_v_x); - /* "nipy/labs/bindings/linalg.pyx":391 + /* "nipy/labs/bindings/linalg.pyx":384 * y = fff_vector_new(x.size) * fff_vector_memcpy(y, x) * fff_blas_dscal(alpha, y) # <<<<<<<<<<<<<< @@ -4571,19 +5433,19 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_42blas_dscal(CYTHON_UNUS */ fff_blas_dscal(__pyx_v_alpha, __pyx_v_y); - /* "nipy/labs/bindings/linalg.pyx":392 + /* "nipy/labs/bindings/linalg.pyx":385 * fff_vector_memcpy(y, x) * fff_blas_dscal(alpha, y) * Y = fff_vector_toPyArray(y) # <<<<<<<<<<<<<< * return Y * */ - __pyx_t_1 = ((PyObject *)fff_vector_toPyArray(__pyx_v_y)); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 392; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = ((PyObject *)fff_vector_toPyArray(__pyx_v_y)); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 385; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); __pyx_v_Y = ((PyArrayObject *)__pyx_t_1); __pyx_t_1 = 0; - /* "nipy/labs/bindings/linalg.pyx":393 + /* "nipy/labs/bindings/linalg.pyx":386 * fff_blas_dscal(alpha, y) * Y = fff_vector_toPyArray(y) * return Y # <<<<<<<<<<<<<< @@ -4595,8 +5457,15 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_42blas_dscal(CYTHON_UNUS __pyx_r = ((PyObject *)__pyx_v_Y); goto __pyx_L0; - __pyx_r = Py_None; __Pyx_INCREF(Py_None); - goto __pyx_L0; + /* "nipy/labs/bindings/linalg.pyx":379 + * return Z + * + * def blas_dscal(double alpha, X): # <<<<<<<<<<<<<< + * cdef fff_vector *x, *y + * x = fff_vector_fromPyArray(X) + */ + + /* function exit code */ __pyx_L1_error:; __Pyx_XDECREF(__pyx_t_1); __Pyx_AddTraceback("nipy.labs.bindings.linalg.blas_dscal", __pyx_clineno, __pyx_lineno, __pyx_filename); @@ -4608,6 +5477,14 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_42blas_dscal(CYTHON_UNUS return __pyx_r; } +/* "nipy/labs/bindings/linalg.pyx":391 + * + * ### BLAS 3 + * def blas_dgemm(int TransA, int TransB, double alpha, A, B, double beta, C): # <<<<<<<<<<<<<< + * """ + * D = blas_dgemm(int TransA, int TransB, double alpha, A, B, double beta, C). + */ + /* Python wrapper */ static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_45blas_dgemm(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/ static char __pyx_doc_4nipy_4labs_8bindings_6linalg_44blas_dgemm[] = "\n D = blas_dgemm(int TransA, int TransB, double alpha, A, B, double beta, C).\n \n Compute the matrix-matrix product and sum D = alpha op(A) op(B) +\n beta C where op(A) = A, A^T, A^H for TransA = CblasNoTrans,\n CblasTrans, CblasConjTrans and similarly for the parameter TransB.\n "; @@ -4620,11 +5497,14 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_45blas_dgemm(PyObject *_ PyObject *__pyx_v_B = 0; double __pyx_v_beta; PyObject *__pyx_v_C = 0; + int __pyx_lineno = 0; + const char *__pyx_filename = NULL; + int __pyx_clineno = 0; PyObject *__pyx_r = 0; __Pyx_RefNannyDeclarations __Pyx_RefNannySetupContext("blas_dgemm (wrapper)", 0); { - static PyObject **__pyx_pyargnames[] = {&__pyx_n_s__TransA,&__pyx_n_s__TransB,&__pyx_n_s__alpha,&__pyx_n_s__A,&__pyx_n_s__B,&__pyx_n_s__beta,&__pyx_n_s__C,0}; + static PyObject **__pyx_pyargnames[] = {&__pyx_n_s_TransA,&__pyx_n_s_TransB,&__pyx_n_s_alpha,&__pyx_n_s_A,&__pyx_n_s_B,&__pyx_n_s_beta,&__pyx_n_s_C,0}; PyObject* values[7] = {0,0,0,0,0,0,0}; if (unlikely(__pyx_kwds)) { Py_ssize_t kw_args; @@ -4643,41 +5523,41 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_45blas_dgemm(PyObject *_ kw_args = PyDict_Size(__pyx_kwds); switch (pos_args) { case 0: - if (likely((values[0] = PyDict_GetItem(__pyx_kwds, __pyx_n_s__TransA)) != 0)) kw_args--; + if (likely((values[0] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_TransA)) != 0)) kw_args--; else goto __pyx_L5_argtuple_error; case 1: - if (likely((values[1] = PyDict_GetItem(__pyx_kwds, __pyx_n_s__TransB)) != 0)) kw_args--; + if (likely((values[1] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_TransB)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("blas_dgemm", 1, 7, 7, 1); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 398; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("blas_dgemm", 1, 7, 7, 1); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 391; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } case 2: - if (likely((values[2] = PyDict_GetItem(__pyx_kwds, __pyx_n_s__alpha)) != 0)) kw_args--; + if (likely((values[2] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_alpha)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("blas_dgemm", 1, 7, 7, 2); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 398; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("blas_dgemm", 1, 7, 7, 2); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 391; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } case 3: - if (likely((values[3] = PyDict_GetItem(__pyx_kwds, __pyx_n_s__A)) != 0)) kw_args--; + if (likely((values[3] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_A)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("blas_dgemm", 1, 7, 7, 3); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 398; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("blas_dgemm", 1, 7, 7, 3); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 391; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } case 4: - if (likely((values[4] = PyDict_GetItem(__pyx_kwds, __pyx_n_s__B)) != 0)) kw_args--; + if (likely((values[4] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_B)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("blas_dgemm", 1, 7, 7, 4); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 398; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("blas_dgemm", 1, 7, 7, 4); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 391; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } case 5: - if (likely((values[5] = PyDict_GetItem(__pyx_kwds, __pyx_n_s__beta)) != 0)) kw_args--; + if (likely((values[5] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_beta)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("blas_dgemm", 1, 7, 7, 5); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 398; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("blas_dgemm", 1, 7, 7, 5); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 391; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } case 6: - if (likely((values[6] = PyDict_GetItem(__pyx_kwds, __pyx_n_s__C)) != 0)) kw_args--; + if (likely((values[6] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_C)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("blas_dgemm", 1, 7, 7, 6); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 398; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("blas_dgemm", 1, 7, 7, 6); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 391; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } if (unlikely(kw_args > 0)) { - if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "blas_dgemm") < 0)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 398; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "blas_dgemm") < 0)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 391; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } else if (PyTuple_GET_SIZE(__pyx_args) != 7) { goto __pyx_L5_argtuple_error; @@ -4690,35 +5570,29 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_45blas_dgemm(PyObject *_ values[5] = PyTuple_GET_ITEM(__pyx_args, 5); values[6] = PyTuple_GET_ITEM(__pyx_args, 6); } - __pyx_v_TransA = __Pyx_PyInt_AsInt(values[0]); if (unlikely((__pyx_v_TransA == (int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 398; __pyx_clineno = __LINE__; goto __pyx_L3_error;} - __pyx_v_TransB = __Pyx_PyInt_AsInt(values[1]); if (unlikely((__pyx_v_TransB == (int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 398; __pyx_clineno = __LINE__; goto __pyx_L3_error;} - __pyx_v_alpha = __pyx_PyFloat_AsDouble(values[2]); if (unlikely((__pyx_v_alpha == (double)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 398; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_TransA = __Pyx_PyInt_As_int(values[0]); if (unlikely((__pyx_v_TransA == (int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 391; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_TransB = __Pyx_PyInt_As_int(values[1]); if (unlikely((__pyx_v_TransB == (int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 391; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_alpha = __pyx_PyFloat_AsDouble(values[2]); if (unlikely((__pyx_v_alpha == (double)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 391; __pyx_clineno = __LINE__; goto __pyx_L3_error;} __pyx_v_A = values[3]; 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__Pyx_RefNannySetupContext("blas_dgemm", 0); - /* "nipy/labs/bindings/linalg.pyx":407 + /* "nipy/labs/bindings/linalg.pyx":400 * """ * cdef fff_matrix *a, *b, *c, *d * a = fff_matrix_fromPyArray(A) # <<<<<<<<<<<<<< * b = fff_matrix_fromPyArray(B) * c = fff_matrix_fromPyArray(C) */ - if (!(likely(((__pyx_v_A) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_A, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 407; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __pyx_t_1 = __pyx_v_A; - __Pyx_INCREF(__pyx_t_1); - __pyx_v_a = fff_matrix_fromPyArray(((PyArrayObject *)__pyx_t_1)); - __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; + if (!(likely(((__pyx_v_A) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_A, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 400; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_v_a = fff_matrix_fromPyArray(((PyArrayObject *)__pyx_v_A)); - /* "nipy/labs/bindings/linalg.pyx":408 + /* "nipy/labs/bindings/linalg.pyx":401 * cdef fff_matrix *a, *b, *c, *d * a = fff_matrix_fromPyArray(A) * b = fff_matrix_fromPyArray(B) # <<<<<<<<<<<<<< * c = fff_matrix_fromPyArray(C) * d = fff_matrix_new(c.size1, c.size2) */ - if (!(likely(((__pyx_v_B) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_B, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 408; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __pyx_t_1 = __pyx_v_B; - __Pyx_INCREF(__pyx_t_1); - __pyx_v_b = fff_matrix_fromPyArray(((PyArrayObject *)__pyx_t_1)); - __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; + if (!(likely(((__pyx_v_B) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_B, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 401; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_v_b = fff_matrix_fromPyArray(((PyArrayObject *)__pyx_v_B)); - /* "nipy/labs/bindings/linalg.pyx":409 + /* "nipy/labs/bindings/linalg.pyx":402 * a = fff_matrix_fromPyArray(A) * b = fff_matrix_fromPyArray(B) * c = fff_matrix_fromPyArray(C) # <<<<<<<<<<<<<< * d = fff_matrix_new(c.size1, c.size2) * fff_matrix_memcpy(d, c) */ - if (!(likely(((__pyx_v_C) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_C, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 409; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __pyx_t_1 = __pyx_v_C; - __Pyx_INCREF(__pyx_t_1); - __pyx_v_c = fff_matrix_fromPyArray(((PyArrayObject *)__pyx_t_1)); - __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; + if (!(likely(((__pyx_v_C) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_C, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 402; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_v_c = fff_matrix_fromPyArray(((PyArrayObject *)__pyx_v_C)); - /* "nipy/labs/bindings/linalg.pyx":410 + /* "nipy/labs/bindings/linalg.pyx":403 * b = fff_matrix_fromPyArray(B) * c = fff_matrix_fromPyArray(C) * d = fff_matrix_new(c.size1, c.size2) # <<<<<<<<<<<<<< @@ -4781,7 +5646,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_44blas_dgemm(CYTHON_UNUS */ __pyx_v_d = fff_matrix_new(__pyx_v_c->size1, __pyx_v_c->size2); - /* "nipy/labs/bindings/linalg.pyx":411 + /* "nipy/labs/bindings/linalg.pyx":404 * c = fff_matrix_fromPyArray(C) * d = fff_matrix_new(c.size1, c.size2) * fff_matrix_memcpy(d, c) # <<<<<<<<<<<<<< @@ -4790,7 +5655,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_44blas_dgemm(CYTHON_UNUS */ fff_matrix_memcpy(__pyx_v_d, __pyx_v_c); - /* "nipy/labs/bindings/linalg.pyx":412 + /* "nipy/labs/bindings/linalg.pyx":405 * d = fff_matrix_new(c.size1, c.size2) * fff_matrix_memcpy(d, c) * fff_blas_dgemm(flag_transpose(TransA), flag_transpose(TransB), alpha, a, b, beta, d) # <<<<<<<<<<<<<< @@ -4799,7 +5664,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_44blas_dgemm(CYTHON_UNUS */ fff_blas_dgemm(__pyx_f_4nipy_4labs_8bindings_6linalg_flag_transpose(__pyx_v_TransA), __pyx_f_4nipy_4labs_8bindings_6linalg_flag_transpose(__pyx_v_TransB), __pyx_v_alpha, __pyx_v_a, __pyx_v_b, __pyx_v_beta, __pyx_v_d); - /* "nipy/labs/bindings/linalg.pyx":413 + /* "nipy/labs/bindings/linalg.pyx":406 * fff_matrix_memcpy(d, c) * fff_blas_dgemm(flag_transpose(TransA), flag_transpose(TransB), alpha, a, b, beta, d) * fff_matrix_delete(a) # <<<<<<<<<<<<<< @@ -4808,7 +5673,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_44blas_dgemm(CYTHON_UNUS */ fff_matrix_delete(__pyx_v_a); - /* "nipy/labs/bindings/linalg.pyx":414 + /* "nipy/labs/bindings/linalg.pyx":407 * fff_blas_dgemm(flag_transpose(TransA), flag_transpose(TransB), alpha, a, b, beta, d) * fff_matrix_delete(a) * fff_matrix_delete(b) # <<<<<<<<<<<<<< @@ -4817,7 +5682,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_44blas_dgemm(CYTHON_UNUS */ fff_matrix_delete(__pyx_v_b); - /* "nipy/labs/bindings/linalg.pyx":415 + /* "nipy/labs/bindings/linalg.pyx":408 * fff_matrix_delete(a) * fff_matrix_delete(b) * fff_matrix_delete(c) # <<<<<<<<<<<<<< @@ -4826,19 +5691,19 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_44blas_dgemm(CYTHON_UNUS */ fff_matrix_delete(__pyx_v_c); - /* "nipy/labs/bindings/linalg.pyx":416 + /* "nipy/labs/bindings/linalg.pyx":409 * fff_matrix_delete(b) * fff_matrix_delete(c) * D = fff_matrix_toPyArray(d) # <<<<<<<<<<<<<< * return D * */ - __pyx_t_1 = ((PyObject *)fff_matrix_toPyArray(__pyx_v_d)); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 416; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = ((PyObject *)fff_matrix_toPyArray(__pyx_v_d)); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 409; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); __pyx_v_D = ((PyArrayObject *)__pyx_t_1); __pyx_t_1 = 0; - /* "nipy/labs/bindings/linalg.pyx":417 + /* "nipy/labs/bindings/linalg.pyx":410 * fff_matrix_delete(c) * D = fff_matrix_toPyArray(d) * return D # <<<<<<<<<<<<<< @@ -4850,8 +5715,15 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_44blas_dgemm(CYTHON_UNUS __pyx_r = ((PyObject *)__pyx_v_D); goto __pyx_L0; - __pyx_r = Py_None; __Pyx_INCREF(Py_None); - goto __pyx_L0; + /* "nipy/labs/bindings/linalg.pyx":391 + * + * ### BLAS 3 + * def blas_dgemm(int TransA, int TransB, double alpha, A, B, double beta, C): # <<<<<<<<<<<<<< + * """ + * D = blas_dgemm(int TransA, int TransB, double alpha, A, B, double beta, C). + */ + + /* function exit code */ __pyx_L1_error:; __Pyx_XDECREF(__pyx_t_1); __Pyx_AddTraceback("nipy.labs.bindings.linalg.blas_dgemm", __pyx_clineno, __pyx_lineno, __pyx_filename); @@ -4863,6 +5735,14 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_44blas_dgemm(CYTHON_UNUS return __pyx_r; } +/* "nipy/labs/bindings/linalg.pyx":413 + * + * + * def blas_dsymm(int Side, int Uplo, double alpha, A, B, beta, C): # <<<<<<<<<<<<<< + * """ + * D = blas_dsymm(int Side, int Uplo, double alpha, A, B, beta, C). + */ + /* Python wrapper */ static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_47blas_dsymm(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/ static char __pyx_doc_4nipy_4labs_8bindings_6linalg_46blas_dsymm[] = "\n D = blas_dsymm(int Side, int Uplo, double alpha, A, B, beta, C).\n \n Compute the matrix-matrix product and sum C = \007lpha A B + \010eta C\n for Side is CblasLeft and C = \007lpha B A + \010eta C for Side is\n CblasRight, where the matrix A is symmetric. When Uplo is\n CblasUpper then the upper triangle and diagonal of A are used, and\n when Uplo is CblasLower then the lower triangle and diagonal of A\n are used.\n "; @@ -4875,11 +5755,14 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_47blas_dsymm(PyObject *_ PyObject *__pyx_v_B = 0; PyObject *__pyx_v_beta = 0; PyObject *__pyx_v_C = 0; - PyObject *__pyx_r = 0; + int __pyx_lineno = 0; + const char *__pyx_filename = NULL; + int __pyx_clineno = 0; + PyObject *__pyx_r = 0; __Pyx_RefNannyDeclarations __Pyx_RefNannySetupContext("blas_dsymm (wrapper)", 0); { - static PyObject **__pyx_pyargnames[] = {&__pyx_n_s__Side,&__pyx_n_s__Uplo,&__pyx_n_s__alpha,&__pyx_n_s__A,&__pyx_n_s__B,&__pyx_n_s__beta,&__pyx_n_s__C,0}; + static PyObject **__pyx_pyargnames[] = {&__pyx_n_s_Side,&__pyx_n_s_Uplo,&__pyx_n_s_alpha,&__pyx_n_s_A,&__pyx_n_s_B,&__pyx_n_s_beta,&__pyx_n_s_C,0}; PyObject* values[7] = {0,0,0,0,0,0,0}; if (unlikely(__pyx_kwds)) { Py_ssize_t kw_args; @@ -4898,41 +5781,41 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_47blas_dsymm(PyObject *_ kw_args = PyDict_Size(__pyx_kwds); switch (pos_args) { case 0: - if (likely((values[0] = PyDict_GetItem(__pyx_kwds, __pyx_n_s__Side)) != 0)) kw_args--; + if (likely((values[0] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_Side)) != 0)) kw_args--; else goto __pyx_L5_argtuple_error; case 1: - if (likely((values[1] = PyDict_GetItem(__pyx_kwds, __pyx_n_s__Uplo)) != 0)) kw_args--; + if (likely((values[1] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_Uplo)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("blas_dsymm", 1, 7, 7, 1); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 420; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("blas_dsymm", 1, 7, 7, 1); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 413; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } case 2: - if (likely((values[2] = PyDict_GetItem(__pyx_kwds, __pyx_n_s__alpha)) != 0)) kw_args--; + if (likely((values[2] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_alpha)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("blas_dsymm", 1, 7, 7, 2); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 420; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("blas_dsymm", 1, 7, 7, 2); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 413; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } case 3: - if (likely((values[3] = PyDict_GetItem(__pyx_kwds, __pyx_n_s__A)) != 0)) kw_args--; + if (likely((values[3] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_A)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("blas_dsymm", 1, 7, 7, 3); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 420; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("blas_dsymm", 1, 7, 7, 3); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 413; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } case 4: - if (likely((values[4] = PyDict_GetItem(__pyx_kwds, __pyx_n_s__B)) != 0)) kw_args--; + if (likely((values[4] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_B)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("blas_dsymm", 1, 7, 7, 4); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 420; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("blas_dsymm", 1, 7, 7, 4); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 413; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } case 5: - if (likely((values[5] = PyDict_GetItem(__pyx_kwds, __pyx_n_s__beta)) != 0)) kw_args--; + if (likely((values[5] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_beta)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("blas_dsymm", 1, 7, 7, 5); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 420; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("blas_dsymm", 1, 7, 7, 5); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 413; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } case 6: - if (likely((values[6] = PyDict_GetItem(__pyx_kwds, __pyx_n_s__C)) != 0)) kw_args--; + if (likely((values[6] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_C)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("blas_dsymm", 1, 7, 7, 6); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 420; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("blas_dsymm", 1, 7, 7, 6); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 413; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } if (unlikely(kw_args > 0)) { - if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "blas_dsymm") < 0)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 420; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "blas_dsymm") < 0)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 413; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } else if (PyTuple_GET_SIZE(__pyx_args) != 7) { goto __pyx_L5_argtuple_error; @@ -4945,9 +5828,9 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_47blas_dsymm(PyObject *_ values[5] = PyTuple_GET_ITEM(__pyx_args, 5); values[6] = PyTuple_GET_ITEM(__pyx_args, 6); } - __pyx_v_Side = __Pyx_PyInt_AsInt(values[0]); if (unlikely((__pyx_v_Side == (int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; 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{__pyx_filename = __pyx_f[1]; __pyx_lineno = 438; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } case 4: - if (likely((values[4] = PyDict_GetItem(__pyx_kwds, __pyx_n_s__beta)) != 0)) kw_args--; + if (likely((values[4] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_beta)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("blas_dsyrk", 1, 6, 6, 4); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 498; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("blas_dsyrk", 1, 6, 6, 4); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 438; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } case 5: - if (likely((values[5] = PyDict_GetItem(__pyx_kwds, __pyx_n_s__C)) != 0)) kw_args--; + if (likely((values[5] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_C)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("blas_dsyrk", 1, 6, 6, 5); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 498; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("blas_dsyrk", 1, 6, 6, 5); {__pyx_filename = __pyx_f[1]; 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fff_matrix *__pyx_v_c; fff_matrix *__pyx_v_d; @@ -5699,33 +6115,27 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_52blas_dsyrk(CYTHON_UNUS int __pyx_clineno = 0; __Pyx_RefNannySetupContext("blas_dsyrk", 0); - /* "nipy/labs/bindings/linalg.pyx":511 + /* "nipy/labs/bindings/linalg.pyx":451 * """ * cdef fff_matrix *a, *c, *d * a = fff_matrix_fromPyArray(A) # <<<<<<<<<<<<<< * c = fff_matrix_fromPyArray(C) * d = fff_matrix_new(a.size1, a.size2) */ - if (!(likely(((__pyx_v_A) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_A, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 511; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __pyx_t_1 = __pyx_v_A; - __Pyx_INCREF(__pyx_t_1); - __pyx_v_a = fff_matrix_fromPyArray(((PyArrayObject *)__pyx_t_1)); - __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; + if (!(likely(((__pyx_v_A) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_A, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 451; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_v_a = fff_matrix_fromPyArray(((PyArrayObject *)__pyx_v_A)); - /* "nipy/labs/bindings/linalg.pyx":512 + /* "nipy/labs/bindings/linalg.pyx":452 * cdef fff_matrix *a, *c, *d * a = fff_matrix_fromPyArray(A) * c = fff_matrix_fromPyArray(C) # <<<<<<<<<<<<<< * d = fff_matrix_new(a.size1, a.size2) * fff_matrix_memcpy(d, c) */ - if (!(likely(((__pyx_v_C) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_C, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 512; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __pyx_t_1 = __pyx_v_C; - __Pyx_INCREF(__pyx_t_1); - __pyx_v_c = fff_matrix_fromPyArray(((PyArrayObject *)__pyx_t_1)); - __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; + if (!(likely(((__pyx_v_C) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_C, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 452; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_v_c = fff_matrix_fromPyArray(((PyArrayObject *)__pyx_v_C)); - /* "nipy/labs/bindings/linalg.pyx":513 + /* "nipy/labs/bindings/linalg.pyx":453 * a = fff_matrix_fromPyArray(A) * c = fff_matrix_fromPyArray(C) * d = fff_matrix_new(a.size1, a.size2) # <<<<<<<<<<<<<< @@ -5734,7 +6144,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_52blas_dsyrk(CYTHON_UNUS */ __pyx_v_d = fff_matrix_new(__pyx_v_a->size1, __pyx_v_a->size2); - /* "nipy/labs/bindings/linalg.pyx":514 + /* "nipy/labs/bindings/linalg.pyx":454 * c = fff_matrix_fromPyArray(C) * d = fff_matrix_new(a.size1, a.size2) * fff_matrix_memcpy(d, c) # <<<<<<<<<<<<<< @@ -5743,7 +6153,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_52blas_dsyrk(CYTHON_UNUS */ fff_matrix_memcpy(__pyx_v_d, __pyx_v_c); - /* "nipy/labs/bindings/linalg.pyx":515 + /* "nipy/labs/bindings/linalg.pyx":455 * d = fff_matrix_new(a.size1, a.size2) * fff_matrix_memcpy(d, c) * fff_blas_dsyrk(flag_uplo(Uplo), flag_transpose(Trans), alpha, a, beta, d) # <<<<<<<<<<<<<< @@ -5752,7 +6162,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_52blas_dsyrk(CYTHON_UNUS */ fff_blas_dsyrk(__pyx_f_4nipy_4labs_8bindings_6linalg_flag_uplo(__pyx_v_Uplo), __pyx_f_4nipy_4labs_8bindings_6linalg_flag_transpose(__pyx_v_Trans), __pyx_v_alpha, __pyx_v_a, __pyx_v_beta, __pyx_v_d); - /* "nipy/labs/bindings/linalg.pyx":516 + /* "nipy/labs/bindings/linalg.pyx":456 * fff_matrix_memcpy(d, c) * fff_blas_dsyrk(flag_uplo(Uplo), flag_transpose(Trans), alpha, a, beta, d) * fff_matrix_delete(a) # <<<<<<<<<<<<<< @@ -5761,7 +6171,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_52blas_dsyrk(CYTHON_UNUS */ fff_matrix_delete(__pyx_v_a); - /* "nipy/labs/bindings/linalg.pyx":517 + /* "nipy/labs/bindings/linalg.pyx":457 * fff_blas_dsyrk(flag_uplo(Uplo), flag_transpose(Trans), alpha, a, beta, d) * fff_matrix_delete(a) * fff_matrix_delete(c) # <<<<<<<<<<<<<< @@ -5770,19 +6180,19 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_52blas_dsyrk(CYTHON_UNUS */ fff_matrix_delete(__pyx_v_c); - /* "nipy/labs/bindings/linalg.pyx":518 + /* "nipy/labs/bindings/linalg.pyx":458 * fff_matrix_delete(a) * fff_matrix_delete(c) * D = fff_matrix_toPyArray(d) # <<<<<<<<<<<<<< * return D * */ - __pyx_t_1 = ((PyObject *)fff_matrix_toPyArray(__pyx_v_d)); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 518; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = ((PyObject *)fff_matrix_toPyArray(__pyx_v_d)); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 458; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); __pyx_v_D = ((PyArrayObject *)__pyx_t_1); __pyx_t_1 = 0; - /* "nipy/labs/bindings/linalg.pyx":519 + /* "nipy/labs/bindings/linalg.pyx":459 * fff_matrix_delete(c) * D = fff_matrix_toPyArray(d) * return D # <<<<<<<<<<<<<< @@ -5794,8 +6204,15 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_52blas_dsyrk(CYTHON_UNUS __pyx_r = ((PyObject *)__pyx_v_D); goto __pyx_L0; - __pyx_r = Py_None; __Pyx_INCREF(Py_None); - goto __pyx_L0; + /* "nipy/labs/bindings/linalg.pyx":438 + * + * + * def blas_dsyrk(int Uplo, int Trans, double alpha, A, double beta, C): # <<<<<<<<<<<<<< + * """ + * D = blas_dsyrk(int Uplo, int Trans, double alpha, A, double beta, C). + */ + + /* function exit code */ __pyx_L1_error:; __Pyx_XDECREF(__pyx_t_1); __Pyx_AddTraceback("nipy.labs.bindings.linalg.blas_dsyrk", __pyx_clineno, __pyx_lineno, __pyx_filename); @@ -5807,11 +6224,19 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_52blas_dsyrk(CYTHON_UNUS return __pyx_r; } +/* "nipy/labs/bindings/linalg.pyx":462 + * + * + * def blas_dsyr2k(int Uplo, int Trans, double alpha, A, B, double beta, C): # <<<<<<<<<<<<<< + * """ + * Compute a rank-2k update of the symmetric matrix C, C = \alpha A B^T + + */ + /* Python wrapper */ -static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_55blas_dsyr2k(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/ -static char __pyx_doc_4nipy_4labs_8bindings_6linalg_54blas_dsyr2k[] = "\n Compute a rank-2k update of the symmetric matrix C, C = \007lpha A B^T +\n \007lpha B A^T + \010eta C when Trans is CblasNoTrans and C = \007lpha A^T B\n + \007lpha B^T A + \010eta C when Trans is CblasTrans. Since the matrix C\n is symmetric only its upper half or lower half need to be stored. When\n Uplo is CblasUpper then the upper triangle and diagonal of C are used,\n and when Uplo is CblasLower then the lower triangle and diagonal of C\n are used.\n "; -static PyMethodDef __pyx_mdef_4nipy_4labs_8bindings_6linalg_55blas_dsyr2k = {__Pyx_NAMESTR("blas_dsyr2k"), (PyCFunction)__pyx_pw_4nipy_4labs_8bindings_6linalg_55blas_dsyr2k, METH_VARARGS|METH_KEYWORDS, __Pyx_DOCSTR(__pyx_doc_4nipy_4labs_8bindings_6linalg_54blas_dsyr2k)}; -static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_55blas_dsyr2k(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds) { +static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_51blas_dsyr2k(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/ +static char __pyx_doc_4nipy_4labs_8bindings_6linalg_50blas_dsyr2k[] = "\n Compute a rank-2k update of the symmetric matrix C, C = \007lpha A B^T +\n \007lpha B A^T + \010eta C when Trans is CblasNoTrans and C = \007lpha A^T B\n + \007lpha B^T A + \010eta C when Trans is CblasTrans. Since the matrix C\n is symmetric only its upper half or lower half need to be stored. When\n Uplo is CblasUpper then the upper triangle and diagonal of C are used,\n and when Uplo is CblasLower then the lower triangle and diagonal of C\n are used.\n "; +static PyMethodDef __pyx_mdef_4nipy_4labs_8bindings_6linalg_51blas_dsyr2k = {__Pyx_NAMESTR("blas_dsyr2k"), (PyCFunction)__pyx_pw_4nipy_4labs_8bindings_6linalg_51blas_dsyr2k, METH_VARARGS|METH_KEYWORDS, __Pyx_DOCSTR(__pyx_doc_4nipy_4labs_8bindings_6linalg_50blas_dsyr2k)}; +static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_51blas_dsyr2k(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds) { int __pyx_v_Uplo; int __pyx_v_Trans; double __pyx_v_alpha; @@ -5819,11 +6244,14 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_55blas_dsyr2k(PyObject * PyObject *__pyx_v_B = 0; double __pyx_v_beta; PyObject *__pyx_v_C = 0; + int __pyx_lineno = 0; + const char *__pyx_filename = NULL; + int __pyx_clineno = 0; PyObject *__pyx_r = 0; __Pyx_RefNannyDeclarations __Pyx_RefNannySetupContext("blas_dsyr2k (wrapper)", 0); { - static PyObject **__pyx_pyargnames[] = {&__pyx_n_s__Uplo,&__pyx_n_s__Trans,&__pyx_n_s__alpha,&__pyx_n_s__A,&__pyx_n_s__B,&__pyx_n_s__beta,&__pyx_n_s__C,0}; + static PyObject **__pyx_pyargnames[] = {&__pyx_n_s_Uplo,&__pyx_n_s_Trans,&__pyx_n_s_alpha,&__pyx_n_s_A,&__pyx_n_s_B,&__pyx_n_s_beta,&__pyx_n_s_C,0}; PyObject* values[7] = {0,0,0,0,0,0,0}; if (unlikely(__pyx_kwds)) { Py_ssize_t kw_args; @@ -5842,41 +6270,41 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_55blas_dsyr2k(PyObject * kw_args = PyDict_Size(__pyx_kwds); switch (pos_args) { case 0: - if (likely((values[0] = PyDict_GetItem(__pyx_kwds, __pyx_n_s__Uplo)) != 0)) kw_args--; + if (likely((values[0] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_Uplo)) != 0)) kw_args--; else goto __pyx_L5_argtuple_error; case 1: - if (likely((values[1] = PyDict_GetItem(__pyx_kwds, __pyx_n_s__Trans)) != 0)) kw_args--; + if (likely((values[1] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_Trans)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("blas_dsyr2k", 1, 7, 7, 1); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 522; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("blas_dsyr2k", 1, 7, 7, 1); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 462; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } case 2: - if (likely((values[2] = PyDict_GetItem(__pyx_kwds, __pyx_n_s__alpha)) != 0)) kw_args--; + if (likely((values[2] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_alpha)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("blas_dsyr2k", 1, 7, 7, 2); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 522; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("blas_dsyr2k", 1, 7, 7, 2); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 462; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } case 3: - if (likely((values[3] = PyDict_GetItem(__pyx_kwds, __pyx_n_s__A)) != 0)) kw_args--; + if (likely((values[3] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_A)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("blas_dsyr2k", 1, 7, 7, 3); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 522; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("blas_dsyr2k", 1, 7, 7, 3); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 462; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } case 4: - if (likely((values[4] = PyDict_GetItem(__pyx_kwds, __pyx_n_s__B)) != 0)) kw_args--; + if (likely((values[4] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_B)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("blas_dsyr2k", 1, 7, 7, 4); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 522; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("blas_dsyr2k", 1, 7, 7, 4); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 462; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } case 5: - if (likely((values[5] = PyDict_GetItem(__pyx_kwds, __pyx_n_s__beta)) != 0)) kw_args--; + if (likely((values[5] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_beta)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("blas_dsyr2k", 1, 7, 7, 5); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 522; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("blas_dsyr2k", 1, 7, 7, 5); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 462; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } case 6: - if (likely((values[6] = PyDict_GetItem(__pyx_kwds, __pyx_n_s__C)) != 0)) kw_args--; + if (likely((values[6] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_C)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("blas_dsyr2k", 1, 7, 7, 6); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 522; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("blas_dsyr2k", 1, 7, 7, 6); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 462; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } if (unlikely(kw_args > 0)) { - if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "blas_dsyr2k") < 0)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 522; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "blas_dsyr2k") < 0)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 462; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } else if (PyTuple_GET_SIZE(__pyx_args) != 7) { goto __pyx_L5_argtuple_error; @@ -5889,36 +6317,30 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_55blas_dsyr2k(PyObject * values[5] = PyTuple_GET_ITEM(__pyx_args, 5); values[6] = PyTuple_GET_ITEM(__pyx_args, 6); } - __pyx_v_Uplo = __Pyx_PyInt_AsInt(values[0]); if (unlikely((__pyx_v_Uplo == (int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 522; __pyx_clineno = __LINE__; goto __pyx_L3_error;} - __pyx_v_Trans = __Pyx_PyInt_AsInt(values[1]); if (unlikely((__pyx_v_Trans == (int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 522; __pyx_clineno = __LINE__; goto __pyx_L3_error;} - __pyx_v_alpha = __pyx_PyFloat_AsDouble(values[2]); if (unlikely((__pyx_v_alpha == (double)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 522; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_Uplo = __Pyx_PyInt_As_int(values[0]); if (unlikely((__pyx_v_Uplo == (int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 462; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_Trans = __Pyx_PyInt_As_int(values[1]); if (unlikely((__pyx_v_Trans == (int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 462; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_alpha = __pyx_PyFloat_AsDouble(values[2]); if (unlikely((__pyx_v_alpha == (double)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 462; __pyx_clineno = __LINE__; goto __pyx_L3_error;} __pyx_v_A = values[3]; __pyx_v_B = values[4]; - __pyx_v_beta = __pyx_PyFloat_AsDouble(values[5]); if (unlikely((__pyx_v_beta == (double)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 522; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_beta = __pyx_PyFloat_AsDouble(values[5]); if (unlikely((__pyx_v_beta == (double)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 462; 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+ + /* function exit code */ __Pyx_RefNannyFinishContext(); return __pyx_r; } -/* "nipy/labs/bindings/linalg.pyx":522 - * - * - * def blas_dsyr2k(int Uplo, int Trans, double alpha, A, B, double beta, C): # <<<<<<<<<<<<<< - * """ - * Compute a rank-2k update of the symmetric matrix C, C = \alpha A B^T + - */ - -static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_54blas_dsyr2k(CYTHON_UNUSED PyObject *__pyx_self, int __pyx_v_Uplo, int __pyx_v_Trans, double __pyx_v_alpha, PyObject *__pyx_v_A, PyObject *__pyx_v_B, double __pyx_v_beta, PyObject *__pyx_v_C) { +static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_50blas_dsyr2k(CYTHON_UNUSED PyObject *__pyx_self, int __pyx_v_Uplo, int __pyx_v_Trans, double __pyx_v_alpha, PyObject *__pyx_v_A, PyObject *__pyx_v_B, double __pyx_v_beta, PyObject *__pyx_v_C) { fff_matrix *__pyx_v_a; fff_matrix *__pyx_v_b; fff_matrix *__pyx_v_c; @@ -5932,46 +6354,37 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_54blas_dsyr2k(CYTHON_UNU int __pyx_clineno = 0; __Pyx_RefNannySetupContext("blas_dsyr2k", 0); - /* "nipy/labs/bindings/linalg.pyx":533 + /* "nipy/labs/bindings/linalg.pyx":473 * """ * cdef fff_matrix *a, *b, *c, *d * a = fff_matrix_fromPyArray(A) # <<<<<<<<<<<<<< * b = fff_matrix_fromPyArray(B) * c = fff_matrix_fromPyArray(C) */ - if (!(likely(((__pyx_v_A) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_A, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 533; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __pyx_t_1 = __pyx_v_A; - __Pyx_INCREF(__pyx_t_1); - __pyx_v_a = fff_matrix_fromPyArray(((PyArrayObject *)__pyx_t_1)); - __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; + if (!(likely(((__pyx_v_A) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_A, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 473; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_v_a = fff_matrix_fromPyArray(((PyArrayObject *)__pyx_v_A)); - /* "nipy/labs/bindings/linalg.pyx":534 + /* "nipy/labs/bindings/linalg.pyx":474 * cdef fff_matrix *a, *b, *c, *d * a = fff_matrix_fromPyArray(A) * b = fff_matrix_fromPyArray(B) # <<<<<<<<<<<<<< * c = fff_matrix_fromPyArray(C) * d = fff_matrix_new(a.size1, a.size2) */ - if (!(likely(((__pyx_v_B) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_B, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[0]; 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- __pyx_v_c = fff_matrix_fromPyArray(((PyArrayObject *)__pyx_t_1)); - __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; + if (!(likely(((__pyx_v_C) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_C, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 475; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_v_c = fff_matrix_fromPyArray(((PyArrayObject *)__pyx_v_C)); - /* "nipy/labs/bindings/linalg.pyx":536 + /* "nipy/labs/bindings/linalg.pyx":476 * b = fff_matrix_fromPyArray(B) * c = fff_matrix_fromPyArray(C) * d = fff_matrix_new(a.size1, a.size2) # <<<<<<<<<<<<<< @@ -5980,7 +6393,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_54blas_dsyr2k(CYTHON_UNU */ __pyx_v_d = fff_matrix_new(__pyx_v_a->size1, __pyx_v_a->size2); - /* "nipy/labs/bindings/linalg.pyx":537 + /* "nipy/labs/bindings/linalg.pyx":477 * c = fff_matrix_fromPyArray(C) * d = fff_matrix_new(a.size1, a.size2) * fff_matrix_memcpy(d, c) # <<<<<<<<<<<<<< @@ -5989,7 +6402,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_54blas_dsyr2k(CYTHON_UNU */ fff_matrix_memcpy(__pyx_v_d, __pyx_v_c); 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+ __pyx_t_3 = (((__pyx_v_flags & PyBUF_F_CONTIGUOUS) == PyBUF_F_CONTIGUOUS) != 0); if (__pyx_t_3) { - /* "numpy.pxd":218 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":218 * * if ((flags & pybuf.PyBUF_F_CONTIGUOUS == pybuf.PyBUF_F_CONTIGUOUS) * and not PyArray_CHKFLAGS(self, NPY_F_CONTIGUOUS)): # <<<<<<<<<<<<<< * raise ValueError(u"ndarray is not Fortran contiguous") * */ - __pyx_t_1 = (!PyArray_CHKFLAGS(__pyx_v_self, NPY_F_CONTIGUOUS)); + __pyx_t_1 = ((!(PyArray_CHKFLAGS(__pyx_v_self, NPY_F_CONTIGUOUS) != 0)) != 0); __pyx_t_2 = __pyx_t_1; } else { __pyx_t_2 = __pyx_t_3; } if (__pyx_t_2) { - /* "numpy.pxd":219 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":219 * if ((flags & pybuf.PyBUF_F_CONTIGUOUS == pybuf.PyBUF_F_CONTIGUOUS) * and not PyArray_CHKFLAGS(self, NPY_F_CONTIGUOUS)): * raise ValueError(u"ndarray is not Fortran contiguous") # <<<<<<<<<<<<<< * * info.buf = PyArray_DATA(self) */ - __pyx_t_4 = PyObject_Call(__pyx_builtin_ValueError, ((PyObject *)__pyx_k_tuple_4), NULL); if (unlikely(!__pyx_t_4)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 219; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_4 = __Pyx_PyObject_Call(__pyx_builtin_ValueError, __pyx_tuple__2, NULL); if (unlikely(!__pyx_t_4)) {__pyx_filename = __pyx_f[2]; __pyx_lineno = 219; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_4); __Pyx_Raise(__pyx_t_4, 0, 0, 0); __Pyx_DECREF(__pyx_t_4); __pyx_t_4 = 0; - {__pyx_filename = __pyx_f[1]; __pyx_lineno = 219; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - goto __pyx_L6; + {__pyx_filename = __pyx_f[2]; __pyx_lineno = 219; __pyx_clineno = __LINE__; goto __pyx_L1_error;} } - __pyx_L6:; - /* "numpy.pxd":221 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":221 * raise ValueError(u"ndarray is not Fortran contiguous") * * info.buf = PyArray_DATA(self) # <<<<<<<<<<<<<< @@ -6276,7 +6689,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ __pyx_v_info->buf = PyArray_DATA(__pyx_v_self); - /* "numpy.pxd":222 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":222 * * info.buf = PyArray_DATA(self) * info.ndim = ndim # <<<<<<<<<<<<<< @@ -6285,16 +6698,17 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ __pyx_v_info->ndim = __pyx_v_ndim; - /* "numpy.pxd":223 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":223 * info.buf = PyArray_DATA(self) * info.ndim = ndim * if copy_shape: # <<<<<<<<<<<<<< * # Allocate new buffer for strides and shape info. * # This is allocated as one block, strides first. */ - if (__pyx_v_copy_shape) { + __pyx_t_2 = (__pyx_v_copy_shape != 0); + if (__pyx_t_2) { - /* "numpy.pxd":226 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":226 * # Allocate new buffer for strides and shape info. * # This is allocated as one block, strides first. * info.strides = stdlib.malloc(sizeof(Py_ssize_t) * ndim * 2) # <<<<<<<<<<<<<< @@ -6303,7 +6717,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ __pyx_v_info->strides = ((Py_ssize_t *)malloc((((sizeof(Py_ssize_t)) * ((size_t)__pyx_v_ndim)) * 2))); - /* "numpy.pxd":227 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":227 * # This is allocated as one block, strides first. * info.strides = stdlib.malloc(sizeof(Py_ssize_t) * ndim * 2) * info.shape = info.strides + ndim # <<<<<<<<<<<<<< @@ -6312,7 +6726,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ __pyx_v_info->shape = (__pyx_v_info->strides + __pyx_v_ndim); - /* "numpy.pxd":228 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":228 * info.strides = stdlib.malloc(sizeof(Py_ssize_t) * ndim * 2) * info.shape = info.strides + ndim * for i in range(ndim): # <<<<<<<<<<<<<< @@ -6323,7 +6737,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P for (__pyx_t_6 = 0; __pyx_t_6 < __pyx_t_5; __pyx_t_6+=1) { __pyx_v_i = __pyx_t_6; - /* "numpy.pxd":229 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":229 * info.shape = info.strides + ndim * for i in range(ndim): * info.strides[i] = PyArray_STRIDES(self)[i] # <<<<<<<<<<<<<< @@ -6332,7 +6746,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ (__pyx_v_info->strides[__pyx_v_i]) = (PyArray_STRIDES(__pyx_v_self)[__pyx_v_i]); - /* "numpy.pxd":230 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":230 * for i in range(ndim): * info.strides[i] = PyArray_STRIDES(self)[i] * info.shape[i] = PyArray_DIMS(self)[i] # <<<<<<<<<<<<<< @@ -6345,7 +6759,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P } /*else*/ { - /* "numpy.pxd":232 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":232 * info.shape[i] = PyArray_DIMS(self)[i] * else: * info.strides = PyArray_STRIDES(self) # <<<<<<<<<<<<<< @@ -6354,7 +6768,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ __pyx_v_info->strides = ((Py_ssize_t *)PyArray_STRIDES(__pyx_v_self)); - /* "numpy.pxd":233 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":233 * else: * info.strides = PyArray_STRIDES(self) * info.shape = PyArray_DIMS(self) # <<<<<<<<<<<<<< @@ -6365,7 +6779,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P } __pyx_L7:; - /* "numpy.pxd":234 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":234 * info.strides = PyArray_STRIDES(self) * info.shape = PyArray_DIMS(self) * info.suboffsets = NULL # <<<<<<<<<<<<<< @@ -6374,7 +6788,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ __pyx_v_info->suboffsets = NULL; - /* "numpy.pxd":235 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":235 * info.shape = PyArray_DIMS(self) * info.suboffsets = NULL * info.itemsize = PyArray_ITEMSIZE(self) # <<<<<<<<<<<<<< @@ -6383,16 +6797,16 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ __pyx_v_info->itemsize = PyArray_ITEMSIZE(__pyx_v_self); - /* "numpy.pxd":236 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":236 * info.suboffsets = NULL * info.itemsize = PyArray_ITEMSIZE(self) * info.readonly = not PyArray_ISWRITEABLE(self) # <<<<<<<<<<<<<< * * cdef int t */ - __pyx_v_info->readonly = (!PyArray_ISWRITEABLE(__pyx_v_self)); + __pyx_v_info->readonly = (!(PyArray_ISWRITEABLE(__pyx_v_self) != 0)); - /* "numpy.pxd":239 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":239 * * cdef int t * cdef char* f = NULL # <<<<<<<<<<<<<< @@ -6401,7 +6815,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ __pyx_v_f = NULL; - /* "numpy.pxd":240 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":240 * cdef int t * cdef char* f = NULL * cdef dtype descr = self.descr # <<<<<<<<<<<<<< @@ -6413,7 +6827,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P __pyx_v_descr = ((PyArray_Descr *)__pyx_t_4); __pyx_t_4 = 0; - /* "numpy.pxd":244 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":244 * cdef int offset * * cdef bint hasfields = PyDataType_HASFIELDS(descr) # <<<<<<<<<<<<<< @@ -6422,23 +6836,23 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ __pyx_v_hasfields = PyDataType_HASFIELDS(__pyx_v_descr); - /* "numpy.pxd":246 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":246 * cdef bint hasfields = PyDataType_HASFIELDS(descr) * * if not hasfields and not copy_shape: # <<<<<<<<<<<<<< * # do not call releasebuffer * info.obj = None */ - __pyx_t_2 = (!__pyx_v_hasfields); + __pyx_t_2 = ((!(__pyx_v_hasfields != 0)) != 0); if (__pyx_t_2) { - __pyx_t_3 = (!__pyx_v_copy_shape); + __pyx_t_3 = ((!(__pyx_v_copy_shape != 0)) != 0); __pyx_t_1 = __pyx_t_3; } else { __pyx_t_1 = __pyx_t_2; } if (__pyx_t_1) { - /* "numpy.pxd":248 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":248 * if not hasfields and not copy_shape: * # do not call releasebuffer * info.obj = None # <<<<<<<<<<<<<< @@ -6454,7 +6868,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P } /*else*/ { - /* "numpy.pxd":251 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":251 * else: * # need to call releasebuffer * info.obj = self # <<<<<<<<<<<<<< @@ -6469,17 +6883,17 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P } __pyx_L10:; - /* "numpy.pxd":253 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":253 * info.obj = self * * if not hasfields: # <<<<<<<<<<<<<< * t = descr.type_num * if ((descr.byteorder == c'>' and little_endian) or */ - __pyx_t_1 = (!__pyx_v_hasfields); + __pyx_t_1 = ((!(__pyx_v_hasfields != 0)) != 0); if (__pyx_t_1) { - /* "numpy.pxd":254 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":254 * * if not hasfields: * t = descr.type_num # <<<<<<<<<<<<<< @@ -6489,31 +6903,31 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P __pyx_t_5 = __pyx_v_descr->type_num; __pyx_v_t = __pyx_t_5; - /* "numpy.pxd":255 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":255 * if not hasfields: * t = descr.type_num * if ((descr.byteorder == c'>' and little_endian) or # <<<<<<<<<<<<<< * (descr.byteorder == c'<' and not little_endian)): * raise ValueError(u"Non-native byte order not supported") */ - __pyx_t_1 = (__pyx_v_descr->byteorder == '>'); + __pyx_t_1 = ((__pyx_v_descr->byteorder == '>') != 0); if (__pyx_t_1) { - __pyx_t_2 = __pyx_v_little_endian; + __pyx_t_2 = (__pyx_v_little_endian != 0); } else { __pyx_t_2 = __pyx_t_1; } if (!__pyx_t_2) { - /* "numpy.pxd":256 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":256 * t = descr.type_num * if ((descr.byteorder == c'>' and little_endian) or * (descr.byteorder == c'<' and not little_endian)): # <<<<<<<<<<<<<< * raise ValueError(u"Non-native byte order not supported") * if t == NPY_BYTE: f = "b" */ - __pyx_t_1 = (__pyx_v_descr->byteorder == '<'); + __pyx_t_1 = ((__pyx_v_descr->byteorder == '<') != 0); if (__pyx_t_1) { - __pyx_t_3 = (!__pyx_v_little_endian); + __pyx_t_3 = ((!(__pyx_v_little_endian != 0)) != 0); __pyx_t_7 = __pyx_t_3; } else { __pyx_t_7 = __pyx_t_1; @@ -6524,271 +6938,244 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P } if (__pyx_t_1) { - /* "numpy.pxd":257 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":257 * if ((descr.byteorder == c'>' and little_endian) or * (descr.byteorder == c'<' and not little_endian)): * raise ValueError(u"Non-native byte order not supported") # <<<<<<<<<<<<<< * if t == NPY_BYTE: f = "b" * elif t == NPY_UBYTE: f = "B" */ - __pyx_t_4 = PyObject_Call(__pyx_builtin_ValueError, ((PyObject *)__pyx_k_tuple_6), NULL); if (unlikely(!__pyx_t_4)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 257; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_4 = __Pyx_PyObject_Call(__pyx_builtin_ValueError, __pyx_tuple__3, NULL); if (unlikely(!__pyx_t_4)) {__pyx_filename = __pyx_f[2]; __pyx_lineno = 257; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_4); __Pyx_Raise(__pyx_t_4, 0, 0, 0); __Pyx_DECREF(__pyx_t_4); __pyx_t_4 = 0; - {__pyx_filename = __pyx_f[1]; __pyx_lineno = 257; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - goto __pyx_L12; + {__pyx_filename = __pyx_f[2]; __pyx_lineno = 257; __pyx_clineno = __LINE__; goto __pyx_L1_error;} } - __pyx_L12:; - /* "numpy.pxd":258 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":274 + * elif t == NPY_CDOUBLE: f = "Zd" + * elif t == NPY_CLONGDOUBLE: f = "Zg" + * elif t == NPY_OBJECT: f = "O" # <<<<<<<<<<<<<< + * else: + * raise ValueError(u"unknown dtype code in numpy.pxd (%d)" % t) + */ + switch (__pyx_v_t) { + + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":258 * (descr.byteorder == c'<' and not little_endian)): * raise ValueError(u"Non-native byte order not supported") * if t == NPY_BYTE: f = "b" # <<<<<<<<<<<<<< * elif t == NPY_UBYTE: f = "B" * elif t == NPY_SHORT: f = "h" */ - __pyx_t_1 = (__pyx_v_t == NPY_BYTE); - if (__pyx_t_1) { - __pyx_v_f = __pyx_k__b; - goto __pyx_L13; - } + case NPY_BYTE: + __pyx_v_f = __pyx_k_b; + break; - /* "numpy.pxd":259 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":259 * raise ValueError(u"Non-native byte order not supported") * if t == NPY_BYTE: f = "b" * elif t == NPY_UBYTE: f = "B" # <<<<<<<<<<<<<< * elif t == NPY_SHORT: f = "h" * elif t == NPY_USHORT: f = "H" */ - __pyx_t_1 = (__pyx_v_t == NPY_UBYTE); - if (__pyx_t_1) { - __pyx_v_f = __pyx_k__B; - goto __pyx_L13; - } + case NPY_UBYTE: + __pyx_v_f = __pyx_k_B; + break; - /* "numpy.pxd":260 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":260 * if t == NPY_BYTE: f = "b" * elif t == NPY_UBYTE: f = "B" * elif t == NPY_SHORT: f = "h" # <<<<<<<<<<<<<< * elif t == NPY_USHORT: f = "H" * elif t == NPY_INT: f = "i" */ - __pyx_t_1 = (__pyx_v_t == NPY_SHORT); - if (__pyx_t_1) { - __pyx_v_f = __pyx_k__h; - goto __pyx_L13; - } + case NPY_SHORT: + __pyx_v_f = __pyx_k_h; + break; - /* "numpy.pxd":261 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":261 * elif t == NPY_UBYTE: f = "B" * elif t == NPY_SHORT: f = "h" * elif t == NPY_USHORT: f = "H" # <<<<<<<<<<<<<< * elif t == NPY_INT: f = "i" * elif t == NPY_UINT: f = "I" */ - __pyx_t_1 = (__pyx_v_t == NPY_USHORT); - if (__pyx_t_1) { - __pyx_v_f = __pyx_k__H; - goto __pyx_L13; - } + case NPY_USHORT: + __pyx_v_f = __pyx_k_H; + break; - /* "numpy.pxd":262 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":262 * elif t == NPY_SHORT: f = "h" * elif t == NPY_USHORT: f = "H" * elif t == NPY_INT: f = "i" # <<<<<<<<<<<<<< * elif t == NPY_UINT: f = "I" * elif t == NPY_LONG: f = "l" */ - __pyx_t_1 = (__pyx_v_t == NPY_INT); - if (__pyx_t_1) { - __pyx_v_f = __pyx_k__i; - goto __pyx_L13; - } + case NPY_INT: + __pyx_v_f = __pyx_k_i; + break; - /* "numpy.pxd":263 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":263 * elif t == NPY_USHORT: f = "H" * elif t == NPY_INT: f = "i" * elif t == NPY_UINT: f = "I" # <<<<<<<<<<<<<< * elif t == NPY_LONG: f = "l" * elif t == NPY_ULONG: f = "L" */ - __pyx_t_1 = (__pyx_v_t == NPY_UINT); - if (__pyx_t_1) { - __pyx_v_f = __pyx_k__I; - goto __pyx_L13; - } + case NPY_UINT: + __pyx_v_f = __pyx_k_I; + break; - /* "numpy.pxd":264 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":264 * elif t == NPY_INT: f = "i" * elif t == NPY_UINT: f = "I" * elif t == NPY_LONG: f = "l" # <<<<<<<<<<<<<< * elif t == NPY_ULONG: f = "L" * elif t == NPY_LONGLONG: f = "q" */ - __pyx_t_1 = (__pyx_v_t == NPY_LONG); - if (__pyx_t_1) { - __pyx_v_f = __pyx_k__l; - goto __pyx_L13; - } + case NPY_LONG: + __pyx_v_f = __pyx_k_l; + break; - /* "numpy.pxd":265 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":265 * elif t == NPY_UINT: f = "I" * elif t == NPY_LONG: f = "l" * elif t == NPY_ULONG: f = "L" # <<<<<<<<<<<<<< * elif t == NPY_LONGLONG: f = "q" * elif t == NPY_ULONGLONG: f = "Q" */ - __pyx_t_1 = (__pyx_v_t == NPY_ULONG); - if (__pyx_t_1) { - __pyx_v_f = __pyx_k__L; - goto __pyx_L13; - } + case NPY_ULONG: + __pyx_v_f = __pyx_k_L; + break; - /* "numpy.pxd":266 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":266 * elif t == NPY_LONG: f = "l" * elif t == NPY_ULONG: f = "L" * elif t == NPY_LONGLONG: f = "q" # <<<<<<<<<<<<<< * elif t == NPY_ULONGLONG: f = "Q" * elif t == NPY_FLOAT: f = "f" */ - __pyx_t_1 = (__pyx_v_t == NPY_LONGLONG); - if (__pyx_t_1) { - __pyx_v_f = __pyx_k__q; - goto __pyx_L13; - } + case NPY_LONGLONG: + __pyx_v_f = __pyx_k_q; + break; - /* "numpy.pxd":267 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":267 * elif t == NPY_ULONG: f = "L" * elif t == NPY_LONGLONG: f = "q" * elif t == NPY_ULONGLONG: f = "Q" # <<<<<<<<<<<<<< * elif t == NPY_FLOAT: f = "f" * elif t == NPY_DOUBLE: f = "d" */ - __pyx_t_1 = (__pyx_v_t == NPY_ULONGLONG); - if (__pyx_t_1) { - __pyx_v_f = __pyx_k__Q; - goto __pyx_L13; - } + case NPY_ULONGLONG: + __pyx_v_f = __pyx_k_Q; + break; - /* "numpy.pxd":268 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":268 * elif t == NPY_LONGLONG: f = "q" * elif t == NPY_ULONGLONG: f = "Q" * elif t == NPY_FLOAT: f = "f" # <<<<<<<<<<<<<< * elif t == NPY_DOUBLE: f = "d" * elif t == NPY_LONGDOUBLE: f = "g" */ - __pyx_t_1 = (__pyx_v_t == NPY_FLOAT); - if (__pyx_t_1) { - __pyx_v_f = __pyx_k__f; - goto __pyx_L13; - } + case NPY_FLOAT: + __pyx_v_f = __pyx_k_f; 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if (!__pyx_t_3) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 795; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_3 = PyObject_GetItem(__pyx_v_descr->fields, __pyx_v_childname); if (unlikely(__pyx_t_3 == NULL)) {__pyx_filename = __pyx_f[2]; __pyx_lineno = 795; __pyx_clineno = __LINE__; goto __pyx_L1_error;}; __Pyx_GOTREF(__pyx_t_3); - if (!(likely(PyTuple_CheckExact(__pyx_t_3))||((__pyx_t_3) == Py_None)||(PyErr_Format(PyExc_TypeError, "Expected tuple, got %.200s", Py_TYPE(__pyx_t_3)->tp_name), 0))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 795; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_XDECREF(((PyObject *)__pyx_v_fields)); - __pyx_v_fields = ((PyObject*)__pyx_t_3); + if (!(likely(PyTuple_CheckExact(__pyx_t_3))||((__pyx_t_3) == Py_None)||(PyErr_Format(PyExc_TypeError, "Expected %.16s, got %.200s", "tuple", Py_TYPE(__pyx_t_3)->tp_name), 0))) {__pyx_filename = __pyx_f[2]; __pyx_lineno = 795; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_XDECREF_SET(__pyx_v_fields, ((PyObject*)__pyx_t_3)); 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= __pyx_f[0]; __pyx_lineno = 103; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_8bindings_6linalg_3vector_set, NULL, __pyx_n_s_nipy_labs_bindings_linalg); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 96; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); - if (PyObject_SetAttr(__pyx_m, __pyx_n_s__vector_set, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 103; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (PyDict_SetItem(__pyx_d, __pyx_n_s_vector_set, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 96; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; - /* "nipy/labs/bindings/linalg.pyx":117 + /* "nipy/labs/bindings/linalg.pyx":110 * return Y * * def vector_set_all(X, double a): # <<<<<<<<<<<<<< * """ * Set to a constant value. */ - __pyx_t_1 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_8bindings_6linalg_5vector_set_all, NULL, __pyx_n_s_18); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 117; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_8bindings_6linalg_5vector_set_all, NULL, __pyx_n_s_nipy_labs_bindings_linalg); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 110; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); - if (PyObject_SetAttr(__pyx_m, __pyx_n_s__vector_set_all, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 117; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (PyDict_SetItem(__pyx_d, __pyx_n_s_vector_set_all, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 110; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; - /* "nipy/labs/bindings/linalg.pyx":131 + /* "nipy/labs/bindings/linalg.pyx":124 * return Y * * def 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__pyx_n_s_vector_add, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 152; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; - /* "nipy/labs/bindings/linalg.pyx":175 + /* "nipy/labs/bindings/linalg.pyx":168 * return Z * * def vector_sub(X, Y): # <<<<<<<<<<<<<< * """ * Substract two vectors: x - y */ - __pyx_t_1 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_8bindings_6linalg_13vector_sub, NULL, __pyx_n_s_18); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 175; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_8bindings_6linalg_13vector_sub, NULL, __pyx_n_s_nipy_labs_bindings_linalg); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 168; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); - if (PyObject_SetAttr(__pyx_m, __pyx_n_s__vector_sub, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 175; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (PyDict_SetItem(__pyx_d, __pyx_n_s_vector_sub, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 168; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; - /* "nipy/labs/bindings/linalg.pyx":191 + /* "nipy/labs/bindings/linalg.pyx":184 * return Z * * def vector_mul(X, Y): # <<<<<<<<<<<<<< * """ * Element-wise multiplication. */ - __pyx_t_1 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_8bindings_6linalg_15vector_mul, NULL, __pyx_n_s_18); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 191; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_8bindings_6linalg_15vector_mul, NULL, __pyx_n_s_nipy_labs_bindings_linalg); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 184; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); - if (PyObject_SetAttr(__pyx_m, __pyx_n_s__vector_mul, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 191; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (PyDict_SetItem(__pyx_d, __pyx_n_s_vector_mul, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 184; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; - /* "nipy/labs/bindings/linalg.pyx":207 + /* "nipy/labs/bindings/linalg.pyx":200 * return Z * * def vector_div(X, Y): # <<<<<<<<<<<<<< * """ * Element-wise division. */ - __pyx_t_1 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_8bindings_6linalg_17vector_div, NULL, __pyx_n_s_18); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 207; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_8bindings_6linalg_17vector_div, NULL, __pyx_n_s_nipy_labs_bindings_linalg); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 200; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); - if 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__pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); - if (PyObject_SetAttr(__pyx_m, __pyx_n_s__vector_sum, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 224; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (PyDict_SetItem(__pyx_d, __pyx_n_s_vector_sum, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 217; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; - /* "nipy/labs/bindings/linalg.pyx":236 + /* "nipy/labs/bindings/linalg.pyx":229 * return s * * def vector_ssd(X, double m=0, int fixed=1): # <<<<<<<<<<<<<< * """ * (Minimal) sum of squared differences. */ - __pyx_t_1 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_8bindings_6linalg_21vector_ssd, NULL, __pyx_n_s_18); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 236; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_8bindings_6linalg_21vector_ssd, NULL, __pyx_n_s_nipy_labs_bindings_linalg); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 229; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); - if (PyObject_SetAttr(__pyx_m, __pyx_n_s__vector_ssd, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 236; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (PyDict_SetItem(__pyx_d, __pyx_n_s_vector_ssd, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 229; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; - /* "nipy/labs/bindings/linalg.pyx":248 + /* "nipy/labs/bindings/linalg.pyx":241 * return s * * def vector_sad(X, double m=0): # <<<<<<<<<<<<<< * """ * Sum of absolute differences. */ - __pyx_t_1 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_8bindings_6linalg_23vector_sad, NULL, __pyx_n_s_18); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 248; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_8bindings_6linalg_23vector_sad, NULL, __pyx_n_s_nipy_labs_bindings_linalg); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 241; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); - if (PyObject_SetAttr(__pyx_m, __pyx_n_s__vector_sad, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 248; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (PyDict_SetItem(__pyx_d, __pyx_n_s_vector_sad, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 241; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; - /* "nipy/labs/bindings/linalg.pyx":260 + /* "nipy/labs/bindings/linalg.pyx":253 * return s * * def vector_median(X): # <<<<<<<<<<<<<< * """ * Median. */ - __pyx_t_1 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_8bindings_6linalg_25vector_median, NULL, __pyx_n_s_18); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 260; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_8bindings_6linalg_25vector_median, NULL, __pyx_n_s_nipy_labs_bindings_linalg); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 253; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); - if (PyObject_SetAttr(__pyx_m, __pyx_n_s__vector_median, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 260; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (PyDict_SetItem(__pyx_d, __pyx_n_s_vector_median, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 253; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; - /* "nipy/labs/bindings/linalg.pyx":272 + /* "nipy/labs/bindings/linalg.pyx":265 * return m * * def vector_quantile(X, double r, int interp): # <<<<<<<<<<<<<< * """ * Quantile. */ - __pyx_t_1 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_8bindings_6linalg_27vector_quantile, NULL, __pyx_n_s_18); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 272; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_8bindings_6linalg_27vector_quantile, NULL, __pyx_n_s_nipy_labs_bindings_linalg); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 265; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); - if (PyObject_SetAttr(__pyx_m, __pyx_n_s__vector_quantile, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 272; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (PyDict_SetItem(__pyx_d, __pyx_n_s_vector_quantile, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 265; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; - /* "nipy/labs/bindings/linalg.pyx":286 + /* "nipy/labs/bindings/linalg.pyx":279 * * ## fff_matrix.h * def matrix_get(A, size_t i, size_t j): # <<<<<<<<<<<<<< * """ * Get (i,j) element. */ - __pyx_t_1 = 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__pyx_n_s__blas_dtrsm, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 471; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (PyDict_SetItem(__pyx_d, __pyx_n_s_blas_dsymm, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 413; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; - /* "nipy/labs/bindings/linalg.pyx":498 + /* "nipy/labs/bindings/linalg.pyx":438 * * * def blas_dsyrk(int Uplo, int Trans, double alpha, A, double beta, C): # <<<<<<<<<<<<<< * """ * D = blas_dsyrk(int Uplo, int Trans, double alpha, A, double beta, C). */ - __pyx_t_1 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_8bindings_6linalg_53blas_dsyrk, NULL, __pyx_n_s_18); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 498; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_8bindings_6linalg_49blas_dsyrk, NULL, __pyx_n_s_nipy_labs_bindings_linalg); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 438; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); - if (PyObject_SetAttr(__pyx_m, __pyx_n_s__blas_dsyrk, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 498; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (PyDict_SetItem(__pyx_d, __pyx_n_s_blas_dsyrk, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 438; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; - /* "nipy/labs/bindings/linalg.pyx":522 + /* "nipy/labs/bindings/linalg.pyx":462 * * * def blas_dsyr2k(int Uplo, int Trans, double alpha, A, B, double beta, C): # <<<<<<<<<<<<<< * """ * Compute a rank-2k update of the symmetric matrix C, C = \alpha A B^T + */ - __pyx_t_1 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_8bindings_6linalg_55blas_dsyr2k, NULL, __pyx_n_s_18); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 522; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_8bindings_6linalg_51blas_dsyr2k, NULL, __pyx_n_s_nipy_labs_bindings_linalg); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 462; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); - if (PyObject_SetAttr(__pyx_m, __pyx_n_s__blas_dsyr2k, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 522; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (PyDict_SetItem(__pyx_d, __pyx_n_s_blas_dsyr2k, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 462; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; /* "nipy/labs/bindings/linalg.pyx":1 @@ -9565,12 +9652,12 @@ PyMODINIT_FUNC PyInit_linalg(void) * * """ */ - __pyx_t_1 = PyDict_New(); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 1; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_GOTREF(((PyObject *)__pyx_t_1)); - if (PyObject_SetAttr(__pyx_m, __pyx_n_s____test__, ((PyObject *)__pyx_t_1)) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 1; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_DECREF(((PyObject *)__pyx_t_1)); __pyx_t_1 = 0; + __pyx_t_1 = PyDict_New(); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 1; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_GOTREF(__pyx_t_1); + if (PyDict_SetItem(__pyx_d, __pyx_n_s_test, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 1; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; - /* "numpy.pxd":975 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":976 * arr.base = baseptr * * cdef inline object get_array_base(ndarray arr): # <<<<<<<<<<<<<< @@ -9580,6 +9667,7 @@ PyMODINIT_FUNC PyInit_linalg(void) goto __pyx_L0; __pyx_L1_error:; __Pyx_XDECREF(__pyx_t_1); + __Pyx_XDECREF(__pyx_t_2); if (__pyx_m) { __Pyx_AddTraceback("init nipy.labs.bindings.linalg", __pyx_clineno, __pyx_lineno, __pyx_filename); Py_DECREF(__pyx_m); __pyx_m = 0; @@ -9612,6 +9700,36 @@ static __Pyx_RefNannyAPIStruct *__Pyx_RefNannyImportAPI(const char *modname) { } #endif /* CYTHON_REFNANNY */ +static PyObject *__Pyx_GetBuiltinName(PyObject *name) { + PyObject* result = __Pyx_PyObject_GetAttrStr(__pyx_b, name); + if (unlikely(!result)) { + PyErr_Format(PyExc_NameError, +#if PY_MAJOR_VERSION >= 3 + "name '%U' is not defined", name); +#else + "name '%.200s' is not defined", PyString_AS_STRING(name)); +#endif + } + return result; +} + +static CYTHON_INLINE PyObject *__Pyx_GetModuleGlobalName(PyObject *name) { + PyObject *result; +#if CYTHON_COMPILING_IN_CPYTHON + result = PyDict_GetItem(__pyx_d, name); + if (result) { + Py_INCREF(result); + } else { +#else + result = PyObject_GetItem(__pyx_d, name); + if (!result) { + PyErr_Clear(); +#endif + result = __Pyx_GetBuiltinName(name); + } + return result; +} + static void __Pyx_RaiseArgtupleInvalid( const char* func_name, int exact, @@ -9632,7 +9750,7 @@ static void __Pyx_RaiseArgtupleInvalid( more_or_less = "exactly"; } PyErr_Format(PyExc_TypeError, - "%s() takes %s %" CYTHON_FORMAT_SSIZE_T "d positional argument%s (%" CYTHON_FORMAT_SSIZE_T "d given)", + "%.200s() takes %.8s %" CYTHON_FORMAT_SSIZE_T "d positional argument%.1s (%" CYTHON_FORMAT_SSIZE_T "d given)", func_name, more_or_less, num_expected, (num_expected == 1) ? "" : "s", num_found); } @@ -9736,12 +9854,12 @@ static int __Pyx_ParseOptionalKeywords( goto bad; invalid_keyword_type: PyErr_Format(PyExc_TypeError, - "%s() keywords must be strings", function_name); + "%.200s() keywords must be strings", function_name); goto bad; invalid_keyword: PyErr_Format(PyExc_TypeError, #if PY_MAJOR_VERSION < 3 - "%s() got an unexpected keyword argument '%s'", + "%.200s() got an unexpected keyword argument '%.200s'", function_name, PyString_AsString(key)); #else "%s() got an unexpected keyword argument '%U'", @@ -9753,7 +9871,7 @@ static int __Pyx_ParseOptionalKeywords( static CYTHON_INLINE int __Pyx_TypeTest(PyObject *obj, PyTypeObject *type) { if (unlikely(!type)) { - PyErr_Format(PyExc_SystemError, "Missing type object"); + PyErr_SetString(PyExc_SystemError, "Missing type object"); return 0; } if (likely(PyObject_TypeCheck(obj, type))) @@ -9763,20 +9881,28 @@ static CYTHON_INLINE int __Pyx_TypeTest(PyObject *obj, PyTypeObject *type) { return 0; } -static PyObject *__Pyx_GetName(PyObject *dict, PyObject *name) { +#if CYTHON_COMPILING_IN_CPYTHON +static CYTHON_INLINE PyObject* __Pyx_PyObject_Call(PyObject *func, PyObject *arg, PyObject *kw) { PyObject *result; - result = PyObject_GetAttr(dict, name); - if (!result) { - if (dict != __pyx_b) { - PyErr_Clear(); - result = PyObject_GetAttr(__pyx_b, name); - } - if (!result) { - PyErr_SetObject(PyExc_NameError, name); - } + ternaryfunc call = func->ob_type->tp_call; + if (unlikely(!call)) + return PyObject_Call(func, arg, kw); +#if PY_VERSION_HEX >= 0x02060000 + if (unlikely(Py_EnterRecursiveCall((char*)" while calling a Python object"))) + return NULL; +#endif + result = (*call)(func, arg, kw); +#if PY_VERSION_HEX >= 0x02060000 + Py_LeaveRecursiveCall(); +#endif + if (unlikely(!result) && unlikely(!PyErr_Occurred())) { + PyErr_SetString( + PyExc_SystemError, + "NULL result without error in PyObject_Call"); } return result; } +#endif static CYTHON_INLINE void __Pyx_ErrRestore(PyObject *type, PyObject *value, PyObject *tb) { #if CYTHON_COMPILING_IN_CPYTHON @@ -9847,24 +9973,23 @@ static void __Pyx_Raise(PyObject *type, PyObject *value, PyObject *tb, } value = type; #if PY_VERSION_HEX < 0x02050000 - if (PyInstance_Check(type)) { - type = (PyObject*) ((PyInstanceObject*)type)->in_class; - Py_INCREF(type); - } - else { - type = 0; - PyErr_SetString(PyExc_TypeError, - "raise: exception must be an old-style class or instance"); - goto raise_error; - } - #else - type = (PyObject*) Py_TYPE(type); + if (PyInstance_Check(type)) { + type = (PyObject*) ((PyInstanceObject*)type)->in_class; Py_INCREF(type); - if (!PyType_IsSubtype((PyTypeObject *)type, (PyTypeObject *)PyExc_BaseException)) { - PyErr_SetString(PyExc_TypeError, - "raise: exception class must be a subclass of BaseException"); - goto raise_error; - } + } else { + type = 0; + PyErr_SetString(PyExc_TypeError, + "raise: exception must be an old-style class or instance"); + goto raise_error; + } + #else + type = (PyObject*) Py_TYPE(type); + Py_INCREF(type); + if (!PyType_IsSubtype((PyTypeObject *)type, (PyTypeObject *)PyExc_BaseException)) { + PyErr_SetString(PyExc_TypeError, + "raise: exception class must be a subclass of BaseException"); + goto raise_error; + } #endif } __Pyx_ErrRestore(type, value, tb); @@ -9896,46 +10021,62 @@ static void __Pyx_Raise(PyObject *type, PyObject *value, PyObject *tb, PyObject value = type; type = (PyObject*) Py_TYPE(value); } else if (PyExceptionClass_Check(type)) { - PyObject *args; - if (!value) - args = PyTuple_New(0); - else if (PyTuple_Check(value)) { - Py_INCREF(value); - args = value; + PyObject *instance_class = NULL; + if (value && PyExceptionInstance_Check(value)) { + instance_class = (PyObject*) Py_TYPE(value); + if (instance_class != type) { + if (PyObject_IsSubclass(instance_class, type)) { + type = instance_class; + } else { + instance_class = NULL; + } + } } - else - args = PyTuple_Pack(1, value); - if (!args) - goto bad; - owned_instance = PyEval_CallObject(type, args); - Py_DECREF(args); - if (!owned_instance) - goto bad; - value = owned_instance; - if (!PyExceptionInstance_Check(value)) { - PyErr_Format(PyExc_TypeError, - "calling %R should have returned an instance of " - "BaseException, not %R", - type, Py_TYPE(value)); - goto bad; + if (!instance_class) { + PyObject *args; + if (!value) + args = PyTuple_New(0); + else if (PyTuple_Check(value)) { + Py_INCREF(value); + args = value; + } else + args = PyTuple_Pack(1, value); + if (!args) + goto bad; + owned_instance = PyObject_Call(type, args, NULL); + Py_DECREF(args); + if (!owned_instance) + goto bad; + value = owned_instance; + if (!PyExceptionInstance_Check(value)) { + PyErr_Format(PyExc_TypeError, + "calling %R should have returned an instance of " + "BaseException, not %R", + type, Py_TYPE(value)); + goto bad; + } } } else { PyErr_SetString(PyExc_TypeError, "raise: exception class must be a subclass of BaseException"); goto bad; } +#if PY_VERSION_HEX >= 0x03030000 + if (cause) { +#else if (cause && cause != Py_None) { +#endif PyObject *fixed_cause; - if (PyExceptionClass_Check(cause)) { + if (cause == Py_None) { + fixed_cause = NULL; + } else if (PyExceptionClass_Check(cause)) { fixed_cause = PyObject_CallObject(cause, NULL); if (fixed_cause == NULL) goto bad; - } - else if (PyExceptionInstance_Check(cause)) { + } else if (PyExceptionInstance_Check(cause)) { fixed_cause = cause; Py_INCREF(fixed_cause); - } - else { + } else { PyErr_SetString(PyExc_TypeError, "exception causes must derive from " "BaseException"); @@ -9966,7 +10107,7 @@ static CYTHON_INLINE void __Pyx_RaiseTooManyValuesError(Py_ssize_t expected) { static CYTHON_INLINE void __Pyx_RaiseNeedMoreValuesError(Py_ssize_t index) { PyErr_Format(PyExc_ValueError, - "need more than %" CYTHON_FORMAT_SSIZE_T "d value%s to unpack", + "need more than %" CYTHON_FORMAT_SSIZE_T "d value%.1s to unpack", index, (index == 1) ? "" : "s"); } @@ -9974,61 +10115,31 @@ static CYTHON_INLINE void __Pyx_RaiseNoneNotIterableError(void) { PyErr_SetString(PyExc_TypeError, "'NoneType' object is not iterable"); } -static CYTHON_INLINE int __Pyx_IterFinish(void) { -#if CYTHON_COMPILING_IN_CPYTHON - PyThreadState *tstate = PyThreadState_GET(); - PyObject* exc_type = tstate->curexc_type; - if (unlikely(exc_type)) { - if (likely(exc_type == PyExc_StopIteration) || PyErr_GivenExceptionMatches(exc_type, PyExc_StopIteration)) { - PyObject *exc_value, *exc_tb; - exc_value = tstate->curexc_value; - exc_tb = tstate->curexc_traceback; - tstate->curexc_type = 0; - tstate->curexc_value = 0; - tstate->curexc_traceback = 0; - Py_DECREF(exc_type); - Py_XDECREF(exc_value); - Py_XDECREF(exc_tb); - return 0; - } else { - return -1; - } - } - return 0; -#else - if (unlikely(PyErr_Occurred())) { - if (likely(PyErr_ExceptionMatches(PyExc_StopIteration))) { - PyErr_Clear(); - return 0; - } else { - return -1; - } - } - return 0; -#endif -} - -static int __Pyx_IternextUnpackEndCheck(PyObject *retval, Py_ssize_t expected) { - if (unlikely(retval)) { - Py_DECREF(retval); - __Pyx_RaiseTooManyValuesError(expected); - return -1; - } else { - return __Pyx_IterFinish(); +static PyObject* __Pyx_ImportFrom(PyObject* module, PyObject* name) { + PyObject* value = __Pyx_PyObject_GetAttrStr(module, name); + if (unlikely(!value) && PyErr_ExceptionMatches(PyExc_AttributeError)) { + PyErr_Format(PyExc_ImportError, + #if PY_MAJOR_VERSION < 3 + "cannot import name %.230s", PyString_AS_STRING(name)); + #else + "cannot import name %S", name); + #endif } - return 0; + return value; } -static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, long level) { - PyObject *py_import = 0; +static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, int level) { PyObject *empty_list = 0; PyObject *module = 0; PyObject *global_dict = 0; PyObject *empty_dict = 0; PyObject *list; - py_import = __Pyx_GetAttrString(__pyx_b, "__import__"); + #if PY_VERSION_HEX < 0x03030000 + PyObject *py_import; + py_import = __Pyx_PyObject_GetAttrStr(__pyx_b, __pyx_n_s_import); if (!py_import) goto bad; + #endif if (from_list) list = from_list; else { @@ -10048,44 +10159,271 @@ static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, long level) { #if PY_MAJOR_VERSION >= 3 if (level == -1) { if (strchr(__Pyx_MODULE_NAME, '.')) { - /* try package relative import first */ + #if PY_VERSION_HEX < 0x03030000 PyObject *py_level = PyInt_FromLong(1); if (!py_level) goto bad; module = PyObject_CallFunctionObjArgs(py_import, name, global_dict, empty_dict, list, py_level, NULL); Py_DECREF(py_level); + #else + module = PyImport_ImportModuleLevelObject( + name, global_dict, empty_dict, list, 1); + #endif if (!module) { if (!PyErr_ExceptionMatches(PyExc_ImportError)) goto bad; PyErr_Clear(); } } - level = 0; /* try absolute import on failure */ + level = 0; /* try absolute import on failure */ + } + #endif + if (!module) { + #if PY_VERSION_HEX < 0x03030000 + PyObject *py_level = PyInt_FromLong(level); + if (!py_level) + goto bad; + module = PyObject_CallFunctionObjArgs(py_import, + name, global_dict, empty_dict, list, py_level, NULL); + Py_DECREF(py_level); + #else + module = PyImport_ImportModuleLevelObject( + name, global_dict, empty_dict, list, level); + #endif + } + } + #else + if (level>0) { + PyErr_SetString(PyExc_RuntimeError, "Relative import is not supported for Python <=2.4."); + goto bad; + } + module = PyObject_CallFunctionObjArgs(py_import, + name, global_dict, empty_dict, list, NULL); + #endif +bad: + #if PY_VERSION_HEX < 0x03030000 + Py_XDECREF(py_import); + #endif + Py_XDECREF(empty_list); + Py_XDECREF(empty_dict); + return module; +} + +#define __PYX_VERIFY_RETURN_INT(target_type, func_type, func) \ + { \ + func_type value = func(x); \ + if (sizeof(target_type) < sizeof(func_type)) { \ + if (unlikely(value != (func_type) (target_type) value)) { \ + func_type zero = 0; \ + PyErr_SetString(PyExc_OverflowError, \ + (is_unsigned && unlikely(value < zero)) ? \ + "can't convert negative value to " #target_type : \ + "value too large to convert to " #target_type); \ + return (target_type) -1; \ + } \ + } \ + return (target_type) value; \ + } + +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + #include "longintrepr.h" + #endif +#endif +static CYTHON_INLINE size_t __Pyx_PyInt_As_size_t(PyObject *x) { + const size_t neg_one = (size_t) -1, const_zero = 0; + const int is_unsigned = neg_one > const_zero; +#if PY_MAJOR_VERSION < 3 + if (likely(PyInt_Check(x))) { + if (sizeof(size_t) < sizeof(long)) { + __PYX_VERIFY_RETURN_INT(size_t, long, PyInt_AS_LONG) + } else { + long val = PyInt_AS_LONG(x); + if (is_unsigned && unlikely(val < 0)) { + PyErr_SetString(PyExc_OverflowError, + "can't convert negative value to size_t"); + return (size_t) -1; + } + return (size_t) val; + } + } else +#endif + if (likely(PyLong_Check(x))) { + if (is_unsigned) { +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + if (sizeof(digit) <= sizeof(size_t)) { + switch (Py_SIZE(x)) { + case 0: return 0; + case 1: return (size_t) ((PyLongObject*)x)->ob_digit[0]; + } + } + #endif +#endif + if (unlikely(Py_SIZE(x) < 0)) { + PyErr_SetString(PyExc_OverflowError, + "can't convert negative value to size_t"); + return (size_t) -1; + } + if (sizeof(size_t) <= sizeof(unsigned long)) { + __PYX_VERIFY_RETURN_INT(size_t, unsigned long, PyLong_AsUnsignedLong) + } else if (sizeof(size_t) <= sizeof(unsigned long long)) { + __PYX_VERIFY_RETURN_INT(size_t, unsigned long long, PyLong_AsUnsignedLongLong) + } + } else { +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + if (sizeof(digit) <= sizeof(size_t)) { + switch (Py_SIZE(x)) { + case 0: return 0; + case 1: return +(size_t) ((PyLongObject*)x)->ob_digit[0]; + case -1: return -(size_t) ((PyLongObject*)x)->ob_digit[0]; + } + } + #endif +#endif + if (sizeof(size_t) <= sizeof(long)) { + __PYX_VERIFY_RETURN_INT(size_t, long, PyLong_AsLong) + } else if (sizeof(size_t) <= sizeof(long long)) { + __PYX_VERIFY_RETURN_INT(size_t, long long, PyLong_AsLongLong) + } + } + { +#if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) + PyErr_SetString(PyExc_RuntimeError, + "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); +#else + size_t val; + PyObject *v = __Pyx_PyNumber_Int(x); + #if PY_MAJOR_VERSION < 3 + if (likely(v) && !PyLong_Check(v)) { + PyObject *tmp = v; + v = PyNumber_Long(tmp); + Py_DECREF(tmp); + } + #endif + if (likely(v)) { + int one = 1; int is_little = (int)*(unsigned char *)&one; + unsigned char *bytes = (unsigned char *)&val; + int ret = _PyLong_AsByteArray((PyLongObject *)v, + bytes, sizeof(val), + is_little, !is_unsigned); + Py_DECREF(v); + if (likely(!ret)) + return val; + } +#endif + return (size_t) -1; + } + } else { + size_t val; + PyObject *tmp = __Pyx_PyNumber_Int(x); + if (!tmp) return (size_t) -1; + val = __Pyx_PyInt_As_size_t(tmp); + Py_DECREF(tmp); + return val; + } +} + +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + #include "longintrepr.h" + #endif +#endif +static CYTHON_INLINE int __Pyx_PyInt_As_int(PyObject *x) { + const int neg_one = (int) -1, const_zero = 0; + const int is_unsigned = neg_one > const_zero; +#if PY_MAJOR_VERSION < 3 + if (likely(PyInt_Check(x))) { + if (sizeof(int) < sizeof(long)) { + __PYX_VERIFY_RETURN_INT(int, long, PyInt_AS_LONG) + } else { + long val = PyInt_AS_LONG(x); + if (is_unsigned && unlikely(val < 0)) { + PyErr_SetString(PyExc_OverflowError, + "can't convert negative value to int"); + return (int) -1; + } + return (int) val; + } + } else +#endif + if (likely(PyLong_Check(x))) { + if (is_unsigned) { +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + if (sizeof(digit) <= sizeof(int)) { + switch (Py_SIZE(x)) { + case 0: return 0; + case 1: return (int) ((PyLongObject*)x)->ob_digit[0]; + } + } + #endif +#endif + if (unlikely(Py_SIZE(x) < 0)) { + PyErr_SetString(PyExc_OverflowError, + "can't convert negative value to int"); + return (int) -1; + } + if (sizeof(int) <= sizeof(unsigned long)) { + __PYX_VERIFY_RETURN_INT(int, unsigned long, PyLong_AsUnsignedLong) + } else if (sizeof(int) <= sizeof(unsigned long long)) { + __PYX_VERIFY_RETURN_INT(int, unsigned long long, PyLong_AsUnsignedLongLong) + } + } else { +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + if (sizeof(digit) <= sizeof(int)) { + switch (Py_SIZE(x)) { + case 0: return 0; + case 1: return +(int) ((PyLongObject*)x)->ob_digit[0]; + case -1: return -(int) ((PyLongObject*)x)->ob_digit[0]; + } + } + #endif +#endif + if (sizeof(int) <= sizeof(long)) { + __PYX_VERIFY_RETURN_INT(int, long, PyLong_AsLong) + } else if (sizeof(int) <= sizeof(long long)) { + __PYX_VERIFY_RETURN_INT(int, long long, PyLong_AsLongLong) + } } - #endif - if (!module) { - PyObject *py_level = PyInt_FromLong(level); - if (!py_level) - goto bad; - module = PyObject_CallFunctionObjArgs(py_import, - name, global_dict, empty_dict, list, py_level, NULL); - Py_DECREF(py_level); + { +#if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) + PyErr_SetString(PyExc_RuntimeError, + "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); +#else + int val; + PyObject *v = __Pyx_PyNumber_Int(x); + #if PY_MAJOR_VERSION < 3 + if (likely(v) && !PyLong_Check(v)) { + PyObject *tmp = v; + v = PyNumber_Long(tmp); + Py_DECREF(tmp); + } + #endif + if (likely(v)) { + int one = 1; int is_little = (int)*(unsigned char *)&one; + unsigned char *bytes = (unsigned char *)&val; + int ret = _PyLong_AsByteArray((PyLongObject *)v, + bytes, sizeof(val), + is_little, !is_unsigned); + Py_DECREF(v); + if (likely(!ret)) + return val; + } +#endif + return (int) -1; } + } else { + int val; + PyObject *tmp = __Pyx_PyNumber_Int(x); + if (!tmp) return (int) -1; + val = __Pyx_PyInt_As_int(tmp); + Py_DECREF(tmp); + return val; } - #else - if (level>0) { - PyErr_SetString(PyExc_RuntimeError, "Relative import is not supported for Python <=2.4."); - goto bad; - } - module = PyObject_CallFunctionObjArgs(py_import, - name, global_dict, empty_dict, list, NULL); - #endif -bad: - Py_XDECREF(empty_list); - Py_XDECREF(py_import); - Py_XDECREF(empty_dict); - return module; } #if CYTHON_CCOMPLEX @@ -10328,401 +10666,153 @@ static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, long level) { #endif #endif -static CYTHON_INLINE unsigned char __Pyx_PyInt_AsUnsignedChar(PyObject* x) { - const unsigned char neg_one = (unsigned char)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(unsigned char) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(unsigned char)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to unsigned char" : - "value too large to convert to unsigned char"); - } - return (unsigned char)-1; - } - return (unsigned char)val; - } - return (unsigned char)__Pyx_PyInt_AsUnsignedLong(x); -} - -static CYTHON_INLINE unsigned short __Pyx_PyInt_AsUnsignedShort(PyObject* x) { - const unsigned short neg_one = (unsigned short)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(unsigned short) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(unsigned short)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to unsigned short" : - "value too large to convert to unsigned short"); - } - return (unsigned short)-1; - } - return (unsigned short)val; - } - return (unsigned short)__Pyx_PyInt_AsUnsignedLong(x); -} - -static CYTHON_INLINE unsigned int __Pyx_PyInt_AsUnsignedInt(PyObject* x) { - const unsigned int neg_one = (unsigned int)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(unsigned int) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(unsigned int)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to unsigned int" : - "value too large to convert to unsigned int"); - } - return (unsigned int)-1; - } - return (unsigned int)val; - } - return (unsigned int)__Pyx_PyInt_AsUnsignedLong(x); -} - -static CYTHON_INLINE char __Pyx_PyInt_AsChar(PyObject* x) { - const char neg_one = (char)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(char) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(char)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to char" : - "value too large to convert to char"); - } - return (char)-1; - } - return (char)val; - } - return (char)__Pyx_PyInt_AsLong(x); -} - -static CYTHON_INLINE short __Pyx_PyInt_AsShort(PyObject* x) { - const short neg_one = (short)-1, const_zero = 0; +static CYTHON_INLINE PyObject* __Pyx_PyInt_From_int(int value) { + const int neg_one = (int) -1, const_zero = 0; const int is_unsigned = neg_one > const_zero; - if (sizeof(short) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(short)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to short" : - "value too large to convert to short"); - } - return (short)-1; + if (is_unsigned) { + if (sizeof(int) < sizeof(long)) { + return PyInt_FromLong((long) value); + } else if (sizeof(int) <= sizeof(unsigned long)) { + return PyLong_FromUnsignedLong((unsigned long) value); + } else if (sizeof(int) <= sizeof(unsigned long long)) { + return PyLong_FromUnsignedLongLong((unsigned long long) value); } - return (short)val; - } - return (short)__Pyx_PyInt_AsLong(x); -} - -static CYTHON_INLINE int __Pyx_PyInt_AsInt(PyObject* x) { - const int neg_one = (int)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(int) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(int)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to int" : - "value too large to convert to int"); - } - return (int)-1; + } else { + if (sizeof(int) <= sizeof(long)) { + return PyInt_FromLong((long) value); + } else if (sizeof(int) <= sizeof(long long)) { + return PyLong_FromLongLong((long long) value); } - return (int)val; } - return (int)__Pyx_PyInt_AsLong(x); -} - -static CYTHON_INLINE signed char __Pyx_PyInt_AsSignedChar(PyObject* x) { - const signed char neg_one = (signed char)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(signed char) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(signed char)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to signed char" : - "value too large to convert to signed char"); - } - return (signed char)-1; - } - return (signed char)val; + { + int one = 1; int little = (int)*(unsigned char *)&one; + unsigned char *bytes = (unsigned char *)&value; + return _PyLong_FromByteArray(bytes, sizeof(int), + little, !is_unsigned); } - return (signed char)__Pyx_PyInt_AsSignedLong(x); } -static CYTHON_INLINE signed short __Pyx_PyInt_AsSignedShort(PyObject* x) { - const signed short neg_one = (signed short)-1, const_zero = 0; +static CYTHON_INLINE PyObject* __Pyx_PyInt_From_long(long value) { + const long neg_one = (long) -1, const_zero = 0; const int is_unsigned = neg_one > const_zero; - if (sizeof(signed short) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(signed short)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to signed short" : - "value too large to convert to signed short"); - } - return (signed short)-1; + if (is_unsigned) { + if (sizeof(long) < sizeof(long)) { + return PyInt_FromLong((long) value); + } else if (sizeof(long) <= sizeof(unsigned long)) { + return PyLong_FromUnsignedLong((unsigned long) value); + } else if (sizeof(long) <= sizeof(unsigned long long)) { + return PyLong_FromUnsignedLongLong((unsigned long long) value); } - return (signed short)val; - } - return (signed short)__Pyx_PyInt_AsSignedLong(x); -} - -static CYTHON_INLINE signed int __Pyx_PyInt_AsSignedInt(PyObject* x) { - const signed int neg_one = (signed int)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(signed int) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(signed int)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to signed int" : - "value too large to convert to signed int"); - } - return (signed int)-1; + } else { + if (sizeof(long) <= sizeof(long)) { + return PyInt_FromLong((long) value); + } else if (sizeof(long) <= sizeof(long long)) { + return PyLong_FromLongLong((long long) value); } - return (signed int)val; } - return (signed int)__Pyx_PyInt_AsSignedLong(x); -} - -static CYTHON_INLINE int __Pyx_PyInt_AsLongDouble(PyObject* x) { - const int neg_one = (int)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(int) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(int)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to int" : - "value too large to convert to int"); - } - return (int)-1; - } - return (int)val; + { + int one = 1; int little = (int)*(unsigned char *)&one; + unsigned char *bytes = (unsigned char *)&value; + return _PyLong_FromByteArray(bytes, sizeof(long), + little, !is_unsigned); } - return (int)__Pyx_PyInt_AsLong(x); } -static CYTHON_INLINE unsigned long __Pyx_PyInt_AsUnsignedLong(PyObject* x) { - const unsigned long neg_one = (unsigned long)-1, const_zero = 0; +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + #include "longintrepr.h" + #endif +#endif +static CYTHON_INLINE long __Pyx_PyInt_As_long(PyObject *x) { + const long neg_one = (long) -1, const_zero = 0; const int is_unsigned = neg_one > const_zero; -#if PY_VERSION_HEX < 0x03000000 +#if PY_MAJOR_VERSION < 3 if (likely(PyInt_Check(x))) { - long val = PyInt_AS_LONG(x); - if (is_unsigned && unlikely(val < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to unsigned long"); - return (unsigned long)-1; - } - return (unsigned long)val; - } else -#endif - if (likely(PyLong_Check(x))) { - if (is_unsigned) { - if (unlikely(Py_SIZE(x) < 0)) { + if (sizeof(long) < sizeof(long)) { + __PYX_VERIFY_RETURN_INT(long, long, PyInt_AS_LONG) + } else { + long val = PyInt_AS_LONG(x); + if (is_unsigned && unlikely(val < 0)) { PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to unsigned long"); - return (unsigned long)-1; + "can't convert negative value to long"); + return (long) -1; } - return (unsigned long)PyLong_AsUnsignedLong(x); - } else { - return (unsigned long)PyLong_AsLong(x); - } - } else { - unsigned long val; - PyObject *tmp = __Pyx_PyNumber_Int(x); - if (!tmp) return (unsigned long)-1; - val = __Pyx_PyInt_AsUnsignedLong(tmp); - Py_DECREF(tmp); - return val; - } -} - -static CYTHON_INLINE unsigned PY_LONG_LONG __Pyx_PyInt_AsUnsignedLongLong(PyObject* x) { - const unsigned PY_LONG_LONG neg_one = (unsigned PY_LONG_LONG)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; -#if PY_VERSION_HEX < 0x03000000 - if (likely(PyInt_Check(x))) { - long val = PyInt_AS_LONG(x); - if (is_unsigned && unlikely(val < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to unsigned PY_LONG_LONG"); - return (unsigned PY_LONG_LONG)-1; + return (long) val; } - return (unsigned PY_LONG_LONG)val; } else #endif if (likely(PyLong_Check(x))) { if (is_unsigned) { - if (unlikely(Py_SIZE(x) < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to unsigned PY_LONG_LONG"); - return (unsigned PY_LONG_LONG)-1; +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + if (sizeof(digit) <= sizeof(long)) { + switch (Py_SIZE(x)) { + case 0: return 0; + case 1: return (long) ((PyLongObject*)x)->ob_digit[0]; + } } - return (unsigned PY_LONG_LONG)PyLong_AsUnsignedLongLong(x); - } else { - return (unsigned PY_LONG_LONG)PyLong_AsLongLong(x); - } - } else { - unsigned PY_LONG_LONG val; - PyObject *tmp = __Pyx_PyNumber_Int(x); - if (!tmp) return (unsigned PY_LONG_LONG)-1; - val = __Pyx_PyInt_AsUnsignedLongLong(tmp); - Py_DECREF(tmp); - return val; - } -} - -static CYTHON_INLINE long __Pyx_PyInt_AsLong(PyObject* x) { - const long neg_one = (long)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; -#if PY_VERSION_HEX < 0x03000000 - if (likely(PyInt_Check(x))) { - long val = PyInt_AS_LONG(x); - if (is_unsigned && unlikely(val < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to long"); - return (long)-1; - } - return (long)val; - } else + #endif #endif - if (likely(PyLong_Check(x))) { - if (is_unsigned) { if (unlikely(Py_SIZE(x) < 0)) { PyErr_SetString(PyExc_OverflowError, "can't convert negative value to long"); - return (long)-1; + return (long) -1; } - return (long)PyLong_AsUnsignedLong(x); - } else { - return (long)PyLong_AsLong(x); - } - } else { - long val; - PyObject *tmp = __Pyx_PyNumber_Int(x); - if (!tmp) return (long)-1; - val = __Pyx_PyInt_AsLong(tmp); - Py_DECREF(tmp); - return val; - } -} - -static CYTHON_INLINE PY_LONG_LONG __Pyx_PyInt_AsLongLong(PyObject* x) { - const PY_LONG_LONG neg_one = (PY_LONG_LONG)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; -#if PY_VERSION_HEX < 0x03000000 - if (likely(PyInt_Check(x))) { - long val = PyInt_AS_LONG(x); - if (is_unsigned && unlikely(val < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to PY_LONG_LONG"); - return (PY_LONG_LONG)-1; - } - return (PY_LONG_LONG)val; - } else -#endif - if (likely(PyLong_Check(x))) { - if (is_unsigned) { - if (unlikely(Py_SIZE(x) < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to PY_LONG_LONG"); - return (PY_LONG_LONG)-1; + if (sizeof(long) <= sizeof(unsigned long)) { + __PYX_VERIFY_RETURN_INT(long, unsigned long, PyLong_AsUnsignedLong) + } else if (sizeof(long) <= sizeof(unsigned long long)) { + __PYX_VERIFY_RETURN_INT(long, unsigned long long, PyLong_AsUnsignedLongLong) } - return (PY_LONG_LONG)PyLong_AsUnsignedLongLong(x); } else { - return (PY_LONG_LONG)PyLong_AsLongLong(x); - } - } else { - PY_LONG_LONG val; - PyObject *tmp = __Pyx_PyNumber_Int(x); - if (!tmp) return (PY_LONG_LONG)-1; - val = __Pyx_PyInt_AsLongLong(tmp); - Py_DECREF(tmp); - return val; - } -} - -static CYTHON_INLINE signed long __Pyx_PyInt_AsSignedLong(PyObject* x) { - const signed long neg_one = (signed long)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; -#if PY_VERSION_HEX < 0x03000000 - if (likely(PyInt_Check(x))) { - long val = PyInt_AS_LONG(x); - if (is_unsigned && unlikely(val < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to signed long"); - return (signed long)-1; - } - return (signed long)val; - } else +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + if (sizeof(digit) <= sizeof(long)) { + switch (Py_SIZE(x)) { + case 0: return 0; + case 1: return +(long) ((PyLongObject*)x)->ob_digit[0]; + case -1: return -(long) ((PyLongObject*)x)->ob_digit[0]; + } + } + #endif #endif - if (likely(PyLong_Check(x))) { - if (is_unsigned) { - if (unlikely(Py_SIZE(x) < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to signed long"); - return (signed long)-1; + if (sizeof(long) <= sizeof(long)) { + __PYX_VERIFY_RETURN_INT(long, long, PyLong_AsLong) + } else if (sizeof(long) <= sizeof(long long)) { + __PYX_VERIFY_RETURN_INT(long, long long, PyLong_AsLongLong) } - return (signed long)PyLong_AsUnsignedLong(x); - } else { - return (signed long)PyLong_AsLong(x); - } - } else { - signed long val; - PyObject *tmp = __Pyx_PyNumber_Int(x); - if (!tmp) return (signed long)-1; - val = __Pyx_PyInt_AsSignedLong(tmp); - Py_DECREF(tmp); - return val; - } -} - -static CYTHON_INLINE signed PY_LONG_LONG __Pyx_PyInt_AsSignedLongLong(PyObject* x) { - const signed PY_LONG_LONG neg_one = (signed PY_LONG_LONG)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; -#if PY_VERSION_HEX < 0x03000000 - if (likely(PyInt_Check(x))) { - long val = PyInt_AS_LONG(x); - if (is_unsigned && unlikely(val < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to signed PY_LONG_LONG"); - return (signed PY_LONG_LONG)-1; } - return (signed PY_LONG_LONG)val; - } else -#endif - if (likely(PyLong_Check(x))) { - if (is_unsigned) { - if (unlikely(Py_SIZE(x) < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to signed PY_LONG_LONG"); - return (signed PY_LONG_LONG)-1; + { +#if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) + PyErr_SetString(PyExc_RuntimeError, + "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); +#else + long val; + PyObject *v = __Pyx_PyNumber_Int(x); + #if PY_MAJOR_VERSION < 3 + if (likely(v) && !PyLong_Check(v)) { + PyObject *tmp = v; + v = PyNumber_Long(tmp); + Py_DECREF(tmp); } - return (signed PY_LONG_LONG)PyLong_AsUnsignedLongLong(x); - } else { - return (signed PY_LONG_LONG)PyLong_AsLongLong(x); + #endif + if (likely(v)) { + int one = 1; int is_little = (int)*(unsigned char *)&one; + unsigned char *bytes = (unsigned char *)&val; + int ret = _PyLong_AsByteArray((PyLongObject *)v, + bytes, sizeof(val), + is_little, !is_unsigned); + Py_DECREF(v); + if (likely(!ret)) + return val; + } +#endif + return (long) -1; } } else { - signed PY_LONG_LONG val; + long val; PyObject *tmp = __Pyx_PyNumber_Int(x); - if (!tmp) return (signed PY_LONG_LONG)-1; - val = __Pyx_PyInt_AsSignedLongLong(tmp); + if (!tmp) return (long) -1; + val = __Pyx_PyInt_As_long(tmp); Py_DECREF(tmp); return val; } @@ -10773,6 +10863,10 @@ static PyTypeObject *__Pyx_ImportType(const char *module_name, const char *class PyObject *result = 0; PyObject *py_name = 0; char warning[200]; + Py_ssize_t basicsize; +#ifdef Py_LIMITED_API + PyObject *py_basicsize; +#endif py_module = __Pyx_ImportModule(module_name); if (!py_module) goto bad; @@ -10788,11 +10882,23 @@ static PyTypeObject *__Pyx_ImportType(const char *module_name, const char *class goto bad; if (!PyType_Check(result)) { PyErr_Format(PyExc_TypeError, - "%s.%s is not a type object", + "%.200s.%.200s is not a type object", module_name, class_name); goto bad; } - if (!strict && (size_t)((PyTypeObject *)result)->tp_basicsize > size) { +#ifndef Py_LIMITED_API + basicsize = ((PyTypeObject *)result)->tp_basicsize; +#else + py_basicsize = PyObject_GetAttrString(result, "__basicsize__"); + if (!py_basicsize) + goto bad; + basicsize = PyLong_AsSsize_t(py_basicsize); + Py_DECREF(py_basicsize); + py_basicsize = 0; + if (basicsize == (Py_ssize_t)-1 && PyErr_Occurred()) + goto bad; +#endif + if (!strict && (size_t)basicsize > size) { PyOS_snprintf(warning, sizeof(warning), "%s.%s size changed, may indicate binary incompatibility", module_name, class_name); @@ -10802,9 +10908,9 @@ static PyTypeObject *__Pyx_ImportType(const char *module_name, const char *class if (PyErr_WarnEx(NULL, warning, 0) < 0) goto bad; #endif } - else if ((size_t)((PyTypeObject *)result)->tp_basicsize != size) { + else if ((size_t)basicsize != size) { PyErr_Format(PyExc_ValueError, - "%s.%s has the wrong size, try recompiling", + "%.200s.%.200s has the wrong size, try recompiling", module_name, class_name); goto bad; } @@ -11008,27 +11114,90 @@ static int __Pyx_InitStrings(__Pyx_StringTabEntry *t) { return 0; } - -/* Type Conversion Functions */ - +static CYTHON_INLINE PyObject* __Pyx_PyUnicode_FromString(const char* c_str) { + return __Pyx_PyUnicode_FromStringAndSize(c_str, strlen(c_str)); +} +static CYTHON_INLINE char* __Pyx_PyObject_AsString(PyObject* o) { + Py_ssize_t ignore; + return __Pyx_PyObject_AsStringAndSize(o, &ignore); +} +static CYTHON_INLINE char* __Pyx_PyObject_AsStringAndSize(PyObject* o, Py_ssize_t *length) { +#if __PYX_DEFAULT_STRING_ENCODING_IS_ASCII || __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT + if ( +#if PY_MAJOR_VERSION < 3 && __PYX_DEFAULT_STRING_ENCODING_IS_ASCII + __Pyx_sys_getdefaultencoding_not_ascii && +#endif + PyUnicode_Check(o)) { +#if PY_VERSION_HEX < 0x03030000 + char* defenc_c; + PyObject* defenc = _PyUnicode_AsDefaultEncodedString(o, NULL); + if (!defenc) return NULL; + defenc_c = PyBytes_AS_STRING(defenc); +#if __PYX_DEFAULT_STRING_ENCODING_IS_ASCII + { + char* end = defenc_c + PyBytes_GET_SIZE(defenc); + char* c; + for (c = defenc_c; c < end; c++) { + if ((unsigned char) (*c) >= 128) { + PyUnicode_AsASCIIString(o); + return NULL; + } + } + } +#endif /*__PYX_DEFAULT_STRING_ENCODING_IS_ASCII*/ + *length = PyBytes_GET_SIZE(defenc); + return defenc_c; +#else /* PY_VERSION_HEX < 0x03030000 */ + if (PyUnicode_READY(o) == -1) return NULL; +#if __PYX_DEFAULT_STRING_ENCODING_IS_ASCII + if (PyUnicode_IS_ASCII(o)) { + *length = PyUnicode_GET_LENGTH(o); + return PyUnicode_AsUTF8(o); + } else { + PyUnicode_AsASCIIString(o); + return NULL; + } +#else /* __PYX_DEFAULT_STRING_ENCODING_IS_ASCII */ + return PyUnicode_AsUTF8AndSize(o, length); +#endif /* __PYX_DEFAULT_STRING_ENCODING_IS_ASCII */ +#endif /* PY_VERSION_HEX < 0x03030000 */ + } else +#endif /* __PYX_DEFAULT_STRING_ENCODING_IS_ASCII || __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT */ +#if !CYTHON_COMPILING_IN_PYPY +#if PY_VERSION_HEX >= 0x02060000 + if (PyByteArray_Check(o)) { + *length = PyByteArray_GET_SIZE(o); + return PyByteArray_AS_STRING(o); + } else +#endif +#endif + { + char* result; + int r = PyBytes_AsStringAndSize(o, &result, length); + if (unlikely(r < 0)) { + return NULL; + } else { + return result; + } + } +} static CYTHON_INLINE int __Pyx_PyObject_IsTrue(PyObject* x) { int is_true = x == Py_True; if (is_true | (x == Py_False) | (x == Py_None)) return is_true; else return PyObject_IsTrue(x); } - static CYTHON_INLINE PyObject* __Pyx_PyNumber_Int(PyObject* x) { PyNumberMethods *m; const char *name = NULL; PyObject *res = NULL; -#if PY_VERSION_HEX < 0x03000000 +#if PY_MAJOR_VERSION < 3 if (PyInt_Check(x) || PyLong_Check(x)) #else if (PyLong_Check(x)) #endif return Py_INCREF(x), x; m = Py_TYPE(x)->tp_as_number; -#if PY_VERSION_HEX < 0x03000000 +#if PY_MAJOR_VERSION < 3 if (m && m->nb_int) { name = "int"; res = PyNumber_Int(x); @@ -11044,13 +11213,13 @@ static CYTHON_INLINE PyObject* __Pyx_PyNumber_Int(PyObject* x) { } #endif if (res) { -#if PY_VERSION_HEX < 0x03000000 +#if PY_MAJOR_VERSION < 3 if (!PyInt_Check(res) && !PyLong_Check(res)) { #else if (!PyLong_Check(res)) { #endif PyErr_Format(PyExc_TypeError, - "__%s__ returned non-%s (type %.200s)", + "__%.4s__ returned non-%.4s (type %.200s)", name, name, Py_TYPE(res)->tp_name); Py_DECREF(res); return NULL; @@ -11062,16 +11231,40 @@ static CYTHON_INLINE PyObject* __Pyx_PyNumber_Int(PyObject* x) { } return res; } - +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + #include "longintrepr.h" + #endif +#endif static CYTHON_INLINE Py_ssize_t __Pyx_PyIndex_AsSsize_t(PyObject* b) { Py_ssize_t ival; - PyObject* x = PyNumber_Index(b); + PyObject *x; +#if PY_MAJOR_VERSION < 3 + if (likely(PyInt_CheckExact(b))) + return PyInt_AS_LONG(b); +#endif + if (likely(PyLong_CheckExact(b))) { + #if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + switch (Py_SIZE(b)) { + case -1: return -(sdigit)((PyLongObject*)b)->ob_digit[0]; + case 0: return 0; + case 1: return ((PyLongObject*)b)->ob_digit[0]; + } + #endif + #endif + #if PY_VERSION_HEX < 0x02060000 + return PyInt_AsSsize_t(b); + #else + return PyLong_AsSsize_t(b); + #endif + } + x = PyNumber_Index(b); if (!x) return -1; ival = PyInt_AsSsize_t(x); Py_DECREF(x); return ival; } - static CYTHON_INLINE PyObject * __Pyx_PyInt_FromSize_t(size_t ival) { #if PY_VERSION_HEX < 0x02050000 if (ival <= LONG_MAX) @@ -11086,17 +11279,5 @@ static CYTHON_INLINE PyObject * __Pyx_PyInt_FromSize_t(size_t ival) { #endif } -static CYTHON_INLINE size_t __Pyx_PyInt_AsSize_t(PyObject* x) { - unsigned PY_LONG_LONG val = __Pyx_PyInt_AsUnsignedLongLong(x); - if (unlikely(val == (unsigned PY_LONG_LONG)-1 && PyErr_Occurred())) { - return (size_t)-1; - } else if (unlikely(val != (unsigned PY_LONG_LONG)(size_t)val)) { - PyErr_SetString(PyExc_OverflowError, - "value too large to convert to size_t"); - return (size_t)-1; - } - return (size_t)val; -} - #endif /* Py_PYTHON_H */ diff --git a/nipy/labs/bindings/linalg.pyx b/nipy/labs/bindings/linalg.pyx index bab840a994..b24debf1c1 100644 --- a/nipy/labs/bindings/linalg.pyx +++ b/nipy/labs/bindings/linalg.pyx @@ -11,6 +11,7 @@ __version__ = '0.1' # Include fff from fff cimport * +include "fffpy_import_lapack.pxi" # Exports from fff_blas.h cdef extern from "fff_blas.h": @@ -48,15 +49,10 @@ cdef extern from "fff_blas.h": fff_matrix * A, fff_vector * x, double beta, fff_vector * y) int fff_blas_dtrmv(CBLAS_UPLO_t Uplo, CBLAS_TRANSPOSE_t TransA, CBLAS_DIAG_t Diag, fff_matrix * A, fff_vector * x) - int fff_blas_dtrsv(CBLAS_UPLO_t Uplo, CBLAS_TRANSPOSE_t TransA, CBLAS_DIAG_t Diag, - fff_matrix * A, fff_vector * x) int fff_blas_dsymv(CBLAS_UPLO_t Uplo, double alpha, fff_matrix * A, fff_vector * x, double beta, fff_vector * y) int fff_blas_dger(double alpha, fff_vector * x, fff_vector * y, fff_matrix * A) - int fff_blas_dsyr(CBLAS_UPLO_t Uplo, double alpha, fff_vector * x, fff_matrix * A) - int fff_blas_dsyr2(CBLAS_UPLO_t Uplo, double alpha, - fff_vector * x, fff_vector * y, fff_matrix * A) ## BLAS level 3 int fff_blas_dgemm(CBLAS_TRANSPOSE_t TransA, CBLAS_TRANSPOSE_t TransB, @@ -67,12 +63,6 @@ cdef extern from "fff_blas.h": double alpha, fff_matrix * A, fff_matrix * B, double beta, fff_matrix * C) - int fff_blas_dtrmm(CBLAS_SIDE_t Side, CBLAS_UPLO_t Uplo, - CBLAS_TRANSPOSE_t TransA, CBLAS_DIAG_t Diag, - double alpha, fff_matrix * A, fff_matrix * B) - int fff_blas_dtrsm(CBLAS_SIDE_t Side, CBLAS_UPLO_t Uplo, - CBLAS_TRANSPOSE_t TransA, CBLAS_DIAG_t Diag, - double alpha, fff_matrix * A, fff_matrix * B) int fff_blas_dsyrk(CBLAS_UPLO_t Uplo, CBLAS_TRANSPOSE_t Trans, double alpha, fff_matrix * A, double beta, fff_matrix * C) int fff_blas_dsyr2k(CBLAS_UPLO_t Uplo, CBLAS_TRANSPOSE_t Trans, @@ -85,6 +75,9 @@ fffpy_import_array() import_array() import numpy as np +# Import blas/lapack routines on the fly +fffpy_import_lapack() + # Binded routines ## fff_vector.h @@ -441,59 +434,6 @@ def blas_dsymm(int Side, int Uplo, double alpha, A, B, beta, C): D = fff_matrix_toPyArray(d) return D -def blas_dtrmm(int Side, int Uplo, int TransA, int Diag, double alpha, A, B): - """ - C = blas_dtrmm(int Side, int Uplo, int TransA, int Diag, double alpha, A, B). - - Compute the matrix-matrix product B = \alpha op(A) B for Side - is CblasLeft and B = \alpha B op(A) for Side is CblasRight. The - matrix A is triangular and op(A) = A, A^T, A^H for TransA = - CblasNoTrans, CblasTrans, CblasConjTrans. When Uplo is CblasUpper - then the upper triangle of A is used, and when Uplo is CblasLower - then the lower triangle of A is used. If Diag is CblasNonUnit then - the diagonal of A is used, but if Diag is CblasUnit then the - diagonal elements of the matrix A are taken as unity and are not - referenced. - """ - cdef fff_matrix *a, *b, *c - a = fff_matrix_fromPyArray(A) - b = fff_matrix_fromPyArray(B) - c = fff_matrix_new(a.size1, a.size2) - fff_matrix_memcpy(c, b) - fff_blas_dtrmm(flag_side(Side), flag_uplo(Uplo), flag_transpose(TransA), flag_diag(Diag), - alpha, a, c) - fff_matrix_delete(a) - fff_matrix_delete(b) - C = fff_matrix_toPyArray(c) - return C - - -def blas_dtrsm(int Side, int Uplo, int TransA, int Diag, double alpha, A, B): - """ - blas_dtrsm(int Side, int Uplo, int TransA, int Diag, double alpha, A, B). - - Compute the inverse-matrix matrix product B = \alpha - op(inv(A))B for Side is CblasLeft and B = \alpha B op(inv(A)) for - Side is CblasRight. The matrix A is triangular and op(A) = A, A^T, - A^H for TransA = CblasNoTrans, CblasTrans, CblasConjTrans. When - Uplo is CblasUpper then the upper triangle of A is used, and when - Uplo is CblasLower then the lower triangle of A is used. If Diag - is CblasNonUnit then the diagonal of A is used, but if Diag is - CblasUnit then the diagonal elements of the matrix A are taken as - unity and are not referenced. - """ - cdef fff_matrix *a, *b, *c - a = fff_matrix_fromPyArray(A) - b = fff_matrix_fromPyArray(B) - c = fff_matrix_new(a.size1, a.size2) - fff_matrix_memcpy(c, b) - fff_blas_dtrsm(flag_side(Side), flag_uplo(Uplo), flag_transpose(TransA), flag_diag(Diag), - alpha, a, c) - fff_matrix_delete(a) - fff_matrix_delete(b) - C = fff_matrix_toPyArray(c) - return C - def blas_dsyrk(int Uplo, int Trans, double alpha, A, double beta, C): """ @@ -541,6 +481,3 @@ def blas_dsyr2k(int Uplo, int Trans, double alpha, A, B, double beta, C): fff_matrix_delete(c) D = fff_matrix_toPyArray(d) return D - - - diff --git a/nipy/labs/bindings/setup.py b/nipy/labs/bindings/setup.py index ff51ac6305..a3f651462c 100644 --- a/nipy/labs/bindings/setup.py +++ b/nipy/labs/bindings/setup.py @@ -7,23 +7,12 @@ def configuration(parent_package='',top_path=None): config = Configuration('bindings', parent_package, top_path) config.add_subpackage('tests') config.add_subpackage('benchmarks') - # We need this because libcstat.a is linked to lapack, which can - # be a fortran library, and the linker needs this information. - from numpy.distutils.system_info import get_info - lapack_info = get_info('lapack_opt',0) - if 'libraries' not in lapack_info: - # But on OSX that may not give us what we need, so try with 'lapack' - # instead. NOTE: scipy.linalg uses lapack_opt, not 'lapack'... - lapack_info = get_info('lapack',0) config.add_extension('linalg', sources=['linalg.pyx'], - libraries=['cstat'], - extra_info=lapack_info) + libraries=['cstat']) config.add_extension('array', sources=['array.pyx'], - libraries=['cstat'], - extra_info=lapack_info) + libraries=['cstat']) config.add_extension('wrapper', sources=['wrapper.pyx'], - libraries=['cstat'], - extra_info=lapack_info) + libraries=['cstat']) return config diff --git a/nipy/labs/bindings/tests/test_blas3.py b/nipy/labs/bindings/tests/test_blas3.py index 05854c26de..09f77eafac 100644 --- a/nipy/labs/bindings/tests/test_blas3.py +++ b/nipy/labs/bindings/tests/test_blas3.py @@ -8,8 +8,7 @@ from numpy.testing import assert_almost_equal import numpy as np -from .. import (blas_dgemm, blas_dsymm, blas_dtrmm, - blas_dtrsm, blas_dsyrk, blas_dsyr2k) +from .. import (blas_dgemm, blas_dsymm, blas_dsyrk, blas_dsyr2k) n1 = 10 n2 = 13 @@ -119,22 +118,7 @@ def _test_dtrXm(A, U, L, B, alpha, blasfn): D = blasfn(1, 1, 1, 0, alpha, A, B) assert_almost_equal(Dgold, D) -def test_dtrmm(): - A = np.random.rand(n1,n1) - U = np.triu(A) - L = np.tril(A) - B = np.random.rand(n1,n1) - alpha = np.double(np.random.rand(1)) - _test_dtrXm(A, U, L, B, alpha, blas_dtrmm) - -def test_dtrsm(): - A = np.random.rand(n1,n1) - U = np.linalg.inv(np.triu(A)) - L = np.linalg.inv(np.tril(A)) - B = np.random.rand(n1,n1) - alpha = np.double(np.random.rand(1)) - _test_dtrXm(A, U, L, B, alpha, blas_dtrsm) - + def test_dsyrk(): A = np.random.rand(n1,n1) C = np.random.rand(n1,n1) diff --git a/nipy/labs/bindings/wrapper.c b/nipy/labs/bindings/wrapper.c index df127b8902..85d2273921 100644 --- a/nipy/labs/bindings/wrapper.c +++ b/nipy/labs/bindings/wrapper.c @@ -1,12 +1,25 @@ -/* Generated by Cython 0.17.4 on Sat Jan 12 17:27:34 2013 */ +/* Generated by Cython 0.20.1post0 (Debian 0.20.1+git90-g0e6e38e-1ubuntu2) on Mon Nov 10 15:44:04 2014 */ #define PY_SSIZE_T_CLEAN +#ifndef CYTHON_USE_PYLONG_INTERNALS +#ifdef PYLONG_BITS_IN_DIGIT +#define CYTHON_USE_PYLONG_INTERNALS 0 +#else +#include "pyconfig.h" +#ifdef PYLONG_BITS_IN_DIGIT +#define CYTHON_USE_PYLONG_INTERNALS 1 +#else +#define CYTHON_USE_PYLONG_INTERNALS 0 +#endif +#endif +#endif #include "Python.h" #ifndef Py_PYTHON_H #error Python headers needed to compile C extensions, please install development version of Python. #elif PY_VERSION_HEX < 0x02040000 #error Cython requires Python 2.4+. #else +#define CYTHON_ABI "0_20_1post0" #include /* For offsetof */ #ifndef offsetof #define offsetof(type, member) ( (size_t) & ((type*)0) -> member ) @@ -41,6 +54,9 @@ #define CYTHON_COMPILING_IN_PYPY 0 #define CYTHON_COMPILING_IN_CPYTHON 1 #endif +#if CYTHON_COMPILING_IN_PYPY +#define Py_OptimizeFlag 0 +#endif #if PY_VERSION_HEX < 0x02050000 typedef int Py_ssize_t; #define PY_SSIZE_T_MAX INT_MAX @@ -48,7 +64,7 @@ #define PY_FORMAT_SIZE_T "" #define CYTHON_FORMAT_SSIZE_T "" #define PyInt_FromSsize_t(z) PyInt_FromLong(z) - #define PyInt_AsSsize_t(o) __Pyx_PyInt_AsInt(o) + #define PyInt_AsSsize_t(o) __Pyx_PyInt_As_int(o) #define PyNumber_Index(o) ((PyNumber_Check(o) && !PyFloat_Check(o)) ? PyNumber_Int(o) : \ (PyErr_Format(PyExc_TypeError, \ "expected index value, got %.200s", Py_TYPE(o)->tp_name), \ @@ -100,13 +116,15 @@ #if PY_MAJOR_VERSION < 3 #define __Pyx_BUILTIN_MODULE_NAME "__builtin__" #define __Pyx_PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) \ - PyCode_New(a, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) + PyCode_New(a+k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) + #define __Pyx_DefaultClassType PyClass_Type #else #define __Pyx_BUILTIN_MODULE_NAME "builtins" #define __Pyx_PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) \ PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) + #define __Pyx_DefaultClassType PyType_Type #endif -#if PY_MAJOR_VERSION < 3 && PY_MINOR_VERSION < 6 +#if PY_VERSION_HEX < 0x02060000 #define PyUnicode_FromString(s) PyUnicode_Decode(s, strlen(s), "UTF-8", "strict") #endif #if PY_MAJOR_VERSION >= 3 @@ -116,19 +134,47 @@ #if (PY_VERSION_HEX < 0x02060000) || (PY_MAJOR_VERSION >= 3) #define Py_TPFLAGS_HAVE_NEWBUFFER 0 #endif +#if PY_VERSION_HEX < 0x02060000 + #define Py_TPFLAGS_HAVE_VERSION_TAG 0 +#endif +#if PY_VERSION_HEX < 0x02060000 && !defined(Py_TPFLAGS_IS_ABSTRACT) + #define Py_TPFLAGS_IS_ABSTRACT 0 +#endif +#if PY_VERSION_HEX < 0x030400a1 && !defined(Py_TPFLAGS_HAVE_FINALIZE) + #define Py_TPFLAGS_HAVE_FINALIZE 0 +#endif #if PY_VERSION_HEX > 0x03030000 && defined(PyUnicode_KIND) #define CYTHON_PEP393_ENABLED 1 #define __Pyx_PyUnicode_READY(op) (likely(PyUnicode_IS_READY(op)) ? \ 0 : _PyUnicode_Ready((PyObject *)(op))) #define __Pyx_PyUnicode_GET_LENGTH(u) PyUnicode_GET_LENGTH(u) #define __Pyx_PyUnicode_READ_CHAR(u, i) PyUnicode_READ_CHAR(u, i) + #define __Pyx_PyUnicode_KIND(u) PyUnicode_KIND(u) + #define __Pyx_PyUnicode_DATA(u) PyUnicode_DATA(u) #define __Pyx_PyUnicode_READ(k, d, i) PyUnicode_READ(k, d, i) #else #define CYTHON_PEP393_ENABLED 0 #define __Pyx_PyUnicode_READY(op) (0) #define __Pyx_PyUnicode_GET_LENGTH(u) PyUnicode_GET_SIZE(u) #define __Pyx_PyUnicode_READ_CHAR(u, i) ((Py_UCS4)(PyUnicode_AS_UNICODE(u)[i])) - #define __Pyx_PyUnicode_READ(k, d, i) ((k=k), (Py_UCS4)(((Py_UNICODE*)d)[i])) + #define __Pyx_PyUnicode_KIND(u) (sizeof(Py_UNICODE)) + #define __Pyx_PyUnicode_DATA(u) ((void*)PyUnicode_AS_UNICODE(u)) + #define __Pyx_PyUnicode_READ(k, d, i) ((void)(k), (Py_UCS4)(((Py_UNICODE*)d)[i])) +#endif +#if CYTHON_COMPILING_IN_PYPY + #define __Pyx_PyUnicode_Concat(a, b) PyNumber_Add(a, b) + #define __Pyx_PyUnicode_ConcatSafe(a, b) PyNumber_Add(a, b) +#else + #define __Pyx_PyUnicode_Concat(a, b) PyUnicode_Concat(a, b) + #define __Pyx_PyUnicode_ConcatSafe(a, b) ((unlikely((a) == Py_None) || unlikely((b) == Py_None)) ? \ + PyNumber_Add(a, b) : __Pyx_PyUnicode_Concat(a, b)) +#endif +#define __Pyx_PyString_FormatSafe(a, b) ((unlikely((a) == Py_None)) ? PyNumber_Remainder(a, b) : __Pyx_PyString_Format(a, b)) +#define __Pyx_PyUnicode_FormatSafe(a, b) ((unlikely((a) == Py_None)) ? PyNumber_Remainder(a, b) : PyUnicode_Format(a, b)) +#if PY_MAJOR_VERSION >= 3 + #define __Pyx_PyString_Format(a, b) PyUnicode_Format(a, b) +#else + #define __Pyx_PyString_Format(a, b) PyString_Format(a, b) #endif #if PY_MAJOR_VERSION >= 3 #define PyBaseString_Type PyUnicode_Type @@ -155,6 +201,14 @@ #define PyBytes_Concat PyString_Concat #define PyBytes_ConcatAndDel PyString_ConcatAndDel #endif +#if PY_MAJOR_VERSION >= 3 + #define __Pyx_PyBaseString_Check(obj) PyUnicode_Check(obj) + #define __Pyx_PyBaseString_CheckExact(obj) PyUnicode_CheckExact(obj) +#else + #define __Pyx_PyBaseString_Check(obj) (PyString_CheckExact(obj) || PyUnicode_CheckExact(obj) || \ + PyString_Check(obj) || PyUnicode_Check(obj)) + #define __Pyx_PyBaseString_CheckExact(obj) (PyString_CheckExact(obj) || PyUnicode_CheckExact(obj)) +#endif #if PY_VERSION_HEX < 0x02060000 #define PySet_Check(obj) PyObject_TypeCheck(obj, &PySet_Type) #define PyFrozenSet_Check(obj) PyObject_TypeCheck(obj, &PyFrozenSet_Type) @@ -178,11 +232,12 @@ #define PyInt_AsSsize_t PyLong_AsSsize_t #define PyInt_AsUnsignedLongMask PyLong_AsUnsignedLongMask #define PyInt_AsUnsignedLongLongMask PyLong_AsUnsignedLongLongMask + #define PyNumber_Int PyNumber_Long #endif #if PY_MAJOR_VERSION >= 3 #define PyBoolObject PyLongObject #endif -#if PY_VERSION_HEX < 0x03020000 +#if PY_VERSION_HEX < 0x030200A4 typedef long Py_hash_t; #define __Pyx_PyInt_FromHash_t PyInt_FromLong #define __Pyx_PyInt_AsHash_t PyInt_AsLong @@ -227,6 +282,46 @@ #define __Pyx_NAMESTR(n) (n) #define __Pyx_DOCSTR(n) (n) #endif +#ifndef CYTHON_INLINE + #if defined(__GNUC__) + #define CYTHON_INLINE __inline__ + #elif defined(_MSC_VER) + #define CYTHON_INLINE __inline + #elif defined (__STDC_VERSION__) && __STDC_VERSION__ >= 199901L + #define CYTHON_INLINE inline + #else + #define CYTHON_INLINE + #endif +#endif +#ifndef CYTHON_RESTRICT + #if defined(__GNUC__) + #define CYTHON_RESTRICT __restrict__ + #elif defined(_MSC_VER) && _MSC_VER >= 1400 + #define CYTHON_RESTRICT __restrict + #elif defined (__STDC_VERSION__) && __STDC_VERSION__ >= 199901L + #define CYTHON_RESTRICT restrict + #else + #define CYTHON_RESTRICT + #endif +#endif +#ifdef NAN +#define __PYX_NAN() ((float) NAN) +#else +static CYTHON_INLINE float __PYX_NAN() { + /* Initialize NaN. The sign is irrelevant, an exponent with all bits 1 and + a nonzero mantissa means NaN. If the first bit in the mantissa is 1, it is + a quiet NaN. */ + float value; + memset(&value, 0xFF, sizeof(value)); + return value; +} +#endif +#ifdef __cplusplus +template +void __Pyx_call_destructor(T* x) { + x->~T(); +} +#endif #if PY_MAJOR_VERSION >= 3 @@ -251,6 +346,7 @@ #include #define __PYX_HAVE__nipy__labs__bindings__wrapper #define __PYX_HAVE_API__nipy__labs__bindings__wrapper +#include "string.h" #include "stdio.h" #include "stdlib.h" #include "numpy/arrayobject.h" @@ -268,21 +364,6 @@ #define CYTHON_WITHOUT_ASSERTIONS #endif - -/* inline attribute */ -#ifndef CYTHON_INLINE - #if defined(__GNUC__) - #define CYTHON_INLINE __inline__ - #elif defined(_MSC_VER) - #define CYTHON_INLINE __inline - #elif defined (__STDC_VERSION__) && __STDC_VERSION__ >= 199901L - #define CYTHON_INLINE inline - #else - #define CYTHON_INLINE - #endif -#endif - -/* unused attribute */ #ifndef CYTHON_UNUSED # if defined(__GNUC__) # if !(defined(__cplusplus)) || (__GNUC__ > 3 || (__GNUC__ == 3 && __GNUC_MINOR__ >= 4)) @@ -296,46 +377,155 @@ # define CYTHON_UNUSED # endif #endif - -typedef struct {PyObject **p; char *s; const long n; const char* encoding; const char is_unicode; const char is_str; const char intern; } __Pyx_StringTabEntry; /*proto*/ - - -/* Type Conversion Predeclarations */ - -#define __Pyx_PyBytes_FromUString(s) PyBytes_FromString((char*)s) -#define __Pyx_PyBytes_AsUString(s) ((unsigned char*) PyBytes_AsString(s)) - +typedef struct {PyObject **p; char *s; const Py_ssize_t n; const char* encoding; + const char is_unicode; const char is_str; const char intern; } __Pyx_StringTabEntry; /*proto*/ + +#define __PYX_DEFAULT_STRING_ENCODING_IS_ASCII 0 +#define __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT 0 +#define __PYX_DEFAULT_STRING_ENCODING "" +#define __Pyx_PyObject_FromString __Pyx_PyBytes_FromString +#define __Pyx_PyObject_FromStringAndSize __Pyx_PyBytes_FromStringAndSize +#define __Pyx_fits_Py_ssize_t(v, type, is_signed) ( \ + (sizeof(type) < sizeof(Py_ssize_t)) || \ + (sizeof(type) > sizeof(Py_ssize_t) && \ + likely(v < (type)PY_SSIZE_T_MAX || \ + v == (type)PY_SSIZE_T_MAX) && \ + (!is_signed || likely(v > (type)PY_SSIZE_T_MIN || \ + v == (type)PY_SSIZE_T_MIN))) || \ + (sizeof(type) == sizeof(Py_ssize_t) && \ + (is_signed || likely(v < (type)PY_SSIZE_T_MAX || \ + v == (type)PY_SSIZE_T_MAX))) ) +static CYTHON_INLINE char* __Pyx_PyObject_AsString(PyObject*); +static CYTHON_INLINE char* __Pyx_PyObject_AsStringAndSize(PyObject*, Py_ssize_t* length); +#define __Pyx_PyByteArray_FromString(s) PyByteArray_FromStringAndSize((const char*)s, strlen((const char*)s)) +#define __Pyx_PyByteArray_FromStringAndSize(s, l) PyByteArray_FromStringAndSize((const char*)s, l) +#define __Pyx_PyBytes_FromString PyBytes_FromString +#define __Pyx_PyBytes_FromStringAndSize PyBytes_FromStringAndSize +static CYTHON_INLINE PyObject* __Pyx_PyUnicode_FromString(const char*); +#if PY_MAJOR_VERSION < 3 + #define __Pyx_PyStr_FromString __Pyx_PyBytes_FromString + #define __Pyx_PyStr_FromStringAndSize __Pyx_PyBytes_FromStringAndSize +#else + #define __Pyx_PyStr_FromString __Pyx_PyUnicode_FromString + #define __Pyx_PyStr_FromStringAndSize __Pyx_PyUnicode_FromStringAndSize +#endif +#define __Pyx_PyObject_AsSString(s) ((signed char*) __Pyx_PyObject_AsString(s)) +#define __Pyx_PyObject_AsUString(s) ((unsigned char*) __Pyx_PyObject_AsString(s)) +#define __Pyx_PyObject_FromUString(s) __Pyx_PyObject_FromString((const char*)s) +#define __Pyx_PyBytes_FromUString(s) __Pyx_PyBytes_FromString((const char*)s) +#define __Pyx_PyByteArray_FromUString(s) __Pyx_PyByteArray_FromString((const char*)s) +#define __Pyx_PyStr_FromUString(s) __Pyx_PyStr_FromString((const char*)s) +#define __Pyx_PyUnicode_FromUString(s) __Pyx_PyUnicode_FromString((const char*)s) +#if PY_MAJOR_VERSION < 3 +static CYTHON_INLINE size_t __Pyx_Py_UNICODE_strlen(const Py_UNICODE *u) +{ + const Py_UNICODE *u_end = u; + while (*u_end++) ; + return u_end - u - 1; +} +#else +#define __Pyx_Py_UNICODE_strlen Py_UNICODE_strlen +#endif +#define __Pyx_PyUnicode_FromUnicode(u) PyUnicode_FromUnicode(u, __Pyx_Py_UNICODE_strlen(u)) +#define __Pyx_PyUnicode_FromUnicodeAndLength PyUnicode_FromUnicode +#define __Pyx_PyUnicode_AsUnicode PyUnicode_AsUnicode #define __Pyx_Owned_Py_None(b) (Py_INCREF(Py_None), Py_None) #define __Pyx_PyBool_FromLong(b) ((b) ? (Py_INCREF(Py_True), Py_True) : (Py_INCREF(Py_False), Py_False)) static CYTHON_INLINE int __Pyx_PyObject_IsTrue(PyObject*); static CYTHON_INLINE PyObject* __Pyx_PyNumber_Int(PyObject* x); - static CYTHON_INLINE Py_ssize_t __Pyx_PyIndex_AsSsize_t(PyObject*); static CYTHON_INLINE PyObject * __Pyx_PyInt_FromSize_t(size_t); -static CYTHON_INLINE size_t __Pyx_PyInt_AsSize_t(PyObject*); - #if CYTHON_COMPILING_IN_CPYTHON #define __pyx_PyFloat_AsDouble(x) (PyFloat_CheckExact(x) ? PyFloat_AS_DOUBLE(x) : PyFloat_AsDouble(x)) #else #define __pyx_PyFloat_AsDouble(x) PyFloat_AsDouble(x) #endif #define __pyx_PyFloat_AsFloat(x) ((float) __pyx_PyFloat_AsDouble(x)) +#if PY_MAJOR_VERSION < 3 && __PYX_DEFAULT_STRING_ENCODING_IS_ASCII +static int __Pyx_sys_getdefaultencoding_not_ascii; +static int __Pyx_init_sys_getdefaultencoding_params(void) { + PyObject* sys = NULL; + PyObject* default_encoding = NULL; + PyObject* ascii_chars_u = NULL; + PyObject* ascii_chars_b = NULL; + sys = PyImport_ImportModule("sys"); + if (sys == NULL) goto bad; + default_encoding = PyObject_CallMethod(sys, (char*) (const char*) "getdefaultencoding", NULL); + if (default_encoding == NULL) goto bad; + if (strcmp(PyBytes_AsString(default_encoding), "ascii") == 0) { + __Pyx_sys_getdefaultencoding_not_ascii = 0; + } else { + const char* default_encoding_c = PyBytes_AS_STRING(default_encoding); + char ascii_chars[128]; + int c; + for (c = 0; c < 128; c++) { + ascii_chars[c] = c; + } + __Pyx_sys_getdefaultencoding_not_ascii = 1; + ascii_chars_u = PyUnicode_DecodeASCII(ascii_chars, 128, NULL); + if (ascii_chars_u == NULL) goto bad; + ascii_chars_b = PyUnicode_AsEncodedString(ascii_chars_u, default_encoding_c, NULL); + if (ascii_chars_b == NULL || strncmp(ascii_chars, PyBytes_AS_STRING(ascii_chars_b), 128) != 0) { + PyErr_Format( + PyExc_ValueError, + "This module compiled with c_string_encoding=ascii, but default encoding '%.200s' is not a superset of ascii.", + default_encoding_c); + goto bad; + } + } + Py_XDECREF(sys); + Py_XDECREF(default_encoding); + Py_XDECREF(ascii_chars_u); + Py_XDECREF(ascii_chars_b); + return 0; +bad: + Py_XDECREF(sys); + Py_XDECREF(default_encoding); + Py_XDECREF(ascii_chars_u); + Py_XDECREF(ascii_chars_b); + return -1; +} +#endif +#if __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT && PY_MAJOR_VERSION >= 3 +#define __Pyx_PyUnicode_FromStringAndSize(c_str, size) PyUnicode_DecodeUTF8(c_str, size, NULL) +#else +#define __Pyx_PyUnicode_FromStringAndSize(c_str, size) PyUnicode_Decode(c_str, size, __PYX_DEFAULT_STRING_ENCODING, NULL) +#if __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT +static char* __PYX_DEFAULT_STRING_ENCODING; +static int __Pyx_init_sys_getdefaultencoding_params(void) { + PyObject* sys = NULL; + PyObject* default_encoding = NULL; + char* default_encoding_c; + sys = PyImport_ImportModule("sys"); + if (sys == NULL) goto bad; + default_encoding = PyObject_CallMethod(sys, (char*) (const char*) "getdefaultencoding", NULL); + if (default_encoding == NULL) goto bad; + default_encoding_c = PyBytes_AS_STRING(default_encoding); + __PYX_DEFAULT_STRING_ENCODING = (char*) malloc(strlen(default_encoding_c)); + strcpy(__PYX_DEFAULT_STRING_ENCODING, default_encoding_c); + Py_DECREF(sys); + Py_DECREF(default_encoding); + return 0; +bad: + Py_XDECREF(sys); + Py_XDECREF(default_encoding); + return -1; +} +#endif +#endif + -#ifdef __GNUC__ - /* Test for GCC > 2.95 */ - #if __GNUC__ > 2 || (__GNUC__ == 2 && (__GNUC_MINOR__ > 95)) - #define likely(x) __builtin_expect(!!(x), 1) - #define unlikely(x) __builtin_expect(!!(x), 0) - #else /* __GNUC__ > 2 ... */ - #define likely(x) (x) - #define unlikely(x) (x) - #endif /* __GNUC__ > 2 ... */ -#else /* __GNUC__ */ +/* Test for GCC > 2.95 */ +#if defined(__GNUC__) && (__GNUC__ > 2 || (__GNUC__ == 2 && (__GNUC_MINOR__ > 95))) + #define likely(x) __builtin_expect(!!(x), 1) + #define unlikely(x) __builtin_expect(!!(x), 0) +#else /* !__GNUC__ or GCC < 2.95 */ #define likely(x) (x) #define unlikely(x) (x) #endif /* __GNUC__ */ - + static PyObject *__pyx_m; +static PyObject *__pyx_d; static PyObject *__pyx_b; static PyObject *__pyx_empty_tuple; static PyObject *__pyx_empty_bytes; @@ -368,11 +558,11 @@ static const char *__pyx_filename; static const char *__pyx_f[] = { "wrapper.pyx", - "numpy.pxd", + "__init__.pxd", "type.pxd", }; -/* "numpy.pxd":723 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":723 * # in Cython to enable them only on the right systems. * * ctypedef npy_int8 int8_t # <<<<<<<<<<<<<< @@ -381,7 +571,7 @@ static const char *__pyx_f[] = { */ typedef npy_int8 __pyx_t_5numpy_int8_t; -/* "numpy.pxd":724 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":724 * * ctypedef npy_int8 int8_t * ctypedef npy_int16 int16_t # <<<<<<<<<<<<<< @@ -390,7 +580,7 @@ typedef npy_int8 __pyx_t_5numpy_int8_t; */ typedef npy_int16 __pyx_t_5numpy_int16_t; -/* "numpy.pxd":725 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":725 * ctypedef npy_int8 int8_t * ctypedef npy_int16 int16_t * ctypedef npy_int32 int32_t # <<<<<<<<<<<<<< @@ -399,7 +589,7 @@ typedef npy_int16 __pyx_t_5numpy_int16_t; */ typedef npy_int32 __pyx_t_5numpy_int32_t; -/* "numpy.pxd":726 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":726 * ctypedef npy_int16 int16_t * ctypedef npy_int32 int32_t * ctypedef npy_int64 int64_t # <<<<<<<<<<<<<< @@ -408,7 +598,7 @@ typedef npy_int32 __pyx_t_5numpy_int32_t; */ typedef npy_int64 __pyx_t_5numpy_int64_t; -/* "numpy.pxd":730 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":730 * #ctypedef npy_int128 int128_t * * ctypedef npy_uint8 uint8_t # <<<<<<<<<<<<<< @@ -417,7 +607,7 @@ typedef npy_int64 __pyx_t_5numpy_int64_t; */ typedef npy_uint8 __pyx_t_5numpy_uint8_t; -/* "numpy.pxd":731 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":731 * * ctypedef npy_uint8 uint8_t * ctypedef npy_uint16 uint16_t # <<<<<<<<<<<<<< @@ -426,7 +616,7 @@ typedef npy_uint8 __pyx_t_5numpy_uint8_t; */ typedef npy_uint16 __pyx_t_5numpy_uint16_t; -/* "numpy.pxd":732 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":732 * ctypedef npy_uint8 uint8_t * ctypedef npy_uint16 uint16_t * ctypedef npy_uint32 uint32_t # <<<<<<<<<<<<<< @@ -435,7 +625,7 @@ typedef npy_uint16 __pyx_t_5numpy_uint16_t; */ typedef npy_uint32 __pyx_t_5numpy_uint32_t; -/* "numpy.pxd":733 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":733 * ctypedef npy_uint16 uint16_t * ctypedef npy_uint32 uint32_t * ctypedef npy_uint64 uint64_t # <<<<<<<<<<<<<< @@ -444,7 +634,7 @@ typedef npy_uint32 __pyx_t_5numpy_uint32_t; */ typedef npy_uint64 __pyx_t_5numpy_uint64_t; -/* "numpy.pxd":737 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":737 * #ctypedef npy_uint128 uint128_t * * ctypedef npy_float32 float32_t # <<<<<<<<<<<<<< @@ -453,7 +643,7 @@ typedef npy_uint64 __pyx_t_5numpy_uint64_t; */ typedef npy_float32 __pyx_t_5numpy_float32_t; -/* "numpy.pxd":738 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":738 * * ctypedef npy_float32 float32_t * ctypedef npy_float64 float64_t # <<<<<<<<<<<<<< @@ -462,7 +652,7 @@ typedef npy_float32 __pyx_t_5numpy_float32_t; */ typedef npy_float64 __pyx_t_5numpy_float64_t; -/* "numpy.pxd":747 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":747 * # The int types are mapped a bit surprising -- * # numpy.int corresponds to 'l' and numpy.long to 'q' * ctypedef npy_long int_t # <<<<<<<<<<<<<< @@ -471,7 +661,7 @@ typedef npy_float64 __pyx_t_5numpy_float64_t; */ typedef npy_long __pyx_t_5numpy_int_t; -/* "numpy.pxd":748 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":748 * # numpy.int corresponds to 'l' and numpy.long to 'q' * ctypedef npy_long int_t * ctypedef npy_longlong long_t # <<<<<<<<<<<<<< @@ -480,7 +670,7 @@ typedef npy_long __pyx_t_5numpy_int_t; */ typedef npy_longlong __pyx_t_5numpy_long_t; -/* "numpy.pxd":749 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":749 * ctypedef npy_long int_t * ctypedef npy_longlong long_t * ctypedef npy_longlong longlong_t # <<<<<<<<<<<<<< @@ -489,7 +679,7 @@ typedef npy_longlong __pyx_t_5numpy_long_t; */ typedef npy_longlong __pyx_t_5numpy_longlong_t; -/* "numpy.pxd":751 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":751 * ctypedef npy_longlong longlong_t * * ctypedef npy_ulong uint_t # <<<<<<<<<<<<<< @@ -498,7 +688,7 @@ typedef npy_longlong __pyx_t_5numpy_longlong_t; */ typedef npy_ulong __pyx_t_5numpy_uint_t; -/* "numpy.pxd":752 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":752 * * ctypedef npy_ulong uint_t * ctypedef npy_ulonglong ulong_t # <<<<<<<<<<<<<< @@ -507,7 +697,7 @@ typedef npy_ulong __pyx_t_5numpy_uint_t; */ typedef npy_ulonglong __pyx_t_5numpy_ulong_t; -/* "numpy.pxd":753 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":753 * ctypedef npy_ulong uint_t * ctypedef npy_ulonglong ulong_t * ctypedef npy_ulonglong ulonglong_t # <<<<<<<<<<<<<< @@ -516,7 +706,7 @@ typedef npy_ulonglong __pyx_t_5numpy_ulong_t; */ typedef npy_ulonglong __pyx_t_5numpy_ulonglong_t; -/* "numpy.pxd":755 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":755 * ctypedef npy_ulonglong ulonglong_t * * ctypedef npy_intp intp_t # <<<<<<<<<<<<<< @@ -525,7 +715,7 @@ typedef npy_ulonglong __pyx_t_5numpy_ulonglong_t; */ typedef npy_intp __pyx_t_5numpy_intp_t; -/* "numpy.pxd":756 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":756 * * ctypedef npy_intp intp_t * ctypedef npy_uintp uintp_t # <<<<<<<<<<<<<< @@ -534,7 +724,7 @@ typedef npy_intp __pyx_t_5numpy_intp_t; */ typedef npy_uintp __pyx_t_5numpy_uintp_t; -/* "numpy.pxd":758 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":758 * ctypedef npy_uintp uintp_t * * ctypedef npy_double float_t # <<<<<<<<<<<<<< @@ -543,7 +733,7 @@ typedef npy_uintp __pyx_t_5numpy_uintp_t; */ typedef npy_double __pyx_t_5numpy_float_t; -/* "numpy.pxd":759 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":759 * * ctypedef npy_double float_t * ctypedef npy_double double_t # <<<<<<<<<<<<<< @@ -552,7 +742,7 @@ typedef npy_double __pyx_t_5numpy_float_t; */ typedef npy_double __pyx_t_5numpy_double_t; -/* "numpy.pxd":760 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":760 * ctypedef npy_double float_t * ctypedef npy_double double_t * ctypedef npy_longdouble longdouble_t # <<<<<<<<<<<<<< @@ -561,12 +751,12 @@ typedef npy_double __pyx_t_5numpy_double_t; */ typedef npy_longdouble __pyx_t_5numpy_longdouble_t; -/* "fff.pxd":9 +/* "fff.pxd":10 * * # Redefine size_t * ctypedef unsigned long int size_t # <<<<<<<<<<<<<< * - * + * # Exports from fff_base.h */ typedef unsigned long __pyx_t_3fff_size_t; #if CYTHON_CCOMPLEX @@ -592,7 +782,7 @@ typedef unsigned long __pyx_t_3fff_size_t; /*--- Type declarations ---*/ -/* "numpy.pxd":762 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":762 * ctypedef npy_longdouble longdouble_t * * ctypedef npy_cfloat cfloat_t # <<<<<<<<<<<<<< @@ -601,7 +791,7 @@ typedef unsigned long __pyx_t_3fff_size_t; */ typedef npy_cfloat __pyx_t_5numpy_cfloat_t; -/* "numpy.pxd":763 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":763 * * ctypedef npy_cfloat cfloat_t * ctypedef npy_cdouble cdouble_t # <<<<<<<<<<<<<< @@ -610,7 +800,7 @@ typedef npy_cfloat __pyx_t_5numpy_cfloat_t; */ typedef npy_cdouble __pyx_t_5numpy_cdouble_t; -/* "numpy.pxd":764 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":764 * ctypedef npy_cfloat cfloat_t * ctypedef npy_cdouble cdouble_t * ctypedef npy_clongdouble clongdouble_t # <<<<<<<<<<<<<< @@ -619,7 +809,7 @@ typedef npy_cdouble __pyx_t_5numpy_cdouble_t; */ typedef npy_clongdouble __pyx_t_5numpy_clongdouble_t; -/* "numpy.pxd":766 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":766 * ctypedef npy_clongdouble clongdouble_t * * ctypedef npy_cdouble complex_t # <<<<<<<<<<<<<< @@ -678,14 +868,45 @@ typedef npy_cdouble __pyx_t_5numpy_complex_t; #define __Pyx_XGOTREF(r) #define __Pyx_XGIVEREF(r) #endif /* CYTHON_REFNANNY */ +#define __Pyx_XDECREF_SET(r, v) do { \ + PyObject *tmp = (PyObject *) r; \ + r = v; __Pyx_XDECREF(tmp); \ + } while (0) +#define __Pyx_DECREF_SET(r, v) do { \ + PyObject *tmp = (PyObject *) r; \ + r = v; __Pyx_DECREF(tmp); \ + } while (0) #define __Pyx_CLEAR(r) do { PyObject* tmp = ((PyObject*)(r)); r = NULL; __Pyx_DECREF(tmp);} while(0) #define __Pyx_XCLEAR(r) do { if((r) != NULL) {PyObject* tmp = ((PyObject*)(r)); r = NULL; __Pyx_DECREF(tmp);}} while(0) -static PyObject *__Pyx_GetName(PyObject *dict, PyObject *name); /*proto*/ +#if CYTHON_COMPILING_IN_CPYTHON +static CYTHON_INLINE PyObject* __Pyx_PyObject_GetAttrStr(PyObject* obj, PyObject* attr_name) { + PyTypeObject* tp = Py_TYPE(obj); + if (likely(tp->tp_getattro)) + return tp->tp_getattro(obj, attr_name); +#if PY_MAJOR_VERSION < 3 + if (likely(tp->tp_getattr)) + return tp->tp_getattr(obj, PyString_AS_STRING(attr_name)); +#endif + return PyObject_GetAttr(obj, attr_name); +} +#else +#define __Pyx_PyObject_GetAttrStr(o,n) PyObject_GetAttr(o,n) +#endif + +static PyObject *__Pyx_GetBuiltinName(PyObject *name); /*proto*/ -static int __Pyx_ArgTypeTest(PyObject *obj, PyTypeObject *type, int none_allowed, +static CYTHON_INLINE int __Pyx_ArgTypeTest(PyObject *obj, PyTypeObject *type, int none_allowed, const char *name, int exact); /*proto*/ +static CYTHON_INLINE PyObject *__Pyx_GetModuleGlobalName(PyObject *name); /*proto*/ + +#if CYTHON_COMPILING_IN_CPYTHON +static CYTHON_INLINE PyObject* __Pyx_PyObject_Call(PyObject *func, PyObject *arg, PyObject *kw); /*proto*/ +#else +#define __Pyx_PyObject_Call(func, arg, kw) PyObject_Call(func, arg, kw) +#endif + static void __Pyx_RaiseArgtupleInvalid(const char* func_name, int exact, Py_ssize_t num_min, Py_ssize_t num_max, Py_ssize_t num_found); /*proto*/ @@ -697,10 +918,14 @@ static int __Pyx_ParseOptionalKeywords(PyObject *kwds, PyObject **argnames[], \ static CYTHON_INLINE int __Pyx_div_int(int, int); /* proto */ +#ifndef __PYX_FORCE_INIT_THREADS + #define __PYX_FORCE_INIT_THREADS 0 +#endif + #define UNARY_NEG_WOULD_OVERFLOW(x) (((x) < 0) & ((unsigned long)(x) == 0-(unsigned long)(x))) #if CYTHON_COMPILING_IN_CPYTHON -static CYTHON_INLINE int __Pyx_PyList_Append(PyObject* list, PyObject* x) { +static CYTHON_INLINE int __Pyx_ListComp_Append(PyObject* list, PyObject* x) { PyListObject* L = (PyListObject*) list; Py_ssize_t len = Py_SIZE(list); if (likely(L->allocated > len)) { @@ -712,52 +937,17 @@ static CYTHON_INLINE int __Pyx_PyList_Append(PyObject* list, PyObject* x) { return PyList_Append(list, x); } #else -#define __Pyx_PyList_Append(L,x) PyList_Append(L,x) +#define __Pyx_ListComp_Append(L,x) PyList_Append(L,x) #endif -#define __Pyx_SetItemInt(o, i, v, size, to_py_func) (((size) <= sizeof(Py_ssize_t)) ? \ - __Pyx_SetItemInt_Fast(o, i, v) : \ - __Pyx_SetItemInt_Generic(o, to_py_func(i), v)) -static CYTHON_INLINE int __Pyx_SetItemInt_Generic(PyObject *o, PyObject *j, PyObject *v) { - int r; - if (!j) return -1; - r = PyObject_SetItem(o, j, v); - Py_DECREF(j); - return r; -} -static CYTHON_INLINE int __Pyx_SetItemInt_Fast(PyObject *o, Py_ssize_t i, PyObject *v) { -#if CYTHON_COMPILING_IN_CPYTHON - if (PyList_CheckExact(o)) { - Py_ssize_t n = (likely(i >= 0)) ? i : i + PyList_GET_SIZE(o); - if (likely((n >= 0) & (n < PyList_GET_SIZE(o)))) { - PyObject* old = PyList_GET_ITEM(o, n); - Py_INCREF(v); - PyList_SET_ITEM(o, n, v); - Py_DECREF(old); - return 1; - } - } else { /* inlined PySequence_SetItem() */ - PySequenceMethods *m = Py_TYPE(o)->tp_as_sequence; - if (likely(m && m->sq_ass_item)) { - if (unlikely(i < 0) && likely(m->sq_length)) { - Py_ssize_t l = m->sq_length(o); - if (unlikely(l < 0)) return -1; - i += l; - } - return m->sq_ass_item(o, i, v); - } - } -#else -#if CYTHON_COMPILING_IN_PYPY - if (PySequence_Check(o) && !PyDict_Check(o)) { -#else - if (PySequence_Check(o)) { -#endif - return PySequence_SetItem(o, i, v); - } -#endif - return __Pyx_SetItemInt_Generic(o, PyInt_FromSsize_t(i), v); -} +#define __Pyx_SetItemInt(o, i, v, type, is_signed, to_py_func, is_list, wraparound, boundscheck) \ + (__Pyx_fits_Py_ssize_t(i, type, is_signed) ? \ + __Pyx_SetItemInt_Fast(o, (Py_ssize_t)i, v, is_list, wraparound, boundscheck) : \ + (is_list ? (PyErr_SetString(PyExc_IndexError, "list assignment index out of range"), -1) : \ + __Pyx_SetItemInt_Generic(o, to_py_func(i), v))) +static CYTHON_INLINE int __Pyx_SetItemInt_Generic(PyObject *o, PyObject *j, PyObject *v); +static CYTHON_INLINE int __Pyx_SetItemInt_Fast(PyObject *o, Py_ssize_t i, PyObject *v, + int is_list, int wraparound, int boundscheck); static CYTHON_INLINE void __Pyx_ErrRestore(PyObject *type, PyObject *value, PyObject *tb); /*proto*/ static CYTHON_INLINE void __Pyx_ErrFetch(PyObject **type, PyObject **value, PyObject **tb); /*proto*/ @@ -770,15 +960,17 @@ static CYTHON_INLINE void __Pyx_RaiseNeedMoreValuesError(Py_ssize_t index); static CYTHON_INLINE void __Pyx_RaiseNoneNotIterableError(void); -static CYTHON_INLINE int __Pyx_IterFinish(void); /*proto*/ +static CYTHON_INLINE int __Pyx_TypeTest(PyObject *obj, PyTypeObject *type); /*proto*/ -static int __Pyx_IternextUnpackEndCheck(PyObject *retval, Py_ssize_t expected); /*proto*/ +static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, int level); /*proto*/ -static CYTHON_INLINE int __Pyx_TypeTest(PyObject *obj, PyTypeObject *type); /*proto*/ +static CYTHON_INLINE int __Pyx_PyInt_As_int(PyObject *); -static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, long level); /*proto*/ +static CYTHON_INLINE PyObject* __Pyx_PyInt_From_int(int value); -static CYTHON_INLINE PyObject *__Pyx_PyInt_to_py_Py_intptr_t(Py_intptr_t); +static CYTHON_INLINE PyObject* __Pyx_PyInt_From_unsigned_int(unsigned int value); + +static CYTHON_INLINE PyObject* __Pyx_PyInt_From_Py_intptr_t(Py_intptr_t value); #if CYTHON_CCOMPLEX #ifdef __cplusplus @@ -792,7 +984,7 @@ static CYTHON_INLINE PyObject *__Pyx_PyInt_to_py_Py_intptr_t(Py_intptr_t); #define __Pyx_CREAL(z) ((z).real) #define __Pyx_CIMAG(z) ((z).imag) #endif -#if defined(_WIN32) && defined(__cplusplus) && CYTHON_CCOMPLEX +#if (defined(_WIN32) || defined(__clang__)) && defined(__cplusplus) && CYTHON_CCOMPLEX #define __Pyx_SET_CREAL(z,x) ((z).real(x)) #define __Pyx_SET_CIMAG(z,y) ((z).imag(y)) #else @@ -878,37 +1070,9 @@ static CYTHON_INLINE __pyx_t_double_complex __pyx_t_double_complex_from_parts(do #endif #endif -static CYTHON_INLINE unsigned char __Pyx_PyInt_AsUnsignedChar(PyObject *); - -static CYTHON_INLINE unsigned short __Pyx_PyInt_AsUnsignedShort(PyObject *); - -static CYTHON_INLINE unsigned int __Pyx_PyInt_AsUnsignedInt(PyObject *); - -static CYTHON_INLINE char __Pyx_PyInt_AsChar(PyObject *); - -static CYTHON_INLINE short __Pyx_PyInt_AsShort(PyObject *); - -static CYTHON_INLINE int __Pyx_PyInt_AsInt(PyObject *); - -static CYTHON_INLINE signed char __Pyx_PyInt_AsSignedChar(PyObject *); - -static CYTHON_INLINE signed short __Pyx_PyInt_AsSignedShort(PyObject *); +static CYTHON_INLINE PyObject* __Pyx_PyInt_From_long(long value); -static CYTHON_INLINE signed int __Pyx_PyInt_AsSignedInt(PyObject *); - -static CYTHON_INLINE int __Pyx_PyInt_AsLongDouble(PyObject *); - -static CYTHON_INLINE unsigned long __Pyx_PyInt_AsUnsignedLong(PyObject *); - -static CYTHON_INLINE unsigned PY_LONG_LONG __Pyx_PyInt_AsUnsignedLongLong(PyObject *); - -static CYTHON_INLINE long __Pyx_PyInt_AsLong(PyObject *); - -static CYTHON_INLINE PY_LONG_LONG __Pyx_PyInt_AsLongLong(PyObject *); - -static CYTHON_INLINE signed long __Pyx_PyInt_AsSignedLong(PyObject *); - -static CYTHON_INLINE signed PY_LONG_LONG __Pyx_PyInt_AsSignedLongLong(PyObject *); +static CYTHON_INLINE long __Pyx_PyInt_As_long(PyObject *); static int __Pyx_check_binary_version(void); @@ -948,6 +1112,8 @@ static int __Pyx_InitStrings(__Pyx_StringTabEntry *t); /*proto*/ /* Module declarations from 'cpython.ref' */ +/* Module declarations from 'libc.string' */ + /* Module declarations from 'libc.stdio' */ /* Module declarations from 'cpython.object' */ @@ -990,200 +1156,214 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_7wrapper_14copy_via_iterators(CY static PyObject *__pyx_pf_4nipy_4labs_8bindings_7wrapper_16sum_via_iterators(CYTHON_UNUSED PyObject *__pyx_self, PyArrayObject *__pyx_v_Y, int __pyx_v_axis); /* proto */ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, Py_buffer *__pyx_v_info, int __pyx_v_flags); /* proto */ static void __pyx_pf_5numpy_7ndarray_2__releasebuffer__(PyArrayObject *__pyx_v_self, Py_buffer *__pyx_v_info); /* proto */ -static char __pyx_k_1[] = "ndarray is not C contiguous"; -static char __pyx_k_3[] = "ndarray is not Fortran contiguous"; -static char __pyx_k_5[] = "Non-native byte order not supported"; -static char __pyx_k_7[] = "unknown dtype code in numpy.pxd (%d)"; -static char __pyx_k_8[] = "Format string allocated too short, see comment in numpy.pxd"; -static char __pyx_k_11[] = "Format string allocated too short."; -static char __pyx_k_13[] = "\nIterators for testing. \nAuthor: Alexis Roche, 2009.\n"; -static char __pyx_k_14[] = "0.1"; -static char __pyx_k_15[] = "unknown type"; -static char __pyx_k_16[] = "unsigned char"; -static char __pyx_k_17[] = "signed char"; -static char __pyx_k_18[] = "unsigned short"; -static char __pyx_k_19[] = "signed short"; -static char __pyx_k_20[] = "unsigned int"; -static char __pyx_k_21[] = "unsigned long"; -static char __pyx_k_24[] = "/Users/mb312/dev_trees/nipy/nipy/labs/bindings/wrapper.pyx"; -static char __pyx_k_25[] = "nipy.labs.bindings.wrapper"; -static char __pyx_k_38[] = "pass_vector_via_iterator"; -static char __pyx_k__B[] = "B"; -static char __pyx_k__H[] = "H"; -static char __pyx_k__I[] = "I"; -static char __pyx_k__L[] = "L"; -static char __pyx_k__O[] = "O"; -static char __pyx_k__Q[] = "Q"; -static char __pyx_k__T[] = "T"; -static char __pyx_k__X[] = "X"; -static char __pyx_k__Y[] = "Y"; -static char __pyx_k__Z[] = "Z"; -static char __pyx_k__b[] = "b"; -static char __pyx_k__d[] = "d"; -static char __pyx_k__f[] = "f"; -static char __pyx_k__g[] = "g"; -static char __pyx_k__h[] = "h"; -static char __pyx_k__i[] = "i"; -static char __pyx_k__l[] = "l"; -static char __pyx_k__q[] = "q"; -static char __pyx_k__x[] = "x"; -static char __pyx_k__y[] = "y"; -static char __pyx_k__z[] = "z"; -static char __pyx_k__Zd[] = "Zd"; -static char __pyx_k__Zf[] = "Zf"; -static char __pyx_k__Zg[] = "Zg"; -static char __pyx_k__np[] = "np"; -static char __pyx_k__int[] = "int"; -static char __pyx_k__Xdum[] = "Xdum"; -static char __pyx_k__axis[] = "axis"; -static char __pyx_k__copy[] = "copy"; -static char __pyx_k__data[] = "data"; -static char __pyx_k__dims[] = "dims"; -static char __pyx_k__flag[] = "flag"; -static char __pyx_k__long[] = "long"; -static char __pyx_k__size[] = "size"; -static char __pyx_k__type[] = "type"; -static char __pyx_k__dtype[] = "dtype"; -static char __pyx_k__fff_t[] = "fff_t"; -static char __pyx_k__float[] = "float"; -static char __pyx_k__index[] = "index"; -static char __pyx_k__multi[] = "multi"; -static char __pyx_k__npy_t[] = "npy_t"; -static char __pyx_k__numpy[] = "numpy"; -static char __pyx_k__range[] = "range"; -static char __pyx_k__zeros[] = "zeros"; -static char __pyx_k__double[] = "double"; -static char __pyx_k__elsize[] = "elsize"; -static char __pyx_k__nbytes[] = "nbytes"; -static char __pyx_k__niters[] = "niters"; -static char __pyx_k__stride[] = "stride"; -static char __pyx_k__c_types[] = "c_types"; -static char __pyx_k__squeeze[] = "squeeze"; -static char __pyx_k____main__[] = "__main__"; -static char __pyx_k____test__[] = "__test__"; -static char __pyx_k__fff_type[] = "fff_type"; -static char __pyx_k__itemsize[] = "itemsize"; -static char __pyx_k__npy_type[] = "npy_type"; -static char __pyx_k__fff_types[] = "fff_types"; -static char __pyx_k__npy_types[] = "npy_types"; -static char __pyx_k__relstride[] = "relstride"; -static char __pyx_k__ValueError[] = "ValueError"; -static char __pyx_k__pass_array[] = "pass_array"; -static char __pyx_k__zeros_like[] = "zeros_like"; -static char __pyx_k____version__[] = "__version__"; -static char __pyx_k__copy_vector[] = "copy_vector"; -static char __pyx_k__pass_matrix[] = "pass_matrix"; -static char __pyx_k__pass_vector[] = "pass_vector"; -static char __pyx_k__RuntimeError[] = "RuntimeError"; -static char __pyx_k__sum_via_iterators[] = "sum_via_iterators"; -static char __pyx_k__copy_via_iterators[] = "copy_via_iterators"; -static PyObject *__pyx_kp_u_1; -static PyObject *__pyx_kp_u_11; -static PyObject *__pyx_kp_s_14; -static PyObject *__pyx_kp_s_15; -static PyObject *__pyx_kp_s_16; -static PyObject *__pyx_kp_s_17; -static PyObject *__pyx_kp_s_18; -static PyObject *__pyx_kp_s_19; -static PyObject *__pyx_kp_s_20; -static PyObject *__pyx_kp_s_21; -static PyObject *__pyx_kp_s_24; -static PyObject *__pyx_n_s_25; -static PyObject *__pyx_kp_u_3; -static PyObject *__pyx_n_s_38; -static PyObject *__pyx_kp_u_5; -static PyObject *__pyx_kp_u_7; -static PyObject *__pyx_kp_u_8; -static PyObject *__pyx_n_s__RuntimeError; -static PyObject *__pyx_n_s__T; -static PyObject *__pyx_n_s__ValueError; -static PyObject *__pyx_n_s__X; -static PyObject *__pyx_n_s__Xdum; -static PyObject *__pyx_n_s__Y; -static PyObject *__pyx_n_s__Z; -static PyObject *__pyx_n_s____main__; -static PyObject *__pyx_n_s____test__; -static PyObject *__pyx_n_s____version__; -static PyObject *__pyx_n_s__axis; -static PyObject *__pyx_n_s__c_types; -static PyObject *__pyx_n_s__copy; -static PyObject *__pyx_n_s__copy_vector; -static PyObject *__pyx_n_s__copy_via_iterators; -static PyObject *__pyx_n_s__data; -static PyObject *__pyx_n_s__dims; -static PyObject *__pyx_n_s__double; -static PyObject *__pyx_n_s__dtype; -static PyObject *__pyx_n_s__elsize; -static PyObject *__pyx_n_s__fff_t; -static PyObject *__pyx_n_s__fff_type; -static PyObject *__pyx_n_s__fff_types; -static PyObject *__pyx_n_s__flag; -static PyObject *__pyx_n_s__float; -static PyObject *__pyx_n_s__i; -static PyObject *__pyx_n_s__index; -static PyObject *__pyx_n_s__int; -static PyObject *__pyx_n_s__itemsize; -static PyObject *__pyx_n_s__long; -static PyObject *__pyx_n_s__multi; -static PyObject *__pyx_n_s__nbytes; -static PyObject *__pyx_n_s__niters; -static PyObject *__pyx_n_s__np; -static PyObject *__pyx_n_s__npy_t; -static PyObject *__pyx_n_s__npy_type; -static PyObject *__pyx_n_s__npy_types; -static PyObject *__pyx_n_s__numpy; -static PyObject *__pyx_n_s__pass_array; -static PyObject *__pyx_n_s__pass_matrix; -static PyObject *__pyx_n_s__pass_vector; -static PyObject *__pyx_n_s__range; -static PyObject *__pyx_n_s__relstride; -static PyObject *__pyx_n_s__size; -static PyObject *__pyx_n_s__squeeze; -static PyObject *__pyx_n_s__stride; -static PyObject *__pyx_n_s__sum_via_iterators; -static PyObject *__pyx_n_s__type; -static PyObject *__pyx_n_s__x; -static PyObject *__pyx_n_s__y; -static PyObject *__pyx_n_s__z; -static PyObject *__pyx_n_s__zeros; -static PyObject *__pyx_n_s__zeros_like; +static char __pyx_k_B[] = "B"; +static char __pyx_k_H[] = "H"; +static char __pyx_k_I[] = "I"; +static char __pyx_k_L[] = "L"; +static char __pyx_k_O[] = "O"; +static char __pyx_k_Q[] = "Q"; +static char __pyx_k_T[] = "T"; +static char __pyx_k_X[] = "X"; +static char __pyx_k_Y[] = "Y"; +static char __pyx_k_Z[] = "Z"; +static char __pyx_k_b[] = "b"; +static char __pyx_k_d[] = "d"; +static char __pyx_k_f[] = "f"; +static char __pyx_k_g[] = "g"; +static char __pyx_k_h[] = "h"; +static char __pyx_k_i[] = "i"; +static char __pyx_k_l[] = "l"; +static char __pyx_k_q[] = "q"; +static char __pyx_k_x[] = "x"; +static char __pyx_k_y[] = "y"; +static char __pyx_k_z[] = "z"; +static char __pyx_k_Zd[] = "Zd"; +static char __pyx_k_Zf[] = "Zf"; +static char __pyx_k_Zg[] = "Zg"; +static char __pyx_k_np[] = "np"; +static char __pyx_k_0_1[] = "0.1"; +static char __pyx_k_int[] = "int"; +static char __pyx_k_Xdum[] = "Xdum"; +static char __pyx_k_axis[] = "axis"; +static char __pyx_k_copy[] = "copy"; +static char __pyx_k_data[] = "data"; +static char __pyx_k_dims[] = "dims"; +static char __pyx_k_flag[] = "flag"; +static char __pyx_k_long[] = "long"; +static char __pyx_k_main[] = "__main__"; +static char __pyx_k_size[] = "size"; +static char __pyx_k_test[] = "__test__"; +static char __pyx_k_type[] = "type"; +static char __pyx_k_dtype[] = "dtype"; +static char __pyx_k_fff_t[] = "fff_t"; +static char __pyx_k_float[] = "float"; +static char __pyx_k_index[] = "index"; +static char __pyx_k_multi[] = "multi"; +static char __pyx_k_npy_t[] = "npy_t"; +static char __pyx_k_numpy[] = "numpy"; +static char __pyx_k_range[] = "range"; +static char __pyx_k_zeros[] = "zeros"; +static char __pyx_k_double[] = "double"; +static char __pyx_k_elsize[] = "elsize"; +static char __pyx_k_import[] = "__import__"; +static char __pyx_k_nbytes[] = "nbytes"; +static char __pyx_k_niters[] = "niters"; +static char __pyx_k_stride[] = "stride"; +static char __pyx_k_c_types[] = "c_types"; +static char __pyx_k_squeeze[] = "squeeze"; +static char __pyx_k_version[] = "__version__"; +static char __pyx_k_fff_type[] = "fff_type"; +static char __pyx_k_itemsize[] = "itemsize"; +static char __pyx_k_npy_type[] = "npy_type"; +static char __pyx_k_fff_types[] = "fff_types"; +static char __pyx_k_npy_types[] = "npy_types"; +static char __pyx_k_relstride[] = "relstride"; +static char __pyx_k_ValueError[] = "ValueError"; +static char __pyx_k_pass_array[] = "pass_array"; +static char __pyx_k_zeros_like[] = "zeros_like"; +static char __pyx_k_copy_vector[] = "copy_vector"; +static char __pyx_k_pass_matrix[] = "pass_matrix"; +static char __pyx_k_pass_vector[] = "pass_vector"; +static char __pyx_k_signed_char[] = "signed char"; +static char __pyx_k_RuntimeError[] = "RuntimeError"; +static char __pyx_k_signed_short[] = "signed short"; +static char __pyx_k_unknown_type[] = "unknown type"; +static char __pyx_k_unsigned_int[] = "unsigned int"; +static char __pyx_k_unsigned_char[] = "unsigned char"; +static char __pyx_k_unsigned_long[] = "unsigned long"; +static char __pyx_k_unsigned_short[] = "unsigned short"; +static char __pyx_k_sum_via_iterators[] = "sum_via_iterators"; +static char __pyx_k_copy_via_iterators[] = "copy_via_iterators"; +static char __pyx_k_pass_vector_via_iterator[] = "pass_vector_via_iterator"; +static char __pyx_k_nipy_labs_bindings_wrapper[] = "nipy.labs.bindings.wrapper"; +static char __pyx_k_ndarray_is_not_C_contiguous[] = "ndarray is not C contiguous"; +static char __pyx_k_Iterators_for_testing_Author_Al[] = "\nIterators for testing. \nAuthor: Alexis Roche, 2009.\n"; +static char __pyx_k_home_roche_git_nipy_nipy_labs_b[] = "/home/roche/git/nipy/nipy/labs/bindings/wrapper.pyx"; +static char __pyx_k_unknown_dtype_code_in_numpy_pxd[] = "unknown dtype code in numpy.pxd (%d)"; +static char __pyx_k_Format_string_allocated_too_shor[] = "Format string allocated too short, see comment in numpy.pxd"; 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} -/* "nipy/labs/bindings/wrapper.pyx":34 - * - * - * def fff_type(dtype T): # <<<<<<<<<<<<<< - * """ - * fff_t, nbytes = fff_type(T) - */ - static PyObject *__pyx_pf_4nipy_4labs_8bindings_7wrapper_fff_type(CYTHON_UNUSED PyObject *__pyx_self, PyArray_Descr *__pyx_v_T) { fff_datatype __pyx_v_fff_t; unsigned int __pyx_v_nbytes; @@ -1240,29 +1412,29 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_7wrapper_fff_type(CYTHON_UNUSED * */ __Pyx_XDECREF(__pyx_r); - __pyx_t_1 = __Pyx_GetName(__pyx_m, __pyx_n_s__c_types); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 44; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = __Pyx_GetModuleGlobalName(__pyx_n_s_c_types); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 44; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); - __pyx_t_2 = __Pyx_GetName(__pyx_m, __pyx_n_s__fff_types); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 44; __pyx_clineno = __LINE__; 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static PyObject *__pyx_pw_4nipy_4labs_8bindings_7wrapper_5pass_vector(PyObject *__pyx_self, PyObject *__pyx_v_X) { + CYTHON_UNUSED int __pyx_lineno = 0; + CYTHON_UNUSED const char *__pyx_filename = NULL; + CYTHON_UNUSED int __pyx_clineno = 0; PyObject *__pyx_r = 0; __Pyx_RefNannyDeclarations __Pyx_RefNannySetupContext("pass_vector (wrapper)", 0); if (unlikely(!__Pyx_ArgTypeTest(((PyObject *)__pyx_v_X), __pyx_ptype_5numpy_ndarray, 1, "X", 0))) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 61; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __pyx_r = __pyx_pf_4nipy_4labs_8bindings_7wrapper_4pass_vector(__pyx_self, ((PyArrayObject *)__pyx_v_X)); + + /* function exit code */ goto __pyx_L0; __pyx_L1_error:; __pyx_r = NULL; @@ -1454,14 +1655,6 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_7wrapper_5pass_vector(PyObject * return __pyx_r; } -/* "nipy/labs/bindings/wrapper.pyx":61 - * return c_types[npy_types.index(npy_t)], nbytes - * - * def pass_vector(ndarray X): # <<<<<<<<<<<<<< - * """ - * Y = pass_vector(X) - */ - static PyObject *__pyx_pf_4nipy_4labs_8bindings_7wrapper_4pass_vector(CYTHON_UNUSED PyObject *__pyx_self, PyArrayObject *__pyx_v_X) { fff_vector *__pyx_v_x; 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/*proto*/ static char __pyx_doc_4nipy_4labs_8bindings_7wrapper_6copy_vector[] = "\n Y = copy_vector(X, flag)\n\n flag == 0 ==> use fff\n flag == 1 ==> use numpy\n "; @@ -1542,11 +1750,14 @@ static PyMethodDef __pyx_mdef_4nipy_4labs_8bindings_7wrapper_7copy_vector = {__P static PyObject *__pyx_pw_4nipy_4labs_8bindings_7wrapper_7copy_vector(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds) { PyArrayObject *__pyx_v_X = 0; int __pyx_v_flag; + int __pyx_lineno = 0; + const char *__pyx_filename = NULL; + int __pyx_clineno = 0; PyObject *__pyx_r = 0; __Pyx_RefNannyDeclarations __Pyx_RefNannySetupContext("copy_vector (wrapper)", 0); { - static PyObject **__pyx_pyargnames[] = {&__pyx_n_s__X,&__pyx_n_s__flag,0}; + static PyObject **__pyx_pyargnames[] = {&__pyx_n_s_X,&__pyx_n_s_flag,0}; PyObject* values[2] = {0,0}; if (unlikely(__pyx_kwds)) { Py_ssize_t kw_args; @@ -1560,10 +1771,10 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_7wrapper_7copy_vector(PyObject * kw_args = PyDict_Size(__pyx_kwds); 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+ #endif + PyErr_SetString(PyExc_OverflowError, "value too large to perform division"); + #ifdef WITH_THREAD + PyGILState_Release(__pyx_gilstate_save); + #endif {__pyx_filename = __pyx_f[0]; __pyx_lineno = 91; __pyx_clineno = __LINE__; goto __pyx_L1_error;} } __pyx_v_relstride = __Pyx_div_int(__pyx_v_stride, __pyx_v_itemsize); @@ -1717,7 +1934,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_7wrapper_6copy_vector(CYTHON_UNU * fff_vector_fetch(y, data, fff_type, relstride) * else: */ - __pyx_t_3 = (__pyx_v_flag == 0); + __pyx_t_3 = ((__pyx_v_flag == 0) != 0); if (__pyx_t_3) { /* "nipy/labs/bindings/wrapper.pyx":97 @@ -1757,8 +1974,15 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_7wrapper_6copy_vector(CYTHON_UNU __pyx_t_1 = 0; goto __pyx_L0; - __pyx_r = Py_None; __Pyx_INCREF(Py_None); - goto __pyx_L0; + /* "nipy/labs/bindings/wrapper.pyx":73 + * + * + * def copy_vector(ndarray X, int flag): # <<<<<<<<<<<<<< + * """ + * Y = copy_vector(X, flag) + */ + + /* function exit code */ __pyx_L1_error:; __Pyx_XDECREF(__pyx_t_1); __Pyx_AddTraceback("nipy.labs.bindings.wrapper.copy_vector", __pyx_clineno, __pyx_lineno, __pyx_filename); @@ -1769,16 +1993,29 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_7wrapper_6copy_vector(CYTHON_UNU return __pyx_r; } +/* "nipy/labs/bindings/wrapper.pyx":104 + * + * + * def pass_matrix(ndarray X): # <<<<<<<<<<<<<< + * """ + * Y = pass_matrix(X) + */ + /* Python wrapper */ static PyObject *__pyx_pw_4nipy_4labs_8bindings_7wrapper_9pass_matrix(PyObject *__pyx_self, PyObject *__pyx_v_X); /*proto*/ static char __pyx_doc_4nipy_4labs_8bindings_7wrapper_8pass_matrix[] = "\n Y = pass_matrix(X)\n "; static PyMethodDef __pyx_mdef_4nipy_4labs_8bindings_7wrapper_9pass_matrix = {__Pyx_NAMESTR("pass_matrix"), (PyCFunction)__pyx_pw_4nipy_4labs_8bindings_7wrapper_9pass_matrix, METH_O, __Pyx_DOCSTR(__pyx_doc_4nipy_4labs_8bindings_7wrapper_8pass_matrix)}; static PyObject *__pyx_pw_4nipy_4labs_8bindings_7wrapper_9pass_matrix(PyObject *__pyx_self, PyObject *__pyx_v_X) { + CYTHON_UNUSED int __pyx_lineno = 0; + CYTHON_UNUSED const char *__pyx_filename = NULL; + CYTHON_UNUSED int __pyx_clineno = 0; PyObject *__pyx_r = 0; __Pyx_RefNannyDeclarations __Pyx_RefNannySetupContext("pass_matrix (wrapper)", 0); if (unlikely(!__Pyx_ArgTypeTest(((PyObject *)__pyx_v_X), __pyx_ptype_5numpy_ndarray, 1, "X", 0))) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 104; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __pyx_r = __pyx_pf_4nipy_4labs_8bindings_7wrapper_8pass_matrix(__pyx_self, ((PyArrayObject *)__pyx_v_X)); + + /* function exit code */ goto __pyx_L0; __pyx_L1_error:; __pyx_r = NULL; @@ -1787,14 +2024,6 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_7wrapper_9pass_matrix(PyObject * return __pyx_r; } -/* "nipy/labs/bindings/wrapper.pyx":104 - * - * - * def pass_matrix(ndarray X): # <<<<<<<<<<<<<< - * """ - * Y = pass_matrix(X) - */ - static PyObject *__pyx_pf_4nipy_4labs_8bindings_7wrapper_8pass_matrix(CYTHON_UNUSED PyObject *__pyx_self, PyArrayObject *__pyx_v_X) { fff_matrix *__pyx_v_x; fff_matrix *__pyx_v_y; @@ -1856,8 +2085,15 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_7wrapper_8pass_matrix(CYTHON_UNU __pyx_t_1 = 0; goto __pyx_L0; - __pyx_r = Py_None; __Pyx_INCREF(Py_None); - goto __pyx_L0; + /* "nipy/labs/bindings/wrapper.pyx":104 + * + * + * def pass_matrix(ndarray X): # <<<<<<<<<<<<<< + * """ + * Y = pass_matrix(X) + */ + + /* function exit code */ __pyx_L1_error:; __Pyx_XDECREF(__pyx_t_1); __Pyx_AddTraceback("nipy.labs.bindings.wrapper.pass_matrix", __pyx_clineno, __pyx_lineno, __pyx_filename); @@ -1868,16 +2104,29 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_7wrapper_8pass_matrix(CYTHON_UNU return __pyx_r; } +/* "nipy/labs/bindings/wrapper.pyx":116 + * + * + * def pass_array(ndarray X): # <<<<<<<<<<<<<< + * """ + * Y = pass_array(X) + */ + /* Python wrapper */ static PyObject *__pyx_pw_4nipy_4labs_8bindings_7wrapper_11pass_array(PyObject *__pyx_self, PyObject *__pyx_v_X); /*proto*/ static char __pyx_doc_4nipy_4labs_8bindings_7wrapper_10pass_array[] = "\n Y = pass_array(X)\n "; static PyMethodDef __pyx_mdef_4nipy_4labs_8bindings_7wrapper_11pass_array = {__Pyx_NAMESTR("pass_array"), (PyCFunction)__pyx_pw_4nipy_4labs_8bindings_7wrapper_11pass_array, METH_O, __Pyx_DOCSTR(__pyx_doc_4nipy_4labs_8bindings_7wrapper_10pass_array)}; static PyObject *__pyx_pw_4nipy_4labs_8bindings_7wrapper_11pass_array(PyObject *__pyx_self, PyObject *__pyx_v_X) { + CYTHON_UNUSED int __pyx_lineno = 0; + CYTHON_UNUSED const char *__pyx_filename = NULL; + CYTHON_UNUSED int __pyx_clineno = 0; PyObject *__pyx_r = 0; __Pyx_RefNannyDeclarations __Pyx_RefNannySetupContext("pass_array (wrapper)", 0); if (unlikely(!__Pyx_ArgTypeTest(((PyObject *)__pyx_v_X), __pyx_ptype_5numpy_ndarray, 1, "X", 0))) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 116; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __pyx_r = __pyx_pf_4nipy_4labs_8bindings_7wrapper_10pass_array(__pyx_self, ((PyArrayObject *)__pyx_v_X)); + + /* function exit code */ goto __pyx_L0; __pyx_L1_error:; __pyx_r = NULL; @@ -1886,14 +2135,6 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_7wrapper_11pass_array(PyObject * return __pyx_r; } -/* "nipy/labs/bindings/wrapper.pyx":116 - * - * - * def pass_array(ndarray X): # <<<<<<<<<<<<<< - * """ - * Y = pass_array(X) - */ - static PyObject *__pyx_pf_4nipy_4labs_8bindings_7wrapper_10pass_array(CYTHON_UNUSED PyObject *__pyx_self, PyArrayObject *__pyx_v_X) { fff_array *__pyx_v_x; fff_array *__pyx_v_y; @@ -1955,8 +2196,15 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_7wrapper_10pass_array(CYTHON_UNU __pyx_t_1 = 0; goto __pyx_L0; - __pyx_r = Py_None; __Pyx_INCREF(Py_None); - goto __pyx_L0; + /* "nipy/labs/bindings/wrapper.pyx":116 + * + * + * def pass_array(ndarray X): # <<<<<<<<<<<<<< + * """ + * Y = pass_array(X) + */ + + /* function exit code */ __pyx_L1_error:; __Pyx_XDECREF(__pyx_t_1); __Pyx_AddTraceback("nipy.labs.bindings.wrapper.pass_array", __pyx_clineno, __pyx_lineno, __pyx_filename); @@ -1967,6 +2215,14 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_7wrapper_10pass_array(CYTHON_UNU return __pyx_r; } +/* "nipy/labs/bindings/wrapper.pyx":128 + * + * + * def pass_vector_via_iterator(ndarray X, int axis=0, int niters=0): # <<<<<<<<<<<<<< + * """ + * Y = pass_vector_via_iterator(X, axis=0, niters=0) + */ + /* Python wrapper */ static PyObject *__pyx_pw_4nipy_4labs_8bindings_7wrapper_13pass_vector_via_iterator(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/ static char __pyx_doc_4nipy_4labs_8bindings_7wrapper_12pass_vector_via_iterator[] = "\n Y = pass_vector_via_iterator(X, axis=0, niters=0)\n "; @@ -1975,11 +2231,14 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_7wrapper_13pass_vector_via_itera PyArrayObject *__pyx_v_X = 0; int __pyx_v_axis; int __pyx_v_niters; + int __pyx_lineno = 0; + const char *__pyx_filename = NULL; + int __pyx_clineno = 0; PyObject *__pyx_r = 0; __Pyx_RefNannyDeclarations __Pyx_RefNannySetupContext("pass_vector_via_iterator (wrapper)", 0); { - static PyObject **__pyx_pyargnames[] = {&__pyx_n_s__X,&__pyx_n_s__axis,&__pyx_n_s__niters,0}; + static PyObject **__pyx_pyargnames[] = {&__pyx_n_s_X,&__pyx_n_s_axis,&__pyx_n_s_niters,0}; PyObject* values[3] = {0,0,0}; if (unlikely(__pyx_kwds)) { Py_ssize_t kw_args; @@ -1994,16 +2253,16 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_7wrapper_13pass_vector_via_itera kw_args = PyDict_Size(__pyx_kwds); switch (pos_args) { case 0: - if (likely((values[0] = PyDict_GetItem(__pyx_kwds, __pyx_n_s__X)) != 0)) kw_args--; + if (likely((values[0] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_X)) != 0)) kw_args--; else goto __pyx_L5_argtuple_error; case 1: if (kw_args > 0) { - PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s__axis); + PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s_axis); if (value) { values[1] = value; kw_args--; } } case 2: if (kw_args > 0) { - PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s__niters); + PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s_niters); if (value) { values[2] = value; kw_args--; } } } @@ -2021,12 +2280,12 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_7wrapper_13pass_vector_via_itera } __pyx_v_X = ((PyArrayObject *)values[0]); if (values[1]) { - __pyx_v_axis = __Pyx_PyInt_AsInt(values[1]); if (unlikely((__pyx_v_axis == (int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 128; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_axis = __Pyx_PyInt_As_int(values[1]); if (unlikely((__pyx_v_axis == (int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; 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+ + /* function exit code */ goto __pyx_L0; __pyx_L1_error:; __pyx_r = NULL; @@ -2049,14 +2310,6 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_7wrapper_13pass_vector_via_itera return __pyx_r; } -/* "nipy/labs/bindings/wrapper.pyx":128 - * - * - * def pass_vector_via_iterator(ndarray X, int axis=0, int niters=0): # <<<<<<<<<<<<<< - * """ - * Y = pass_vector_via_iterator(X, axis=0, niters=0) - */ - static PyObject *__pyx_pf_4nipy_4labs_8bindings_7wrapper_12pass_vector_via_iterator(CYTHON_UNUSED PyObject *__pyx_self, PyArrayObject *__pyx_v_X, int __pyx_v_axis, int __pyx_v_niters) { fff_vector *__pyx_v_x; fff_vector *__pyx_v_y; @@ -2079,9 +2332,9 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_7wrapper_12pass_vector_via_itera * multi = fffpy_multi_iterator_new(2, axis, X, Xdum) * x = multi.vector[0] */ - __pyx_t_1 = PyObject_GetAttr(((PyObject *)__pyx_v_X), __pyx_n_s__copy); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 135; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = __Pyx_PyObject_GetAttrStr(((PyObject *)__pyx_v_X), __pyx_n_s_copy); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 135; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); - __pyx_t_2 = PyObject_Call(__pyx_t_1, ((PyObject *)__pyx_empty_tuple), NULL); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 135; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_2 = __Pyx_PyObject_Call(__pyx_t_1, __pyx_empty_tuple, NULL); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 135; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_2); __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; __pyx_v_Xdum = __pyx_t_2; @@ -2113,7 +2366,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_7wrapper_12pass_vector_via_itera * */ while (1) { - __pyx_t_3 = (__pyx_v_multi->index < __pyx_v_niters); + __pyx_t_3 = ((__pyx_v_multi->index < __pyx_v_niters) != 0); if (!__pyx_t_3) break; /* "nipy/labs/bindings/wrapper.pyx":140 @@ -2167,8 +2420,15 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_7wrapper_12pass_vector_via_itera __pyx_t_2 = 0; goto __pyx_L0; - __pyx_r = Py_None; __Pyx_INCREF(Py_None); - goto __pyx_L0; + /* "nipy/labs/bindings/wrapper.pyx":128 + * + * + * def pass_vector_via_iterator(ndarray X, int axis=0, int niters=0): # <<<<<<<<<<<<<< + * """ + * Y = pass_vector_via_iterator(X, axis=0, niters=0) + */ + + /* function exit code */ __pyx_L1_error:; __Pyx_XDECREF(__pyx_t_1); __Pyx_XDECREF(__pyx_t_2); @@ -2181,6 +2441,14 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_7wrapper_12pass_vector_via_itera return __pyx_r; } +/* "nipy/labs/bindings/wrapper.pyx":148 + * + * + * def copy_via_iterators(ndarray Y, int axis=0): # <<<<<<<<<<<<<< + * """ + * Z = copy_via_iterators(Y, int axis=0) + */ + /* Python wrapper */ static PyObject *__pyx_pw_4nipy_4labs_8bindings_7wrapper_15copy_via_iterators(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/ static char __pyx_doc_4nipy_4labs_8bindings_7wrapper_14copy_via_iterators[] = "\n Z = copy_via_iterators(Y, int axis=0) \n\n Copy array Y into Z via fff's PyArray_MultiIterAllButAxis C function.\n Behavior should be equivalent to Z = Y.copy(). \n "; @@ -2188,11 +2456,14 @@ static PyMethodDef __pyx_mdef_4nipy_4labs_8bindings_7wrapper_15copy_via_iterator static PyObject *__pyx_pw_4nipy_4labs_8bindings_7wrapper_15copy_via_iterators(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds) { PyArrayObject *__pyx_v_Y = 0; int __pyx_v_axis; + int __pyx_lineno = 0; + const char *__pyx_filename = NULL; + int __pyx_clineno = 0; PyObject *__pyx_r = 0; __Pyx_RefNannyDeclarations __Pyx_RefNannySetupContext("copy_via_iterators (wrapper)", 0); { - static PyObject **__pyx_pyargnames[] = {&__pyx_n_s__Y,&__pyx_n_s__axis,0}; + static PyObject **__pyx_pyargnames[] = {&__pyx_n_s_Y,&__pyx_n_s_axis,0}; PyObject* values[2] = {0,0}; if (unlikely(__pyx_kwds)) { Py_ssize_t kw_args; @@ -2206,11 +2477,11 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_7wrapper_15copy_via_iterators(Py kw_args = PyDict_Size(__pyx_kwds); switch (pos_args) { case 0: - if (likely((values[0] = PyDict_GetItem(__pyx_kwds, __pyx_n_s__Y)) != 0)) kw_args--; + if (likely((values[0] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_Y)) != 0)) kw_args--; else goto __pyx_L5_argtuple_error; case 1: if (kw_args > 0) { - PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s__axis); + PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s_axis); if (value) { values[1] = value; kw_args--; } } } @@ -2227,7 +2498,7 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_7wrapper_15copy_via_iterators(Py } __pyx_v_Y = ((PyArrayObject *)values[0]); if (values[1]) { - __pyx_v_axis = __Pyx_PyInt_AsInt(values[1]); if (unlikely((__pyx_v_axis == (int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 148; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_axis = __Pyx_PyInt_As_int(values[1]); if (unlikely((__pyx_v_axis == (int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 148; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } else { __pyx_v_axis = ((int)0); } @@ -2242,6 +2513,8 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_7wrapper_15copy_via_iterators(Py __pyx_L4_argument_unpacking_done:; if (unlikely(!__Pyx_ArgTypeTest(((PyObject *)__pyx_v_Y), __pyx_ptype_5numpy_ndarray, 1, "Y", 0))) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 148; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __pyx_r = __pyx_pf_4nipy_4labs_8bindings_7wrapper_14copy_via_iterators(__pyx_self, __pyx_v_Y, __pyx_v_axis); + + /* function exit code */ goto __pyx_L0; __pyx_L1_error:; __pyx_r = NULL; @@ -2250,14 +2523,6 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_7wrapper_15copy_via_iterators(Py return __pyx_r; } -/* "nipy/labs/bindings/wrapper.pyx":148 - * - * - * def copy_via_iterators(ndarray Y, int axis=0): # <<<<<<<<<<<<<< - * """ - * Z = copy_via_iterators(Y, int axis=0) - */ - static PyObject *__pyx_pf_4nipy_4labs_8bindings_7wrapper_14copy_via_iterators(CYTHON_UNUSED PyObject *__pyx_self, PyArrayObject *__pyx_v_Y, int __pyx_v_axis) { fff_vector *__pyx_v_y; fff_vector *__pyx_v_z; @@ -2283,9 +2548,9 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_7wrapper_14copy_via_iterators(CY * * # Create a new array iterator */ - __pyx_t_1 = __Pyx_GetName(__pyx_m, __pyx_n_s__np); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; 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__pyx_r = __pyx_pf_5numpy_7ndarray___getbuffer__(((PyArrayObject *)__pyx_v_self), ((Py_buffer *)__pyx_v_info), ((int)__pyx_v_flags)); + + /* function exit code */ __Pyx_RefNannyFinishContext(); return __pyx_r; } -/* "numpy.pxd":194 - * # experimental exception made for __getbuffer__ and __releasebuffer__ - * # -- the details of this may change. - * def __getbuffer__(ndarray self, Py_buffer* info, int flags): # <<<<<<<<<<<<<< - * # This implementation of getbuffer is geared towards Cython - * # requirements, and does not yet fullfill the PEP. - */ - static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, Py_buffer *__pyx_v_info, int __pyx_v_flags) { int __pyx_v_copy_shape; int __pyx_v_i; @@ -2707,22 +2990,20 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P __Pyx_GIVEREF(__pyx_v_info->obj); } - /* "numpy.pxd":200 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":200 * # of flags * * if info == NULL: return # <<<<<<<<<<<<<< * * cdef int copy_shape, i, ndim */ - __pyx_t_1 = (__pyx_v_info == NULL); 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- /* "numpy.pxd":208 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":208 * ndim = PyArray_NDIM(self) * * if sizeof(npy_intp) != sizeof(Py_ssize_t): # <<<<<<<<<<<<<< * copy_shape = 1 * else: */ - __pyx_t_1 = ((sizeof(npy_intp)) != (sizeof(Py_ssize_t))); + __pyx_t_1 = (((sizeof(npy_intp)) != (sizeof(Py_ssize_t))) != 0); if (__pyx_t_1) { - /* "numpy.pxd":209 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":209 * * if sizeof(npy_intp) != sizeof(Py_ssize_t): * copy_shape = 1 # <<<<<<<<<<<<<< @@ -2771,7 +3052,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P } /*else*/ { - /* "numpy.pxd":211 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":211 * copy_shape = 1 * else: * copy_shape = 0 # <<<<<<<<<<<<<< @@ -2782,87 +3063,83 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P } __pyx_L4:; - /* "numpy.pxd":213 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":213 * copy_shape = 0 * * if ((flags & pybuf.PyBUF_C_CONTIGUOUS == pybuf.PyBUF_C_CONTIGUOUS) # <<<<<<<<<<<<<< * and not PyArray_CHKFLAGS(self, NPY_C_CONTIGUOUS)): * raise ValueError(u"ndarray is not C contiguous") */ - __pyx_t_1 = ((__pyx_v_flags & PyBUF_C_CONTIGUOUS) == PyBUF_C_CONTIGUOUS); + __pyx_t_1 = (((__pyx_v_flags & PyBUF_C_CONTIGUOUS) == PyBUF_C_CONTIGUOUS) != 0); if (__pyx_t_1) { - /* "numpy.pxd":214 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":214 * * if ((flags & pybuf.PyBUF_C_CONTIGUOUS == pybuf.PyBUF_C_CONTIGUOUS) * and not PyArray_CHKFLAGS(self, NPY_C_CONTIGUOUS)): # <<<<<<<<<<<<<< * raise ValueError(u"ndarray is not C contiguous") * */ - __pyx_t_2 = (!PyArray_CHKFLAGS(__pyx_v_self, NPY_C_CONTIGUOUS)); + __pyx_t_2 = ((!(PyArray_CHKFLAGS(__pyx_v_self, NPY_C_CONTIGUOUS) != 0)) != 0); __pyx_t_3 = __pyx_t_2; } else { __pyx_t_3 = __pyx_t_1; } if (__pyx_t_3) { - /* "numpy.pxd":215 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":215 * if ((flags & pybuf.PyBUF_C_CONTIGUOUS == pybuf.PyBUF_C_CONTIGUOUS) * and not PyArray_CHKFLAGS(self, NPY_C_CONTIGUOUS)): * raise ValueError(u"ndarray is not C contiguous") # <<<<<<<<<<<<<< * * if ((flags & pybuf.PyBUF_F_CONTIGUOUS == pybuf.PyBUF_F_CONTIGUOUS) */ - __pyx_t_4 = PyObject_Call(__pyx_builtin_ValueError, ((PyObject *)__pyx_k_tuple_2), NULL); if (unlikely(!__pyx_t_4)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 215; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_4 = __Pyx_PyObject_Call(__pyx_builtin_ValueError, __pyx_tuple_, NULL); if (unlikely(!__pyx_t_4)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 215; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_4); __Pyx_Raise(__pyx_t_4, 0, 0, 0); __Pyx_DECREF(__pyx_t_4); __pyx_t_4 = 0; {__pyx_filename = __pyx_f[1]; __pyx_lineno = 215; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - goto __pyx_L5; } - __pyx_L5:; - /* "numpy.pxd":217 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":217 * raise ValueError(u"ndarray is not C contiguous") * * if ((flags & pybuf.PyBUF_F_CONTIGUOUS == pybuf.PyBUF_F_CONTIGUOUS) # <<<<<<<<<<<<<< * and not PyArray_CHKFLAGS(self, NPY_F_CONTIGUOUS)): * raise ValueError(u"ndarray is not Fortran contiguous") */ - __pyx_t_3 = ((__pyx_v_flags & PyBUF_F_CONTIGUOUS) == PyBUF_F_CONTIGUOUS); + __pyx_t_3 = (((__pyx_v_flags & PyBUF_F_CONTIGUOUS) == PyBUF_F_CONTIGUOUS) != 0); if (__pyx_t_3) { - /* "numpy.pxd":218 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":218 * * if ((flags & pybuf.PyBUF_F_CONTIGUOUS == pybuf.PyBUF_F_CONTIGUOUS) * and not PyArray_CHKFLAGS(self, NPY_F_CONTIGUOUS)): # <<<<<<<<<<<<<< * raise ValueError(u"ndarray is not Fortran contiguous") * */ - __pyx_t_1 = (!PyArray_CHKFLAGS(__pyx_v_self, NPY_F_CONTIGUOUS)); + __pyx_t_1 = ((!(PyArray_CHKFLAGS(__pyx_v_self, NPY_F_CONTIGUOUS) != 0)) != 0); __pyx_t_2 = __pyx_t_1; } else { __pyx_t_2 = __pyx_t_3; } if (__pyx_t_2) { - /* "numpy.pxd":219 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":219 * if ((flags & pybuf.PyBUF_F_CONTIGUOUS == pybuf.PyBUF_F_CONTIGUOUS) * and not PyArray_CHKFLAGS(self, NPY_F_CONTIGUOUS)): * raise ValueError(u"ndarray is not Fortran contiguous") # <<<<<<<<<<<<<< * * info.buf = PyArray_DATA(self) */ - __pyx_t_4 = PyObject_Call(__pyx_builtin_ValueError, ((PyObject *)__pyx_k_tuple_4), NULL); if (unlikely(!__pyx_t_4)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 219; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_4 = __Pyx_PyObject_Call(__pyx_builtin_ValueError, __pyx_tuple__2, NULL); if (unlikely(!__pyx_t_4)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 219; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_4); __Pyx_Raise(__pyx_t_4, 0, 0, 0); __Pyx_DECREF(__pyx_t_4); __pyx_t_4 = 0; {__pyx_filename = __pyx_f[1]; __pyx_lineno = 219; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - goto __pyx_L6; } - __pyx_L6:; - /* "numpy.pxd":221 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":221 * raise ValueError(u"ndarray is not Fortran contiguous") * * info.buf = PyArray_DATA(self) # <<<<<<<<<<<<<< @@ -2871,7 +3148,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ __pyx_v_info->buf = PyArray_DATA(__pyx_v_self); - /* "numpy.pxd":222 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":222 * * info.buf = PyArray_DATA(self) * info.ndim = ndim # <<<<<<<<<<<<<< @@ -2880,16 +3157,17 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ __pyx_v_info->ndim = __pyx_v_ndim; - /* "numpy.pxd":223 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":223 * info.buf = PyArray_DATA(self) * info.ndim = ndim * if copy_shape: # <<<<<<<<<<<<<< * # Allocate new buffer for strides and shape info. * # This is allocated as one block, strides first. */ - if (__pyx_v_copy_shape) { + __pyx_t_2 = (__pyx_v_copy_shape != 0); + if (__pyx_t_2) { - /* "numpy.pxd":226 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":226 * # Allocate new buffer for strides and shape info. * # This is allocated as one block, strides first. * info.strides = stdlib.malloc(sizeof(Py_ssize_t) * ndim * 2) # <<<<<<<<<<<<<< @@ -2898,7 +3176,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ __pyx_v_info->strides = ((Py_ssize_t *)malloc((((sizeof(Py_ssize_t)) * ((size_t)__pyx_v_ndim)) * 2))); - /* "numpy.pxd":227 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":227 * # This is allocated as one block, strides first. * info.strides = stdlib.malloc(sizeof(Py_ssize_t) * ndim * 2) * info.shape = info.strides + ndim # <<<<<<<<<<<<<< @@ -2907,7 +3185,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ __pyx_v_info->shape = (__pyx_v_info->strides + __pyx_v_ndim); - /* "numpy.pxd":228 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":228 * info.strides = stdlib.malloc(sizeof(Py_ssize_t) * ndim * 2) * info.shape = info.strides + ndim * for i in range(ndim): # <<<<<<<<<<<<<< @@ -2918,7 +3196,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P for (__pyx_t_6 = 0; __pyx_t_6 < __pyx_t_5; __pyx_t_6+=1) { __pyx_v_i = __pyx_t_6; - /* "numpy.pxd":229 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":229 * info.shape = info.strides + ndim * for i in range(ndim): * info.strides[i] = PyArray_STRIDES(self)[i] # <<<<<<<<<<<<<< @@ -2927,7 +3205,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ (__pyx_v_info->strides[__pyx_v_i]) = (PyArray_STRIDES(__pyx_v_self)[__pyx_v_i]); - /* "numpy.pxd":230 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":230 * for i in range(ndim): * info.strides[i] = PyArray_STRIDES(self)[i] * info.shape[i] = PyArray_DIMS(self)[i] # <<<<<<<<<<<<<< @@ -2940,7 +3218,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P } /*else*/ { - /* "numpy.pxd":232 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":232 * info.shape[i] = PyArray_DIMS(self)[i] * else: * info.strides = PyArray_STRIDES(self) # <<<<<<<<<<<<<< @@ -2949,7 +3227,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ __pyx_v_info->strides = ((Py_ssize_t *)PyArray_STRIDES(__pyx_v_self)); - /* "numpy.pxd":233 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":233 * else: * info.strides = PyArray_STRIDES(self) * info.shape = PyArray_DIMS(self) # <<<<<<<<<<<<<< @@ -2960,7 +3238,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P } __pyx_L7:; - /* "numpy.pxd":234 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":234 * info.strides = PyArray_STRIDES(self) * info.shape = PyArray_DIMS(self) * info.suboffsets = NULL # <<<<<<<<<<<<<< @@ -2969,7 +3247,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ __pyx_v_info->suboffsets = NULL; - /* "numpy.pxd":235 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":235 * info.shape = PyArray_DIMS(self) * info.suboffsets = NULL * info.itemsize = PyArray_ITEMSIZE(self) # <<<<<<<<<<<<<< @@ -2978,16 +3256,16 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ __pyx_v_info->itemsize = PyArray_ITEMSIZE(__pyx_v_self); - /* "numpy.pxd":236 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":236 * info.suboffsets = NULL * info.itemsize = PyArray_ITEMSIZE(self) * info.readonly = not PyArray_ISWRITEABLE(self) # <<<<<<<<<<<<<< * * cdef int t */ - __pyx_v_info->readonly = (!PyArray_ISWRITEABLE(__pyx_v_self)); + __pyx_v_info->readonly = (!(PyArray_ISWRITEABLE(__pyx_v_self) != 0)); - /* "numpy.pxd":239 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":239 * * cdef int t * cdef char* f = NULL # <<<<<<<<<<<<<< @@ -2996,7 +3274,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ __pyx_v_f = NULL; - /* "numpy.pxd":240 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":240 * cdef int t * cdef char* f = NULL * cdef dtype descr = self.descr # <<<<<<<<<<<<<< @@ -3008,7 +3286,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P __pyx_v_descr = ((PyArray_Descr *)__pyx_t_4); __pyx_t_4 = 0; - /* "numpy.pxd":244 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":244 * cdef int offset * * cdef bint hasfields = PyDataType_HASFIELDS(descr) # <<<<<<<<<<<<<< @@ -3017,23 +3295,23 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ __pyx_v_hasfields = PyDataType_HASFIELDS(__pyx_v_descr); - /* "numpy.pxd":246 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":246 * cdef bint hasfields = PyDataType_HASFIELDS(descr) * * if not hasfields and not copy_shape: # <<<<<<<<<<<<<< * # do not call releasebuffer * info.obj = None */ - __pyx_t_2 = (!__pyx_v_hasfields); + __pyx_t_2 = ((!(__pyx_v_hasfields != 0)) != 0); if (__pyx_t_2) { - __pyx_t_3 = (!__pyx_v_copy_shape); + __pyx_t_3 = ((!(__pyx_v_copy_shape != 0)) != 0); __pyx_t_1 = __pyx_t_3; } else { __pyx_t_1 = __pyx_t_2; } if (__pyx_t_1) { - /* "numpy.pxd":248 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":248 * if not hasfields and not copy_shape: * # do not call releasebuffer * info.obj = None # <<<<<<<<<<<<<< @@ -3049,7 +3327,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P } /*else*/ { - /* "numpy.pxd":251 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":251 * else: * # need to call releasebuffer * info.obj = self # <<<<<<<<<<<<<< @@ -3064,17 +3342,17 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P } __pyx_L10:; - /* "numpy.pxd":253 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":253 * info.obj = self * * if not hasfields: # <<<<<<<<<<<<<< * t = descr.type_num * if ((descr.byteorder == c'>' and little_endian) or */ - __pyx_t_1 = (!__pyx_v_hasfields); + __pyx_t_1 = ((!(__pyx_v_hasfields != 0)) != 0); if (__pyx_t_1) { - /* "numpy.pxd":254 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":254 * * if not hasfields: * t = descr.type_num # <<<<<<<<<<<<<< @@ -3084,31 +3362,31 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P __pyx_t_5 = __pyx_v_descr->type_num; __pyx_v_t = __pyx_t_5; - /* "numpy.pxd":255 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":255 * if not hasfields: * t = descr.type_num * if ((descr.byteorder == c'>' and little_endian) or # <<<<<<<<<<<<<< * (descr.byteorder == c'<' and not little_endian)): * raise ValueError(u"Non-native byte order not supported") */ - __pyx_t_1 = (__pyx_v_descr->byteorder == '>'); + __pyx_t_1 = ((__pyx_v_descr->byteorder == '>') != 0); if (__pyx_t_1) { - __pyx_t_2 = __pyx_v_little_endian; + __pyx_t_2 = (__pyx_v_little_endian != 0); } else { __pyx_t_2 = __pyx_t_1; } if (!__pyx_t_2) { - /* "numpy.pxd":256 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":256 * t = descr.type_num * if ((descr.byteorder == c'>' and little_endian) or * (descr.byteorder == c'<' and not little_endian)): # <<<<<<<<<<<<<< * raise ValueError(u"Non-native byte order not supported") * if t == NPY_BYTE: f = "b" */ - __pyx_t_1 = (__pyx_v_descr->byteorder == '<'); + __pyx_t_1 = ((__pyx_v_descr->byteorder == '<') != 0); if (__pyx_t_1) { - __pyx_t_3 = (!__pyx_v_little_endian); + __pyx_t_3 = ((!(__pyx_v_little_endian != 0)) != 0); __pyx_t_7 = __pyx_t_3; } else { __pyx_t_7 = __pyx_t_1; @@ -3119,271 +3397,244 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P } if (__pyx_t_1) { - /* "numpy.pxd":257 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":257 * if ((descr.byteorder == c'>' and little_endian) or * (descr.byteorder == c'<' and not little_endian)): * raise ValueError(u"Non-native byte order not supported") # <<<<<<<<<<<<<< * if t == NPY_BYTE: f = "b" * elif t == NPY_UBYTE: f = "B" */ - __pyx_t_4 = PyObject_Call(__pyx_builtin_ValueError, ((PyObject *)__pyx_k_tuple_6), NULL); if (unlikely(!__pyx_t_4)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 257; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_4 = __Pyx_PyObject_Call(__pyx_builtin_ValueError, __pyx_tuple__3, NULL); if (unlikely(!__pyx_t_4)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 257; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_4); __Pyx_Raise(__pyx_t_4, 0, 0, 0); __Pyx_DECREF(__pyx_t_4); __pyx_t_4 = 0; {__pyx_filename = __pyx_f[1]; __pyx_lineno = 257; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - goto __pyx_L12; } - __pyx_L12:; - /* "numpy.pxd":258 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":274 + * elif t == NPY_CDOUBLE: f = "Zd" + * elif t == NPY_CLONGDOUBLE: f = "Zg" + * elif t == NPY_OBJECT: f = "O" # <<<<<<<<<<<<<< + * else: + * raise ValueError(u"unknown dtype code in numpy.pxd (%d)" % t) + */ + switch (__pyx_v_t) { + + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":258 * (descr.byteorder == c'<' and not little_endian)): * raise ValueError(u"Non-native byte order not supported") * if t == NPY_BYTE: f = "b" # <<<<<<<<<<<<<< * elif t == NPY_UBYTE: f = "B" * elif t == NPY_SHORT: f = "h" */ - __pyx_t_1 = (__pyx_v_t == NPY_BYTE); 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- /* "numpy.pxd":261 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":261 * elif t == NPY_UBYTE: f = "B" * elif t == NPY_SHORT: f = "h" * elif t == NPY_USHORT: f = "H" # <<<<<<<<<<<<<< * elif t == NPY_INT: f = "i" * elif t == NPY_UINT: f = "I" */ - __pyx_t_1 = (__pyx_v_t == NPY_USHORT); - if (__pyx_t_1) { - __pyx_v_f = __pyx_k__H; - goto __pyx_L13; - } + case NPY_USHORT: + __pyx_v_f = __pyx_k_H; + break; - /* "numpy.pxd":262 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":262 * elif t == NPY_SHORT: f = "h" * elif t == NPY_USHORT: f = "H" * elif t == NPY_INT: f = "i" # <<<<<<<<<<<<<< * elif t == NPY_UINT: f = "I" * elif t == NPY_LONG: f = "l" */ - __pyx_t_1 = (__pyx_v_t == NPY_INT); - if (__pyx_t_1) { - __pyx_v_f = __pyx_k__i; - goto __pyx_L13; - } + case NPY_INT: + __pyx_v_f = __pyx_k_i; + break; - /* "numpy.pxd":263 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":263 * elif t == NPY_USHORT: f = "H" * elif t == NPY_INT: f = "i" * elif t == NPY_UINT: f = "I" # <<<<<<<<<<<<<< * elif t == NPY_LONG: f = "l" * elif t == NPY_ULONG: f = "L" */ - __pyx_t_1 = (__pyx_v_t == NPY_UINT); - if (__pyx_t_1) { - __pyx_v_f = __pyx_k__I; - goto __pyx_L13; - } + case NPY_UINT: + __pyx_v_f = __pyx_k_I; + break; - /* "numpy.pxd":264 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":264 * elif t == NPY_INT: f = "i" * elif t == NPY_UINT: f = "I" * elif t == NPY_LONG: f = "l" # <<<<<<<<<<<<<< * elif t == NPY_ULONG: f = "L" * elif t == NPY_LONGLONG: f = "q" */ - __pyx_t_1 = (__pyx_v_t == NPY_LONG); - if (__pyx_t_1) { - __pyx_v_f = __pyx_k__l; - goto __pyx_L13; - } + case NPY_LONG: + __pyx_v_f = __pyx_k_l; + break; - /* "numpy.pxd":265 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":265 * elif t == NPY_UINT: f = "I" * elif t == NPY_LONG: f = "l" * elif t == NPY_ULONG: f = "L" # <<<<<<<<<<<<<< * elif t == NPY_LONGLONG: f = "q" * elif t == NPY_ULONGLONG: f = "Q" */ - __pyx_t_1 = (__pyx_v_t == NPY_ULONG); - if (__pyx_t_1) { - __pyx_v_f = __pyx_k__L; - goto __pyx_L13; - } + case NPY_ULONG: + __pyx_v_f = __pyx_k_L; + break; - /* "numpy.pxd":266 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":266 * elif t == NPY_LONG: f = "l" * elif t == NPY_ULONG: f = "L" * elif t == NPY_LONGLONG: f = "q" # <<<<<<<<<<<<<< * elif t == NPY_ULONGLONG: f = "Q" * elif t == NPY_FLOAT: f = "f" */ - __pyx_t_1 = (__pyx_v_t == NPY_LONGLONG); 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goto __pyx_L1_error;} + __pyx_t_3 = PyObject_GetItem(__pyx_v_descr->fields, __pyx_v_childname); if (unlikely(__pyx_t_3 == NULL)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 795; __pyx_clineno = __LINE__; goto __pyx_L1_error;}; __Pyx_GOTREF(__pyx_t_3); - if (!(likely(PyTuple_CheckExact(__pyx_t_3))||((__pyx_t_3) == Py_None)||(PyErr_Format(PyExc_TypeError, "Expected tuple, got %.200s", Py_TYPE(__pyx_t_3)->tp_name), 0))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 795; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_XDECREF(((PyObject *)__pyx_v_fields)); - __pyx_v_fields = ((PyObject*)__pyx_t_3); + if (!(likely(PyTuple_CheckExact(__pyx_t_3))||((__pyx_t_3) == Py_None)||(PyErr_Format(PyExc_TypeError, "Expected %.16s, got %.200s", "tuple", Py_TYPE(__pyx_t_3)->tp_name), 0))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 795; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_XDECREF_SET(__pyx_v_fields, ((PyObject*)__pyx_t_3)); __pyx_t_3 = 0; - /* "numpy.pxd":796 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":796 * for childname in descr.names: * fields = descr.fields[childname] * child, new_offset = fields # <<<<<<<<<<<<<< * - * if (end - f) - (new_offset - offset[0]) < 15: + * if (end - f) - (new_offset - offset[0]) < 15: */ - if (likely(PyTuple_CheckExact(((PyObject *)__pyx_v_fields)))) { - PyObject* sequence = ((PyObject *)__pyx_v_fields); 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*obj, PyTypeObject *type, int none_allowed, +static void __Pyx_RaiseArgumentTypeInvalid(const char* name, PyObject *obj, PyTypeObject *type) { + PyErr_Format(PyExc_TypeError, + "Argument '%.200s' has incorrect type (expected %.200s, got %.200s)", + name, type->tp_name, Py_TYPE(obj)->tp_name); +} +static CYTHON_INLINE int __Pyx_ArgTypeTest(PyObject *obj, PyTypeObject *type, int none_allowed, const char *name, int exact) { - if (!type) { - PyErr_Format(PyExc_SystemError, "Missing type object"); + if (unlikely(!type)) { + PyErr_SetString(PyExc_SystemError, "Missing type object"); return 0; } if (none_allowed && obj == Py_None) return 1; else if (exact) { - if (Py_TYPE(obj) == type) return 1; + if (likely(Py_TYPE(obj) == type)) return 1; + #if PY_MAJOR_VERSION == 2 + else if ((type == &PyBaseString_Type) && likely(__Pyx_PyBaseString_CheckExact(obj))) return 1; + #endif } else { - if (PyObject_TypeCheck(obj, type)) return 1; + if (likely(PyObject_TypeCheck(obj, type))) return 1; } - PyErr_Format(PyExc_TypeError, - "Argument '%s' has incorrect type (expected %s, got %s)", - name, type->tp_name, Py_TYPE(obj)->tp_name); + __Pyx_RaiseArgumentTypeInvalid(name, obj, type); return 0; } +static CYTHON_INLINE PyObject *__Pyx_GetModuleGlobalName(PyObject *name) { + PyObject *result; +#if CYTHON_COMPILING_IN_CPYTHON + result = PyDict_GetItem(__pyx_d, name); + if (result) { + Py_INCREF(result); + } else { +#else + result = PyObject_GetItem(__pyx_d, name); + if (!result) { + PyErr_Clear(); +#endif + result = __Pyx_GetBuiltinName(name); + } + return result; +} + +#if CYTHON_COMPILING_IN_CPYTHON +static CYTHON_INLINE PyObject* __Pyx_PyObject_Call(PyObject *func, PyObject *arg, PyObject *kw) { + PyObject *result; + ternaryfunc call = func->ob_type->tp_call; + if (unlikely(!call)) + return PyObject_Call(func, arg, kw); +#if PY_VERSION_HEX >= 0x02060000 + if (unlikely(Py_EnterRecursiveCall((char*)" while calling a Python object"))) + return NULL; +#endif + result = (*call)(func, arg, kw); +#if PY_VERSION_HEX >= 0x02060000 + Py_LeaveRecursiveCall(); +#endif + if (unlikely(!result) && unlikely(!PyErr_Occurred())) { + PyErr_SetString( + PyExc_SystemError, + "NULL result without error in PyObject_Call"); + } + return result; +} +#endif + static void __Pyx_RaiseArgtupleInvalid( const char* func_name, int exact, @@ -5653,7 +5853,7 @@ static void __Pyx_RaiseArgtupleInvalid( more_or_less = "exactly"; } PyErr_Format(PyExc_TypeError, - "%s() takes %s %" CYTHON_FORMAT_SSIZE_T "d positional argument%s (%" CYTHON_FORMAT_SSIZE_T "d given)", + "%.200s() takes %.8s %" CYTHON_FORMAT_SSIZE_T "d positional argument%.1s (%" CYTHON_FORMAT_SSIZE_T "d given)", func_name, more_or_less, num_expected, (num_expected == 1) ? "" : "s", num_found); } @@ -5757,12 +5957,12 @@ static int __Pyx_ParseOptionalKeywords( goto bad; invalid_keyword_type: PyErr_Format(PyExc_TypeError, - "%s() keywords must be strings", function_name); + "%.200s() keywords must be strings", function_name); goto bad; invalid_keyword: PyErr_Format(PyExc_TypeError, #if PY_MAJOR_VERSION < 3 - "%s() got an unexpected keyword argument '%s'", + "%.200s() got an unexpected keyword argument '%.200s'", function_name, PyString_AsString(key)); #else "%s() got an unexpected keyword argument '%U'", @@ -5779,34 +5979,82 @@ static CYTHON_INLINE int __Pyx_div_int(int a, int b) { return q; } -static CYTHON_INLINE void __Pyx_ErrRestore(PyObject *type, PyObject *value, PyObject *tb) { -#if CYTHON_COMPILING_IN_CPYTHON - PyObject *tmp_type, *tmp_value, *tmp_tb; - PyThreadState *tstate = PyThreadState_GET(); - tmp_type = tstate->curexc_type; - tmp_value = tstate->curexc_value; - tmp_tb = tstate->curexc_traceback; - tstate->curexc_type = type; - tstate->curexc_value = value; - tstate->curexc_traceback = tb; - Py_XDECREF(tmp_type); - Py_XDECREF(tmp_value); - Py_XDECREF(tmp_tb); -#else - PyErr_Restore(type, value, tb); -#endif +static CYTHON_INLINE int __Pyx_SetItemInt_Generic(PyObject *o, PyObject *j, PyObject *v) { + int r; + if (!j) return -1; + r = PyObject_SetItem(o, j, v); + Py_DECREF(j); + return r; } -static CYTHON_INLINE void __Pyx_ErrFetch(PyObject **type, PyObject **value, PyObject **tb) { +static CYTHON_INLINE int __Pyx_SetItemInt_Fast(PyObject *o, Py_ssize_t i, PyObject *v, + int is_list, int wraparound, int boundscheck) { #if CYTHON_COMPILING_IN_CPYTHON - PyThreadState *tstate = PyThreadState_GET(); - *type = tstate->curexc_type; - *value = tstate->curexc_value; - *tb = tstate->curexc_traceback; - tstate->curexc_type = 0; - tstate->curexc_value = 0; - tstate->curexc_traceback = 0; -#else - PyErr_Fetch(type, value, tb); + if (is_list || PyList_CheckExact(o)) { + Py_ssize_t n = (!wraparound) ? i : ((likely(i >= 0)) ? i : i + PyList_GET_SIZE(o)); + if ((!boundscheck) || likely((n >= 0) & (n < PyList_GET_SIZE(o)))) { + PyObject* old = PyList_GET_ITEM(o, n); + Py_INCREF(v); + PyList_SET_ITEM(o, n, v); + Py_DECREF(old); + return 1; + } + } else { + PySequenceMethods *m = Py_TYPE(o)->tp_as_sequence; + if (likely(m && m->sq_ass_item)) { + if (wraparound && unlikely(i < 0) && likely(m->sq_length)) { + Py_ssize_t l = m->sq_length(o); + if (likely(l >= 0)) { + i += l; + } else { + if (PyErr_ExceptionMatches(PyExc_OverflowError)) + PyErr_Clear(); + else + return -1; + } + } + return m->sq_ass_item(o, i, v); + } + } +#else +#if CYTHON_COMPILING_IN_PYPY + if (is_list || (PySequence_Check(o) && !PyDict_Check(o))) { +#else + if (is_list || PySequence_Check(o)) { +#endif + return PySequence_SetItem(o, i, v); + } +#endif + return __Pyx_SetItemInt_Generic(o, PyInt_FromSsize_t(i), v); +} + +static CYTHON_INLINE void __Pyx_ErrRestore(PyObject *type, PyObject *value, PyObject *tb) { +#if CYTHON_COMPILING_IN_CPYTHON + PyObject *tmp_type, *tmp_value, *tmp_tb; + PyThreadState *tstate = PyThreadState_GET(); + tmp_type = tstate->curexc_type; + tmp_value = tstate->curexc_value; + tmp_tb = tstate->curexc_traceback; + tstate->curexc_type = type; + tstate->curexc_value = value; + tstate->curexc_traceback = tb; + Py_XDECREF(tmp_type); + Py_XDECREF(tmp_value); + Py_XDECREF(tmp_tb); +#else + PyErr_Restore(type, value, tb); +#endif +} +static CYTHON_INLINE void __Pyx_ErrFetch(PyObject **type, PyObject **value, PyObject **tb) { +#if CYTHON_COMPILING_IN_CPYTHON + PyThreadState *tstate = PyThreadState_GET(); + *type = tstate->curexc_type; + *value = tstate->curexc_value; + *tb = tstate->curexc_traceback; + tstate->curexc_type = 0; + tstate->curexc_value = 0; + tstate->curexc_traceback = 0; +#else + PyErr_Fetch(type, value, tb); #endif } @@ -5848,24 +6096,23 @@ static void __Pyx_Raise(PyObject *type, PyObject *value, PyObject *tb, } value = type; #if PY_VERSION_HEX < 0x02050000 - if (PyInstance_Check(type)) { - type = (PyObject*) ((PyInstanceObject*)type)->in_class; - Py_INCREF(type); - } - else { - type = 0; - PyErr_SetString(PyExc_TypeError, - "raise: exception must be an old-style class or instance"); - goto raise_error; - } - #else - type = (PyObject*) Py_TYPE(type); + if (PyInstance_Check(type)) { + type = (PyObject*) ((PyInstanceObject*)type)->in_class; Py_INCREF(type); - if (!PyType_IsSubtype((PyTypeObject *)type, (PyTypeObject *)PyExc_BaseException)) { - PyErr_SetString(PyExc_TypeError, - "raise: exception class must be a subclass of BaseException"); - goto raise_error; - } + } else { + type = 0; + PyErr_SetString(PyExc_TypeError, + "raise: exception must be an old-style class or instance"); + goto raise_error; + } + #else + type = (PyObject*) Py_TYPE(type); + Py_INCREF(type); + if (!PyType_IsSubtype((PyTypeObject *)type, (PyTypeObject *)PyExc_BaseException)) { + PyErr_SetString(PyExc_TypeError, + "raise: exception class must be a subclass of BaseException"); + goto raise_error; + } #endif } __Pyx_ErrRestore(type, value, tb); @@ -5897,46 +6144,62 @@ static void __Pyx_Raise(PyObject *type, PyObject *value, PyObject *tb, PyObject value = type; type = (PyObject*) Py_TYPE(value); } else if (PyExceptionClass_Check(type)) { - PyObject *args; - if (!value) - args = PyTuple_New(0); - else if (PyTuple_Check(value)) { - Py_INCREF(value); - args = value; + PyObject *instance_class = NULL; + if (value && PyExceptionInstance_Check(value)) { + instance_class = (PyObject*) Py_TYPE(value); + if (instance_class != type) { + if (PyObject_IsSubclass(instance_class, type)) { + type = instance_class; + } else { + instance_class = NULL; + } + } } - else - args = PyTuple_Pack(1, value); - if (!args) - goto bad; - owned_instance = PyEval_CallObject(type, args); - Py_DECREF(args); - if (!owned_instance) - goto bad; - value = owned_instance; - if (!PyExceptionInstance_Check(value)) { - PyErr_Format(PyExc_TypeError, - "calling %R should have returned an instance of " - "BaseException, not %R", - type, Py_TYPE(value)); - goto bad; + if (!instance_class) { + PyObject *args; + if (!value) + args = PyTuple_New(0); + else if (PyTuple_Check(value)) { + Py_INCREF(value); + args = value; + } else + args = PyTuple_Pack(1, value); + if (!args) + goto bad; + owned_instance = PyObject_Call(type, args, NULL); + Py_DECREF(args); + if (!owned_instance) + goto bad; + value = owned_instance; + if (!PyExceptionInstance_Check(value)) { + PyErr_Format(PyExc_TypeError, + "calling %R should have returned an instance of " + "BaseException, not %R", + type, Py_TYPE(value)); + goto bad; + } } } else { PyErr_SetString(PyExc_TypeError, "raise: exception class must be a subclass of BaseException"); goto bad; } +#if PY_VERSION_HEX >= 0x03030000 + if (cause) { +#else if (cause && cause != Py_None) { +#endif PyObject *fixed_cause; - if (PyExceptionClass_Check(cause)) { + if (cause == Py_None) { + fixed_cause = NULL; + } else if (PyExceptionClass_Check(cause)) { fixed_cause = PyObject_CallObject(cause, NULL); if (fixed_cause == NULL) goto bad; - } - else if (PyExceptionInstance_Check(cause)) { + } else if (PyExceptionInstance_Check(cause)) { fixed_cause = cause; Py_INCREF(fixed_cause); - } - else { + } else { PyErr_SetString(PyExc_TypeError, "exception causes must derive from " "BaseException"); @@ -5967,7 +6230,7 @@ static CYTHON_INLINE void __Pyx_RaiseTooManyValuesError(Py_ssize_t expected) { static CYTHON_INLINE void __Pyx_RaiseNeedMoreValuesError(Py_ssize_t index) { PyErr_Format(PyExc_ValueError, - "need more than %" CYTHON_FORMAT_SSIZE_T "d value%s to unpack", + "need more than %" CYTHON_FORMAT_SSIZE_T "d value%.1s to unpack", index, (index == 1) ? "" : "s"); } @@ -5975,54 +6238,9 @@ static CYTHON_INLINE void __Pyx_RaiseNoneNotIterableError(void) { PyErr_SetString(PyExc_TypeError, "'NoneType' object is not iterable"); } -static CYTHON_INLINE int __Pyx_IterFinish(void) { -#if CYTHON_COMPILING_IN_CPYTHON - PyThreadState *tstate = PyThreadState_GET(); - PyObject* exc_type = tstate->curexc_type; - if (unlikely(exc_type)) { - if (likely(exc_type == PyExc_StopIteration) || PyErr_GivenExceptionMatches(exc_type, PyExc_StopIteration)) { - PyObject *exc_value, *exc_tb; - exc_value = tstate->curexc_value; - exc_tb = tstate->curexc_traceback; - tstate->curexc_type = 0; - tstate->curexc_value = 0; - tstate->curexc_traceback = 0; - Py_DECREF(exc_type); - Py_XDECREF(exc_value); - Py_XDECREF(exc_tb); - return 0; - } else { - return -1; - } - } - return 0; -#else - if (unlikely(PyErr_Occurred())) { - if (likely(PyErr_ExceptionMatches(PyExc_StopIteration))) { - PyErr_Clear(); - return 0; - } else { - return -1; - } - } - return 0; -#endif -} - -static int __Pyx_IternextUnpackEndCheck(PyObject *retval, Py_ssize_t expected) { - if (unlikely(retval)) { - Py_DECREF(retval); - __Pyx_RaiseTooManyValuesError(expected); - return -1; - } else { - return __Pyx_IterFinish(); - } - return 0; -} - static CYTHON_INLINE int __Pyx_TypeTest(PyObject *obj, PyTypeObject *type) { if (unlikely(!type)) { - PyErr_Format(PyExc_SystemError, "Missing type object"); + PyErr_SetString(PyExc_SystemError, "Missing type object"); return 0; } if (likely(PyObject_TypeCheck(obj, type))) @@ -6032,16 +6250,18 @@ static CYTHON_INLINE int __Pyx_TypeTest(PyObject *obj, PyTypeObject *type) { return 0; } -static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, long level) { - PyObject *py_import = 0; +static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, int level) { PyObject *empty_list = 0; PyObject *module = 0; PyObject *global_dict = 0; PyObject *empty_dict = 0; PyObject *list; - py_import = __Pyx_GetAttrString(__pyx_b, "__import__"); + #if PY_VERSION_HEX < 0x03030000 + PyObject *py_import; + py_import = __Pyx_PyObject_GetAttrStr(__pyx_b, __pyx_n_s_import); if (!py_import) goto bad; + #endif if (from_list) list = from_list; else { @@ -6061,13 +6281,17 @@ static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, long level) { #if PY_MAJOR_VERSION >= 3 if (level == -1) { if (strchr(__Pyx_MODULE_NAME, '.')) { - /* try package relative import first */ + #if PY_VERSION_HEX < 0x03030000 PyObject *py_level = PyInt_FromLong(1); if (!py_level) goto bad; module = PyObject_CallFunctionObjArgs(py_import, name, global_dict, empty_dict, list, py_level, NULL); Py_DECREF(py_level); + #else + module = PyImport_ImportModuleLevelObject( + name, global_dict, empty_dict, list, 1); + #endif if (!module) { if (!PyErr_ExceptionMatches(PyExc_ImportError)) goto bad; @@ -6078,12 +6302,17 @@ static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, long level) { } #endif if (!module) { + #if PY_VERSION_HEX < 0x03030000 PyObject *py_level = PyInt_FromLong(level); if (!py_level) goto bad; module = PyObject_CallFunctionObjArgs(py_import, name, global_dict, empty_dict, list, py_level, NULL); Py_DECREF(py_level); + #else + module = PyImport_ImportModuleLevelObject( + name, global_dict, empty_dict, list, level); + #endif } } #else @@ -6095,32 +6324,203 @@ static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, long level) { name, global_dict, empty_dict, list, NULL); #endif bad: - Py_XDECREF(empty_list); + #if PY_VERSION_HEX < 0x03030000 Py_XDECREF(py_import); + #endif + Py_XDECREF(empty_list); Py_XDECREF(empty_dict); return module; } -static CYTHON_INLINE PyObject *__Pyx_PyInt_to_py_Py_intptr_t(Py_intptr_t val) { - const Py_intptr_t neg_one = (Py_intptr_t)-1, const_zero = (Py_intptr_t)0; - const int is_unsigned = const_zero < neg_one; - if ((sizeof(Py_intptr_t) == sizeof(char)) || - (sizeof(Py_intptr_t) == sizeof(short))) { - return PyInt_FromLong((long)val); - } else if ((sizeof(Py_intptr_t) == sizeof(int)) || - (sizeof(Py_intptr_t) == sizeof(long))) { - if (is_unsigned) - return PyLong_FromUnsignedLong((unsigned long)val); - else - return PyInt_FromLong((long)val); - } else if (sizeof(Py_intptr_t) == sizeof(PY_LONG_LONG)) { - if (is_unsigned) - return PyLong_FromUnsignedLongLong((unsigned PY_LONG_LONG)val); - else - return PyLong_FromLongLong((PY_LONG_LONG)val); +#define __PYX_VERIFY_RETURN_INT(target_type, func_type, func) \ + { \ + func_type value = func(x); \ + if (sizeof(target_type) < sizeof(func_type)) { \ + if (unlikely(value != (func_type) (target_type) value)) { \ + func_type zero = 0; \ + PyErr_SetString(PyExc_OverflowError, \ + (is_unsigned && unlikely(value < zero)) ? \ + "can't convert negative value to " #target_type : \ + "value too large to convert to " #target_type); \ + return (target_type) -1; \ + } \ + } \ + return (target_type) value; \ + } + +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + #include "longintrepr.h" + #endif +#endif +static CYTHON_INLINE int __Pyx_PyInt_As_int(PyObject *x) { + const int neg_one = (int) -1, const_zero = 0; + const int is_unsigned = neg_one > const_zero; +#if PY_MAJOR_VERSION < 3 + if (likely(PyInt_Check(x))) { + if (sizeof(int) < sizeof(long)) { + __PYX_VERIFY_RETURN_INT(int, long, PyInt_AS_LONG) + } else { + long val = PyInt_AS_LONG(x); + if (is_unsigned && unlikely(val < 0)) { + PyErr_SetString(PyExc_OverflowError, + "can't convert negative value to int"); + return (int) -1; + } + return (int) val; + } + } else +#endif + if (likely(PyLong_Check(x))) { + if (is_unsigned) { +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + if (sizeof(digit) <= sizeof(int)) { + switch (Py_SIZE(x)) { + case 0: return 0; + case 1: return (int) ((PyLongObject*)x)->ob_digit[0]; + } + } + #endif +#endif + if (unlikely(Py_SIZE(x) < 0)) { + PyErr_SetString(PyExc_OverflowError, + "can't convert negative value to int"); + return (int) -1; + } + if (sizeof(int) <= sizeof(unsigned long)) { + __PYX_VERIFY_RETURN_INT(int, unsigned long, PyLong_AsUnsignedLong) + } else if (sizeof(int) <= sizeof(unsigned long long)) { + __PYX_VERIFY_RETURN_INT(int, unsigned long long, PyLong_AsUnsignedLongLong) + } + } else { +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + if (sizeof(digit) <= sizeof(int)) { + switch (Py_SIZE(x)) { + case 0: return 0; + case 1: return +(int) ((PyLongObject*)x)->ob_digit[0]; + case -1: return -(int) ((PyLongObject*)x)->ob_digit[0]; + } + } + #endif +#endif + if (sizeof(int) <= sizeof(long)) { + __PYX_VERIFY_RETURN_INT(int, long, PyLong_AsLong) + } else if (sizeof(int) <= sizeof(long long)) { + __PYX_VERIFY_RETURN_INT(int, long long, PyLong_AsLongLong) + } + } + { +#if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) + PyErr_SetString(PyExc_RuntimeError, + "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); +#else + int val; + PyObject *v = __Pyx_PyNumber_Int(x); + #if PY_MAJOR_VERSION < 3 + if (likely(v) && !PyLong_Check(v)) { + PyObject *tmp = v; + v = PyNumber_Long(tmp); + Py_DECREF(tmp); + } + #endif + if (likely(v)) { + int one = 1; int is_little = (int)*(unsigned char *)&one; + unsigned char *bytes = (unsigned char *)&val; + int ret = _PyLong_AsByteArray((PyLongObject *)v, + bytes, sizeof(val), + is_little, !is_unsigned); + Py_DECREF(v); + if (likely(!ret)) + return val; + } +#endif + return (int) -1; + } } else { + int val; + PyObject *tmp = __Pyx_PyNumber_Int(x); + if (!tmp) return (int) -1; + val = __Pyx_PyInt_As_int(tmp); + Py_DECREF(tmp); + return val; + } +} + +static CYTHON_INLINE PyObject* __Pyx_PyInt_From_int(int value) { + const int neg_one = (int) -1, const_zero = 0; + const int is_unsigned = neg_one > const_zero; + if (is_unsigned) { + if (sizeof(int) < sizeof(long)) { + return PyInt_FromLong((long) value); + } else if (sizeof(int) <= sizeof(unsigned long)) { + return PyLong_FromUnsignedLong((unsigned long) value); + } else if (sizeof(int) <= sizeof(unsigned long long)) { + return PyLong_FromUnsignedLongLong((unsigned long long) value); + } + } else { + if (sizeof(int) <= sizeof(long)) { + return PyInt_FromLong((long) value); + } else if (sizeof(int) <= sizeof(long long)) { + return PyLong_FromLongLong((long long) value); + } + } + { + int one = 1; int little = (int)*(unsigned char *)&one; + unsigned char *bytes = (unsigned char *)&value; + return _PyLong_FromByteArray(bytes, sizeof(int), + little, !is_unsigned); + } +} + +static CYTHON_INLINE PyObject* __Pyx_PyInt_From_unsigned_int(unsigned int value) { + const unsigned int neg_one = (unsigned int) -1, const_zero = 0; + const int is_unsigned = neg_one > const_zero; + if (is_unsigned) { + if (sizeof(unsigned int) < sizeof(long)) { + return PyInt_FromLong((long) value); + } else if (sizeof(unsigned int) <= sizeof(unsigned long)) { + return PyLong_FromUnsignedLong((unsigned long) value); + } else if (sizeof(unsigned int) <= sizeof(unsigned long long)) { + return PyLong_FromUnsignedLongLong((unsigned long long) value); + } + } else { + if (sizeof(unsigned int) <= sizeof(long)) { + return PyInt_FromLong((long) value); + } else if (sizeof(unsigned int) <= sizeof(long long)) { + return PyLong_FromLongLong((long long) value); + } + } + { + int one = 1; int little = (int)*(unsigned char *)&one; + unsigned char *bytes = (unsigned char *)&value; + return _PyLong_FromByteArray(bytes, sizeof(unsigned int), + little, !is_unsigned); + } +} + +static CYTHON_INLINE PyObject* __Pyx_PyInt_From_Py_intptr_t(Py_intptr_t value) { + const Py_intptr_t neg_one = (Py_intptr_t) -1, const_zero = 0; + const int is_unsigned = neg_one > const_zero; + if (is_unsigned) { + if (sizeof(Py_intptr_t) < sizeof(long)) { + return PyInt_FromLong((long) value); + } else if (sizeof(Py_intptr_t) <= sizeof(unsigned long)) { + return PyLong_FromUnsignedLong((unsigned long) value); + } else if (sizeof(Py_intptr_t) <= sizeof(unsigned long long)) { + return PyLong_FromUnsignedLongLong((unsigned long long) value); + } + } else { + if (sizeof(Py_intptr_t) <= sizeof(long)) { + return PyInt_FromLong((long) value); + } else if (sizeof(Py_intptr_t) <= sizeof(long long)) { + return PyLong_FromLongLong((long long) value); + } + } + { int one = 1; int little = (int)*(unsigned char *)&one; - unsigned char *bytes = (unsigned char *)&val; + unsigned char *bytes = (unsigned char *)&value; return _PyLong_FromByteArray(bytes, sizeof(Py_intptr_t), little, !is_unsigned); } @@ -6366,401 +6766,127 @@ static CYTHON_INLINE PyObject *__Pyx_PyInt_to_py_Py_intptr_t(Py_intptr_t val) { #endif #endif -static CYTHON_INLINE unsigned char __Pyx_PyInt_AsUnsignedChar(PyObject* x) { - const unsigned char neg_one = (unsigned char)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(unsigned char) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(unsigned char)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to unsigned char" : - "value too large to convert to unsigned char"); - } - return (unsigned char)-1; - } - return (unsigned char)val; - } - return (unsigned char)__Pyx_PyInt_AsUnsignedLong(x); -} - -static CYTHON_INLINE unsigned short __Pyx_PyInt_AsUnsignedShort(PyObject* x) { - const unsigned short neg_one = (unsigned short)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(unsigned short) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(unsigned short)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to unsigned short" : - "value too large to convert to unsigned short"); - } - return (unsigned short)-1; - } - return (unsigned short)val; - } - return (unsigned short)__Pyx_PyInt_AsUnsignedLong(x); -} - -static CYTHON_INLINE unsigned int __Pyx_PyInt_AsUnsignedInt(PyObject* x) { - const unsigned int neg_one = (unsigned int)-1, const_zero = 0; +static CYTHON_INLINE PyObject* __Pyx_PyInt_From_long(long value) { + const long neg_one = (long) -1, const_zero = 0; const int is_unsigned = neg_one > const_zero; - if (sizeof(unsigned int) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(unsigned int)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to unsigned int" : - "value too large to convert to unsigned int"); - } - return (unsigned int)-1; + if (is_unsigned) { + if (sizeof(long) < sizeof(long)) { + return PyInt_FromLong((long) value); + } else if (sizeof(long) <= sizeof(unsigned long)) { + return PyLong_FromUnsignedLong((unsigned long) value); + } else if (sizeof(long) <= sizeof(unsigned long long)) { + return PyLong_FromUnsignedLongLong((unsigned long long) value); } - return (unsigned int)val; - } - return (unsigned int)__Pyx_PyInt_AsUnsignedLong(x); -} - -static CYTHON_INLINE char __Pyx_PyInt_AsChar(PyObject* x) { - const char neg_one = (char)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(char) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(char)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to char" : - "value too large to convert to char"); - } - return (char)-1; - } - return (char)val; - } - return (char)__Pyx_PyInt_AsLong(x); -} - -static CYTHON_INLINE short __Pyx_PyInt_AsShort(PyObject* x) { - const short neg_one = (short)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(short) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(short)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to short" : - "value too large to convert to short"); - } - return (short)-1; - } - return (short)val; - } - return (short)__Pyx_PyInt_AsLong(x); -} - -static CYTHON_INLINE int __Pyx_PyInt_AsInt(PyObject* x) { - const int neg_one = (int)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(int) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(int)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to int" : - "value too large to convert to int"); - } - return (int)-1; - } - return (int)val; - } - return (int)__Pyx_PyInt_AsLong(x); -} - -static CYTHON_INLINE signed char __Pyx_PyInt_AsSignedChar(PyObject* x) { - const signed char neg_one = (signed char)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(signed char) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(signed char)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to signed char" : - "value too large to convert to signed char"); - } - return (signed char)-1; - } - return (signed char)val; - } - return (signed char)__Pyx_PyInt_AsSignedLong(x); -} - -static CYTHON_INLINE signed short __Pyx_PyInt_AsSignedShort(PyObject* x) { - const signed short neg_one = (signed short)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(signed short) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(signed short)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to signed short" : - "value too large to convert to signed short"); - } - return (signed short)-1; - } - return (signed short)val; - } - return (signed short)__Pyx_PyInt_AsSignedLong(x); -} - -static CYTHON_INLINE signed int __Pyx_PyInt_AsSignedInt(PyObject* x) { - const signed int neg_one = (signed int)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(signed int) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(signed int)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to signed int" : - "value too large to convert to signed int"); - } - return (signed int)-1; + } else { + if (sizeof(long) <= sizeof(long)) { + return PyInt_FromLong((long) value); + } else if (sizeof(long) <= sizeof(long long)) { + return PyLong_FromLongLong((long long) value); } - return (signed int)val; } - return (signed int)__Pyx_PyInt_AsSignedLong(x); -} - -static CYTHON_INLINE int __Pyx_PyInt_AsLongDouble(PyObject* x) { - const int neg_one = (int)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(int) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(int)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to int" : - "value too large to convert to int"); - } - return (int)-1; - } - return (int)val; + { + int one = 1; int little = (int)*(unsigned char *)&one; + unsigned char *bytes = (unsigned char *)&value; + return _PyLong_FromByteArray(bytes, sizeof(long), + little, !is_unsigned); } - return (int)__Pyx_PyInt_AsLong(x); } -static CYTHON_INLINE unsigned long __Pyx_PyInt_AsUnsignedLong(PyObject* x) { - const unsigned long neg_one = (unsigned long)-1, const_zero = 0; +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + #include "longintrepr.h" + #endif +#endif +static CYTHON_INLINE long __Pyx_PyInt_As_long(PyObject *x) { + const long neg_one = (long) -1, const_zero = 0; const int is_unsigned = neg_one > const_zero; -#if PY_VERSION_HEX < 0x03000000 +#if PY_MAJOR_VERSION < 3 if (likely(PyInt_Check(x))) { - long val = PyInt_AS_LONG(x); - if (is_unsigned && unlikely(val < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to unsigned long"); - return (unsigned long)-1; - } - return (unsigned long)val; - } else -#endif - if (likely(PyLong_Check(x))) { - if (is_unsigned) { - if (unlikely(Py_SIZE(x) < 0)) { + if (sizeof(long) < sizeof(long)) { + __PYX_VERIFY_RETURN_INT(long, long, PyInt_AS_LONG) + } else { + long val = PyInt_AS_LONG(x); + if (is_unsigned && unlikely(val < 0)) { PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to unsigned long"); - return (unsigned long)-1; + "can't convert negative value to long"); + return (long) -1; } - return (unsigned long)PyLong_AsUnsignedLong(x); - } else { - return (unsigned long)PyLong_AsLong(x); - } - } else { - unsigned long val; - PyObject *tmp = __Pyx_PyNumber_Int(x); - if (!tmp) return (unsigned long)-1; - val = __Pyx_PyInt_AsUnsignedLong(tmp); - Py_DECREF(tmp); - return val; - } -} - -static CYTHON_INLINE unsigned PY_LONG_LONG __Pyx_PyInt_AsUnsignedLongLong(PyObject* x) { - const unsigned PY_LONG_LONG neg_one = (unsigned PY_LONG_LONG)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; -#if PY_VERSION_HEX < 0x03000000 - if (likely(PyInt_Check(x))) { - long val = PyInt_AS_LONG(x); - if (is_unsigned && unlikely(val < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to unsigned PY_LONG_LONG"); - return (unsigned PY_LONG_LONG)-1; + return (long) val; } - return (unsigned PY_LONG_LONG)val; } else #endif if (likely(PyLong_Check(x))) { if (is_unsigned) { - if (unlikely(Py_SIZE(x) < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to unsigned PY_LONG_LONG"); - return (unsigned PY_LONG_LONG)-1; +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + if (sizeof(digit) <= sizeof(long)) { + switch (Py_SIZE(x)) { + case 0: return 0; + case 1: return (long) ((PyLongObject*)x)->ob_digit[0]; + } } - return (unsigned PY_LONG_LONG)PyLong_AsUnsignedLongLong(x); - } else { - return (unsigned PY_LONG_LONG)PyLong_AsLongLong(x); - } - } else { - unsigned PY_LONG_LONG val; - PyObject *tmp = __Pyx_PyNumber_Int(x); - if (!tmp) return (unsigned PY_LONG_LONG)-1; - val = __Pyx_PyInt_AsUnsignedLongLong(tmp); - Py_DECREF(tmp); - return val; - } -} - -static CYTHON_INLINE long __Pyx_PyInt_AsLong(PyObject* x) { - const long neg_one = (long)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; -#if PY_VERSION_HEX < 0x03000000 - if (likely(PyInt_Check(x))) { - long val = PyInt_AS_LONG(x); - if (is_unsigned && unlikely(val < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to long"); - return (long)-1; - } - return (long)val; - } else + #endif #endif - if (likely(PyLong_Check(x))) { - if (is_unsigned) { if (unlikely(Py_SIZE(x) < 0)) { PyErr_SetString(PyExc_OverflowError, "can't convert negative value to long"); - return (long)-1; + return (long) -1; } - return (long)PyLong_AsUnsignedLong(x); - } else { - return (long)PyLong_AsLong(x); - } - } else { - long val; - PyObject *tmp = __Pyx_PyNumber_Int(x); - if (!tmp) return (long)-1; - val = __Pyx_PyInt_AsLong(tmp); - Py_DECREF(tmp); - return val; - } -} - -static CYTHON_INLINE PY_LONG_LONG __Pyx_PyInt_AsLongLong(PyObject* x) { - const PY_LONG_LONG neg_one = (PY_LONG_LONG)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; -#if PY_VERSION_HEX < 0x03000000 - if (likely(PyInt_Check(x))) { - long val = PyInt_AS_LONG(x); - if (is_unsigned && unlikely(val < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to PY_LONG_LONG"); - return (PY_LONG_LONG)-1; - } - return (PY_LONG_LONG)val; - } else -#endif - if (likely(PyLong_Check(x))) { - if (is_unsigned) { - if (unlikely(Py_SIZE(x) < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to PY_LONG_LONG"); - return (PY_LONG_LONG)-1; + if (sizeof(long) <= sizeof(unsigned long)) { + __PYX_VERIFY_RETURN_INT(long, unsigned long, PyLong_AsUnsignedLong) + } else if (sizeof(long) <= sizeof(unsigned long long)) { + __PYX_VERIFY_RETURN_INT(long, unsigned long long, PyLong_AsUnsignedLongLong) } - return (PY_LONG_LONG)PyLong_AsUnsignedLongLong(x); } else { - return (PY_LONG_LONG)PyLong_AsLongLong(x); - } - } else { - PY_LONG_LONG val; - PyObject *tmp = __Pyx_PyNumber_Int(x); - if (!tmp) return (PY_LONG_LONG)-1; - val = __Pyx_PyInt_AsLongLong(tmp); - Py_DECREF(tmp); - return val; - } -} - -static CYTHON_INLINE signed long __Pyx_PyInt_AsSignedLong(PyObject* x) { - const signed long neg_one = (signed long)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; -#if PY_VERSION_HEX < 0x03000000 - if (likely(PyInt_Check(x))) { - long val = PyInt_AS_LONG(x); - if (is_unsigned && unlikely(val < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to signed long"); - return (signed long)-1; - } - return (signed long)val; - } else +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + if (sizeof(digit) <= sizeof(long)) { + switch (Py_SIZE(x)) { + case 0: return 0; + case 1: return +(long) ((PyLongObject*)x)->ob_digit[0]; + case -1: return -(long) ((PyLongObject*)x)->ob_digit[0]; + } + } + #endif #endif - if (likely(PyLong_Check(x))) { - if (is_unsigned) { - if (unlikely(Py_SIZE(x) < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to signed long"); - return (signed long)-1; + if (sizeof(long) <= sizeof(long)) { + __PYX_VERIFY_RETURN_INT(long, long, PyLong_AsLong) + } else if (sizeof(long) <= sizeof(long long)) { + __PYX_VERIFY_RETURN_INT(long, long long, PyLong_AsLongLong) } - return (signed long)PyLong_AsUnsignedLong(x); - } else { - return (signed long)PyLong_AsLong(x); - } - } else { - signed long val; - PyObject *tmp = __Pyx_PyNumber_Int(x); - if (!tmp) return (signed long)-1; - val = __Pyx_PyInt_AsSignedLong(tmp); - Py_DECREF(tmp); - return val; - } -} - -static CYTHON_INLINE signed PY_LONG_LONG __Pyx_PyInt_AsSignedLongLong(PyObject* x) { - const signed PY_LONG_LONG neg_one = (signed PY_LONG_LONG)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; -#if PY_VERSION_HEX < 0x03000000 - if (likely(PyInt_Check(x))) { - long val = PyInt_AS_LONG(x); - if (is_unsigned && unlikely(val < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to signed PY_LONG_LONG"); - return (signed PY_LONG_LONG)-1; } - return (signed PY_LONG_LONG)val; - } else -#endif - if (likely(PyLong_Check(x))) { - if (is_unsigned) { - if (unlikely(Py_SIZE(x) < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to signed PY_LONG_LONG"); - return (signed PY_LONG_LONG)-1; + { +#if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) + PyErr_SetString(PyExc_RuntimeError, + "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); +#else + long val; + PyObject *v = __Pyx_PyNumber_Int(x); + #if PY_MAJOR_VERSION < 3 + if (likely(v) && !PyLong_Check(v)) { + PyObject *tmp = v; + v = PyNumber_Long(tmp); + Py_DECREF(tmp); } - return (signed PY_LONG_LONG)PyLong_AsUnsignedLongLong(x); - } else { - return (signed PY_LONG_LONG)PyLong_AsLongLong(x); + #endif + if (likely(v)) { + int one = 1; int is_little = (int)*(unsigned char *)&one; + unsigned char *bytes = (unsigned char *)&val; + int ret = _PyLong_AsByteArray((PyLongObject *)v, + bytes, sizeof(val), + is_little, !is_unsigned); + Py_DECREF(v); + if (likely(!ret)) + return val; + } +#endif + return (long) -1; } } else { - signed PY_LONG_LONG val; + long val; PyObject *tmp = __Pyx_PyNumber_Int(x); - if (!tmp) return (signed PY_LONG_LONG)-1; - val = __Pyx_PyInt_AsSignedLongLong(tmp); + if (!tmp) return (long) -1; + val = __Pyx_PyInt_As_long(tmp); Py_DECREF(tmp); return val; } @@ -6811,6 +6937,10 @@ static PyTypeObject *__Pyx_ImportType(const char *module_name, const char *class PyObject *result = 0; PyObject *py_name = 0; char warning[200]; + Py_ssize_t basicsize; +#ifdef Py_LIMITED_API + PyObject *py_basicsize; +#endif py_module = __Pyx_ImportModule(module_name); if (!py_module) goto bad; @@ -6826,11 +6956,23 @@ static PyTypeObject *__Pyx_ImportType(const char *module_name, const char *class goto bad; if (!PyType_Check(result)) { PyErr_Format(PyExc_TypeError, - "%s.%s is not a type object", + "%.200s.%.200s is not a type object", module_name, class_name); goto bad; } - if (!strict && (size_t)((PyTypeObject *)result)->tp_basicsize > size) { +#ifndef Py_LIMITED_API + basicsize = ((PyTypeObject *)result)->tp_basicsize; +#else + py_basicsize = PyObject_GetAttrString(result, "__basicsize__"); + if (!py_basicsize) + goto bad; + basicsize = PyLong_AsSsize_t(py_basicsize); + Py_DECREF(py_basicsize); + py_basicsize = 0; + if (basicsize == (Py_ssize_t)-1 && PyErr_Occurred()) + goto bad; +#endif + if (!strict && (size_t)basicsize > size) { PyOS_snprintf(warning, sizeof(warning), "%s.%s size changed, may indicate binary incompatibility", module_name, class_name); @@ -6840,9 +6982,9 @@ static PyTypeObject *__Pyx_ImportType(const char *module_name, const char *class if (PyErr_WarnEx(NULL, warning, 0) < 0) goto bad; #endif } - else if ((size_t)((PyTypeObject *)result)->tp_basicsize != size) { + else if ((size_t)basicsize != size) { PyErr_Format(PyExc_ValueError, - "%s.%s has the wrong size, try recompiling", + "%.200s.%.200s has the wrong size, try recompiling", module_name, class_name); goto bad; } @@ -7046,27 +7188,90 @@ static int __Pyx_InitStrings(__Pyx_StringTabEntry *t) { return 0; } - -/* Type Conversion Functions */ - +static CYTHON_INLINE PyObject* __Pyx_PyUnicode_FromString(const char* c_str) { + return __Pyx_PyUnicode_FromStringAndSize(c_str, strlen(c_str)); +} +static CYTHON_INLINE char* __Pyx_PyObject_AsString(PyObject* o) { + Py_ssize_t ignore; + return __Pyx_PyObject_AsStringAndSize(o, &ignore); +} +static CYTHON_INLINE char* __Pyx_PyObject_AsStringAndSize(PyObject* o, Py_ssize_t *length) { +#if __PYX_DEFAULT_STRING_ENCODING_IS_ASCII || __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT + if ( +#if PY_MAJOR_VERSION < 3 && __PYX_DEFAULT_STRING_ENCODING_IS_ASCII + __Pyx_sys_getdefaultencoding_not_ascii && +#endif + PyUnicode_Check(o)) { +#if PY_VERSION_HEX < 0x03030000 + char* defenc_c; + PyObject* defenc = _PyUnicode_AsDefaultEncodedString(o, NULL); + if (!defenc) return NULL; + defenc_c = PyBytes_AS_STRING(defenc); +#if __PYX_DEFAULT_STRING_ENCODING_IS_ASCII + { + char* end = defenc_c + PyBytes_GET_SIZE(defenc); + char* c; + for (c = defenc_c; c < end; c++) { + if ((unsigned char) (*c) >= 128) { + PyUnicode_AsASCIIString(o); + return NULL; + } + } + } +#endif /*__PYX_DEFAULT_STRING_ENCODING_IS_ASCII*/ + *length = PyBytes_GET_SIZE(defenc); + return defenc_c; +#else /* PY_VERSION_HEX < 0x03030000 */ + if (PyUnicode_READY(o) == -1) return NULL; +#if __PYX_DEFAULT_STRING_ENCODING_IS_ASCII + if (PyUnicode_IS_ASCII(o)) { + *length = PyUnicode_GET_LENGTH(o); + return PyUnicode_AsUTF8(o); + } else { + PyUnicode_AsASCIIString(o); + return NULL; + } +#else /* __PYX_DEFAULT_STRING_ENCODING_IS_ASCII */ + return PyUnicode_AsUTF8AndSize(o, length); +#endif /* __PYX_DEFAULT_STRING_ENCODING_IS_ASCII */ +#endif /* PY_VERSION_HEX < 0x03030000 */ + } else +#endif /* __PYX_DEFAULT_STRING_ENCODING_IS_ASCII || __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT */ +#if !CYTHON_COMPILING_IN_PYPY +#if PY_VERSION_HEX >= 0x02060000 + if (PyByteArray_Check(o)) { + *length = PyByteArray_GET_SIZE(o); + return PyByteArray_AS_STRING(o); + } else +#endif +#endif + { + char* result; + int r = PyBytes_AsStringAndSize(o, &result, length); + if (unlikely(r < 0)) { + return NULL; + } else { + return result; + } + } +} static CYTHON_INLINE int __Pyx_PyObject_IsTrue(PyObject* x) { int is_true = x == Py_True; if (is_true | (x == Py_False) | (x == Py_None)) return is_true; else return PyObject_IsTrue(x); } - static CYTHON_INLINE PyObject* __Pyx_PyNumber_Int(PyObject* x) { PyNumberMethods *m; const char *name = NULL; PyObject *res = NULL; -#if PY_VERSION_HEX < 0x03000000 +#if PY_MAJOR_VERSION < 3 if (PyInt_Check(x) || PyLong_Check(x)) #else if (PyLong_Check(x)) #endif return Py_INCREF(x), x; m = Py_TYPE(x)->tp_as_number; -#if PY_VERSION_HEX < 0x03000000 +#if PY_MAJOR_VERSION < 3 if (m && m->nb_int) { name = "int"; res = PyNumber_Int(x); @@ -7082,13 +7287,13 @@ static CYTHON_INLINE PyObject* __Pyx_PyNumber_Int(PyObject* x) { } #endif if (res) { -#if PY_VERSION_HEX < 0x03000000 +#if PY_MAJOR_VERSION < 3 if (!PyInt_Check(res) && !PyLong_Check(res)) { #else if (!PyLong_Check(res)) { #endif PyErr_Format(PyExc_TypeError, - "__%s__ returned non-%s (type %.200s)", + "__%.4s__ returned non-%.4s (type %.200s)", name, name, Py_TYPE(res)->tp_name); Py_DECREF(res); return NULL; @@ -7100,16 +7305,40 @@ static CYTHON_INLINE PyObject* __Pyx_PyNumber_Int(PyObject* x) { } return res; } - +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + #include "longintrepr.h" + #endif +#endif static CYTHON_INLINE Py_ssize_t __Pyx_PyIndex_AsSsize_t(PyObject* b) { Py_ssize_t ival; - PyObject* x = PyNumber_Index(b); + PyObject *x; +#if PY_MAJOR_VERSION < 3 + if (likely(PyInt_CheckExact(b))) + return PyInt_AS_LONG(b); +#endif + if (likely(PyLong_CheckExact(b))) { + #if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + switch (Py_SIZE(b)) { + case -1: return -(sdigit)((PyLongObject*)b)->ob_digit[0]; + case 0: return 0; + case 1: return ((PyLongObject*)b)->ob_digit[0]; + } + #endif + #endif + #if PY_VERSION_HEX < 0x02060000 + return PyInt_AsSsize_t(b); + #else + return PyLong_AsSsize_t(b); + #endif + } + x = PyNumber_Index(b); if (!x) return -1; ival = PyInt_AsSsize_t(x); Py_DECREF(x); return ival; } - static CYTHON_INLINE PyObject * __Pyx_PyInt_FromSize_t(size_t ival) { #if PY_VERSION_HEX < 0x02050000 if (ival <= LONG_MAX) @@ -7124,17 +7353,5 @@ static CYTHON_INLINE PyObject * __Pyx_PyInt_FromSize_t(size_t ival) { #endif } -static CYTHON_INLINE size_t __Pyx_PyInt_AsSize_t(PyObject* x) { - unsigned PY_LONG_LONG val = __Pyx_PyInt_AsUnsignedLongLong(x); - if (unlikely(val == (unsigned PY_LONG_LONG)-1 && PyErr_Occurred())) { - return (size_t)-1; - } else if (unlikely(val != (unsigned PY_LONG_LONG)(size_t)val)) { - PyErr_SetString(PyExc_OverflowError, - "value too large to convert to size_t"); - return (size_t)-1; - } - return (size_t)val; -} - #endif /* Py_PYTHON_H */ diff --git a/nipy/labs/glm/kalman.c b/nipy/labs/glm/kalman.c index 64cadf2454..e2f73bb210 100644 --- a/nipy/labs/glm/kalman.c +++ b/nipy/labs/glm/kalman.c @@ -1,12 +1,25 @@ -/* Generated by Cython 0.17.4 on Sat Jan 12 17:27:35 2013 */ +/* Generated by Cython 0.20.1post0 (Debian 0.20.1+git90-g0e6e38e-1ubuntu2) on Mon Nov 10 15:44:40 2014 */ #define PY_SSIZE_T_CLEAN +#ifndef CYTHON_USE_PYLONG_INTERNALS +#ifdef PYLONG_BITS_IN_DIGIT +#define CYTHON_USE_PYLONG_INTERNALS 0 +#else +#include "pyconfig.h" +#ifdef PYLONG_BITS_IN_DIGIT +#define CYTHON_USE_PYLONG_INTERNALS 1 +#else +#define CYTHON_USE_PYLONG_INTERNALS 0 +#endif +#endif +#endif #include "Python.h" #ifndef Py_PYTHON_H #error Python headers needed to compile C extensions, please install development version of Python. #elif PY_VERSION_HEX < 0x02040000 #error Cython requires Python 2.4+. #else +#define CYTHON_ABI "0_20_1post0" #include /* For offsetof */ #ifndef offsetof #define offsetof(type, member) ( (size_t) & ((type*)0) -> member ) @@ -41,6 +54,9 @@ #define CYTHON_COMPILING_IN_PYPY 0 #define CYTHON_COMPILING_IN_CPYTHON 1 #endif +#if CYTHON_COMPILING_IN_PYPY +#define Py_OptimizeFlag 0 +#endif #if PY_VERSION_HEX < 0x02050000 typedef int Py_ssize_t; #define PY_SSIZE_T_MAX INT_MAX @@ -48,7 +64,7 @@ #define PY_FORMAT_SIZE_T "" #define CYTHON_FORMAT_SSIZE_T "" #define PyInt_FromSsize_t(z) PyInt_FromLong(z) - #define PyInt_AsSsize_t(o) __Pyx_PyInt_AsInt(o) + #define PyInt_AsSsize_t(o) __Pyx_PyInt_As_int(o) #define PyNumber_Index(o) ((PyNumber_Check(o) && !PyFloat_Check(o)) ? PyNumber_Int(o) : \ (PyErr_Format(PyExc_TypeError, \ "expected index value, got %.200s", Py_TYPE(o)->tp_name), \ @@ -100,13 +116,15 @@ #if PY_MAJOR_VERSION < 3 #define __Pyx_BUILTIN_MODULE_NAME "__builtin__" #define __Pyx_PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) \ - PyCode_New(a, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) + PyCode_New(a+k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) + #define __Pyx_DefaultClassType PyClass_Type #else #define __Pyx_BUILTIN_MODULE_NAME "builtins" #define __Pyx_PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) \ PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) + #define __Pyx_DefaultClassType PyType_Type #endif -#if PY_MAJOR_VERSION < 3 && PY_MINOR_VERSION < 6 +#if PY_VERSION_HEX < 0x02060000 #define PyUnicode_FromString(s) PyUnicode_Decode(s, strlen(s), "UTF-8", "strict") #endif #if PY_MAJOR_VERSION >= 3 @@ -116,19 +134,47 @@ #if (PY_VERSION_HEX < 0x02060000) || (PY_MAJOR_VERSION >= 3) #define Py_TPFLAGS_HAVE_NEWBUFFER 0 #endif +#if PY_VERSION_HEX < 0x02060000 + #define Py_TPFLAGS_HAVE_VERSION_TAG 0 +#endif +#if PY_VERSION_HEX < 0x02060000 && !defined(Py_TPFLAGS_IS_ABSTRACT) + #define Py_TPFLAGS_IS_ABSTRACT 0 +#endif +#if PY_VERSION_HEX < 0x030400a1 && !defined(Py_TPFLAGS_HAVE_FINALIZE) + #define Py_TPFLAGS_HAVE_FINALIZE 0 +#endif #if PY_VERSION_HEX > 0x03030000 && defined(PyUnicode_KIND) #define CYTHON_PEP393_ENABLED 1 #define __Pyx_PyUnicode_READY(op) (likely(PyUnicode_IS_READY(op)) ? \ 0 : _PyUnicode_Ready((PyObject *)(op))) #define __Pyx_PyUnicode_GET_LENGTH(u) PyUnicode_GET_LENGTH(u) #define __Pyx_PyUnicode_READ_CHAR(u, i) PyUnicode_READ_CHAR(u, i) + #define __Pyx_PyUnicode_KIND(u) PyUnicode_KIND(u) + #define __Pyx_PyUnicode_DATA(u) PyUnicode_DATA(u) #define __Pyx_PyUnicode_READ(k, d, i) PyUnicode_READ(k, d, i) #else #define CYTHON_PEP393_ENABLED 0 #define __Pyx_PyUnicode_READY(op) (0) #define __Pyx_PyUnicode_GET_LENGTH(u) PyUnicode_GET_SIZE(u) #define __Pyx_PyUnicode_READ_CHAR(u, i) ((Py_UCS4)(PyUnicode_AS_UNICODE(u)[i])) - #define __Pyx_PyUnicode_READ(k, d, i) ((k=k), (Py_UCS4)(((Py_UNICODE*)d)[i])) + #define __Pyx_PyUnicode_KIND(u) (sizeof(Py_UNICODE)) + #define __Pyx_PyUnicode_DATA(u) ((void*)PyUnicode_AS_UNICODE(u)) + #define __Pyx_PyUnicode_READ(k, d, i) ((void)(k), (Py_UCS4)(((Py_UNICODE*)d)[i])) +#endif +#if CYTHON_COMPILING_IN_PYPY + #define __Pyx_PyUnicode_Concat(a, b) PyNumber_Add(a, b) + #define __Pyx_PyUnicode_ConcatSafe(a, b) PyNumber_Add(a, b) +#else + #define __Pyx_PyUnicode_Concat(a, b) PyUnicode_Concat(a, b) + #define __Pyx_PyUnicode_ConcatSafe(a, b) ((unlikely((a) == Py_None) || unlikely((b) == Py_None)) ? \ + PyNumber_Add(a, b) : __Pyx_PyUnicode_Concat(a, b)) +#endif +#define __Pyx_PyString_FormatSafe(a, b) ((unlikely((a) == Py_None)) ? PyNumber_Remainder(a, b) : __Pyx_PyString_Format(a, b)) +#define __Pyx_PyUnicode_FormatSafe(a, b) ((unlikely((a) == Py_None)) ? PyNumber_Remainder(a, b) : PyUnicode_Format(a, b)) +#if PY_MAJOR_VERSION >= 3 + #define __Pyx_PyString_Format(a, b) PyUnicode_Format(a, b) +#else + #define __Pyx_PyString_Format(a, b) PyString_Format(a, b) #endif #if PY_MAJOR_VERSION >= 3 #define PyBaseString_Type PyUnicode_Type @@ -155,6 +201,14 @@ #define PyBytes_Concat PyString_Concat #define PyBytes_ConcatAndDel PyString_ConcatAndDel #endif +#if PY_MAJOR_VERSION >= 3 + #define __Pyx_PyBaseString_Check(obj) PyUnicode_Check(obj) + #define __Pyx_PyBaseString_CheckExact(obj) PyUnicode_CheckExact(obj) +#else + #define __Pyx_PyBaseString_Check(obj) (PyString_CheckExact(obj) || PyUnicode_CheckExact(obj) || \ + PyString_Check(obj) || PyUnicode_Check(obj)) + #define __Pyx_PyBaseString_CheckExact(obj) (PyString_CheckExact(obj) || PyUnicode_CheckExact(obj)) +#endif #if PY_VERSION_HEX < 0x02060000 #define PySet_Check(obj) PyObject_TypeCheck(obj, &PySet_Type) #define PyFrozenSet_Check(obj) PyObject_TypeCheck(obj, &PyFrozenSet_Type) @@ -178,11 +232,12 @@ #define PyInt_AsSsize_t PyLong_AsSsize_t #define PyInt_AsUnsignedLongMask PyLong_AsUnsignedLongMask #define PyInt_AsUnsignedLongLongMask PyLong_AsUnsignedLongLongMask + #define PyNumber_Int PyNumber_Long #endif #if PY_MAJOR_VERSION >= 3 #define PyBoolObject PyLongObject #endif -#if PY_VERSION_HEX < 0x03020000 +#if PY_VERSION_HEX < 0x030200A4 typedef long Py_hash_t; #define __Pyx_PyInt_FromHash_t PyInt_FromLong #define __Pyx_PyInt_AsHash_t PyInt_AsLong @@ -227,6 +282,46 @@ #define __Pyx_NAMESTR(n) (n) #define __Pyx_DOCSTR(n) (n) #endif +#ifndef CYTHON_INLINE + #if defined(__GNUC__) + #define CYTHON_INLINE __inline__ + #elif defined(_MSC_VER) + #define CYTHON_INLINE __inline + #elif defined (__STDC_VERSION__) && __STDC_VERSION__ >= 199901L + #define CYTHON_INLINE inline + #else + #define CYTHON_INLINE + #endif +#endif +#ifndef CYTHON_RESTRICT + #if defined(__GNUC__) + #define CYTHON_RESTRICT __restrict__ + #elif defined(_MSC_VER) && _MSC_VER >= 1400 + #define CYTHON_RESTRICT __restrict + #elif defined (__STDC_VERSION__) && __STDC_VERSION__ >= 199901L + #define CYTHON_RESTRICT restrict + #else + #define CYTHON_RESTRICT + #endif +#endif +#ifdef NAN +#define __PYX_NAN() ((float) NAN) +#else +static CYTHON_INLINE float __PYX_NAN() { + /* Initialize NaN. The sign is irrelevant, an exponent with all bits 1 and + a nonzero mantissa means NaN. If the first bit in the mantissa is 1, it is + a quiet NaN. */ + float value; + memset(&value, 0xFF, sizeof(value)); + return value; +} +#endif +#ifdef __cplusplus +template +void __Pyx_call_destructor(T* x) { + x->~T(); +} +#endif #if PY_MAJOR_VERSION >= 3 @@ -251,6 +346,7 @@ #include #define __PYX_HAVE__nipy__labs__glm__kalman #define __PYX_HAVE_API__nipy__labs__glm__kalman +#include "string.h" #include "stdio.h" #include "stdlib.h" #include "numpy/arrayobject.h" @@ -269,21 +365,6 @@ #define CYTHON_WITHOUT_ASSERTIONS #endif - -/* inline attribute */ -#ifndef CYTHON_INLINE - #if defined(__GNUC__) - #define CYTHON_INLINE __inline__ - #elif defined(_MSC_VER) - #define CYTHON_INLINE __inline - #elif defined (__STDC_VERSION__) && __STDC_VERSION__ >= 199901L - #define CYTHON_INLINE inline - #else - #define CYTHON_INLINE - #endif -#endif - -/* unused attribute */ #ifndef CYTHON_UNUSED # if defined(__GNUC__) # if !(defined(__cplusplus)) || (__GNUC__ > 3 || (__GNUC__ == 3 && __GNUC_MINOR__ >= 4)) @@ -297,46 +378,155 @@ # define CYTHON_UNUSED # endif #endif - -typedef struct {PyObject **p; char *s; const long n; const char* encoding; const char is_unicode; const char is_str; const char intern; } __Pyx_StringTabEntry; /*proto*/ - - -/* Type Conversion Predeclarations */ - -#define __Pyx_PyBytes_FromUString(s) PyBytes_FromString((char*)s) -#define __Pyx_PyBytes_AsUString(s) ((unsigned char*) PyBytes_AsString(s)) - +typedef struct {PyObject **p; char *s; const Py_ssize_t n; const char* encoding; + const char is_unicode; const char is_str; const char intern; } __Pyx_StringTabEntry; /*proto*/ + +#define __PYX_DEFAULT_STRING_ENCODING_IS_ASCII 0 +#define __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT 0 +#define __PYX_DEFAULT_STRING_ENCODING "" +#define __Pyx_PyObject_FromString __Pyx_PyBytes_FromString +#define __Pyx_PyObject_FromStringAndSize __Pyx_PyBytes_FromStringAndSize +#define __Pyx_fits_Py_ssize_t(v, type, is_signed) ( \ + (sizeof(type) < sizeof(Py_ssize_t)) || \ + (sizeof(type) > sizeof(Py_ssize_t) && \ + likely(v < (type)PY_SSIZE_T_MAX || \ + v == (type)PY_SSIZE_T_MAX) && \ + (!is_signed || likely(v > (type)PY_SSIZE_T_MIN || \ + v == (type)PY_SSIZE_T_MIN))) || \ + (sizeof(type) == sizeof(Py_ssize_t) && \ + (is_signed || likely(v < (type)PY_SSIZE_T_MAX || \ + v == (type)PY_SSIZE_T_MAX))) ) +static CYTHON_INLINE char* __Pyx_PyObject_AsString(PyObject*); +static CYTHON_INLINE char* __Pyx_PyObject_AsStringAndSize(PyObject*, Py_ssize_t* length); +#define __Pyx_PyByteArray_FromString(s) PyByteArray_FromStringAndSize((const char*)s, strlen((const char*)s)) +#define __Pyx_PyByteArray_FromStringAndSize(s, l) PyByteArray_FromStringAndSize((const char*)s, l) +#define __Pyx_PyBytes_FromString PyBytes_FromString +#define __Pyx_PyBytes_FromStringAndSize PyBytes_FromStringAndSize +static CYTHON_INLINE PyObject* __Pyx_PyUnicode_FromString(const char*); +#if PY_MAJOR_VERSION < 3 + #define __Pyx_PyStr_FromString __Pyx_PyBytes_FromString + #define __Pyx_PyStr_FromStringAndSize __Pyx_PyBytes_FromStringAndSize +#else + #define __Pyx_PyStr_FromString __Pyx_PyUnicode_FromString + #define __Pyx_PyStr_FromStringAndSize __Pyx_PyUnicode_FromStringAndSize +#endif +#define __Pyx_PyObject_AsSString(s) ((signed char*) __Pyx_PyObject_AsString(s)) +#define __Pyx_PyObject_AsUString(s) ((unsigned char*) __Pyx_PyObject_AsString(s)) +#define __Pyx_PyObject_FromUString(s) __Pyx_PyObject_FromString((const char*)s) +#define __Pyx_PyBytes_FromUString(s) __Pyx_PyBytes_FromString((const char*)s) +#define __Pyx_PyByteArray_FromUString(s) __Pyx_PyByteArray_FromString((const char*)s) +#define __Pyx_PyStr_FromUString(s) __Pyx_PyStr_FromString((const char*)s) +#define __Pyx_PyUnicode_FromUString(s) __Pyx_PyUnicode_FromString((const char*)s) +#if PY_MAJOR_VERSION < 3 +static CYTHON_INLINE size_t __Pyx_Py_UNICODE_strlen(const Py_UNICODE *u) +{ + const Py_UNICODE *u_end = u; + while (*u_end++) ; + return u_end - u - 1; +} +#else +#define __Pyx_Py_UNICODE_strlen Py_UNICODE_strlen +#endif +#define __Pyx_PyUnicode_FromUnicode(u) PyUnicode_FromUnicode(u, __Pyx_Py_UNICODE_strlen(u)) +#define __Pyx_PyUnicode_FromUnicodeAndLength PyUnicode_FromUnicode +#define __Pyx_PyUnicode_AsUnicode PyUnicode_AsUnicode #define __Pyx_Owned_Py_None(b) (Py_INCREF(Py_None), Py_None) #define __Pyx_PyBool_FromLong(b) ((b) ? (Py_INCREF(Py_True), Py_True) : (Py_INCREF(Py_False), Py_False)) static CYTHON_INLINE int __Pyx_PyObject_IsTrue(PyObject*); static CYTHON_INLINE PyObject* __Pyx_PyNumber_Int(PyObject* x); - static CYTHON_INLINE Py_ssize_t __Pyx_PyIndex_AsSsize_t(PyObject*); static CYTHON_INLINE PyObject * __Pyx_PyInt_FromSize_t(size_t); -static CYTHON_INLINE size_t __Pyx_PyInt_AsSize_t(PyObject*); - #if CYTHON_COMPILING_IN_CPYTHON #define __pyx_PyFloat_AsDouble(x) (PyFloat_CheckExact(x) ? PyFloat_AS_DOUBLE(x) : PyFloat_AsDouble(x)) #else #define __pyx_PyFloat_AsDouble(x) PyFloat_AsDouble(x) #endif #define __pyx_PyFloat_AsFloat(x) ((float) __pyx_PyFloat_AsDouble(x)) +#if PY_MAJOR_VERSION < 3 && __PYX_DEFAULT_STRING_ENCODING_IS_ASCII +static int __Pyx_sys_getdefaultencoding_not_ascii; +static int __Pyx_init_sys_getdefaultencoding_params(void) { + PyObject* sys = NULL; + PyObject* default_encoding = NULL; + PyObject* ascii_chars_u = NULL; + PyObject* ascii_chars_b = NULL; + sys = PyImport_ImportModule("sys"); + if (sys == NULL) goto bad; + default_encoding = PyObject_CallMethod(sys, (char*) (const char*) "getdefaultencoding", NULL); + if (default_encoding == NULL) goto bad; + if (strcmp(PyBytes_AsString(default_encoding), "ascii") == 0) { + __Pyx_sys_getdefaultencoding_not_ascii = 0; + } else { + const char* default_encoding_c = PyBytes_AS_STRING(default_encoding); + char ascii_chars[128]; + int c; + for (c = 0; c < 128; c++) { + ascii_chars[c] = c; + } + __Pyx_sys_getdefaultencoding_not_ascii = 1; + ascii_chars_u = PyUnicode_DecodeASCII(ascii_chars, 128, NULL); + if (ascii_chars_u == NULL) goto bad; + ascii_chars_b = PyUnicode_AsEncodedString(ascii_chars_u, default_encoding_c, NULL); + if (ascii_chars_b == NULL || strncmp(ascii_chars, PyBytes_AS_STRING(ascii_chars_b), 128) != 0) { + PyErr_Format( + PyExc_ValueError, + "This module compiled with c_string_encoding=ascii, but default encoding '%.200s' is not a superset of ascii.", + default_encoding_c); + goto bad; + } + } + Py_XDECREF(sys); + Py_XDECREF(default_encoding); + Py_XDECREF(ascii_chars_u); + Py_XDECREF(ascii_chars_b); + return 0; +bad: + Py_XDECREF(sys); + Py_XDECREF(default_encoding); + Py_XDECREF(ascii_chars_u); + Py_XDECREF(ascii_chars_b); + return -1; +} +#endif +#if __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT && PY_MAJOR_VERSION >= 3 +#define __Pyx_PyUnicode_FromStringAndSize(c_str, size) PyUnicode_DecodeUTF8(c_str, size, NULL) +#else +#define __Pyx_PyUnicode_FromStringAndSize(c_str, size) PyUnicode_Decode(c_str, size, __PYX_DEFAULT_STRING_ENCODING, NULL) +#if __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT +static char* __PYX_DEFAULT_STRING_ENCODING; +static int __Pyx_init_sys_getdefaultencoding_params(void) { + PyObject* sys = NULL; + PyObject* default_encoding = NULL; + char* default_encoding_c; + sys = PyImport_ImportModule("sys"); + if (sys == NULL) goto bad; + default_encoding = PyObject_CallMethod(sys, (char*) (const char*) "getdefaultencoding", NULL); + if (default_encoding == NULL) goto bad; + default_encoding_c = PyBytes_AS_STRING(default_encoding); + __PYX_DEFAULT_STRING_ENCODING = (char*) malloc(strlen(default_encoding_c)); + strcpy(__PYX_DEFAULT_STRING_ENCODING, default_encoding_c); + Py_DECREF(sys); + Py_DECREF(default_encoding); + return 0; +bad: + Py_XDECREF(sys); + Py_XDECREF(default_encoding); + return -1; +} +#endif +#endif + -#ifdef __GNUC__ - /* Test for GCC > 2.95 */ - #if __GNUC__ > 2 || (__GNUC__ == 2 && (__GNUC_MINOR__ > 95)) - #define likely(x) __builtin_expect(!!(x), 1) - #define unlikely(x) __builtin_expect(!!(x), 0) - #else /* __GNUC__ > 2 ... */ - #define likely(x) (x) - #define unlikely(x) (x) - #endif /* __GNUC__ > 2 ... */ -#else /* __GNUC__ */ +/* Test for GCC > 2.95 */ +#if defined(__GNUC__) && (__GNUC__ > 2 || (__GNUC__ == 2 && (__GNUC_MINOR__ > 95))) + #define likely(x) __builtin_expect(!!(x), 1) + #define unlikely(x) __builtin_expect(!!(x), 0) +#else /* !__GNUC__ or GCC < 2.95 */ #define likely(x) (x) #define unlikely(x) (x) #endif /* __GNUC__ */ - + static PyObject *__pyx_m; +static PyObject *__pyx_d; static PyObject *__pyx_b; static PyObject *__pyx_empty_tuple; static PyObject *__pyx_empty_bytes; @@ -369,11 +559,12 @@ static const char *__pyx_filename; static const char *__pyx_f[] = { "kalman.pyx", - "numpy.pxd", + "fffpy_import_lapack.pxi", + "__init__.pxd", "type.pxd", }; -/* "numpy.pxd":723 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":723 * # in Cython to enable them only on the right systems. * * ctypedef npy_int8 int8_t # <<<<<<<<<<<<<< @@ -382,7 +573,7 @@ static const char *__pyx_f[] = { */ typedef npy_int8 __pyx_t_5numpy_int8_t; -/* "numpy.pxd":724 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":724 * * ctypedef npy_int8 int8_t * ctypedef npy_int16 int16_t # <<<<<<<<<<<<<< @@ -391,7 +582,7 @@ typedef npy_int8 __pyx_t_5numpy_int8_t; */ typedef npy_int16 __pyx_t_5numpy_int16_t; -/* "numpy.pxd":725 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":725 * ctypedef npy_int8 int8_t * ctypedef npy_int16 int16_t * ctypedef npy_int32 int32_t # <<<<<<<<<<<<<< @@ -400,7 +591,7 @@ typedef npy_int16 __pyx_t_5numpy_int16_t; */ typedef npy_int32 __pyx_t_5numpy_int32_t; -/* "numpy.pxd":726 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":726 * ctypedef npy_int16 int16_t * ctypedef npy_int32 int32_t * ctypedef npy_int64 int64_t # <<<<<<<<<<<<<< @@ -409,7 +600,7 @@ typedef npy_int32 __pyx_t_5numpy_int32_t; */ typedef npy_int64 __pyx_t_5numpy_int64_t; -/* "numpy.pxd":730 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":730 * #ctypedef npy_int128 int128_t * * ctypedef npy_uint8 uint8_t # <<<<<<<<<<<<<< @@ -418,7 +609,7 @@ typedef npy_int64 __pyx_t_5numpy_int64_t; */ typedef npy_uint8 __pyx_t_5numpy_uint8_t; -/* "numpy.pxd":731 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":731 * * ctypedef npy_uint8 uint8_t * ctypedef npy_uint16 uint16_t # <<<<<<<<<<<<<< @@ -427,7 +618,7 @@ typedef npy_uint8 __pyx_t_5numpy_uint8_t; */ typedef npy_uint16 __pyx_t_5numpy_uint16_t; -/* "numpy.pxd":732 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":732 * ctypedef npy_uint8 uint8_t * ctypedef npy_uint16 uint16_t * ctypedef npy_uint32 uint32_t # <<<<<<<<<<<<<< @@ -436,7 +627,7 @@ typedef npy_uint16 __pyx_t_5numpy_uint16_t; */ typedef npy_uint32 __pyx_t_5numpy_uint32_t; -/* "numpy.pxd":733 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":733 * ctypedef npy_uint16 uint16_t * ctypedef npy_uint32 uint32_t * ctypedef npy_uint64 uint64_t # <<<<<<<<<<<<<< @@ -445,7 +636,7 @@ typedef npy_uint32 __pyx_t_5numpy_uint32_t; */ typedef npy_uint64 __pyx_t_5numpy_uint64_t; -/* "numpy.pxd":737 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":737 * #ctypedef npy_uint128 uint128_t * * ctypedef npy_float32 float32_t # <<<<<<<<<<<<<< @@ -454,7 +645,7 @@ typedef npy_uint64 __pyx_t_5numpy_uint64_t; */ typedef npy_float32 __pyx_t_5numpy_float32_t; -/* "numpy.pxd":738 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":738 * * ctypedef npy_float32 float32_t * ctypedef npy_float64 float64_t # <<<<<<<<<<<<<< @@ -463,7 +654,7 @@ typedef npy_float32 __pyx_t_5numpy_float32_t; */ typedef npy_float64 __pyx_t_5numpy_float64_t; -/* "numpy.pxd":747 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":747 * # The int types are mapped a bit surprising -- * # numpy.int corresponds to 'l' and numpy.long to 'q' * ctypedef npy_long int_t # <<<<<<<<<<<<<< @@ -472,7 +663,7 @@ typedef npy_float64 __pyx_t_5numpy_float64_t; */ typedef npy_long __pyx_t_5numpy_int_t; -/* "numpy.pxd":748 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":748 * # numpy.int corresponds to 'l' and numpy.long to 'q' * ctypedef npy_long int_t * ctypedef npy_longlong long_t # <<<<<<<<<<<<<< @@ -481,7 +672,7 @@ typedef npy_long __pyx_t_5numpy_int_t; */ typedef npy_longlong __pyx_t_5numpy_long_t; -/* "numpy.pxd":749 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":749 * ctypedef npy_long int_t * ctypedef npy_longlong long_t * ctypedef npy_longlong longlong_t # <<<<<<<<<<<<<< @@ -490,7 +681,7 @@ typedef npy_longlong __pyx_t_5numpy_long_t; */ typedef npy_longlong __pyx_t_5numpy_longlong_t; -/* "numpy.pxd":751 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":751 * ctypedef npy_longlong longlong_t * * ctypedef npy_ulong uint_t # <<<<<<<<<<<<<< @@ -499,7 +690,7 @@ typedef npy_longlong __pyx_t_5numpy_longlong_t; */ typedef npy_ulong __pyx_t_5numpy_uint_t; -/* "numpy.pxd":752 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":752 * * ctypedef npy_ulong uint_t * ctypedef npy_ulonglong ulong_t # <<<<<<<<<<<<<< @@ -508,7 +699,7 @@ typedef npy_ulong __pyx_t_5numpy_uint_t; */ typedef npy_ulonglong __pyx_t_5numpy_ulong_t; -/* "numpy.pxd":753 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":753 * ctypedef npy_ulong uint_t * ctypedef npy_ulonglong ulong_t * ctypedef npy_ulonglong ulonglong_t # <<<<<<<<<<<<<< @@ -517,7 +708,7 @@ typedef npy_ulonglong __pyx_t_5numpy_ulong_t; */ typedef npy_ulonglong __pyx_t_5numpy_ulonglong_t; -/* "numpy.pxd":755 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":755 * ctypedef npy_ulonglong ulonglong_t * * ctypedef npy_intp intp_t # <<<<<<<<<<<<<< @@ -526,7 +717,7 @@ typedef npy_ulonglong __pyx_t_5numpy_ulonglong_t; */ typedef npy_intp __pyx_t_5numpy_intp_t; -/* "numpy.pxd":756 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":756 * * ctypedef npy_intp intp_t * ctypedef npy_uintp uintp_t # <<<<<<<<<<<<<< @@ -535,7 +726,7 @@ typedef npy_intp __pyx_t_5numpy_intp_t; */ typedef npy_uintp __pyx_t_5numpy_uintp_t; -/* "numpy.pxd":758 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":758 * ctypedef npy_uintp uintp_t * * ctypedef npy_double float_t # <<<<<<<<<<<<<< @@ -544,7 +735,7 @@ typedef npy_uintp __pyx_t_5numpy_uintp_t; */ typedef npy_double __pyx_t_5numpy_float_t; -/* "numpy.pxd":759 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":759 * * ctypedef npy_double float_t * ctypedef npy_double double_t # <<<<<<<<<<<<<< @@ -553,7 +744,7 @@ typedef npy_double __pyx_t_5numpy_float_t; */ typedef npy_double __pyx_t_5numpy_double_t; -/* "numpy.pxd":760 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":760 * ctypedef npy_double float_t * ctypedef npy_double double_t * ctypedef npy_longdouble longdouble_t # <<<<<<<<<<<<<< @@ -562,12 +753,12 @@ typedef npy_double __pyx_t_5numpy_double_t; */ typedef npy_longdouble __pyx_t_5numpy_longdouble_t; -/* "fff.pxd":9 +/* "fff.pxd":10 * * # Redefine size_t * ctypedef unsigned long int size_t # <<<<<<<<<<<<<< * - * + * # Exports from fff_base.h */ typedef unsigned long __pyx_t_3fff_size_t; #if CYTHON_CCOMPLEX @@ -593,7 +784,7 @@ typedef unsigned long __pyx_t_3fff_size_t; /*--- Type declarations ---*/ -/* "numpy.pxd":762 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":762 * ctypedef npy_longdouble longdouble_t * * ctypedef npy_cfloat cfloat_t # <<<<<<<<<<<<<< @@ -602,7 +793,7 @@ typedef unsigned long __pyx_t_3fff_size_t; */ typedef npy_cfloat __pyx_t_5numpy_cfloat_t; -/* "numpy.pxd":763 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":763 * * ctypedef npy_cfloat cfloat_t * ctypedef npy_cdouble cdouble_t # <<<<<<<<<<<<<< @@ -611,7 +802,7 @@ typedef npy_cfloat __pyx_t_5numpy_cfloat_t; */ typedef npy_cdouble __pyx_t_5numpy_cdouble_t; -/* "numpy.pxd":764 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":764 * ctypedef npy_cfloat cfloat_t * ctypedef npy_cdouble cdouble_t * ctypedef npy_clongdouble clongdouble_t # <<<<<<<<<<<<<< @@ -620,7 +811,7 @@ typedef npy_cdouble __pyx_t_5numpy_cdouble_t; */ typedef npy_clongdouble __pyx_t_5numpy_clongdouble_t; -/* "numpy.pxd":766 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":766 * ctypedef npy_clongdouble clongdouble_t * * ctypedef npy_cdouble complex_t # <<<<<<<<<<<<<< @@ -679,10 +870,35 @@ typedef npy_cdouble __pyx_t_5numpy_complex_t; #define __Pyx_XGOTREF(r) #define __Pyx_XGIVEREF(r) #endif /* CYTHON_REFNANNY */ +#define __Pyx_XDECREF_SET(r, v) do { \ + PyObject *tmp = (PyObject *) r; \ + r = v; __Pyx_XDECREF(tmp); \ + } while (0) +#define __Pyx_DECREF_SET(r, v) do { \ + PyObject *tmp = (PyObject *) r; \ + r = v; __Pyx_DECREF(tmp); \ + } while (0) #define __Pyx_CLEAR(r) do { PyObject* tmp = ((PyObject*)(r)); r = NULL; __Pyx_DECREF(tmp);} while(0) #define __Pyx_XCLEAR(r) do { if((r) != NULL) {PyObject* tmp = ((PyObject*)(r)); r = NULL; __Pyx_DECREF(tmp);}} while(0) -static PyObject *__Pyx_GetName(PyObject *dict, PyObject *name); /*proto*/ +#if CYTHON_COMPILING_IN_CPYTHON +static CYTHON_INLINE PyObject* __Pyx_PyObject_GetAttrStr(PyObject* obj, PyObject* attr_name) { + PyTypeObject* tp = Py_TYPE(obj); + if (likely(tp->tp_getattro)) + return tp->tp_getattro(obj, attr_name); +#if PY_MAJOR_VERSION < 3 + if (likely(tp->tp_getattr)) + return tp->tp_getattr(obj, PyString_AS_STRING(attr_name)); +#endif + return PyObject_GetAttr(obj, attr_name); +} +#else +#define __Pyx_PyObject_GetAttrStr(o,n) PyObject_GetAttr(o,n) +#endif + +static PyObject *__Pyx_GetBuiltinName(PyObject *name); /*proto*/ + +static CYTHON_INLINE PyObject *__Pyx_GetModuleGlobalName(PyObject *name); /*proto*/ static void __Pyx_RaiseArgtupleInvalid(const char* func_name, int exact, Py_ssize_t num_min, Py_ssize_t num_max, Py_ssize_t num_found); /*proto*/ @@ -693,11 +909,11 @@ static int __Pyx_ParseOptionalKeywords(PyObject *kwds, PyObject **argnames[], \ PyObject *kwds2, PyObject *values[], Py_ssize_t num_pos_args, \ const char* function_name); /*proto*/ -static int __Pyx_ArgTypeTest(PyObject *obj, PyTypeObject *type, int none_allowed, +static CYTHON_INLINE int __Pyx_ArgTypeTest(PyObject *obj, PyTypeObject *type, int none_allowed, const char *name, int exact); /*proto*/ #if CYTHON_COMPILING_IN_CPYTHON -static CYTHON_INLINE int __Pyx_PyList_Append(PyObject* list, PyObject* x) { +static CYTHON_INLINE int __Pyx_ListComp_Append(PyObject* list, PyObject* x) { PyListObject* L = (PyListObject*) list; Py_ssize_t len = Py_SIZE(list); if (likely(L->allocated > len)) { @@ -709,52 +925,23 @@ static CYTHON_INLINE int __Pyx_PyList_Append(PyObject* list, PyObject* x) { return PyList_Append(list, x); } #else -#define __Pyx_PyList_Append(L,x) PyList_Append(L,x) +#define __Pyx_ListComp_Append(L,x) PyList_Append(L,x) #endif -#define __Pyx_SetItemInt(o, i, v, size, to_py_func) (((size) <= sizeof(Py_ssize_t)) ? \ - __Pyx_SetItemInt_Fast(o, i, v) : \ - __Pyx_SetItemInt_Generic(o, to_py_func(i), v)) -static CYTHON_INLINE int __Pyx_SetItemInt_Generic(PyObject *o, PyObject *j, PyObject *v) { - int r; - if (!j) return -1; - r = PyObject_SetItem(o, j, v); - Py_DECREF(j); - return r; -} -static CYTHON_INLINE int __Pyx_SetItemInt_Fast(PyObject *o, Py_ssize_t i, PyObject *v) { +#define __Pyx_SetItemInt(o, i, v, type, is_signed, to_py_func, is_list, wraparound, boundscheck) \ + (__Pyx_fits_Py_ssize_t(i, type, is_signed) ? \ + __Pyx_SetItemInt_Fast(o, (Py_ssize_t)i, v, is_list, wraparound, boundscheck) : \ + (is_list ? (PyErr_SetString(PyExc_IndexError, "list assignment index out of range"), -1) : \ + __Pyx_SetItemInt_Generic(o, to_py_func(i), v))) +static CYTHON_INLINE int __Pyx_SetItemInt_Generic(PyObject *o, PyObject *j, PyObject *v); +static CYTHON_INLINE int __Pyx_SetItemInt_Fast(PyObject *o, Py_ssize_t i, PyObject *v, + int is_list, int wraparound, int boundscheck); + #if CYTHON_COMPILING_IN_CPYTHON - if (PyList_CheckExact(o)) { - Py_ssize_t n = (likely(i >= 0)) ? i : i + PyList_GET_SIZE(o); - if (likely((n >= 0) & (n < PyList_GET_SIZE(o)))) { - PyObject* old = PyList_GET_ITEM(o, n); - Py_INCREF(v); - PyList_SET_ITEM(o, n, v); - Py_DECREF(old); - return 1; - } - } else { /* inlined PySequence_SetItem() */ - PySequenceMethods *m = Py_TYPE(o)->tp_as_sequence; - if (likely(m && m->sq_ass_item)) { - if (unlikely(i < 0) && likely(m->sq_length)) { - Py_ssize_t l = m->sq_length(o); - if (unlikely(l < 0)) return -1; - i += l; - } - return m->sq_ass_item(o, i, v); - } - } -#else -#if CYTHON_COMPILING_IN_PYPY - if (PySequence_Check(o) && !PyDict_Check(o)) { +static CYTHON_INLINE PyObject* __Pyx_PyObject_Call(PyObject *func, PyObject *arg, PyObject *kw); /*proto*/ #else - if (PySequence_Check(o)) { -#endif - return PySequence_SetItem(o, i, v); - } +#define __Pyx_PyObject_Call(func, arg, kw) PyObject_Call(func, arg, kw) #endif - return __Pyx_SetItemInt_Generic(o, PyInt_FromSsize_t(i), v); -} static CYTHON_INLINE void __Pyx_ErrRestore(PyObject *type, PyObject *value, PyObject *tb); /*proto*/ static CYTHON_INLINE void __Pyx_ErrFetch(PyObject **type, PyObject **value, PyObject **tb); /*proto*/ @@ -767,15 +954,17 @@ static CYTHON_INLINE void __Pyx_RaiseNeedMoreValuesError(Py_ssize_t index); static CYTHON_INLINE void __Pyx_RaiseNoneNotIterableError(void); -static CYTHON_INLINE int __Pyx_IterFinish(void); /*proto*/ +static CYTHON_INLINE int __Pyx_TypeTest(PyObject *obj, PyTypeObject *type); /*proto*/ -static int __Pyx_IternextUnpackEndCheck(PyObject *retval, Py_ssize_t expected); /*proto*/ +static PyObject* __Pyx_ImportFrom(PyObject* module, PyObject* name); /*proto*/ -static CYTHON_INLINE int __Pyx_TypeTest(PyObject *obj, PyTypeObject *type); /*proto*/ +static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, int level); /*proto*/ -static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, long level); /*proto*/ +static CYTHON_INLINE int __Pyx_PyInt_As_int(PyObject *); -static CYTHON_INLINE PyObject *__Pyx_PyInt_to_py_Py_intptr_t(Py_intptr_t); +static CYTHON_INLINE PyObject* __Pyx_PyInt_From_int(int value); + +static CYTHON_INLINE PyObject* __Pyx_PyInt_From_Py_intptr_t(Py_intptr_t value); #if CYTHON_CCOMPLEX #ifdef __cplusplus @@ -789,7 +978,7 @@ static CYTHON_INLINE PyObject *__Pyx_PyInt_to_py_Py_intptr_t(Py_intptr_t); #define __Pyx_CREAL(z) ((z).real) #define __Pyx_CIMAG(z) ((z).imag) #endif -#if defined(_WIN32) && defined(__cplusplus) && CYTHON_CCOMPLEX +#if (defined(_WIN32) || defined(__clang__)) && defined(__cplusplus) && CYTHON_CCOMPLEX #define __Pyx_SET_CREAL(z,x) ((z).real(x)) #define __Pyx_SET_CIMAG(z,y) ((z).imag(y)) #else @@ -875,37 +1064,9 @@ static CYTHON_INLINE __pyx_t_double_complex __pyx_t_double_complex_from_parts(do #endif #endif -static CYTHON_INLINE unsigned char __Pyx_PyInt_AsUnsignedChar(PyObject *); - -static CYTHON_INLINE unsigned short __Pyx_PyInt_AsUnsignedShort(PyObject *); - -static CYTHON_INLINE unsigned int __Pyx_PyInt_AsUnsignedInt(PyObject *); - -static CYTHON_INLINE char __Pyx_PyInt_AsChar(PyObject *); - -static CYTHON_INLINE short __Pyx_PyInt_AsShort(PyObject *); - -static CYTHON_INLINE int __Pyx_PyInt_AsInt(PyObject *); - -static CYTHON_INLINE signed char __Pyx_PyInt_AsSignedChar(PyObject *); - -static CYTHON_INLINE signed short __Pyx_PyInt_AsSignedShort(PyObject *); +static CYTHON_INLINE PyObject* __Pyx_PyInt_From_long(long value); -static CYTHON_INLINE signed int __Pyx_PyInt_AsSignedInt(PyObject *); - -static CYTHON_INLINE int __Pyx_PyInt_AsLongDouble(PyObject *); - -static CYTHON_INLINE unsigned long __Pyx_PyInt_AsUnsignedLong(PyObject *); - -static CYTHON_INLINE unsigned PY_LONG_LONG __Pyx_PyInt_AsUnsignedLongLong(PyObject *); - -static CYTHON_INLINE long __Pyx_PyInt_AsLong(PyObject *); - -static CYTHON_INLINE PY_LONG_LONG __Pyx_PyInt_AsLongLong(PyObject *); - -static CYTHON_INLINE signed long __Pyx_PyInt_AsSignedLong(PyObject *); - -static CYTHON_INLINE signed PY_LONG_LONG __Pyx_PyInt_AsSignedLongLong(PyObject *); +static CYTHON_INLINE long __Pyx_PyInt_As_long(PyObject *); static int __Pyx_check_binary_version(void); @@ -945,6 +1106,8 @@ static int __Pyx_InitStrings(__Pyx_StringTabEntry *t); /*proto*/ /* Module declarations from 'cpython.ref' */ +/* Module declarations from 'libc.string' */ + /* Module declarations from 'libc.stdio' */ /* Module declarations from 'cpython.object' */ @@ -969,6 +1132,7 @@ static CYTHON_INLINE char *__pyx_f_5numpy__util_dtypestring(PyArray_Descr *, cha /* Module declarations from 'fff' */ /* Module declarations from 'nipy.labs.glm.kalman' */ +static PyObject *__pyx_f_4nipy_4labs_3glm_6kalman_fffpy_import_lapack(void); /*proto*/ #define __Pyx_MODULE_NAME "nipy.labs.glm.kalman" int __pyx_module_is_main_nipy__labs__glm__kalman = 0; @@ -980,376 +1144,861 @@ static PyObject *__pyx_pf_4nipy_4labs_3glm_6kalman_ols(CYTHON_UNUSED PyObject *_ static PyObject *__pyx_pf_4nipy_4labs_3glm_6kalman_2ar1(CYTHON_UNUSED PyObject *__pyx_self, PyArrayObject *__pyx_v_Y, PyArrayObject *__pyx_v_X, int __pyx_v_niter, int __pyx_v_axis); /* proto */ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, Py_buffer *__pyx_v_info, int __pyx_v_flags); /* proto */ static void __pyx_pf_5numpy_7ndarray_2__releasebuffer__(PyArrayObject *__pyx_v_self, Py_buffer *__pyx_v_info); /* proto */ -static char __pyx_k_1[] = "ndarray is not C contiguous"; -static char __pyx_k_3[] = "ndarray is not Fortran contiguous"; -static char __pyx_k_5[] = "Non-native byte order not supported"; -static char __pyx_k_7[] = "unknown dtype code in numpy.pxd (%d)"; -static char __pyx_k_8[] = "Format string allocated too short, see comment in numpy.pxd"; -static char __pyx_k_11[] = "Format string allocated too short."; -static char __pyx_k_13[] = "\nIncremental (Kalman-like) filters for linear regression. \n\nAuthor: Alexis Roche, 2008.\n"; -static char __pyx_k_14[] = "0.1"; -static char __pyx_k_17[] = "/Users/mb312/dev_trees/nipy/nipy/labs/glm/kalman.pyx"; -static char __pyx_k_18[] = "nipy.labs.glm.kalman"; -static char __pyx_k__A[] = "A"; 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Pseudo-likelihood\n multiple regression using the refined Kalman filter, a Kalman\n variant based on a AR(1) error model. Fit the N-dimensional array\n Y along the given axis in terms of the regressors in matrix X. 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- /* "numpy.pxd":234 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":234 * info.strides = PyArray_STRIDES(self) * info.shape = PyArray_DIMS(self) * info.suboffsets = NULL # <<<<<<<<<<<<<< @@ -2484,7 +3145,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ __pyx_v_info->suboffsets = NULL; - /* "numpy.pxd":235 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":235 * info.shape = PyArray_DIMS(self) * info.suboffsets = NULL * info.itemsize = PyArray_ITEMSIZE(self) # <<<<<<<<<<<<<< @@ -2493,16 +3154,16 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ __pyx_v_info->itemsize = PyArray_ITEMSIZE(__pyx_v_self); - /* "numpy.pxd":236 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":236 * info.suboffsets = NULL * info.itemsize = PyArray_ITEMSIZE(self) * info.readonly = not PyArray_ISWRITEABLE(self) # <<<<<<<<<<<<<< * * cdef int t */ - __pyx_v_info->readonly = (!PyArray_ISWRITEABLE(__pyx_v_self)); + __pyx_v_info->readonly = (!(PyArray_ISWRITEABLE(__pyx_v_self) != 0)); - /* "numpy.pxd":239 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":239 * * cdef int t * cdef char* f = NULL # <<<<<<<<<<<<<< @@ -2511,7 +3172,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ __pyx_v_f = NULL; - /* "numpy.pxd":240 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":240 * cdef int t * cdef char* f = NULL * cdef dtype descr = self.descr # <<<<<<<<<<<<<< @@ -2523,7 +3184,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P __pyx_v_descr = ((PyArray_Descr *)__pyx_t_4); __pyx_t_4 = 0; - /* "numpy.pxd":244 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":244 * cdef int offset * * cdef bint hasfields = PyDataType_HASFIELDS(descr) # <<<<<<<<<<<<<< @@ -2532,23 +3193,23 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ __pyx_v_hasfields = PyDataType_HASFIELDS(__pyx_v_descr); - /* "numpy.pxd":246 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":246 * cdef bint hasfields = PyDataType_HASFIELDS(descr) * * if not hasfields and not copy_shape: # <<<<<<<<<<<<<< * # do not call releasebuffer * info.obj = None */ - __pyx_t_2 = (!__pyx_v_hasfields); + __pyx_t_2 = ((!(__pyx_v_hasfields != 0)) != 0); if (__pyx_t_2) { - __pyx_t_3 = (!__pyx_v_copy_shape); + __pyx_t_3 = ((!(__pyx_v_copy_shape != 0)) != 0); __pyx_t_1 = __pyx_t_3; } else { __pyx_t_1 = __pyx_t_2; } if (__pyx_t_1) { - /* "numpy.pxd":248 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":248 * if not hasfields and not copy_shape: * # do not call releasebuffer * info.obj = None # <<<<<<<<<<<<<< @@ -2564,7 +3225,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P } /*else*/ { - /* "numpy.pxd":251 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":251 * else: * # need to call releasebuffer * info.obj = self # <<<<<<<<<<<<<< @@ -2579,17 +3240,17 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P } __pyx_L10:; - /* "numpy.pxd":253 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":253 * info.obj = self * * if not hasfields: # <<<<<<<<<<<<<< * t = descr.type_num * if ((descr.byteorder == c'>' and little_endian) or */ - __pyx_t_1 = (!__pyx_v_hasfields); + __pyx_t_1 = ((!(__pyx_v_hasfields != 0)) != 0); if (__pyx_t_1) { - /* "numpy.pxd":254 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":254 * * if not hasfields: * t = descr.type_num # <<<<<<<<<<<<<< @@ -2599,31 +3260,31 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P __pyx_t_5 = __pyx_v_descr->type_num; __pyx_v_t = __pyx_t_5; - /* "numpy.pxd":255 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":255 * if not hasfields: * t = descr.type_num * if ((descr.byteorder == c'>' and little_endian) or # <<<<<<<<<<<<<< * (descr.byteorder == c'<' and not little_endian)): * raise ValueError(u"Non-native byte order not supported") */ - __pyx_t_1 = (__pyx_v_descr->byteorder == '>'); + __pyx_t_1 = ((__pyx_v_descr->byteorder == '>') != 0); if (__pyx_t_1) { - __pyx_t_2 = __pyx_v_little_endian; + __pyx_t_2 = (__pyx_v_little_endian != 0); } else { __pyx_t_2 = __pyx_t_1; } if (!__pyx_t_2) { - /* "numpy.pxd":256 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":256 * t = descr.type_num * if ((descr.byteorder == c'>' and little_endian) or * (descr.byteorder == c'<' and not little_endian)): # <<<<<<<<<<<<<< * raise ValueError(u"Non-native byte order not supported") * if t == NPY_BYTE: f = "b" */ - __pyx_t_1 = (__pyx_v_descr->byteorder == '<'); + __pyx_t_1 = ((__pyx_v_descr->byteorder == '<') != 0); if (__pyx_t_1) { - __pyx_t_3 = (!__pyx_v_little_endian); + __pyx_t_3 = ((!(__pyx_v_little_endian != 0)) != 0); __pyx_t_7 = __pyx_t_3; } else { __pyx_t_7 = __pyx_t_1; @@ -2634,271 +3295,244 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P } if (__pyx_t_1) { - /* "numpy.pxd":257 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":257 * if ((descr.byteorder == c'>' and little_endian) or * (descr.byteorder == c'<' and not little_endian)): * raise ValueError(u"Non-native byte order not supported") # <<<<<<<<<<<<<< * if t == NPY_BYTE: f = "b" * elif t == NPY_UBYTE: f = "B" */ - __pyx_t_4 = PyObject_Call(__pyx_builtin_ValueError, ((PyObject *)__pyx_k_tuple_6), NULL); if (unlikely(!__pyx_t_4)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 257; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_4 = __Pyx_PyObject_Call(__pyx_builtin_ValueError, __pyx_tuple__3, NULL); if (unlikely(!__pyx_t_4)) {__pyx_filename = __pyx_f[2]; __pyx_lineno = 257; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_4); __Pyx_Raise(__pyx_t_4, 0, 0, 0); __Pyx_DECREF(__pyx_t_4); __pyx_t_4 = 0; - {__pyx_filename = __pyx_f[1]; __pyx_lineno = 257; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - goto __pyx_L12; + {__pyx_filename = __pyx_f[2]; __pyx_lineno = 257; __pyx_clineno = __LINE__; goto __pyx_L1_error;} } - __pyx_L12:; - /* "numpy.pxd":258 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":274 + * elif t == NPY_CDOUBLE: f = "Zd" + * elif t == NPY_CLONGDOUBLE: f = "Zg" + * elif t == NPY_OBJECT: f = "O" # <<<<<<<<<<<<<< + * else: + * raise ValueError(u"unknown dtype code in numpy.pxd (%d)" % t) + */ + switch (__pyx_v_t) { + + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":258 * (descr.byteorder == c'<' and not little_endian)): * raise ValueError(u"Non-native byte order not supported") * if t == NPY_BYTE: f = "b" # <<<<<<<<<<<<<< * elif t == NPY_UBYTE: f = "B" * elif t == NPY_SHORT: f = "h" */ - __pyx_t_1 = (__pyx_v_t == NPY_BYTE); - if (__pyx_t_1) { - __pyx_v_f = __pyx_k__b; - goto __pyx_L13; - } + case NPY_BYTE: + __pyx_v_f = __pyx_k_b; + break; - /* "numpy.pxd":259 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":259 * raise ValueError(u"Non-native byte order not supported") * if t == NPY_BYTE: f = "b" * elif t == NPY_UBYTE: f = "B" # <<<<<<<<<<<<<< * elif t == NPY_SHORT: f = "h" * elif t == NPY_USHORT: f = "H" */ - __pyx_t_1 = (__pyx_v_t == NPY_UBYTE); - if (__pyx_t_1) { - __pyx_v_f = __pyx_k__B; - goto __pyx_L13; - } + case NPY_UBYTE: + __pyx_v_f = __pyx_k_B; + break; - /* "numpy.pxd":260 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":260 * if t == NPY_BYTE: f = "b" * elif t == NPY_UBYTE: f = "B" * elif t == NPY_SHORT: f = "h" # <<<<<<<<<<<<<< * elif t == NPY_USHORT: f = "H" * elif t == NPY_INT: f = "i" */ - __pyx_t_1 = (__pyx_v_t == NPY_SHORT); - if (__pyx_t_1) { - __pyx_v_f = __pyx_k__h; - goto __pyx_L13; - } + case NPY_SHORT: + __pyx_v_f = __pyx_k_h; + break; - /* "numpy.pxd":261 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":261 * elif t == NPY_UBYTE: f = "B" * elif t == NPY_SHORT: f = "h" * elif t == NPY_USHORT: f = "H" # <<<<<<<<<<<<<< * elif t == NPY_INT: f = "i" * elif t == NPY_UINT: f = "I" */ - __pyx_t_1 = (__pyx_v_t == NPY_USHORT); - if (__pyx_t_1) { - __pyx_v_f = __pyx_k__H; - goto __pyx_L13; - } + case NPY_USHORT: + __pyx_v_f = __pyx_k_H; + break; - /* "numpy.pxd":262 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":262 * elif t == NPY_SHORT: f = "h" * elif t == NPY_USHORT: f = "H" * elif t == NPY_INT: f = "i" # <<<<<<<<<<<<<< * elif t == NPY_UINT: f = "I" * elif t == NPY_LONG: f = "l" */ - __pyx_t_1 = (__pyx_v_t == NPY_INT); - if (__pyx_t_1) { - __pyx_v_f = __pyx_k__i; - goto __pyx_L13; - } + case NPY_INT: + __pyx_v_f = __pyx_k_i; + break; - /* "numpy.pxd":263 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":263 * elif t == NPY_USHORT: f = "H" * elif t == NPY_INT: f = "i" * elif t == NPY_UINT: f = "I" # <<<<<<<<<<<<<< * elif t == NPY_LONG: f = "l" * elif t == NPY_ULONG: f = "L" */ - __pyx_t_1 = (__pyx_v_t == NPY_UINT); - if (__pyx_t_1) { - __pyx_v_f = __pyx_k__I; - goto __pyx_L13; - } + case NPY_UINT: + __pyx_v_f = __pyx_k_I; + break; - /* "numpy.pxd":264 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":264 * elif t == NPY_INT: f = "i" * elif t == NPY_UINT: f = "I" * elif t == NPY_LONG: f = "l" # <<<<<<<<<<<<<< * elif t == NPY_ULONG: f = "L" * elif t == NPY_LONGLONG: f = "q" */ - __pyx_t_1 = (__pyx_v_t == NPY_LONG); - if (__pyx_t_1) { - __pyx_v_f = __pyx_k__l; - goto __pyx_L13; - } + case NPY_LONG: + __pyx_v_f = __pyx_k_l; + break; - /* "numpy.pxd":265 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":265 * elif t == NPY_UINT: f = "I" * elif t == NPY_LONG: f = "l" * elif t == NPY_ULONG: f = "L" # <<<<<<<<<<<<<< * elif t == NPY_LONGLONG: f = "q" * elif t == NPY_ULONGLONG: f = "Q" */ - __pyx_t_1 = (__pyx_v_t == NPY_ULONG); - if (__pyx_t_1) { - __pyx_v_f = __pyx_k__L; - goto __pyx_L13; - } + case NPY_ULONG: + __pyx_v_f = __pyx_k_L; + break; - /* "numpy.pxd":266 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":266 * elif t == NPY_LONG: f = "l" * elif t == NPY_ULONG: f = "L" * elif t == NPY_LONGLONG: f = "q" # <<<<<<<<<<<<<< * elif t == NPY_ULONGLONG: f = "Q" * elif t == NPY_FLOAT: f = "f" */ - __pyx_t_1 = (__pyx_v_t == NPY_LONGLONG); 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import_array() + * import numpy as np + * fffpy_import_lapack() # <<<<<<<<<<<<<< + * + * + */ + __pyx_t_1 = __pyx_f_4nipy_4labs_3glm_6kalman_fffpy_import_lapack(); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 66; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_GOTREF(__pyx_t_1); + __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; + + /* "nipy/labs/glm/kalman.pyx":70 * + * # Standard Kalman filter * def ols(ndarray Y, ndarray X, int axis=0): # <<<<<<<<<<<<<< * """ * (beta, norm_var_beta, s2, dof) = ols(Y, X, axis=0). */ - __pyx_t_1 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_3glm_6kalman_1ols, NULL, __pyx_n_s_18); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 68; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_3glm_6kalman_1ols, NULL, __pyx_n_s_nipy_labs_glm_kalman); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 70; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); - if (PyObject_SetAttr(__pyx_m, __pyx_n_s__ols, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 68; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (PyDict_SetItem(__pyx_d, __pyx_n_s_ols, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 70; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; - /* "nipy/labs/glm/kalman.pyx":142 + /* "nipy/labs/glm/kalman.pyx":144 * * * def ar1(ndarray Y, ndarray X, int niter=2, int axis=0): # <<<<<<<<<<<<<< * """ * (beta, norm_var_beta, s2, dof, a) = ar1(Y, X, niter=2, axis=0) */ - __pyx_t_1 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_3glm_6kalman_3ar1, NULL, __pyx_n_s_18); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 142; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_3glm_6kalman_3ar1, NULL, __pyx_n_s_nipy_labs_glm_kalman); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 144; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); - if (PyObject_SetAttr(__pyx_m, __pyx_n_s__ar1, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 142; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (PyDict_SetItem(__pyx_d, __pyx_n_s_ar1, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 144; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; /* "nipy/labs/glm/kalman.pyx":1 @@ -4620,11 +5407,11 @@ PyMODINIT_FUNC PyInit_kalman(void) * */ __pyx_t_1 = PyDict_New(); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 1; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_GOTREF(((PyObject *)__pyx_t_1)); - if (PyObject_SetAttr(__pyx_m, __pyx_n_s____test__, ((PyObject *)__pyx_t_1)) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 1; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_DECREF(((PyObject *)__pyx_t_1)); __pyx_t_1 = 0; + __Pyx_GOTREF(__pyx_t_1); + if (PyDict_SetItem(__pyx_d, __pyx_n_s_test, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 1; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; - /* "numpy.pxd":975 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":976 * arr.base = baseptr * * cdef inline object get_array_base(ndarray arr): # <<<<<<<<<<<<<< @@ -4634,6 +5421,7 @@ PyMODINIT_FUNC PyInit_kalman(void) goto __pyx_L0; __pyx_L1_error:; __Pyx_XDECREF(__pyx_t_1); + __Pyx_XDECREF(__pyx_t_2); if (__pyx_m) { __Pyx_AddTraceback("init nipy.labs.glm.kalman", __pyx_clineno, __pyx_lineno, __pyx_filename); Py_DECREF(__pyx_m); __pyx_m = 0; @@ -4666,17 +5454,32 @@ static __Pyx_RefNannyAPIStruct *__Pyx_RefNannyImportAPI(const char *modname) { } #endif /* CYTHON_REFNANNY */ -static PyObject *__Pyx_GetName(PyObject *dict, PyObject *name) { +static PyObject *__Pyx_GetBuiltinName(PyObject *name) { + PyObject* result = __Pyx_PyObject_GetAttrStr(__pyx_b, name); + if (unlikely(!result)) { + PyErr_Format(PyExc_NameError, +#if PY_MAJOR_VERSION >= 3 + "name '%U' is not defined", name); +#else + "name '%.200s' is not defined", PyString_AS_STRING(name)); +#endif + } + return result; +} + +static CYTHON_INLINE PyObject *__Pyx_GetModuleGlobalName(PyObject *name) { PyObject *result; - result = PyObject_GetAttr(dict, name); +#if CYTHON_COMPILING_IN_CPYTHON + result = PyDict_GetItem(__pyx_d, name); + if (result) { + Py_INCREF(result); + } else { +#else + result = PyObject_GetItem(__pyx_d, name); if (!result) { - if (dict != __pyx_b) { - PyErr_Clear(); - result = PyObject_GetAttr(__pyx_b, name); - } - if (!result) { - PyErr_SetObject(PyExc_NameError, name); - } + PyErr_Clear(); +#endif + result = __Pyx_GetBuiltinName(name); } return result; } @@ -4701,7 +5504,7 @@ static void __Pyx_RaiseArgtupleInvalid( more_or_less = "exactly"; } PyErr_Format(PyExc_TypeError, - "%s() takes %s %" CYTHON_FORMAT_SSIZE_T "d positional argument%s (%" CYTHON_FORMAT_SSIZE_T "d given)", + "%.200s() takes %.8s %" CYTHON_FORMAT_SSIZE_T "d positional argument%.1s (%" CYTHON_FORMAT_SSIZE_T "d given)", func_name, more_or_less, num_expected, (num_expected == 1) ? "" : "s", num_found); } @@ -4805,12 +5608,12 @@ static int __Pyx_ParseOptionalKeywords( goto bad; invalid_keyword_type: PyErr_Format(PyExc_TypeError, - "%s() keywords must be strings", function_name); + "%.200s() keywords must be strings", function_name); goto bad; invalid_keyword: PyErr_Format(PyExc_TypeError, #if PY_MAJOR_VERSION < 3 - "%s() got an unexpected keyword argument '%s'", + "%.200s() got an unexpected keyword argument '%.200s'", function_name, PyString_AsString(key)); #else "%s() got an unexpected keyword argument '%U'", @@ -4820,26 +5623,103 @@ static int __Pyx_ParseOptionalKeywords( return -1; } -static int __Pyx_ArgTypeTest(PyObject *obj, PyTypeObject *type, int none_allowed, +static void __Pyx_RaiseArgumentTypeInvalid(const char* name, PyObject *obj, PyTypeObject *type) { + PyErr_Format(PyExc_TypeError, + "Argument '%.200s' has incorrect type (expected %.200s, got %.200s)", + name, type->tp_name, Py_TYPE(obj)->tp_name); +} +static CYTHON_INLINE int __Pyx_ArgTypeTest(PyObject *obj, PyTypeObject *type, int none_allowed, const char *name, int exact) { - if (!type) { - PyErr_Format(PyExc_SystemError, "Missing type object"); + if (unlikely(!type)) { + PyErr_SetString(PyExc_SystemError, "Missing type object"); return 0; } if (none_allowed && obj == Py_None) return 1; else if (exact) { - if (Py_TYPE(obj) == type) return 1; + if (likely(Py_TYPE(obj) == type)) return 1; + #if PY_MAJOR_VERSION == 2 + else if ((type == &PyBaseString_Type) && likely(__Pyx_PyBaseString_CheckExact(obj))) return 1; + #endif } else { - if (PyObject_TypeCheck(obj, type)) return 1; + if (likely(PyObject_TypeCheck(obj, type))) return 1; } - PyErr_Format(PyExc_TypeError, - "Argument '%s' has incorrect type (expected %s, got %s)", - name, type->tp_name, Py_TYPE(obj)->tp_name); + __Pyx_RaiseArgumentTypeInvalid(name, obj, type); return 0; } +static CYTHON_INLINE int __Pyx_SetItemInt_Generic(PyObject *o, PyObject *j, PyObject *v) { + int r; + if (!j) return -1; + r = PyObject_SetItem(o, j, v); + Py_DECREF(j); + return r; +} +static CYTHON_INLINE int __Pyx_SetItemInt_Fast(PyObject *o, Py_ssize_t i, PyObject *v, + int is_list, int wraparound, int boundscheck) { +#if CYTHON_COMPILING_IN_CPYTHON + if (is_list || PyList_CheckExact(o)) { + Py_ssize_t n = (!wraparound) ? i : ((likely(i >= 0)) ? i : i + PyList_GET_SIZE(o)); + if ((!boundscheck) || likely((n >= 0) & (n < PyList_GET_SIZE(o)))) { + PyObject* old = PyList_GET_ITEM(o, n); + Py_INCREF(v); + PyList_SET_ITEM(o, n, v); + Py_DECREF(old); + return 1; + } + } else { + PySequenceMethods *m = Py_TYPE(o)->tp_as_sequence; + if (likely(m && m->sq_ass_item)) { + if (wraparound && unlikely(i < 0) && likely(m->sq_length)) { + Py_ssize_t l = m->sq_length(o); + if (likely(l >= 0)) { + i += l; + } else { + if (PyErr_ExceptionMatches(PyExc_OverflowError)) + PyErr_Clear(); + else + return -1; + } + } + return m->sq_ass_item(o, i, v); + } + } +#else +#if CYTHON_COMPILING_IN_PYPY + if (is_list || (PySequence_Check(o) && !PyDict_Check(o))) { +#else + if (is_list || PySequence_Check(o)) { +#endif + return PySequence_SetItem(o, i, v); + } +#endif + return __Pyx_SetItemInt_Generic(o, PyInt_FromSsize_t(i), v); +} + +#if CYTHON_COMPILING_IN_CPYTHON +static CYTHON_INLINE PyObject* __Pyx_PyObject_Call(PyObject *func, PyObject *arg, PyObject *kw) { + PyObject *result; + ternaryfunc call = func->ob_type->tp_call; + if (unlikely(!call)) + return PyObject_Call(func, arg, kw); +#if PY_VERSION_HEX >= 0x02060000 + if (unlikely(Py_EnterRecursiveCall((char*)" while calling a Python object"))) + return NULL; +#endif + result = (*call)(func, arg, kw); +#if PY_VERSION_HEX >= 0x02060000 + Py_LeaveRecursiveCall(); +#endif + if (unlikely(!result) && unlikely(!PyErr_Occurred())) { + PyErr_SetString( + PyExc_SystemError, + "NULL result without error in PyObject_Call"); + } + return result; +} +#endif + static CYTHON_INLINE void __Pyx_ErrRestore(PyObject *type, PyObject *value, PyObject *tb) { #if CYTHON_COMPILING_IN_CPYTHON PyObject *tmp_type, *tmp_value, *tmp_tb; @@ -4909,24 +5789,23 @@ static void __Pyx_Raise(PyObject *type, PyObject *value, PyObject *tb, } value = type; #if PY_VERSION_HEX < 0x02050000 - if (PyInstance_Check(type)) { - type = (PyObject*) ((PyInstanceObject*)type)->in_class; - Py_INCREF(type); - } - else { - type = 0; - PyErr_SetString(PyExc_TypeError, - "raise: exception must be an old-style class or instance"); - goto raise_error; - } - #else - type = (PyObject*) Py_TYPE(type); + if (PyInstance_Check(type)) { + type = (PyObject*) ((PyInstanceObject*)type)->in_class; Py_INCREF(type); - if (!PyType_IsSubtype((PyTypeObject *)type, (PyTypeObject *)PyExc_BaseException)) { - PyErr_SetString(PyExc_TypeError, - "raise: exception class must be a subclass of BaseException"); - goto raise_error; - } + } else { + type = 0; + PyErr_SetString(PyExc_TypeError, + "raise: exception must be an old-style class or instance"); + goto raise_error; + } + #else + type = (PyObject*) Py_TYPE(type); + Py_INCREF(type); + if (!PyType_IsSubtype((PyTypeObject *)type, (PyTypeObject *)PyExc_BaseException)) { + PyErr_SetString(PyExc_TypeError, + "raise: exception class must be a subclass of BaseException"); + goto raise_error; + } #endif } __Pyx_ErrRestore(type, value, tb); @@ -4958,46 +5837,62 @@ static void __Pyx_Raise(PyObject *type, PyObject *value, PyObject *tb, PyObject value = type; type = (PyObject*) Py_TYPE(value); } else if (PyExceptionClass_Check(type)) { - PyObject *args; - if (!value) - args = PyTuple_New(0); - else if (PyTuple_Check(value)) { - Py_INCREF(value); - args = value; + PyObject *instance_class = NULL; + if (value && PyExceptionInstance_Check(value)) { + instance_class = (PyObject*) Py_TYPE(value); + if (instance_class != type) { + if (PyObject_IsSubclass(instance_class, type)) { + type = instance_class; + } else { + instance_class = NULL; + } + } } - else - args = PyTuple_Pack(1, value); - if (!args) - goto bad; - owned_instance = PyEval_CallObject(type, args); - Py_DECREF(args); - if (!owned_instance) - goto bad; - value = owned_instance; - if (!PyExceptionInstance_Check(value)) { - PyErr_Format(PyExc_TypeError, - "calling %R should have returned an instance of " - "BaseException, not %R", - type, Py_TYPE(value)); - goto bad; + if (!instance_class) { + PyObject *args; + if (!value) + args = PyTuple_New(0); + else if (PyTuple_Check(value)) { + Py_INCREF(value); + args = value; + } else + args = PyTuple_Pack(1, value); + if (!args) + goto bad; + owned_instance = PyObject_Call(type, args, NULL); + Py_DECREF(args); + if (!owned_instance) + goto bad; + value = owned_instance; + if (!PyExceptionInstance_Check(value)) { + PyErr_Format(PyExc_TypeError, + "calling %R should have returned an instance of " + "BaseException, not %R", + type, Py_TYPE(value)); + goto bad; + } } } else { PyErr_SetString(PyExc_TypeError, "raise: exception class must be a subclass of BaseException"); goto bad; } +#if PY_VERSION_HEX >= 0x03030000 + if (cause) { +#else if (cause && cause != Py_None) { +#endif PyObject *fixed_cause; - if (PyExceptionClass_Check(cause)) { + if (cause == Py_None) { + fixed_cause = NULL; + } else if (PyExceptionClass_Check(cause)) { fixed_cause = PyObject_CallObject(cause, NULL); if (fixed_cause == NULL) goto bad; - } - else if (PyExceptionInstance_Check(cause)) { + } else if (PyExceptionInstance_Check(cause)) { fixed_cause = cause; Py_INCREF(fixed_cause); - } - else { + } else { PyErr_SetString(PyExc_TypeError, "exception causes must derive from " "BaseException"); @@ -5028,7 +5923,7 @@ static CYTHON_INLINE void __Pyx_RaiseTooManyValuesError(Py_ssize_t expected) { static CYTHON_INLINE void __Pyx_RaiseNeedMoreValuesError(Py_ssize_t index) { PyErr_Format(PyExc_ValueError, - "need more than %" CYTHON_FORMAT_SSIZE_T "d value%s to unpack", + "need more than %" CYTHON_FORMAT_SSIZE_T "d value%.1s to unpack", index, (index == 1) ? "" : "s"); } @@ -5036,54 +5931,9 @@ static CYTHON_INLINE void __Pyx_RaiseNoneNotIterableError(void) { PyErr_SetString(PyExc_TypeError, "'NoneType' object is not iterable"); } -static CYTHON_INLINE int __Pyx_IterFinish(void) { -#if CYTHON_COMPILING_IN_CPYTHON - PyThreadState *tstate = PyThreadState_GET(); - PyObject* exc_type = tstate->curexc_type; - if (unlikely(exc_type)) { - if (likely(exc_type == PyExc_StopIteration) || PyErr_GivenExceptionMatches(exc_type, PyExc_StopIteration)) { - PyObject *exc_value, *exc_tb; - exc_value = tstate->curexc_value; - exc_tb = tstate->curexc_traceback; - tstate->curexc_type = 0; - tstate->curexc_value = 0; - tstate->curexc_traceback = 0; - Py_DECREF(exc_type); - Py_XDECREF(exc_value); - Py_XDECREF(exc_tb); - return 0; - } else { - return -1; - } - } - return 0; -#else - if (unlikely(PyErr_Occurred())) { - if (likely(PyErr_ExceptionMatches(PyExc_StopIteration))) { - PyErr_Clear(); - return 0; - } else { - return -1; - } - } - return 0; -#endif -} - -static int __Pyx_IternextUnpackEndCheck(PyObject *retval, Py_ssize_t expected) { - if (unlikely(retval)) { - Py_DECREF(retval); - __Pyx_RaiseTooManyValuesError(expected); - return -1; - } else { - return __Pyx_IterFinish(); - } - return 0; -} - static CYTHON_INLINE int __Pyx_TypeTest(PyObject *obj, PyTypeObject *type) { if (unlikely(!type)) { - PyErr_Format(PyExc_SystemError, "Missing type object"); + PyErr_SetString(PyExc_SystemError, "Missing type object"); return 0; } if (likely(PyObject_TypeCheck(obj, type))) @@ -5093,16 +5943,31 @@ static CYTHON_INLINE int __Pyx_TypeTest(PyObject *obj, PyTypeObject *type) { return 0; } -static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, long level) { - PyObject *py_import = 0; +static PyObject* __Pyx_ImportFrom(PyObject* module, PyObject* name) { + PyObject* value = __Pyx_PyObject_GetAttrStr(module, name); + if (unlikely(!value) && PyErr_ExceptionMatches(PyExc_AttributeError)) { + PyErr_Format(PyExc_ImportError, + #if PY_MAJOR_VERSION < 3 + "cannot import name %.230s", PyString_AS_STRING(name)); + #else + "cannot import name %S", name); + #endif + } + return value; +} + +static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, int level) { PyObject *empty_list = 0; PyObject *module = 0; PyObject *global_dict = 0; PyObject *empty_dict = 0; PyObject *list; - py_import = __Pyx_GetAttrString(__pyx_b, "__import__"); + #if PY_VERSION_HEX < 0x03030000 + PyObject *py_import; + py_import = __Pyx_PyObject_GetAttrStr(__pyx_b, __pyx_n_s_import); if (!py_import) goto bad; + #endif if (from_list) list = from_list; else { @@ -5122,66 +5987,220 @@ static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, long level) { #if PY_MAJOR_VERSION >= 3 if (level == -1) { if (strchr(__Pyx_MODULE_NAME, '.')) { - /* try package relative import first */ + #if PY_VERSION_HEX < 0x03030000 PyObject *py_level = PyInt_FromLong(1); if (!py_level) goto bad; module = PyObject_CallFunctionObjArgs(py_import, name, global_dict, empty_dict, list, py_level, NULL); Py_DECREF(py_level); + #else + module = PyImport_ImportModuleLevelObject( + name, global_dict, empty_dict, list, 1); + #endif if (!module) { if (!PyErr_ExceptionMatches(PyExc_ImportError)) goto bad; PyErr_Clear(); } } - level = 0; /* try absolute import on failure */ + level = 0; /* try absolute import on failure */ + } + #endif + if (!module) { + #if PY_VERSION_HEX < 0x03030000 + PyObject *py_level = PyInt_FromLong(level); + if (!py_level) + goto bad; + module = PyObject_CallFunctionObjArgs(py_import, + name, global_dict, empty_dict, list, py_level, NULL); + Py_DECREF(py_level); + #else + module = PyImport_ImportModuleLevelObject( + name, global_dict, empty_dict, list, level); + #endif + } + } + #else + if (level>0) { + PyErr_SetString(PyExc_RuntimeError, "Relative import is not supported for Python <=2.4."); + goto bad; + } + module = PyObject_CallFunctionObjArgs(py_import, + name, global_dict, empty_dict, list, NULL); + #endif +bad: + #if PY_VERSION_HEX < 0x03030000 + Py_XDECREF(py_import); + #endif + Py_XDECREF(empty_list); + Py_XDECREF(empty_dict); + return module; +} + +#define __PYX_VERIFY_RETURN_INT(target_type, func_type, func) \ + { \ + func_type value = func(x); \ + if (sizeof(target_type) < sizeof(func_type)) { \ + if (unlikely(value != (func_type) (target_type) value)) { \ + func_type zero = 0; \ + PyErr_SetString(PyExc_OverflowError, \ + (is_unsigned && unlikely(value < zero)) ? \ + "can't convert negative value to " #target_type : \ + "value too large to convert to " #target_type); \ + return (target_type) -1; \ + } \ + } \ + return (target_type) value; \ + } + +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + #include "longintrepr.h" + #endif +#endif +static CYTHON_INLINE int __Pyx_PyInt_As_int(PyObject *x) { + const int neg_one = (int) -1, const_zero = 0; + const int is_unsigned = neg_one > const_zero; +#if PY_MAJOR_VERSION < 3 + if (likely(PyInt_Check(x))) { + if (sizeof(int) < sizeof(long)) { + __PYX_VERIFY_RETURN_INT(int, long, PyInt_AS_LONG) + } else { + long val = PyInt_AS_LONG(x); + if (is_unsigned && unlikely(val < 0)) { + PyErr_SetString(PyExc_OverflowError, + "can't convert negative value to int"); + return (int) -1; + } + return (int) val; + } + } else +#endif + if (likely(PyLong_Check(x))) { + if (is_unsigned) { +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + if (sizeof(digit) <= sizeof(int)) { + switch (Py_SIZE(x)) { + case 0: return 0; + case 1: return (int) ((PyLongObject*)x)->ob_digit[0]; + } + } + #endif +#endif + if (unlikely(Py_SIZE(x) < 0)) { + PyErr_SetString(PyExc_OverflowError, + "can't convert negative value to int"); + return (int) -1; + } + if (sizeof(int) <= sizeof(unsigned long)) { + __PYX_VERIFY_RETURN_INT(int, unsigned long, PyLong_AsUnsignedLong) + } else if (sizeof(int) <= sizeof(unsigned long long)) { + __PYX_VERIFY_RETURN_INT(int, unsigned long long, PyLong_AsUnsignedLongLong) + } + } else { +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + if (sizeof(digit) <= sizeof(int)) { + switch (Py_SIZE(x)) { + case 0: return 0; + case 1: return +(int) ((PyLongObject*)x)->ob_digit[0]; + case -1: return -(int) ((PyLongObject*)x)->ob_digit[0]; + } + } + #endif +#endif + if (sizeof(int) <= sizeof(long)) { + __PYX_VERIFY_RETURN_INT(int, long, PyLong_AsLong) + } else if (sizeof(int) <= sizeof(long long)) { + __PYX_VERIFY_RETURN_INT(int, long long, PyLong_AsLongLong) + } } - #endif - if (!module) { - PyObject *py_level = PyInt_FromLong(level); - if (!py_level) - goto bad; - module = PyObject_CallFunctionObjArgs(py_import, - name, global_dict, empty_dict, list, py_level, NULL); - Py_DECREF(py_level); + { +#if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) + PyErr_SetString(PyExc_RuntimeError, + "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); +#else + int val; + PyObject *v = __Pyx_PyNumber_Int(x); + #if PY_MAJOR_VERSION < 3 + if (likely(v) && !PyLong_Check(v)) { + PyObject *tmp = v; + v = PyNumber_Long(tmp); + Py_DECREF(tmp); + } + #endif + if (likely(v)) { + int one = 1; int is_little = (int)*(unsigned char *)&one; + unsigned char *bytes = (unsigned char *)&val; + int ret = _PyLong_AsByteArray((PyLongObject *)v, + bytes, sizeof(val), + is_little, !is_unsigned); + Py_DECREF(v); + if (likely(!ret)) + return val; + } +#endif + return (int) -1; } + } else { + int val; + PyObject *tmp = __Pyx_PyNumber_Int(x); + if (!tmp) return (int) -1; + val = __Pyx_PyInt_As_int(tmp); + Py_DECREF(tmp); + return val; } - #else - if (level>0) { - PyErr_SetString(PyExc_RuntimeError, "Relative import is not supported for Python <=2.4."); - goto bad; +} + +static CYTHON_INLINE PyObject* __Pyx_PyInt_From_int(int value) { + const int neg_one = (int) -1, const_zero = 0; + const int is_unsigned = neg_one > const_zero; + if (is_unsigned) { + if (sizeof(int) < sizeof(long)) { + return PyInt_FromLong((long) value); + } else if (sizeof(int) <= sizeof(unsigned long)) { + return PyLong_FromUnsignedLong((unsigned long) value); + } else if (sizeof(int) <= sizeof(unsigned long long)) { + return PyLong_FromUnsignedLongLong((unsigned long long) value); + } + } else { + if (sizeof(int) <= sizeof(long)) { + return PyInt_FromLong((long) value); + } else if (sizeof(int) <= sizeof(long long)) { + return PyLong_FromLongLong((long long) value); + } + } + { + int one = 1; int little = (int)*(unsigned char *)&one; + unsigned char *bytes = (unsigned char *)&value; + return _PyLong_FromByteArray(bytes, sizeof(int), + little, !is_unsigned); } - module = PyObject_CallFunctionObjArgs(py_import, - name, global_dict, empty_dict, list, NULL); - #endif -bad: - Py_XDECREF(empty_list); - Py_XDECREF(py_import); - Py_XDECREF(empty_dict); - return module; } -static CYTHON_INLINE PyObject *__Pyx_PyInt_to_py_Py_intptr_t(Py_intptr_t val) { - const Py_intptr_t neg_one = (Py_intptr_t)-1, const_zero = (Py_intptr_t)0; - const int is_unsigned = const_zero < neg_one; - if ((sizeof(Py_intptr_t) == sizeof(char)) || - (sizeof(Py_intptr_t) == sizeof(short))) { - return PyInt_FromLong((long)val); - } else if ((sizeof(Py_intptr_t) == sizeof(int)) || - (sizeof(Py_intptr_t) == sizeof(long))) { - if (is_unsigned) - return PyLong_FromUnsignedLong((unsigned long)val); - else - return PyInt_FromLong((long)val); - } else if (sizeof(Py_intptr_t) == sizeof(PY_LONG_LONG)) { - if (is_unsigned) - return PyLong_FromUnsignedLongLong((unsigned PY_LONG_LONG)val); - else - return PyLong_FromLongLong((PY_LONG_LONG)val); +static CYTHON_INLINE PyObject* __Pyx_PyInt_From_Py_intptr_t(Py_intptr_t value) { + const Py_intptr_t neg_one = (Py_intptr_t) -1, const_zero = 0; + const int is_unsigned = neg_one > const_zero; + if (is_unsigned) { + if (sizeof(Py_intptr_t) < sizeof(long)) { + return PyInt_FromLong((long) value); + } else if (sizeof(Py_intptr_t) <= sizeof(unsigned long)) { + return PyLong_FromUnsignedLong((unsigned long) value); + } else if (sizeof(Py_intptr_t) <= sizeof(unsigned long long)) { + return PyLong_FromUnsignedLongLong((unsigned long long) value); + } } else { + if (sizeof(Py_intptr_t) <= sizeof(long)) { + return PyInt_FromLong((long) value); + } else if (sizeof(Py_intptr_t) <= sizeof(long long)) { + return PyLong_FromLongLong((long long) value); + } + } + { int one = 1; int little = (int)*(unsigned char *)&one; - unsigned char *bytes = (unsigned char *)&val; + unsigned char *bytes = (unsigned char *)&value; return _PyLong_FromByteArray(bytes, sizeof(Py_intptr_t), little, !is_unsigned); } @@ -5427,401 +6446,127 @@ static CYTHON_INLINE PyObject *__Pyx_PyInt_to_py_Py_intptr_t(Py_intptr_t val) { #endif #endif -static CYTHON_INLINE unsigned char __Pyx_PyInt_AsUnsignedChar(PyObject* x) { - const unsigned char neg_one = (unsigned char)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(unsigned char) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(unsigned char)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to unsigned char" : - "value too large to convert to unsigned char"); - } - return (unsigned char)-1; - } - return (unsigned char)val; - } - return (unsigned char)__Pyx_PyInt_AsUnsignedLong(x); -} - -static CYTHON_INLINE unsigned short __Pyx_PyInt_AsUnsignedShort(PyObject* x) { - const unsigned short neg_one = (unsigned short)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(unsigned short) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(unsigned short)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to unsigned short" : - "value too large to convert to unsigned short"); - } - return (unsigned short)-1; - } - return (unsigned short)val; - } - return (unsigned short)__Pyx_PyInt_AsUnsignedLong(x); -} - -static CYTHON_INLINE unsigned int __Pyx_PyInt_AsUnsignedInt(PyObject* x) { - const unsigned int neg_one = (unsigned int)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(unsigned int) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(unsigned int)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to unsigned int" : - "value too large to convert to unsigned int"); - } - return (unsigned int)-1; - } - return (unsigned int)val; - } - return (unsigned int)__Pyx_PyInt_AsUnsignedLong(x); -} - -static CYTHON_INLINE char __Pyx_PyInt_AsChar(PyObject* x) { - const char neg_one = (char)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(char) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(char)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to char" : - "value too large to convert to char"); - } - return (char)-1; - } - return (char)val; - } - return (char)__Pyx_PyInt_AsLong(x); -} - -static CYTHON_INLINE short __Pyx_PyInt_AsShort(PyObject* x) { - const short neg_one = (short)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(short) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(short)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to short" : - "value too large to convert to short"); - } - return (short)-1; - } - return (short)val; - } - return (short)__Pyx_PyInt_AsLong(x); -} - -static CYTHON_INLINE int __Pyx_PyInt_AsInt(PyObject* x) { - const int neg_one = (int)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(int) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(int)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to int" : - "value too large to convert to int"); - } - return (int)-1; - } - return (int)val; - } - return (int)__Pyx_PyInt_AsLong(x); -} - -static CYTHON_INLINE signed char __Pyx_PyInt_AsSignedChar(PyObject* x) { - const signed char neg_one = (signed char)-1, const_zero = 0; +static CYTHON_INLINE PyObject* __Pyx_PyInt_From_long(long value) { + const long neg_one = (long) -1, const_zero = 0; const int is_unsigned = neg_one > const_zero; - if (sizeof(signed char) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(signed char)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to signed char" : - "value too large to convert to signed char"); - } - return (signed char)-1; - } - return (signed char)val; - } - return (signed char)__Pyx_PyInt_AsSignedLong(x); -} - -static CYTHON_INLINE signed short __Pyx_PyInt_AsSignedShort(PyObject* x) { - const signed short neg_one = (signed short)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(signed short) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(signed short)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to signed short" : - "value too large to convert to signed short"); - } - return (signed short)-1; + if (is_unsigned) { + if (sizeof(long) < sizeof(long)) { + return PyInt_FromLong((long) value); + } else if (sizeof(long) <= sizeof(unsigned long)) { + return PyLong_FromUnsignedLong((unsigned long) value); + } else if (sizeof(long) <= sizeof(unsigned long long)) { + return PyLong_FromUnsignedLongLong((unsigned long long) value); } - return (signed short)val; - } - return (signed short)__Pyx_PyInt_AsSignedLong(x); -} - -static CYTHON_INLINE signed int __Pyx_PyInt_AsSignedInt(PyObject* x) { - const signed int neg_one = (signed int)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(signed int) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(signed int)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to signed int" : - "value too large to convert to signed int"); - } - return (signed int)-1; + } else { + if (sizeof(long) <= sizeof(long)) { + return PyInt_FromLong((long) value); + } else if (sizeof(long) <= sizeof(long long)) { + return PyLong_FromLongLong((long long) value); } - return (signed int)val; } - return (signed int)__Pyx_PyInt_AsSignedLong(x); -} - -static CYTHON_INLINE int __Pyx_PyInt_AsLongDouble(PyObject* x) { - const int neg_one = (int)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(int) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(int)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to int" : - "value too large to convert to int"); - } - return (int)-1; - } - return (int)val; + { + int one = 1; int little = (int)*(unsigned char *)&one; + unsigned char *bytes = (unsigned char *)&value; + return _PyLong_FromByteArray(bytes, sizeof(long), + little, !is_unsigned); } - return (int)__Pyx_PyInt_AsLong(x); } -static CYTHON_INLINE unsigned long __Pyx_PyInt_AsUnsignedLong(PyObject* x) { - const unsigned long neg_one = (unsigned long)-1, const_zero = 0; +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + #include "longintrepr.h" + #endif +#endif +static CYTHON_INLINE long __Pyx_PyInt_As_long(PyObject *x) { + const long neg_one = (long) -1, const_zero = 0; const int is_unsigned = neg_one > const_zero; -#if PY_VERSION_HEX < 0x03000000 +#if PY_MAJOR_VERSION < 3 if (likely(PyInt_Check(x))) { - long val = PyInt_AS_LONG(x); - if (is_unsigned && unlikely(val < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to unsigned long"); - return (unsigned long)-1; - } - return (unsigned long)val; - } else -#endif - if (likely(PyLong_Check(x))) { - if (is_unsigned) { - if (unlikely(Py_SIZE(x) < 0)) { + if (sizeof(long) < sizeof(long)) { + __PYX_VERIFY_RETURN_INT(long, long, PyInt_AS_LONG) + } else { + long val = PyInt_AS_LONG(x); + if (is_unsigned && unlikely(val < 0)) { PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to unsigned long"); - return (unsigned long)-1; + "can't convert negative value to long"); + return (long) -1; } - return (unsigned long)PyLong_AsUnsignedLong(x); - } else { - return (unsigned long)PyLong_AsLong(x); - } - } else { - unsigned long val; - PyObject *tmp = __Pyx_PyNumber_Int(x); - if (!tmp) return (unsigned long)-1; - val = __Pyx_PyInt_AsUnsignedLong(tmp); - Py_DECREF(tmp); - return val; - } -} - -static CYTHON_INLINE unsigned PY_LONG_LONG __Pyx_PyInt_AsUnsignedLongLong(PyObject* x) { - const unsigned PY_LONG_LONG neg_one = (unsigned PY_LONG_LONG)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; -#if PY_VERSION_HEX < 0x03000000 - if (likely(PyInt_Check(x))) { - long val = PyInt_AS_LONG(x); - if (is_unsigned && unlikely(val < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to unsigned PY_LONG_LONG"); - return (unsigned PY_LONG_LONG)-1; + return (long) val; } - return (unsigned PY_LONG_LONG)val; } else #endif if (likely(PyLong_Check(x))) { if (is_unsigned) { - if (unlikely(Py_SIZE(x) < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to unsigned PY_LONG_LONG"); - return (unsigned PY_LONG_LONG)-1; +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + if (sizeof(digit) <= sizeof(long)) { + switch (Py_SIZE(x)) { + case 0: return 0; + case 1: return (long) ((PyLongObject*)x)->ob_digit[0]; + } } - return (unsigned PY_LONG_LONG)PyLong_AsUnsignedLongLong(x); - } else { - return (unsigned PY_LONG_LONG)PyLong_AsLongLong(x); - } - } else { - unsigned PY_LONG_LONG val; - PyObject *tmp = __Pyx_PyNumber_Int(x); - if (!tmp) return (unsigned PY_LONG_LONG)-1; - val = __Pyx_PyInt_AsUnsignedLongLong(tmp); - Py_DECREF(tmp); - return val; - } -} - -static CYTHON_INLINE long __Pyx_PyInt_AsLong(PyObject* x) { - const long neg_one = (long)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; -#if PY_VERSION_HEX < 0x03000000 - if (likely(PyInt_Check(x))) { - long val = PyInt_AS_LONG(x); - if (is_unsigned && unlikely(val < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to long"); - return (long)-1; - } - return (long)val; - } else + #endif #endif - if (likely(PyLong_Check(x))) { - if (is_unsigned) { if (unlikely(Py_SIZE(x) < 0)) { PyErr_SetString(PyExc_OverflowError, "can't convert negative value to long"); - return (long)-1; + return (long) -1; } - return (long)PyLong_AsUnsignedLong(x); - } else { - return (long)PyLong_AsLong(x); - } - } else { - long val; - PyObject *tmp = __Pyx_PyNumber_Int(x); - if (!tmp) return (long)-1; - val = __Pyx_PyInt_AsLong(tmp); - Py_DECREF(tmp); - return val; - } -} - -static CYTHON_INLINE PY_LONG_LONG __Pyx_PyInt_AsLongLong(PyObject* x) { - const PY_LONG_LONG neg_one = (PY_LONG_LONG)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; -#if PY_VERSION_HEX < 0x03000000 - if (likely(PyInt_Check(x))) { - long val = PyInt_AS_LONG(x); - if (is_unsigned && unlikely(val < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to PY_LONG_LONG"); - return (PY_LONG_LONG)-1; - } - return (PY_LONG_LONG)val; - } else -#endif - if (likely(PyLong_Check(x))) { - if (is_unsigned) { - if (unlikely(Py_SIZE(x) < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to PY_LONG_LONG"); - return (PY_LONG_LONG)-1; + if (sizeof(long) <= sizeof(unsigned long)) { + __PYX_VERIFY_RETURN_INT(long, unsigned long, PyLong_AsUnsignedLong) + } else if (sizeof(long) <= sizeof(unsigned long long)) { + __PYX_VERIFY_RETURN_INT(long, unsigned long long, PyLong_AsUnsignedLongLong) } - return (PY_LONG_LONG)PyLong_AsUnsignedLongLong(x); } else { - return (PY_LONG_LONG)PyLong_AsLongLong(x); - } - } else { - PY_LONG_LONG val; - PyObject *tmp = __Pyx_PyNumber_Int(x); - if (!tmp) return (PY_LONG_LONG)-1; - val = __Pyx_PyInt_AsLongLong(tmp); - Py_DECREF(tmp); - return val; - } -} - -static CYTHON_INLINE signed long __Pyx_PyInt_AsSignedLong(PyObject* x) { - const signed long neg_one = (signed long)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; -#if PY_VERSION_HEX < 0x03000000 - if (likely(PyInt_Check(x))) { - long val = PyInt_AS_LONG(x); - if (is_unsigned && unlikely(val < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to signed long"); - return (signed long)-1; - } - return (signed long)val; - } else +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + if (sizeof(digit) <= sizeof(long)) { + switch (Py_SIZE(x)) { + case 0: return 0; + case 1: return +(long) ((PyLongObject*)x)->ob_digit[0]; + case -1: return -(long) ((PyLongObject*)x)->ob_digit[0]; + } + } + #endif #endif - if (likely(PyLong_Check(x))) { - if (is_unsigned) { - if (unlikely(Py_SIZE(x) < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to signed long"); - return (signed long)-1; + if (sizeof(long) <= sizeof(long)) { + __PYX_VERIFY_RETURN_INT(long, long, PyLong_AsLong) + } else if (sizeof(long) <= sizeof(long long)) { + __PYX_VERIFY_RETURN_INT(long, long long, PyLong_AsLongLong) } - return (signed long)PyLong_AsUnsignedLong(x); - } else { - return (signed long)PyLong_AsLong(x); - } - } else { - signed long val; - PyObject *tmp = __Pyx_PyNumber_Int(x); - if (!tmp) return (signed long)-1; - val = __Pyx_PyInt_AsSignedLong(tmp); - Py_DECREF(tmp); - return val; - } -} - -static CYTHON_INLINE signed PY_LONG_LONG __Pyx_PyInt_AsSignedLongLong(PyObject* x) { - const signed PY_LONG_LONG neg_one = (signed PY_LONG_LONG)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; -#if PY_VERSION_HEX < 0x03000000 - if (likely(PyInt_Check(x))) { - long val = PyInt_AS_LONG(x); - if (is_unsigned && unlikely(val < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to signed PY_LONG_LONG"); - return (signed PY_LONG_LONG)-1; } - return (signed PY_LONG_LONG)val; - } else -#endif - if (likely(PyLong_Check(x))) { - if (is_unsigned) { - if (unlikely(Py_SIZE(x) < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to signed PY_LONG_LONG"); - return (signed PY_LONG_LONG)-1; + { +#if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) + PyErr_SetString(PyExc_RuntimeError, + "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); +#else + long val; + PyObject *v = __Pyx_PyNumber_Int(x); + #if PY_MAJOR_VERSION < 3 + if (likely(v) && !PyLong_Check(v)) { + PyObject *tmp = v; + v = PyNumber_Long(tmp); + Py_DECREF(tmp); } - return (signed PY_LONG_LONG)PyLong_AsUnsignedLongLong(x); - } else { - return (signed PY_LONG_LONG)PyLong_AsLongLong(x); + #endif + if (likely(v)) { + int one = 1; int is_little = (int)*(unsigned char *)&one; + unsigned char *bytes = (unsigned char *)&val; + int ret = _PyLong_AsByteArray((PyLongObject *)v, + bytes, sizeof(val), + is_little, !is_unsigned); + Py_DECREF(v); + if (likely(!ret)) + return val; + } +#endif + return (long) -1; } } else { - signed PY_LONG_LONG val; + long val; PyObject *tmp = __Pyx_PyNumber_Int(x); - if (!tmp) return (signed PY_LONG_LONG)-1; - val = __Pyx_PyInt_AsSignedLongLong(tmp); + if (!tmp) return (long) -1; + val = __Pyx_PyInt_As_long(tmp); Py_DECREF(tmp); return val; } @@ -5872,6 +6617,10 @@ static PyTypeObject *__Pyx_ImportType(const char *module_name, const char *class PyObject *result = 0; PyObject *py_name = 0; char warning[200]; + Py_ssize_t basicsize; +#ifdef Py_LIMITED_API + PyObject *py_basicsize; +#endif py_module = __Pyx_ImportModule(module_name); if (!py_module) goto bad; @@ -5887,11 +6636,23 @@ static PyTypeObject *__Pyx_ImportType(const char *module_name, const char *class goto bad; if (!PyType_Check(result)) { PyErr_Format(PyExc_TypeError, - "%s.%s is not a type object", + "%.200s.%.200s is not a type object", module_name, class_name); goto bad; } - if (!strict && (size_t)((PyTypeObject *)result)->tp_basicsize > size) { +#ifndef Py_LIMITED_API + basicsize = ((PyTypeObject *)result)->tp_basicsize; +#else + py_basicsize = PyObject_GetAttrString(result, "__basicsize__"); + if (!py_basicsize) + goto bad; + basicsize = PyLong_AsSsize_t(py_basicsize); + Py_DECREF(py_basicsize); + py_basicsize = 0; + if (basicsize == (Py_ssize_t)-1 && PyErr_Occurred()) + goto bad; +#endif + if (!strict && (size_t)basicsize > size) { PyOS_snprintf(warning, sizeof(warning), "%s.%s size changed, may indicate binary incompatibility", module_name, class_name); @@ -5901,9 +6662,9 @@ static PyTypeObject *__Pyx_ImportType(const char *module_name, const char *class if (PyErr_WarnEx(NULL, warning, 0) < 0) goto bad; #endif } - else if ((size_t)((PyTypeObject *)result)->tp_basicsize != size) { + else if ((size_t)basicsize != size) { PyErr_Format(PyExc_ValueError, - "%s.%s has the wrong size, try recompiling", + "%.200s.%.200s has the wrong size, try recompiling", module_name, class_name); goto bad; } @@ -6107,27 +6868,90 @@ static int __Pyx_InitStrings(__Pyx_StringTabEntry *t) { return 0; } - -/* Type Conversion Functions */ - +static CYTHON_INLINE PyObject* __Pyx_PyUnicode_FromString(const char* c_str) { + return __Pyx_PyUnicode_FromStringAndSize(c_str, strlen(c_str)); +} +static CYTHON_INLINE char* __Pyx_PyObject_AsString(PyObject* o) { + Py_ssize_t ignore; + return __Pyx_PyObject_AsStringAndSize(o, &ignore); +} +static CYTHON_INLINE char* __Pyx_PyObject_AsStringAndSize(PyObject* o, Py_ssize_t *length) { +#if __PYX_DEFAULT_STRING_ENCODING_IS_ASCII || __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT + if ( +#if PY_MAJOR_VERSION < 3 && __PYX_DEFAULT_STRING_ENCODING_IS_ASCII + __Pyx_sys_getdefaultencoding_not_ascii && +#endif + PyUnicode_Check(o)) { +#if PY_VERSION_HEX < 0x03030000 + char* defenc_c; + PyObject* defenc = _PyUnicode_AsDefaultEncodedString(o, NULL); + if (!defenc) return NULL; + defenc_c = PyBytes_AS_STRING(defenc); +#if __PYX_DEFAULT_STRING_ENCODING_IS_ASCII + { + char* end = defenc_c + PyBytes_GET_SIZE(defenc); + char* c; + for (c = defenc_c; c < end; c++) { + if ((unsigned char) (*c) >= 128) { + PyUnicode_AsASCIIString(o); + return NULL; + } + } + } +#endif /*__PYX_DEFAULT_STRING_ENCODING_IS_ASCII*/ + *length = PyBytes_GET_SIZE(defenc); + return defenc_c; +#else /* PY_VERSION_HEX < 0x03030000 */ + if (PyUnicode_READY(o) == -1) return NULL; +#if __PYX_DEFAULT_STRING_ENCODING_IS_ASCII + if (PyUnicode_IS_ASCII(o)) { + *length = PyUnicode_GET_LENGTH(o); + return PyUnicode_AsUTF8(o); + } else { + PyUnicode_AsASCIIString(o); + return NULL; + } +#else /* __PYX_DEFAULT_STRING_ENCODING_IS_ASCII */ + return PyUnicode_AsUTF8AndSize(o, length); +#endif /* __PYX_DEFAULT_STRING_ENCODING_IS_ASCII */ +#endif /* PY_VERSION_HEX < 0x03030000 */ + } else +#endif /* __PYX_DEFAULT_STRING_ENCODING_IS_ASCII || __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT */ +#if !CYTHON_COMPILING_IN_PYPY +#if PY_VERSION_HEX >= 0x02060000 + if (PyByteArray_Check(o)) { + *length = PyByteArray_GET_SIZE(o); + return PyByteArray_AS_STRING(o); + } else +#endif +#endif + { + char* result; + int r = PyBytes_AsStringAndSize(o, &result, length); + if (unlikely(r < 0)) { + return NULL; + } else { + return result; + } + } +} static CYTHON_INLINE int __Pyx_PyObject_IsTrue(PyObject* x) { int is_true = x == Py_True; if (is_true | (x == Py_False) | (x == Py_None)) return is_true; else return PyObject_IsTrue(x); } - static CYTHON_INLINE PyObject* __Pyx_PyNumber_Int(PyObject* x) { PyNumberMethods *m; const char *name = NULL; PyObject *res = NULL; -#if PY_VERSION_HEX < 0x03000000 +#if PY_MAJOR_VERSION < 3 if (PyInt_Check(x) || PyLong_Check(x)) #else if (PyLong_Check(x)) #endif return Py_INCREF(x), x; m = Py_TYPE(x)->tp_as_number; -#if PY_VERSION_HEX < 0x03000000 +#if PY_MAJOR_VERSION < 3 if (m && m->nb_int) { name = "int"; res = PyNumber_Int(x); @@ -6143,13 +6967,13 @@ static CYTHON_INLINE PyObject* __Pyx_PyNumber_Int(PyObject* x) { } #endif if (res) { -#if PY_VERSION_HEX < 0x03000000 +#if PY_MAJOR_VERSION < 3 if (!PyInt_Check(res) && !PyLong_Check(res)) { #else if (!PyLong_Check(res)) { #endif PyErr_Format(PyExc_TypeError, - "__%s__ returned non-%s (type %.200s)", + "__%.4s__ returned non-%.4s (type %.200s)", name, name, Py_TYPE(res)->tp_name); Py_DECREF(res); return NULL; @@ -6161,16 +6985,40 @@ static CYTHON_INLINE PyObject* __Pyx_PyNumber_Int(PyObject* x) { } return res; } - +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + #include "longintrepr.h" + #endif +#endif static CYTHON_INLINE Py_ssize_t __Pyx_PyIndex_AsSsize_t(PyObject* b) { Py_ssize_t ival; - PyObject* x = PyNumber_Index(b); + PyObject *x; +#if PY_MAJOR_VERSION < 3 + if (likely(PyInt_CheckExact(b))) + return PyInt_AS_LONG(b); +#endif + if (likely(PyLong_CheckExact(b))) { + #if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + switch (Py_SIZE(b)) { + case -1: return -(sdigit)((PyLongObject*)b)->ob_digit[0]; + case 0: return 0; + case 1: return ((PyLongObject*)b)->ob_digit[0]; + } + #endif + #endif + #if PY_VERSION_HEX < 0x02060000 + return PyInt_AsSsize_t(b); + #else + return PyLong_AsSsize_t(b); + #endif + } + x = PyNumber_Index(b); if (!x) return -1; ival = PyInt_AsSsize_t(x); Py_DECREF(x); return ival; } - static CYTHON_INLINE PyObject * __Pyx_PyInt_FromSize_t(size_t ival) { #if PY_VERSION_HEX < 0x02050000 if (ival <= LONG_MAX) @@ -6185,17 +7033,5 @@ static CYTHON_INLINE PyObject * __Pyx_PyInt_FromSize_t(size_t ival) { #endif } -static CYTHON_INLINE size_t __Pyx_PyInt_AsSize_t(PyObject* x) { - unsigned PY_LONG_LONG val = __Pyx_PyInt_AsUnsignedLongLong(x); - if (unlikely(val == (unsigned PY_LONG_LONG)-1 && PyErr_Occurred())) { - return (size_t)-1; - } else if (unlikely(val != (unsigned PY_LONG_LONG)(size_t)val)) { - PyErr_SetString(PyExc_OverflowError, - "value too large to convert to size_t"); - return (size_t)-1; - } - return (size_t)val; -} - #endif /* Py_PYTHON_H */ diff --git a/nipy/labs/glm/kalman.pyx b/nipy/labs/glm/kalman.pyx index c37b7f1a9a..e36854e28b 100644 --- a/nipy/labs/glm/kalman.pyx +++ b/nipy/labs/glm/kalman.pyx @@ -11,6 +11,7 @@ __version__ = '0.1' # Includes from fff cimport * +include "fffpy_import_lapack.pxi" # Exports from fff_glm_kalman.h cdef extern from "fff_glm_kalman.h": @@ -62,9 +63,10 @@ cdef extern from "fff_glm_kalman.h": fffpy_import_array() import_array() import numpy as np +fffpy_import_lapack() -# Standard Kalman filter +# Standard Kalman filter def ols(ndarray Y, ndarray X, int axis=0): """ (beta, norm_var_beta, s2, dof) = ols(Y, X, axis=0). diff --git a/nipy/labs/glm/setup.py b/nipy/labs/glm/setup.py index f53457fe5b..029253d9d6 100644 --- a/nipy/labs/glm/setup.py +++ b/nipy/labs/glm/setup.py @@ -3,23 +3,13 @@ def configuration(parent_package='', top_path=None): from numpy.distutils.misc_util import Configuration - # We need this because libcstat.a is linked to lapack, which can - # be a fortran library, and the linker needs this information. - from numpy.distutils.system_info import get_info - lapack_info = get_info('lapack_opt', 0) - if 'libraries' not in lapack_info: - # But on OSX that may not give us what we need, so try with 'lapack' - # instead. NOTE: scipy.linalg uses lapack_opt, not 'lapack'... - lapack_info = get_info('lapack', 0) config = Configuration('glm', parent_package, top_path) config.add_subpackage('tests') config.add_subpackage('benchmarks') config.add_extension( 'kalman', sources=['kalman.pyx'], - libraries=['cstat'], - extra_info=lapack_info, - ) + libraries=['cstat']) return config diff --git a/nipy/labs/group/glm_twolevel.c b/nipy/labs/group/glm_twolevel.c index 60d936e9e5..d9981bdf76 100644 --- a/nipy/labs/group/glm_twolevel.c +++ b/nipy/labs/group/glm_twolevel.c @@ -1,12 +1,25 @@ -/* Generated by Cython 0.17.4 on Sat Jan 12 17:27:36 2013 */ +/* Generated by Cython 0.20.1post0 (Debian 0.20.1+git90-g0e6e38e-1ubuntu2) on Mon Nov 10 15:45:10 2014 */ #define PY_SSIZE_T_CLEAN +#ifndef CYTHON_USE_PYLONG_INTERNALS +#ifdef PYLONG_BITS_IN_DIGIT +#define CYTHON_USE_PYLONG_INTERNALS 0 +#else +#include "pyconfig.h" +#ifdef PYLONG_BITS_IN_DIGIT +#define CYTHON_USE_PYLONG_INTERNALS 1 +#else +#define CYTHON_USE_PYLONG_INTERNALS 0 +#endif +#endif +#endif #include "Python.h" #ifndef Py_PYTHON_H #error Python headers needed to compile C extensions, please install development version of Python. #elif PY_VERSION_HEX < 0x02040000 #error Cython requires Python 2.4+. #else +#define CYTHON_ABI "0_20_1post0" #include /* For offsetof */ #ifndef offsetof #define offsetof(type, member) ( (size_t) & ((type*)0) -> member ) @@ -41,6 +54,9 @@ #define CYTHON_COMPILING_IN_PYPY 0 #define CYTHON_COMPILING_IN_CPYTHON 1 #endif +#if CYTHON_COMPILING_IN_PYPY +#define Py_OptimizeFlag 0 +#endif #if PY_VERSION_HEX < 0x02050000 typedef int Py_ssize_t; #define PY_SSIZE_T_MAX INT_MAX @@ -48,7 +64,7 @@ #define PY_FORMAT_SIZE_T "" #define CYTHON_FORMAT_SSIZE_T "" #define PyInt_FromSsize_t(z) PyInt_FromLong(z) - #define PyInt_AsSsize_t(o) __Pyx_PyInt_AsInt(o) + #define PyInt_AsSsize_t(o) __Pyx_PyInt_As_int(o) #define PyNumber_Index(o) ((PyNumber_Check(o) && !PyFloat_Check(o)) ? PyNumber_Int(o) : \ (PyErr_Format(PyExc_TypeError, \ "expected index value, got %.200s", Py_TYPE(o)->tp_name), \ @@ -100,13 +116,15 @@ #if PY_MAJOR_VERSION < 3 #define __Pyx_BUILTIN_MODULE_NAME "__builtin__" #define __Pyx_PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) \ - PyCode_New(a, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) + PyCode_New(a+k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) + #define __Pyx_DefaultClassType PyClass_Type #else #define __Pyx_BUILTIN_MODULE_NAME "builtins" #define __Pyx_PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) \ PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) + #define __Pyx_DefaultClassType PyType_Type #endif -#if PY_MAJOR_VERSION < 3 && PY_MINOR_VERSION < 6 +#if PY_VERSION_HEX < 0x02060000 #define PyUnicode_FromString(s) PyUnicode_Decode(s, strlen(s), "UTF-8", "strict") #endif #if PY_MAJOR_VERSION >= 3 @@ -116,19 +134,47 @@ #if (PY_VERSION_HEX < 0x02060000) || (PY_MAJOR_VERSION >= 3) #define Py_TPFLAGS_HAVE_NEWBUFFER 0 #endif +#if PY_VERSION_HEX < 0x02060000 + #define Py_TPFLAGS_HAVE_VERSION_TAG 0 +#endif +#if PY_VERSION_HEX < 0x02060000 && !defined(Py_TPFLAGS_IS_ABSTRACT) + #define Py_TPFLAGS_IS_ABSTRACT 0 +#endif +#if PY_VERSION_HEX < 0x030400a1 && !defined(Py_TPFLAGS_HAVE_FINALIZE) + #define Py_TPFLAGS_HAVE_FINALIZE 0 +#endif #if PY_VERSION_HEX > 0x03030000 && defined(PyUnicode_KIND) #define CYTHON_PEP393_ENABLED 1 #define __Pyx_PyUnicode_READY(op) (likely(PyUnicode_IS_READY(op)) ? \ 0 : _PyUnicode_Ready((PyObject *)(op))) #define __Pyx_PyUnicode_GET_LENGTH(u) PyUnicode_GET_LENGTH(u) #define __Pyx_PyUnicode_READ_CHAR(u, i) PyUnicode_READ_CHAR(u, i) + #define __Pyx_PyUnicode_KIND(u) PyUnicode_KIND(u) + #define __Pyx_PyUnicode_DATA(u) PyUnicode_DATA(u) #define __Pyx_PyUnicode_READ(k, d, i) PyUnicode_READ(k, d, i) #else #define CYTHON_PEP393_ENABLED 0 #define __Pyx_PyUnicode_READY(op) (0) #define __Pyx_PyUnicode_GET_LENGTH(u) PyUnicode_GET_SIZE(u) #define __Pyx_PyUnicode_READ_CHAR(u, i) ((Py_UCS4)(PyUnicode_AS_UNICODE(u)[i])) - #define __Pyx_PyUnicode_READ(k, d, i) ((k=k), (Py_UCS4)(((Py_UNICODE*)d)[i])) + #define __Pyx_PyUnicode_KIND(u) (sizeof(Py_UNICODE)) + #define __Pyx_PyUnicode_DATA(u) ((void*)PyUnicode_AS_UNICODE(u)) + #define __Pyx_PyUnicode_READ(k, d, i) ((void)(k), (Py_UCS4)(((Py_UNICODE*)d)[i])) +#endif +#if CYTHON_COMPILING_IN_PYPY + #define __Pyx_PyUnicode_Concat(a, b) PyNumber_Add(a, b) + #define __Pyx_PyUnicode_ConcatSafe(a, b) PyNumber_Add(a, b) +#else + #define __Pyx_PyUnicode_Concat(a, b) PyUnicode_Concat(a, b) + #define __Pyx_PyUnicode_ConcatSafe(a, b) ((unlikely((a) == Py_None) || unlikely((b) == Py_None)) ? \ + PyNumber_Add(a, b) : __Pyx_PyUnicode_Concat(a, b)) +#endif +#define __Pyx_PyString_FormatSafe(a, b) ((unlikely((a) == Py_None)) ? PyNumber_Remainder(a, b) : __Pyx_PyString_Format(a, b)) +#define __Pyx_PyUnicode_FormatSafe(a, b) ((unlikely((a) == Py_None)) ? PyNumber_Remainder(a, b) : PyUnicode_Format(a, b)) +#if PY_MAJOR_VERSION >= 3 + #define __Pyx_PyString_Format(a, b) PyUnicode_Format(a, b) +#else + #define __Pyx_PyString_Format(a, b) PyString_Format(a, b) #endif #if PY_MAJOR_VERSION >= 3 #define PyBaseString_Type PyUnicode_Type @@ -155,6 +201,14 @@ #define PyBytes_Concat PyString_Concat #define PyBytes_ConcatAndDel PyString_ConcatAndDel #endif +#if PY_MAJOR_VERSION >= 3 + #define __Pyx_PyBaseString_Check(obj) PyUnicode_Check(obj) + #define __Pyx_PyBaseString_CheckExact(obj) PyUnicode_CheckExact(obj) +#else + #define __Pyx_PyBaseString_Check(obj) (PyString_CheckExact(obj) || PyUnicode_CheckExact(obj) || \ + PyString_Check(obj) || PyUnicode_Check(obj)) + #define __Pyx_PyBaseString_CheckExact(obj) (PyString_CheckExact(obj) || PyUnicode_CheckExact(obj)) +#endif #if PY_VERSION_HEX < 0x02060000 #define PySet_Check(obj) PyObject_TypeCheck(obj, &PySet_Type) #define PyFrozenSet_Check(obj) PyObject_TypeCheck(obj, &PyFrozenSet_Type) @@ -178,11 +232,12 @@ #define PyInt_AsSsize_t PyLong_AsSsize_t #define PyInt_AsUnsignedLongMask PyLong_AsUnsignedLongMask #define PyInt_AsUnsignedLongLongMask PyLong_AsUnsignedLongLongMask + #define PyNumber_Int PyNumber_Long #endif #if PY_MAJOR_VERSION >= 3 #define PyBoolObject PyLongObject #endif -#if PY_VERSION_HEX < 0x03020000 +#if PY_VERSION_HEX < 0x030200A4 typedef long Py_hash_t; #define __Pyx_PyInt_FromHash_t PyInt_FromLong #define __Pyx_PyInt_AsHash_t PyInt_AsLong @@ -227,6 +282,46 @@ #define __Pyx_NAMESTR(n) (n) #define __Pyx_DOCSTR(n) (n) #endif +#ifndef CYTHON_INLINE + #if defined(__GNUC__) + #define CYTHON_INLINE __inline__ + #elif defined(_MSC_VER) + #define CYTHON_INLINE __inline + #elif defined (__STDC_VERSION__) && __STDC_VERSION__ >= 199901L + #define CYTHON_INLINE inline + #else + #define CYTHON_INLINE + #endif +#endif +#ifndef CYTHON_RESTRICT + #if defined(__GNUC__) + #define CYTHON_RESTRICT __restrict__ + #elif defined(_MSC_VER) && _MSC_VER >= 1400 + #define CYTHON_RESTRICT __restrict + #elif defined (__STDC_VERSION__) && __STDC_VERSION__ >= 199901L + #define CYTHON_RESTRICT restrict + #else + #define CYTHON_RESTRICT + #endif +#endif +#ifdef NAN +#define __PYX_NAN() ((float) NAN) +#else +static CYTHON_INLINE float __PYX_NAN() { + /* Initialize NaN. The sign is irrelevant, an exponent with all bits 1 and + a nonzero mantissa means NaN. If the first bit in the mantissa is 1, it is + a quiet NaN. */ + float value; + memset(&value, 0xFF, sizeof(value)); + return value; +} +#endif +#ifdef __cplusplus +template +void __Pyx_call_destructor(T* x) { + x->~T(); +} +#endif #if PY_MAJOR_VERSION >= 3 @@ -251,6 +346,7 @@ #include #define __PYX_HAVE__nipy__labs__group__glm_twolevel #define __PYX_HAVE_API__nipy__labs__group__glm_twolevel +#include "string.h" #include "stdio.h" #include "stdlib.h" #include "numpy/arrayobject.h" @@ -269,21 +365,6 @@ #define CYTHON_WITHOUT_ASSERTIONS #endif - -/* inline attribute */ -#ifndef CYTHON_INLINE - #if defined(__GNUC__) - #define CYTHON_INLINE __inline__ - #elif defined(_MSC_VER) - #define CYTHON_INLINE __inline - #elif defined (__STDC_VERSION__) && __STDC_VERSION__ >= 199901L - #define CYTHON_INLINE inline - #else - #define CYTHON_INLINE - #endif -#endif - -/* unused attribute */ #ifndef CYTHON_UNUSED # if defined(__GNUC__) # if !(defined(__cplusplus)) || (__GNUC__ > 3 || (__GNUC__ == 3 && __GNUC_MINOR__ >= 4)) @@ -297,46 +378,155 @@ # define CYTHON_UNUSED # endif #endif - -typedef struct {PyObject **p; char *s; const long n; const char* encoding; const char is_unicode; const char is_str; const char intern; } __Pyx_StringTabEntry; /*proto*/ - - -/* Type Conversion Predeclarations */ - -#define __Pyx_PyBytes_FromUString(s) PyBytes_FromString((char*)s) -#define __Pyx_PyBytes_AsUString(s) ((unsigned char*) PyBytes_AsString(s)) - +typedef struct {PyObject **p; char *s; const Py_ssize_t n; const char* encoding; + const char is_unicode; const char is_str; const char intern; } __Pyx_StringTabEntry; /*proto*/ + +#define __PYX_DEFAULT_STRING_ENCODING_IS_ASCII 0 +#define __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT 0 +#define __PYX_DEFAULT_STRING_ENCODING "" +#define __Pyx_PyObject_FromString __Pyx_PyBytes_FromString +#define __Pyx_PyObject_FromStringAndSize __Pyx_PyBytes_FromStringAndSize +#define __Pyx_fits_Py_ssize_t(v, type, is_signed) ( \ + (sizeof(type) < sizeof(Py_ssize_t)) || \ + (sizeof(type) > sizeof(Py_ssize_t) && \ + likely(v < (type)PY_SSIZE_T_MAX || \ + v == (type)PY_SSIZE_T_MAX) && \ + (!is_signed || likely(v > (type)PY_SSIZE_T_MIN || \ + v == (type)PY_SSIZE_T_MIN))) || \ + (sizeof(type) == sizeof(Py_ssize_t) && \ + (is_signed || likely(v < (type)PY_SSIZE_T_MAX || \ + v == (type)PY_SSIZE_T_MAX))) ) +static CYTHON_INLINE char* __Pyx_PyObject_AsString(PyObject*); +static CYTHON_INLINE char* __Pyx_PyObject_AsStringAndSize(PyObject*, Py_ssize_t* length); +#define __Pyx_PyByteArray_FromString(s) PyByteArray_FromStringAndSize((const char*)s, strlen((const char*)s)) +#define __Pyx_PyByteArray_FromStringAndSize(s, l) PyByteArray_FromStringAndSize((const char*)s, l) +#define __Pyx_PyBytes_FromString PyBytes_FromString +#define __Pyx_PyBytes_FromStringAndSize PyBytes_FromStringAndSize +static CYTHON_INLINE PyObject* __Pyx_PyUnicode_FromString(const char*); +#if PY_MAJOR_VERSION < 3 + #define __Pyx_PyStr_FromString __Pyx_PyBytes_FromString + #define __Pyx_PyStr_FromStringAndSize __Pyx_PyBytes_FromStringAndSize +#else + #define __Pyx_PyStr_FromString __Pyx_PyUnicode_FromString + #define __Pyx_PyStr_FromStringAndSize __Pyx_PyUnicode_FromStringAndSize +#endif +#define __Pyx_PyObject_AsSString(s) ((signed char*) __Pyx_PyObject_AsString(s)) +#define __Pyx_PyObject_AsUString(s) ((unsigned char*) __Pyx_PyObject_AsString(s)) +#define __Pyx_PyObject_FromUString(s) __Pyx_PyObject_FromString((const char*)s) +#define __Pyx_PyBytes_FromUString(s) __Pyx_PyBytes_FromString((const char*)s) +#define __Pyx_PyByteArray_FromUString(s) __Pyx_PyByteArray_FromString((const char*)s) +#define __Pyx_PyStr_FromUString(s) __Pyx_PyStr_FromString((const char*)s) +#define __Pyx_PyUnicode_FromUString(s) __Pyx_PyUnicode_FromString((const char*)s) +#if PY_MAJOR_VERSION < 3 +static CYTHON_INLINE size_t __Pyx_Py_UNICODE_strlen(const Py_UNICODE *u) +{ + const Py_UNICODE *u_end = u; + while (*u_end++) ; + return u_end - u - 1; +} +#else +#define __Pyx_Py_UNICODE_strlen Py_UNICODE_strlen +#endif +#define __Pyx_PyUnicode_FromUnicode(u) PyUnicode_FromUnicode(u, __Pyx_Py_UNICODE_strlen(u)) +#define __Pyx_PyUnicode_FromUnicodeAndLength PyUnicode_FromUnicode +#define __Pyx_PyUnicode_AsUnicode PyUnicode_AsUnicode #define __Pyx_Owned_Py_None(b) (Py_INCREF(Py_None), Py_None) #define __Pyx_PyBool_FromLong(b) ((b) ? (Py_INCREF(Py_True), Py_True) : (Py_INCREF(Py_False), Py_False)) static CYTHON_INLINE int __Pyx_PyObject_IsTrue(PyObject*); static CYTHON_INLINE PyObject* __Pyx_PyNumber_Int(PyObject* x); - static CYTHON_INLINE Py_ssize_t __Pyx_PyIndex_AsSsize_t(PyObject*); static CYTHON_INLINE PyObject * __Pyx_PyInt_FromSize_t(size_t); -static CYTHON_INLINE size_t __Pyx_PyInt_AsSize_t(PyObject*); - #if CYTHON_COMPILING_IN_CPYTHON #define __pyx_PyFloat_AsDouble(x) (PyFloat_CheckExact(x) ? PyFloat_AS_DOUBLE(x) : PyFloat_AsDouble(x)) #else #define __pyx_PyFloat_AsDouble(x) PyFloat_AsDouble(x) #endif #define __pyx_PyFloat_AsFloat(x) ((float) __pyx_PyFloat_AsDouble(x)) +#if PY_MAJOR_VERSION < 3 && __PYX_DEFAULT_STRING_ENCODING_IS_ASCII +static int __Pyx_sys_getdefaultencoding_not_ascii; +static int __Pyx_init_sys_getdefaultencoding_params(void) { + PyObject* sys = NULL; + PyObject* default_encoding = NULL; + PyObject* ascii_chars_u = NULL; + PyObject* ascii_chars_b = NULL; + sys = PyImport_ImportModule("sys"); + if (sys == NULL) goto bad; + default_encoding = PyObject_CallMethod(sys, (char*) (const char*) "getdefaultencoding", NULL); + if (default_encoding == NULL) goto bad; + if (strcmp(PyBytes_AsString(default_encoding), "ascii") == 0) { + __Pyx_sys_getdefaultencoding_not_ascii = 0; + } else { + const char* default_encoding_c = PyBytes_AS_STRING(default_encoding); + char ascii_chars[128]; + int c; + for (c = 0; c < 128; c++) { + ascii_chars[c] = c; + } + __Pyx_sys_getdefaultencoding_not_ascii = 1; + ascii_chars_u = PyUnicode_DecodeASCII(ascii_chars, 128, NULL); + if (ascii_chars_u == NULL) goto bad; + ascii_chars_b = PyUnicode_AsEncodedString(ascii_chars_u, default_encoding_c, NULL); + if (ascii_chars_b == NULL || strncmp(ascii_chars, PyBytes_AS_STRING(ascii_chars_b), 128) != 0) { + PyErr_Format( + PyExc_ValueError, + "This module compiled with c_string_encoding=ascii, but default encoding '%.200s' is not a superset of ascii.", + default_encoding_c); + goto bad; + } + } + Py_XDECREF(sys); + Py_XDECREF(default_encoding); + Py_XDECREF(ascii_chars_u); + Py_XDECREF(ascii_chars_b); + return 0; +bad: + Py_XDECREF(sys); + Py_XDECREF(default_encoding); + Py_XDECREF(ascii_chars_u); + Py_XDECREF(ascii_chars_b); + return -1; +} +#endif +#if __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT && PY_MAJOR_VERSION >= 3 +#define __Pyx_PyUnicode_FromStringAndSize(c_str, size) PyUnicode_DecodeUTF8(c_str, size, NULL) +#else +#define __Pyx_PyUnicode_FromStringAndSize(c_str, size) PyUnicode_Decode(c_str, size, __PYX_DEFAULT_STRING_ENCODING, NULL) +#if __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT +static char* __PYX_DEFAULT_STRING_ENCODING; +static int __Pyx_init_sys_getdefaultencoding_params(void) { + PyObject* sys = NULL; + PyObject* default_encoding = NULL; + char* default_encoding_c; + sys = PyImport_ImportModule("sys"); + if (sys == NULL) goto bad; + default_encoding = PyObject_CallMethod(sys, (char*) (const char*) "getdefaultencoding", NULL); + if (default_encoding == NULL) goto bad; + default_encoding_c = PyBytes_AS_STRING(default_encoding); + __PYX_DEFAULT_STRING_ENCODING = (char*) malloc(strlen(default_encoding_c)); + strcpy(__PYX_DEFAULT_STRING_ENCODING, default_encoding_c); + Py_DECREF(sys); + Py_DECREF(default_encoding); + return 0; +bad: + Py_XDECREF(sys); + Py_XDECREF(default_encoding); + return -1; +} +#endif +#endif + -#ifdef __GNUC__ - /* Test for GCC > 2.95 */ - #if __GNUC__ > 2 || (__GNUC__ == 2 && (__GNUC_MINOR__ > 95)) - #define likely(x) __builtin_expect(!!(x), 1) - #define unlikely(x) __builtin_expect(!!(x), 0) - #else /* __GNUC__ > 2 ... */ - #define likely(x) (x) - #define unlikely(x) (x) - #endif /* __GNUC__ > 2 ... */ -#else /* __GNUC__ */ +/* Test for GCC > 2.95 */ +#if defined(__GNUC__) && (__GNUC__ > 2 || (__GNUC__ == 2 && (__GNUC_MINOR__ > 95))) + #define likely(x) __builtin_expect(!!(x), 1) + #define unlikely(x) __builtin_expect(!!(x), 0) +#else /* !__GNUC__ or GCC < 2.95 */ #define likely(x) (x) #define unlikely(x) (x) #endif /* __GNUC__ */ - + static PyObject *__pyx_m; +static PyObject *__pyx_d; static PyObject *__pyx_b; static PyObject *__pyx_empty_tuple; static PyObject *__pyx_empty_bytes; @@ -369,11 +559,12 @@ static const char *__pyx_filename; static const char *__pyx_f[] = { "glm_twolevel.pyx", - "numpy.pxd", + "fffpy_import_lapack.pxi", + "__init__.pxd", "type.pxd", }; -/* "numpy.pxd":723 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":723 * # in Cython to enable them only on the right systems. * * ctypedef npy_int8 int8_t # <<<<<<<<<<<<<< @@ -382,7 +573,7 @@ static const char *__pyx_f[] = { */ typedef npy_int8 __pyx_t_5numpy_int8_t; -/* "numpy.pxd":724 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":724 * * ctypedef npy_int8 int8_t * ctypedef npy_int16 int16_t # <<<<<<<<<<<<<< @@ -391,7 +582,7 @@ typedef npy_int8 __pyx_t_5numpy_int8_t; */ typedef npy_int16 __pyx_t_5numpy_int16_t; -/* "numpy.pxd":725 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":725 * ctypedef npy_int8 int8_t * ctypedef npy_int16 int16_t * ctypedef npy_int32 int32_t # <<<<<<<<<<<<<< @@ -400,7 +591,7 @@ typedef npy_int16 __pyx_t_5numpy_int16_t; */ typedef npy_int32 __pyx_t_5numpy_int32_t; -/* "numpy.pxd":726 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":726 * ctypedef npy_int16 int16_t * ctypedef npy_int32 int32_t * ctypedef npy_int64 int64_t # <<<<<<<<<<<<<< @@ -409,7 +600,7 @@ typedef npy_int32 __pyx_t_5numpy_int32_t; */ typedef npy_int64 __pyx_t_5numpy_int64_t; -/* "numpy.pxd":730 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":730 * #ctypedef npy_int128 int128_t * * ctypedef npy_uint8 uint8_t # <<<<<<<<<<<<<< @@ -418,7 +609,7 @@ typedef npy_int64 __pyx_t_5numpy_int64_t; */ typedef npy_uint8 __pyx_t_5numpy_uint8_t; -/* "numpy.pxd":731 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":731 * * ctypedef npy_uint8 uint8_t * ctypedef npy_uint16 uint16_t # <<<<<<<<<<<<<< @@ -427,7 +618,7 @@ typedef npy_uint8 __pyx_t_5numpy_uint8_t; */ typedef npy_uint16 __pyx_t_5numpy_uint16_t; -/* "numpy.pxd":732 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":732 * ctypedef npy_uint8 uint8_t * ctypedef npy_uint16 uint16_t * ctypedef npy_uint32 uint32_t # <<<<<<<<<<<<<< @@ -436,7 +627,7 @@ typedef npy_uint16 __pyx_t_5numpy_uint16_t; */ typedef npy_uint32 __pyx_t_5numpy_uint32_t; -/* "numpy.pxd":733 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":733 * ctypedef npy_uint16 uint16_t * ctypedef npy_uint32 uint32_t * ctypedef npy_uint64 uint64_t # <<<<<<<<<<<<<< @@ -445,7 +636,7 @@ typedef npy_uint32 __pyx_t_5numpy_uint32_t; */ typedef npy_uint64 __pyx_t_5numpy_uint64_t; -/* "numpy.pxd":737 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":737 * #ctypedef npy_uint128 uint128_t * * ctypedef npy_float32 float32_t # <<<<<<<<<<<<<< @@ -454,7 +645,7 @@ typedef npy_uint64 __pyx_t_5numpy_uint64_t; */ typedef npy_float32 __pyx_t_5numpy_float32_t; -/* "numpy.pxd":738 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":738 * * ctypedef npy_float32 float32_t * ctypedef npy_float64 float64_t # <<<<<<<<<<<<<< @@ -463,7 +654,7 @@ typedef npy_float32 __pyx_t_5numpy_float32_t; */ typedef npy_float64 __pyx_t_5numpy_float64_t; -/* "numpy.pxd":747 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":747 * # The int types are mapped a bit surprising -- * # numpy.int corresponds to 'l' and numpy.long to 'q' * ctypedef npy_long int_t # <<<<<<<<<<<<<< @@ -472,7 +663,7 @@ typedef npy_float64 __pyx_t_5numpy_float64_t; */ typedef npy_long __pyx_t_5numpy_int_t; -/* "numpy.pxd":748 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":748 * # numpy.int corresponds to 'l' and numpy.long to 'q' * ctypedef npy_long int_t * ctypedef npy_longlong long_t # <<<<<<<<<<<<<< @@ -481,7 +672,7 @@ typedef npy_long __pyx_t_5numpy_int_t; */ typedef npy_longlong __pyx_t_5numpy_long_t; -/* "numpy.pxd":749 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":749 * ctypedef npy_long int_t * ctypedef npy_longlong long_t * ctypedef npy_longlong longlong_t # <<<<<<<<<<<<<< @@ -490,7 +681,7 @@ typedef npy_longlong __pyx_t_5numpy_long_t; */ typedef npy_longlong __pyx_t_5numpy_longlong_t; -/* "numpy.pxd":751 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":751 * ctypedef npy_longlong longlong_t * * ctypedef npy_ulong uint_t # <<<<<<<<<<<<<< @@ -499,7 +690,7 @@ typedef npy_longlong __pyx_t_5numpy_longlong_t; */ typedef npy_ulong __pyx_t_5numpy_uint_t; -/* "numpy.pxd":752 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":752 * * ctypedef npy_ulong uint_t * ctypedef npy_ulonglong ulong_t # <<<<<<<<<<<<<< @@ -508,7 +699,7 @@ typedef npy_ulong __pyx_t_5numpy_uint_t; */ typedef npy_ulonglong __pyx_t_5numpy_ulong_t; -/* "numpy.pxd":753 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":753 * ctypedef npy_ulong uint_t * ctypedef npy_ulonglong ulong_t * ctypedef npy_ulonglong ulonglong_t # <<<<<<<<<<<<<< @@ -517,7 +708,7 @@ typedef npy_ulonglong __pyx_t_5numpy_ulong_t; */ typedef npy_ulonglong __pyx_t_5numpy_ulonglong_t; -/* "numpy.pxd":755 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":755 * ctypedef npy_ulonglong ulonglong_t * * ctypedef npy_intp intp_t # <<<<<<<<<<<<<< @@ -526,7 +717,7 @@ typedef npy_ulonglong __pyx_t_5numpy_ulonglong_t; */ typedef npy_intp __pyx_t_5numpy_intp_t; -/* "numpy.pxd":756 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":756 * * ctypedef npy_intp intp_t * ctypedef npy_uintp uintp_t # <<<<<<<<<<<<<< @@ -535,7 +726,7 @@ typedef npy_intp __pyx_t_5numpy_intp_t; */ typedef npy_uintp __pyx_t_5numpy_uintp_t; -/* "numpy.pxd":758 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":758 * ctypedef npy_uintp uintp_t * * ctypedef npy_double float_t # <<<<<<<<<<<<<< @@ -544,7 +735,7 @@ typedef npy_uintp __pyx_t_5numpy_uintp_t; */ typedef npy_double __pyx_t_5numpy_float_t; -/* "numpy.pxd":759 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":759 * * ctypedef npy_double float_t * ctypedef npy_double double_t # <<<<<<<<<<<<<< @@ -553,7 +744,7 @@ typedef npy_double __pyx_t_5numpy_float_t; */ typedef npy_double __pyx_t_5numpy_double_t; -/* "numpy.pxd":760 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":760 * ctypedef npy_double float_t * ctypedef npy_double double_t * ctypedef npy_longdouble longdouble_t # <<<<<<<<<<<<<< @@ -562,12 +753,12 @@ typedef npy_double __pyx_t_5numpy_double_t; */ typedef npy_longdouble __pyx_t_5numpy_longdouble_t; -/* "fff.pxd":9 +/* "fff.pxd":10 * * # Redefine size_t * ctypedef unsigned long int size_t # <<<<<<<<<<<<<< * - * + * # Exports from fff_base.h */ typedef unsigned long __pyx_t_3fff_size_t; #if CYTHON_CCOMPLEX @@ -593,7 +784,7 @@ typedef unsigned long __pyx_t_3fff_size_t; /*--- Type declarations ---*/ -/* "numpy.pxd":762 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":762 * ctypedef npy_longdouble longdouble_t * * ctypedef npy_cfloat cfloat_t # <<<<<<<<<<<<<< @@ -602,7 +793,7 @@ typedef unsigned long __pyx_t_3fff_size_t; */ typedef npy_cfloat __pyx_t_5numpy_cfloat_t; -/* "numpy.pxd":763 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":763 * * ctypedef npy_cfloat cfloat_t * ctypedef npy_cdouble cdouble_t # <<<<<<<<<<<<<< @@ -611,7 +802,7 @@ typedef npy_cfloat __pyx_t_5numpy_cfloat_t; */ typedef npy_cdouble __pyx_t_5numpy_cdouble_t; -/* "numpy.pxd":764 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":764 * ctypedef npy_cfloat cfloat_t * ctypedef npy_cdouble cdouble_t * ctypedef npy_clongdouble clongdouble_t # <<<<<<<<<<<<<< @@ -620,7 +811,7 @@ typedef npy_cdouble __pyx_t_5numpy_cdouble_t; */ typedef npy_clongdouble __pyx_t_5numpy_clongdouble_t; -/* "numpy.pxd":766 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":766 * ctypedef npy_clongdouble clongdouble_t * * ctypedef npy_cdouble complex_t # <<<<<<<<<<<<<< @@ -679,10 +870,35 @@ typedef npy_cdouble __pyx_t_5numpy_complex_t; #define __Pyx_XGOTREF(r) #define __Pyx_XGIVEREF(r) #endif /* CYTHON_REFNANNY */ +#define __Pyx_XDECREF_SET(r, v) do { \ + PyObject *tmp = (PyObject *) r; \ + r = v; __Pyx_XDECREF(tmp); \ + } while (0) +#define __Pyx_DECREF_SET(r, v) do { \ + PyObject *tmp = (PyObject *) r; \ + r = v; __Pyx_DECREF(tmp); \ + } while (0) #define __Pyx_CLEAR(r) do { PyObject* tmp = ((PyObject*)(r)); r = NULL; __Pyx_DECREF(tmp);} while(0) #define __Pyx_XCLEAR(r) do { if((r) != NULL) {PyObject* tmp = ((PyObject*)(r)); r = NULL; __Pyx_DECREF(tmp);}} while(0) -static PyObject *__Pyx_GetName(PyObject *dict, PyObject *name); /*proto*/ +#if CYTHON_COMPILING_IN_CPYTHON +static CYTHON_INLINE PyObject* __Pyx_PyObject_GetAttrStr(PyObject* obj, PyObject* attr_name) { + PyTypeObject* tp = Py_TYPE(obj); + if (likely(tp->tp_getattro)) + return tp->tp_getattro(obj, attr_name); +#if PY_MAJOR_VERSION < 3 + if (likely(tp->tp_getattr)) + return tp->tp_getattr(obj, PyString_AS_STRING(attr_name)); +#endif + return PyObject_GetAttr(obj, attr_name); +} +#else +#define __Pyx_PyObject_GetAttrStr(o,n) PyObject_GetAttr(o,n) +#endif + +static PyObject *__Pyx_GetBuiltinName(PyObject *name); /*proto*/ + +static CYTHON_INLINE PyObject *__Pyx_GetModuleGlobalName(PyObject *name); /*proto*/ static void __Pyx_RaiseArgtupleInvalid(const char* func_name, int exact, Py_ssize_t num_min, Py_ssize_t num_max, Py_ssize_t num_found); /*proto*/ @@ -693,13 +909,19 @@ static int __Pyx_ParseOptionalKeywords(PyObject *kwds, PyObject **argnames[], \ PyObject *kwds2, PyObject *values[], Py_ssize_t num_pos_args, \ const char* function_name); /*proto*/ -static int __Pyx_ArgTypeTest(PyObject *obj, PyTypeObject *type, int none_allowed, +static CYTHON_INLINE int __Pyx_ArgTypeTest(PyObject *obj, PyTypeObject *type, int none_allowed, const char *name, int exact); /*proto*/ +#if CYTHON_COMPILING_IN_CPYTHON +static CYTHON_INLINE PyObject* __Pyx_PyObject_Call(PyObject *func, PyObject *arg, PyObject *kw); /*proto*/ +#else +#define __Pyx_PyObject_Call(func, arg, kw) PyObject_Call(func, arg, kw) +#endif + static CYTHON_INLINE int __Pyx_TypeTest(PyObject *obj, PyTypeObject *type); /*proto*/ #if CYTHON_COMPILING_IN_CPYTHON -static CYTHON_INLINE int __Pyx_PyList_Append(PyObject* list, PyObject* x) { +static CYTHON_INLINE int __Pyx_ListComp_Append(PyObject* list, PyObject* x) { PyListObject* L = (PyListObject*) list; Py_ssize_t len = Py_SIZE(list); if (likely(L->allocated > len)) { @@ -711,52 +933,17 @@ static CYTHON_INLINE int __Pyx_PyList_Append(PyObject* list, PyObject* x) { return PyList_Append(list, x); } #else -#define __Pyx_PyList_Append(L,x) PyList_Append(L,x) +#define __Pyx_ListComp_Append(L,x) PyList_Append(L,x) #endif -#define __Pyx_SetItemInt(o, i, v, size, to_py_func) (((size) <= sizeof(Py_ssize_t)) ? \ - __Pyx_SetItemInt_Fast(o, i, v) : \ - __Pyx_SetItemInt_Generic(o, to_py_func(i), v)) -static CYTHON_INLINE int __Pyx_SetItemInt_Generic(PyObject *o, PyObject *j, PyObject *v) { - int r; - if (!j) return -1; - r = PyObject_SetItem(o, j, v); - Py_DECREF(j); - return r; -} -static CYTHON_INLINE int __Pyx_SetItemInt_Fast(PyObject *o, Py_ssize_t i, PyObject *v) { -#if CYTHON_COMPILING_IN_CPYTHON - if (PyList_CheckExact(o)) { - Py_ssize_t n = (likely(i >= 0)) ? i : i + PyList_GET_SIZE(o); - if (likely((n >= 0) & (n < PyList_GET_SIZE(o)))) { - PyObject* old = PyList_GET_ITEM(o, n); - Py_INCREF(v); - PyList_SET_ITEM(o, n, v); - Py_DECREF(old); - return 1; - } - } else { /* inlined PySequence_SetItem() */ - PySequenceMethods *m = Py_TYPE(o)->tp_as_sequence; - if (likely(m && m->sq_ass_item)) { - if (unlikely(i < 0) && likely(m->sq_length)) { - Py_ssize_t l = m->sq_length(o); - if (unlikely(l < 0)) return -1; - i += l; - } - return m->sq_ass_item(o, i, v); - } - } -#else -#if CYTHON_COMPILING_IN_PYPY - if (PySequence_Check(o) && !PyDict_Check(o)) { -#else - if (PySequence_Check(o)) { -#endif - return PySequence_SetItem(o, i, v); - } -#endif - return __Pyx_SetItemInt_Generic(o, PyInt_FromSsize_t(i), v); -} +#define __Pyx_SetItemInt(o, i, v, type, is_signed, to_py_func, is_list, wraparound, boundscheck) \ + (__Pyx_fits_Py_ssize_t(i, type, is_signed) ? \ + __Pyx_SetItemInt_Fast(o, (Py_ssize_t)i, v, is_list, wraparound, boundscheck) : \ + (is_list ? (PyErr_SetString(PyExc_IndexError, "list assignment index out of range"), -1) : \ + __Pyx_SetItemInt_Generic(o, to_py_func(i), v))) +static CYTHON_INLINE int __Pyx_SetItemInt_Generic(PyObject *o, PyObject *j, PyObject *v); +static CYTHON_INLINE int __Pyx_SetItemInt_Fast(PyObject *o, Py_ssize_t i, PyObject *v, + int is_list, int wraparound, int boundscheck); static CYTHON_INLINE void __Pyx_RaiseTooManyValuesError(Py_ssize_t expected); @@ -773,9 +960,15 @@ static void __Pyx_Raise(PyObject *type, PyObject *value, PyObject *tb, PyObject static CYTHON_INLINE void __Pyx_RaiseNoneNotIterableError(void); -static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, long level); /*proto*/ +static PyObject* __Pyx_ImportFrom(PyObject* module, PyObject* name); /*proto*/ -static CYTHON_INLINE PyObject *__Pyx_PyInt_to_py_Py_intptr_t(Py_intptr_t); +static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, int level); /*proto*/ + +static CYTHON_INLINE int __Pyx_PyInt_As_int(PyObject *); + +static CYTHON_INLINE PyObject* __Pyx_PyInt_From_int(int value); + +static CYTHON_INLINE PyObject* __Pyx_PyInt_From_Py_intptr_t(Py_intptr_t value); #if CYTHON_CCOMPLEX #ifdef __cplusplus @@ -789,7 +982,7 @@ static CYTHON_INLINE PyObject *__Pyx_PyInt_to_py_Py_intptr_t(Py_intptr_t); #define __Pyx_CREAL(z) ((z).real) #define __Pyx_CIMAG(z) ((z).imag) #endif -#if defined(_WIN32) && defined(__cplusplus) && CYTHON_CCOMPLEX +#if (defined(_WIN32) || defined(__clang__)) && defined(__cplusplus) && CYTHON_CCOMPLEX #define __Pyx_SET_CREAL(z,x) ((z).real(x)) #define __Pyx_SET_CIMAG(z,y) ((z).imag(y)) #else @@ -875,37 +1068,9 @@ static CYTHON_INLINE __pyx_t_double_complex __pyx_t_double_complex_from_parts(do #endif #endif -static CYTHON_INLINE unsigned char __Pyx_PyInt_AsUnsignedChar(PyObject *); - -static CYTHON_INLINE unsigned short __Pyx_PyInt_AsUnsignedShort(PyObject *); - -static CYTHON_INLINE unsigned int __Pyx_PyInt_AsUnsignedInt(PyObject *); - -static CYTHON_INLINE char __Pyx_PyInt_AsChar(PyObject *); - -static CYTHON_INLINE short __Pyx_PyInt_AsShort(PyObject *); - -static CYTHON_INLINE int __Pyx_PyInt_AsInt(PyObject *); - -static CYTHON_INLINE signed char __Pyx_PyInt_AsSignedChar(PyObject *); - -static CYTHON_INLINE signed short __Pyx_PyInt_AsSignedShort(PyObject *); - -static CYTHON_INLINE signed int __Pyx_PyInt_AsSignedInt(PyObject *); - -static CYTHON_INLINE int __Pyx_PyInt_AsLongDouble(PyObject *); +static CYTHON_INLINE PyObject* __Pyx_PyInt_From_long(long value); -static CYTHON_INLINE unsigned long __Pyx_PyInt_AsUnsignedLong(PyObject *); - -static CYTHON_INLINE unsigned PY_LONG_LONG __Pyx_PyInt_AsUnsignedLongLong(PyObject *); - -static CYTHON_INLINE long __Pyx_PyInt_AsLong(PyObject *); - -static CYTHON_INLINE PY_LONG_LONG __Pyx_PyInt_AsLongLong(PyObject *); - -static CYTHON_INLINE signed long __Pyx_PyInt_AsSignedLong(PyObject *); - -static CYTHON_INLINE signed PY_LONG_LONG __Pyx_PyInt_AsSignedLongLong(PyObject *); +static CYTHON_INLINE long __Pyx_PyInt_As_long(PyObject *); static int __Pyx_check_binary_version(void); @@ -945,6 +1110,8 @@ static int __Pyx_InitStrings(__Pyx_StringTabEntry *t); /*proto*/ /* Module declarations from 'cpython.ref' */ +/* Module declarations from 'libc.string' */ + /* Module declarations from 'libc.stdio' */ /* Module declarations from 'cpython.object' */ @@ -969,6 +1136,7 @@ static CYTHON_INLINE char *__pyx_f_5numpy__util_dtypestring(PyArray_Descr *, cha /* Module declarations from 'fff' */ /* Module declarations from 'nipy.labs.group.glm_twolevel' */ +static PyObject *__pyx_f_4nipy_4labs_5group_12glm_twolevel_fffpy_import_lapack(void); /*proto*/ #define __Pyx_MODULE_NAME "nipy.labs.group.glm_twolevel" int __pyx_module_is_main_nipy__labs__group__glm_twolevel = 0; @@ -981,271 +1149,760 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_12glm_twolevel_2log_likelihood(CYTH static PyObject *__pyx_pf_4nipy_4labs_5group_12glm_twolevel_4log_likelihood_ratio(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_Y, PyObject *__pyx_v_VY, PyObject *__pyx_v_X, PyObject *__pyx_v_C, int __pyx_v_axis, int __pyx_v_niter); /* proto */ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, Py_buffer *__pyx_v_info, int __pyx_v_flags); /* proto */ static void __pyx_pf_5numpy_7ndarray_2__releasebuffer__(PyArrayObject *__pyx_v_self, Py_buffer *__pyx_v_info); /* proto */ -static char __pyx_k_3[] = "ndarray is not C contiguous"; -static char __pyx_k_5[] = "ndarray is not Fortran contiguous"; -static char __pyx_k_7[] = "Non-native byte order not supported"; -static char __pyx_k_9[] = "unknown dtype code in numpy.pxd (%d)"; -static char __pyx_k_10[] = "Format string allocated too short, see comment in numpy.pxd"; -static char __pyx_k_13[] = "Format string allocated too short."; -static char __pyx_k_15[] = "\nTwo-level general linear model for group analyses.\n\nAuthor: Alexis Roche, 2008.\n"; -static char __pyx_k_16[] = "0.1"; -static char __pyx_k_19[] = "/Users/mb312/dev_trees/nipy/nipy/labs/group/glm_twolevel.pyx"; -static char __pyx_k_20[] = "nipy.labs.group.glm_twolevel"; -static char __pyx_k_25[] = "log_likelihood_ratio"; -static char __pyx_k__A[] = "A"; -static char __pyx_k__B[] = "B"; -static char __pyx_k__C[] = "C"; -static char __pyx_k__H[] = "H"; -static char __pyx_k__I[] = "I"; -static char __pyx_k__L[] = "L"; -static char __pyx_k__O[] = "O"; -static char __pyx_k__P[] = "P"; -static char __pyx_k__Q[] = "Q"; -static char __pyx_k__X[] = "X"; -static char __pyx_k__Y[] = "Y"; -static char __pyx_k__b[] = "b"; -static char __pyx_k__d[] = "d"; -static char __pyx_k__f[] = "f"; -static char __pyx_k__g[] = "g"; -static char __pyx_k__h[] = "h"; -static char __pyx_k__i[] = "i"; -static char __pyx_k__l[] = "l"; -static char __pyx_k__n[] = "n"; -static char __pyx_k__p[] = "p"; -static char __pyx_k__q[] = "q"; -static char __pyx_k__x[] = "x"; -static char __pyx_k__y[] = "y"; -static char __pyx_k__LL[] = "LL"; -static char __pyx_k__S2[] = "S2"; -static char __pyx_k__VY[] = "VY"; -static char __pyx_k__Zd[] = "Zd"; -static char __pyx_k__Zf[] = "Zf"; -static char __pyx_k__Zg[] = "Zg"; -static char __pyx_k__em[] = "em"; -static char __pyx_k__ll[] = "ll"; -static char __pyx_k__np[] = "np"; -static char __pyx_k__s2[] = "s2"; -static char __pyx_k__vy[] = "vy"; -static char __pyx_k__PpX[] = "PpX"; -static char __pyx_k__dot[] = "dot"; -static char __pyx_k__eye[] = "eye"; -static char __pyx_k__inv[] = "inv"; -static char __pyx_k__lda[] = "lda"; -static char __pyx_k__ll0[] = "ll0"; -static char __pyx_k__ppx[] = "ppx"; -static char __pyx_k__tmp[] = "tmp"; -static char __pyx_k__axis[] = "axis"; -static char __pyx_k__dims[] = "dims"; -static char __pyx_k__ndim[] = "ndim"; -static char __pyx_k__pinv[] = "pinv"; -static char __pyx_k__multi[] = "multi"; -static char __pyx_k__niter[] = "niter"; -static char __pyx_k__numpy[] = "numpy"; -static char __pyx_k__range[] = "range"; -static char __pyx_k__shape[] = "shape"; -static char __pyx_k__zeros[] = "zeros"; -static char __pyx_k__linalg[] = "linalg"; -static char __pyx_k__maximum[] = "maximum"; -static char __pyx_k____main__[] = "__main__"; -static char __pyx_k____test__[] = "__test__"; -static char __pyx_k__DEF_NITER[] = "DEF_NITER"; -static char __pyx_k__transpose[] = "transpose"; -static char __pyx_k__ValueError[] = "ValueError"; -static char __pyx_k____version__[] = "__version__"; -static char __pyx_k__RuntimeError[] = "RuntimeError"; -static char __pyx_k__log_likelihood[] = "log_likelihood"; -static PyObject *__pyx_kp_u_10; -static PyObject *__pyx_kp_u_13; -static PyObject *__pyx_kp_s_16; -static PyObject *__pyx_kp_s_19; -static PyObject *__pyx_n_s_20; -static PyObject *__pyx_n_s_25; -static PyObject *__pyx_kp_u_3; -static PyObject *__pyx_kp_u_5; -static PyObject *__pyx_kp_u_7; -static PyObject *__pyx_kp_u_9; -static PyObject *__pyx_n_s__A; -static PyObject *__pyx_n_s__B; -static PyObject *__pyx_n_s__C; -static PyObject *__pyx_n_s__DEF_NITER; -static PyObject *__pyx_n_s__LL; -static PyObject *__pyx_n_s__P; -static PyObject *__pyx_n_s__PpX; -static PyObject *__pyx_n_s__RuntimeError; -static PyObject *__pyx_n_s__S2; -static PyObject *__pyx_n_s__VY; -static PyObject *__pyx_n_s__ValueError; -static PyObject *__pyx_n_s__X; -static PyObject *__pyx_n_s__Y; -static PyObject *__pyx_n_s____main__; -static PyObject *__pyx_n_s____test__; -static PyObject *__pyx_n_s____version__; -static PyObject *__pyx_n_s__axis; -static PyObject *__pyx_n_s__b; -static PyObject *__pyx_n_s__dims; -static PyObject *__pyx_n_s__dot; -static PyObject *__pyx_n_s__em; -static PyObject *__pyx_n_s__eye; -static PyObject *__pyx_n_s__i; -static PyObject *__pyx_n_s__inv; -static PyObject *__pyx_n_s__lda; -static PyObject *__pyx_n_s__linalg; -static PyObject *__pyx_n_s__ll; -static PyObject *__pyx_n_s__ll0; -static PyObject *__pyx_n_s__log_likelihood; -static PyObject *__pyx_n_s__maximum; -static PyObject *__pyx_n_s__multi; -static PyObject *__pyx_n_s__n; -static PyObject *__pyx_n_s__ndim; -static PyObject *__pyx_n_s__niter; -static PyObject *__pyx_n_s__np; -static PyObject *__pyx_n_s__numpy; -static PyObject *__pyx_n_s__p; -static PyObject *__pyx_n_s__pinv; -static PyObject *__pyx_n_s__ppx; -static PyObject *__pyx_n_s__range; -static PyObject *__pyx_n_s__s2; -static PyObject *__pyx_n_s__shape; -static PyObject *__pyx_n_s__tmp; -static PyObject *__pyx_n_s__transpose; -static PyObject *__pyx_n_s__vy; -static PyObject *__pyx_n_s__x; -static PyObject *__pyx_n_s__y; -static PyObject *__pyx_n_s__zeros; +static char __pyx_k_A[] = "A"; +static char __pyx_k_B[] = "B"; +static char __pyx_k_C[] = "C"; +static char __pyx_k_H[] = "H"; +static char __pyx_k_I[] = "I"; +static char __pyx_k_L[] = "L"; +static char __pyx_k_O[] = "O"; +static char __pyx_k_P[] = "P"; +static char __pyx_k_Q[] = "Q"; +static char __pyx_k_X[] = "X"; +static char __pyx_k_Y[] = "Y"; +static char __pyx_k_b[] = "b"; +static char __pyx_k_d[] = "d"; +static char __pyx_k_f[] = "f"; +static char __pyx_k_g[] = "g"; +static char __pyx_k_h[] = "h"; +static char __pyx_k_i[] = "i"; +static char __pyx_k_l[] = "l"; +static char __pyx_k_n[] = "n"; +static char __pyx_k_p[] = "p"; +static char __pyx_k_q[] = "q"; +static char __pyx_k_x[] = "x"; +static char __pyx_k_y[] = "y"; +static char __pyx_k_LL[] = "LL"; +static char __pyx_k_S2[] = "S2"; +static char __pyx_k_VY[] = "VY"; +static char __pyx_k_Zd[] = "Zd"; +static char __pyx_k_Zf[] = "Zf"; +static char __pyx_k_Zg[] = "Zg"; +static char __pyx_k_em[] = "em"; +static char __pyx_k_ll[] = "ll"; +static char __pyx_k_np[] = "np"; +static char __pyx_k_s2[] = "s2"; +static char __pyx_k_vy[] = "vy"; +static char __pyx_k_0_1[] = "0.1"; +static char __pyx_k_PpX[] = "PpX"; +static char __pyx_k_dot[] = "dot"; +static char __pyx_k_eye[] = "eye"; +static char __pyx_k_inv[] = "inv"; +static char __pyx_k_lda[] = "lda"; +static char __pyx_k_ll0[] = "ll0"; +static char __pyx_k_ppx[] = "ppx"; +static char __pyx_k_tmp[] = "tmp"; +static char __pyx_k_axis[] = "axis"; +static char __pyx_k_ddot[] = "ddot"; +static char __pyx_k_dger[] = "dger"; +static char __pyx_k_dims[] = "dims"; +static char __pyx_k_drot[] = "drot"; +static char __pyx_k_main[] = "__main__"; +static char __pyx_k_ndim[] = "ndim"; +static char __pyx_k_pinv[] = "pinv"; +static char __pyx_k_test[] = "__test__"; +static char __pyx_k_dasum[] = "dasum"; +static char __pyx_k_daxpy[] = "daxpy"; +static char __pyx_k_dcopy[] = "dcopy"; +static char __pyx_k_dgemm[] = "dgemm"; +static char __pyx_k_dgemv[] = "dgemv"; +static char __pyx_k_dnrm2[] = "dnrm2"; +static char __pyx_k_drotg[] = "drotg"; +static char __pyx_k_drotm[] = "drotm"; +static char __pyx_k_dscal[] = "dscal"; +static char __pyx_k_dswap[] = "dswap"; +static char __pyx_k_dsymm[] = "dsymm"; +static char __pyx_k_dsymv[] = "dsymv"; +static char __pyx_k_dsyrk[] = "dsyrk"; +static char __pyx_k_dtrmv[] = "dtrmv"; +static char __pyx_k_multi[] = "multi"; +static char __pyx_k_niter[] = "niter"; +static char __pyx_k_numpy[] = "numpy"; +static char __pyx_k_range[] = "range"; +static char __pyx_k_shape[] = "shape"; +static char __pyx_k_zeros[] = "zeros"; +static char __pyx_k_dgeqrf[] = "dgeqrf"; +static char __pyx_k_dgesdd[] = "dgesdd"; +static char __pyx_k_dgetrf[] = "dgetrf"; +static char __pyx_k_dpotrf[] = "dpotrf"; +static char __pyx_k_drotmg[] = "drotmg"; +static char __pyx_k_dsyr2k[] = "dsyr2k"; +static char __pyx_k_idamax[] = "idamax"; +static char __pyx_k_import[] = "__import__"; +static char __pyx_k_linalg[] = "linalg"; +static char __pyx_k_maximum[] = "maximum"; +static char __pyx_k_version[] = "__version__"; +static char __pyx_k_cpointer[] = "_cpointer"; +static char __pyx_k_DEF_NITER[] = "DEF_NITER"; +static char __pyx_k_transpose[] = "transpose"; +static char __pyx_k_ValueError[] = "ValueError"; +static char __pyx_k_RuntimeError[] = "RuntimeError"; +static char __pyx_k_log_likelihood[] = "log_likelihood"; +static char __pyx_k_scipy_linalg__fblas[] = "scipy.linalg._fblas"; +static char __pyx_k_log_likelihood_ratio[] = "log_likelihood_ratio"; +static char __pyx_k_scipy_linalg__flapack[] = "scipy.linalg._flapack"; +static char __pyx_k_ndarray_is_not_C_contiguous[] = "ndarray is not C contiguous"; +static char __pyx_k_nipy_labs_group_glm_twolevel[] = "nipy.labs.group.glm_twolevel"; +static char __pyx_k_Two_level_general_linear_model[] = "\nTwo-level general linear model for group analyses.\n\nAuthor: Alexis Roche, 2008.\n"; +static char __pyx_k_home_roche_git_nipy_nipy_labs_g[] = "/home/roche/git/nipy/nipy/labs/group/glm_twolevel.pyx"; +static char __pyx_k_unknown_dtype_code_in_numpy_pxd[] = "unknown dtype code in numpy.pxd (%d)"; +static char __pyx_k_Format_string_allocated_too_shor[] = "Format string allocated too short, see comment in numpy.pxd"; +static char __pyx_k_Non_native_byte_order_not_suppor[] = "Non-native byte order not supported"; +static char __pyx_k_ndarray_is_not_Fortran_contiguou[] = "ndarray is not Fortran contiguous"; +static char __pyx_k_Format_string_allocated_too_shor_2[] = "Format string allocated too short."; +static PyObject *__pyx_kp_s_0_1; +static PyObject *__pyx_n_s_A; +static PyObject *__pyx_n_s_B; +static PyObject *__pyx_n_s_C; +static PyObject *__pyx_n_s_DEF_NITER; +static PyObject *__pyx_kp_u_Format_string_allocated_too_shor; +static PyObject *__pyx_kp_u_Format_string_allocated_too_shor_2; +static PyObject *__pyx_n_s_LL; +static PyObject *__pyx_kp_u_Non_native_byte_order_not_suppor; 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{__pyx_filename = __pyx_f[0]; __pyx_lineno = 174; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("log_likelihood_ratio", 0, 4, 6, 2); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 176; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } case 3: - if (likely((values[3] = PyDict_GetItem(__pyx_kwds, __pyx_n_s__C)) != 0)) kw_args--; + if (likely((values[3] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_C)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("log_likelihood_ratio", 0, 4, 6, 3); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 174; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("log_likelihood_ratio", 0, 4, 6, 3); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 176; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } case 4: if (kw_args > 0) { - PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s__axis); + PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s_axis); if (value) { values[4] = value; kw_args--; } } case 5: if (kw_args > 0) { - PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s__niter); + PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s_niter); if (value) { values[5] = value; kw_args--; } } } if (unlikely(kw_args > 0)) { - if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "log_likelihood_ratio") < 0)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 174; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "log_likelihood_ratio") < 0)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 176; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } else { switch (PyTuple_GET_SIZE(__pyx_args)) { @@ -2390,37 +3064,31 @@ static PyObject *__pyx_pw_4nipy_4labs_5group_12glm_twolevel_5log_likelihood_rati __pyx_v_X = values[2]; __pyx_v_C = values[3]; if (values[4]) { - __pyx_v_axis = __Pyx_PyInt_AsInt(values[4]); if (unlikely((__pyx_v_axis == (int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 174; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_axis = __Pyx_PyInt_As_int(values[4]); 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__pyx_t_2 = 0; __pyx_t_3 = 0; - __pyx_t_3 = PyObject_Call(__pyx_t_1, ((PyObject *)__pyx_t_4), NULL); if (unlikely(!__pyx_t_3)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 180; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_3 = __Pyx_PyObject_Call(__pyx_t_1, __pyx_t_4, NULL); if (unlikely(!__pyx_t_3)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 182; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_3); __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; - __Pyx_DECREF(((PyObject *)__pyx_t_4)); __pyx_t_4 = 0; + __Pyx_DECREF(__pyx_t_4); __pyx_t_4 = 0; if ((likely(PyTuple_CheckExact(__pyx_t_3))) || (PyList_CheckExact(__pyx_t_3))) { PyObject* sequence = __pyx_t_3; #if CYTHON_COMPILING_IN_CPYTHON @@ -2486,7 +3154,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_12glm_twolevel_4log_likelihood_rati if (unlikely(size != 2)) { if (size > 2) __Pyx_RaiseTooManyValuesError(2); else if (size >= 0) __Pyx_RaiseNeedMoreValuesError(size); - {__pyx_filename = __pyx_f[0]; __pyx_lineno = 180; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + {__pyx_filename = __pyx_f[0]; __pyx_lineno = 182; __pyx_clineno = __LINE__; goto __pyx_L1_error;} } #if CYTHON_COMPILING_IN_CPYTHON if (likely(PyTuple_CheckExact(sequence))) { @@ -2499,14 +3167,15 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_12glm_twolevel_4log_likelihood_rati __Pyx_INCREF(__pyx_t_4); __Pyx_INCREF(__pyx_t_1); #else - __pyx_t_4 = PySequence_ITEM(sequence, 0); if (unlikely(!__pyx_t_4)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 180; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __pyx_t_1 = PySequence_ITEM(sequence, 1); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 180; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_4 = PySequence_ITEM(sequence, 0); if (unlikely(!__pyx_t_4)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 182; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_GOTREF(__pyx_t_4); + __pyx_t_1 = PySequence_ITEM(sequence, 1); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 182; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_GOTREF(__pyx_t_1); #endif __Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0; - } else - { + } else { Py_ssize_t index = -1; - __pyx_t_2 = PyObject_GetIter(__pyx_t_3); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 180; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_2 = PyObject_GetIter(__pyx_t_3); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 182; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_2); __Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0; __pyx_t_5 = Py_TYPE(__pyx_t_2)->tp_iternext; @@ -2514,7 +3183,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_12glm_twolevel_4log_likelihood_rati __Pyx_GOTREF(__pyx_t_4); index = 1; __pyx_t_1 = __pyx_t_5(__pyx_t_2); if (unlikely(!__pyx_t_1)) goto __pyx_L3_unpacking_failed; __Pyx_GOTREF(__pyx_t_1); - if (__Pyx_IternextUnpackEndCheck(__pyx_t_5(__pyx_t_2), 2) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 180; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (__Pyx_IternextUnpackEndCheck(__pyx_t_5(__pyx_t_2), 2) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 182; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __pyx_t_5 = NULL; __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0; goto __pyx_L4_unpacking_done; @@ -2522,7 +3191,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_12glm_twolevel_4log_likelihood_rati __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0; __pyx_t_5 = NULL; if (__Pyx_IterFinish() == 0) __Pyx_RaiseNeedMoreValuesError(index); - {__pyx_filename = __pyx_f[0]; __pyx_lineno = 180; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + {__pyx_filename = __pyx_f[0]; __pyx_lineno = 182; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __pyx_L4_unpacking_done:; } __pyx_v_B = __pyx_t_4; @@ -2530,18 +3199,18 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_12glm_twolevel_4log_likelihood_rati __pyx_v_S2 = __pyx_t_1; __pyx_t_1 = 0; - /* "nipy/labs/group/glm_twolevel.pyx":181 + /* "nipy/labs/group/glm_twolevel.pyx":183 * # Constrained log-likelihood * B, S2 = em(Y, VY, X, C, axis, niter) * ll0 = log_likelihood(Y, VY, X, B, S2, axis) # <<<<<<<<<<<<<< * * # Unconstrained log-likelihood */ - __pyx_t_3 = __Pyx_GetName(__pyx_m, __pyx_n_s__log_likelihood); if (unlikely(!__pyx_t_3)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 181; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_3 = __Pyx_GetModuleGlobalName(__pyx_n_s_log_likelihood); if (unlikely(!__pyx_t_3)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 183; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_3); - __pyx_t_1 = PyInt_FromLong(__pyx_v_axis); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 181; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = __Pyx_PyInt_From_int(__pyx_v_axis); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 183; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); - __pyx_t_4 = PyTuple_New(6); if (unlikely(!__pyx_t_4)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 181; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_4 = PyTuple_New(6); if (unlikely(!__pyx_t_4)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 183; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_4); __Pyx_INCREF(__pyx_v_Y); PyTuple_SET_ITEM(__pyx_t_4, 0, __pyx_v_Y); @@ -2561,27 +3230,27 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_12glm_twolevel_4log_likelihood_rati PyTuple_SET_ITEM(__pyx_t_4, 5, __pyx_t_1); __Pyx_GIVEREF(__pyx_t_1); __pyx_t_1 = 0; - __pyx_t_1 = PyObject_Call(__pyx_t_3, ((PyObject *)__pyx_t_4), NULL); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 181; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = __Pyx_PyObject_Call(__pyx_t_3, __pyx_t_4, NULL); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 183; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); __Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0; - __Pyx_DECREF(((PyObject *)__pyx_t_4)); __pyx_t_4 = 0; + __Pyx_DECREF(__pyx_t_4); __pyx_t_4 = 0; __pyx_v_ll0 = __pyx_t_1; __pyx_t_1 = 0; - /* "nipy/labs/group/glm_twolevel.pyx":184 + /* "nipy/labs/group/glm_twolevel.pyx":186 * * # Unconstrained log-likelihood * B, S2 = em(Y, VY, X, None, axis, niter) # <<<<<<<<<<<<<< * ll = log_likelihood(Y, VY, X, B, S2, axis) * */ - __pyx_t_1 = __Pyx_GetName(__pyx_m, __pyx_n_s__em); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 184; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = __Pyx_GetModuleGlobalName(__pyx_n_s_em); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 186; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); - __pyx_t_4 = PyInt_FromLong(__pyx_v_axis); if (unlikely(!__pyx_t_4)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 184; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_4 = __Pyx_PyInt_From_int(__pyx_v_axis); if (unlikely(!__pyx_t_4)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 186; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_4); - __pyx_t_3 = PyInt_FromLong(__pyx_v_niter); if (unlikely(!__pyx_t_3)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 184; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_3 = __Pyx_PyInt_From_int(__pyx_v_niter); if (unlikely(!__pyx_t_3)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 186; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_3); - __pyx_t_2 = PyTuple_New(6); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 184; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_2 = PyTuple_New(6); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 186; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_2); __Pyx_INCREF(__pyx_v_Y); PyTuple_SET_ITEM(__pyx_t_2, 0, __pyx_v_Y); @@ -2601,10 +3270,10 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_12glm_twolevel_4log_likelihood_rati __Pyx_GIVEREF(__pyx_t_3); __pyx_t_4 = 0; __pyx_t_3 = 0; - __pyx_t_3 = PyObject_Call(__pyx_t_1, ((PyObject *)__pyx_t_2), NULL); if (unlikely(!__pyx_t_3)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 184; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_3 = __Pyx_PyObject_Call(__pyx_t_1, __pyx_t_2, NULL); if (unlikely(!__pyx_t_3)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 186; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_3); __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; - __Pyx_DECREF(((PyObject *)__pyx_t_2)); __pyx_t_2 = 0; + __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0; if ((likely(PyTuple_CheckExact(__pyx_t_3))) || (PyList_CheckExact(__pyx_t_3))) { PyObject* sequence = __pyx_t_3; #if CYTHON_COMPILING_IN_CPYTHON @@ -2615,7 +3284,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_12glm_twolevel_4log_likelihood_rati if (unlikely(size != 2)) { if (size > 2) __Pyx_RaiseTooManyValuesError(2); else if (size >= 0) __Pyx_RaiseNeedMoreValuesError(size); - {__pyx_filename = __pyx_f[0]; __pyx_lineno = 184; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + {__pyx_filename = __pyx_f[0]; __pyx_lineno = 186; __pyx_clineno = __LINE__; goto __pyx_L1_error;} } #if CYTHON_COMPILING_IN_CPYTHON if (likely(PyTuple_CheckExact(sequence))) { @@ -2628,14 +3297,15 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_12glm_twolevel_4log_likelihood_rati __Pyx_INCREF(__pyx_t_2); __Pyx_INCREF(__pyx_t_1); #else - __pyx_t_2 = PySequence_ITEM(sequence, 0); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 184; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __pyx_t_1 = PySequence_ITEM(sequence, 1); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 184; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_2 = PySequence_ITEM(sequence, 0); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 186; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_GOTREF(__pyx_t_2); + __pyx_t_1 = PySequence_ITEM(sequence, 1); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 186; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_GOTREF(__pyx_t_1); #endif __Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0; - } else - { + } else { Py_ssize_t index = -1; - __pyx_t_4 = PyObject_GetIter(__pyx_t_3); if (unlikely(!__pyx_t_4)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 184; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_4 = PyObject_GetIter(__pyx_t_3); if (unlikely(!__pyx_t_4)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 186; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_4); __Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0; __pyx_t_5 = Py_TYPE(__pyx_t_4)->tp_iternext; @@ -2643,7 +3313,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_12glm_twolevel_4log_likelihood_rati __Pyx_GOTREF(__pyx_t_2); index = 1; __pyx_t_1 = __pyx_t_5(__pyx_t_4); if (unlikely(!__pyx_t_1)) goto __pyx_L5_unpacking_failed; __Pyx_GOTREF(__pyx_t_1); - if (__Pyx_IternextUnpackEndCheck(__pyx_t_5(__pyx_t_4), 2) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 184; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (__Pyx_IternextUnpackEndCheck(__pyx_t_5(__pyx_t_4), 2) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 186; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __pyx_t_5 = NULL; __Pyx_DECREF(__pyx_t_4); __pyx_t_4 = 0; goto __pyx_L6_unpacking_done; @@ -2651,28 +3321,26 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_12glm_twolevel_4log_likelihood_rati __Pyx_DECREF(__pyx_t_4); __pyx_t_4 = 0; __pyx_t_5 = NULL; 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if (unlikely(!__pyx_t_4)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 215; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_4 = __Pyx_PyObject_Call(__pyx_builtin_ValueError, __pyx_tuple__3, NULL); if (unlikely(!__pyx_t_4)) {__pyx_filename = __pyx_f[2]; __pyx_lineno = 215; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_4); __Pyx_Raise(__pyx_t_4, 0, 0, 0); __Pyx_DECREF(__pyx_t_4); __pyx_t_4 = 0; - {__pyx_filename = __pyx_f[1]; __pyx_lineno = 215; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - goto __pyx_L5; + {__pyx_filename = __pyx_f[2]; __pyx_lineno = 215; __pyx_clineno = __LINE__; goto __pyx_L1_error;} } - __pyx_L5:; - /* "numpy.pxd":217 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":217 * raise ValueError(u"ndarray is not C contiguous") * * if ((flags & pybuf.PyBUF_F_CONTIGUOUS == pybuf.PyBUF_F_CONTIGUOUS) # <<<<<<<<<<<<<< * and not PyArray_CHKFLAGS(self, NPY_F_CONTIGUOUS)): * raise ValueError(u"ndarray is not Fortran contiguous") */ - __pyx_t_3 = ((__pyx_v_flags & PyBUF_F_CONTIGUOUS) == PyBUF_F_CONTIGUOUS); 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if (unlikely(!__pyx_t_4)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 219; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_4 = __Pyx_PyObject_Call(__pyx_builtin_ValueError, __pyx_tuple__4, NULL); if (unlikely(!__pyx_t_4)) {__pyx_filename = __pyx_f[2]; __pyx_lineno = 219; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_4); __Pyx_Raise(__pyx_t_4, 0, 0, 0); __Pyx_DECREF(__pyx_t_4); __pyx_t_4 = 0; - {__pyx_filename = __pyx_f[1]; __pyx_lineno = 219; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - goto __pyx_L6; + {__pyx_filename = __pyx_f[2]; __pyx_lineno = 219; __pyx_clineno = __LINE__; goto __pyx_L1_error;} } - __pyx_L6:; - /* "numpy.pxd":221 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":221 * raise ValueError(u"ndarray is not Fortran contiguous") * * info.buf = PyArray_DATA(self) # <<<<<<<<<<<<<< @@ -2976,7 +3645,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ __pyx_v_info->buf = PyArray_DATA(__pyx_v_self); - /* "numpy.pxd":222 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":222 * * info.buf = PyArray_DATA(self) * info.ndim = ndim # <<<<<<<<<<<<<< @@ -2985,16 +3654,17 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ __pyx_v_info->ndim = __pyx_v_ndim; - /* "numpy.pxd":223 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":223 * info.buf = PyArray_DATA(self) * info.ndim = ndim * if copy_shape: # <<<<<<<<<<<<<< * # Allocate new buffer for strides and shape info. * # This is allocated as one block, strides first. */ - if (__pyx_v_copy_shape) { + __pyx_t_2 = (__pyx_v_copy_shape != 0); + if (__pyx_t_2) { - /* "numpy.pxd":226 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":226 * # Allocate new buffer for strides and shape info. * # This is allocated as one block, strides first. * info.strides = stdlib.malloc(sizeof(Py_ssize_t) * ndim * 2) # <<<<<<<<<<<<<< @@ -3003,7 +3673,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ __pyx_v_info->strides = ((Py_ssize_t *)malloc((((sizeof(Py_ssize_t)) * ((size_t)__pyx_v_ndim)) * 2))); - /* "numpy.pxd":227 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":227 * # This is allocated as one block, strides first. * info.strides = stdlib.malloc(sizeof(Py_ssize_t) * ndim * 2) * info.shape = info.strides + ndim # <<<<<<<<<<<<<< @@ -3012,7 +3682,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ __pyx_v_info->shape = (__pyx_v_info->strides + __pyx_v_ndim); - /* "numpy.pxd":228 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":228 * info.strides = stdlib.malloc(sizeof(Py_ssize_t) * ndim * 2) * info.shape = info.strides + ndim * for i in range(ndim): # <<<<<<<<<<<<<< @@ -3023,7 +3693,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P for (__pyx_t_6 = 0; __pyx_t_6 < __pyx_t_5; __pyx_t_6+=1) { __pyx_v_i = __pyx_t_6; - /* "numpy.pxd":229 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":229 * info.shape = info.strides + ndim * for i in range(ndim): * info.strides[i] = PyArray_STRIDES(self)[i] # <<<<<<<<<<<<<< @@ -3032,7 +3702,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ (__pyx_v_info->strides[__pyx_v_i]) = (PyArray_STRIDES(__pyx_v_self)[__pyx_v_i]); - /* "numpy.pxd":230 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":230 * for i in range(ndim): * info.strides[i] = PyArray_STRIDES(self)[i] * info.shape[i] = PyArray_DIMS(self)[i] # <<<<<<<<<<<<<< @@ -3045,7 +3715,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P } /*else*/ { - /* "numpy.pxd":232 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":232 * info.shape[i] = PyArray_DIMS(self)[i] * else: * info.strides = PyArray_STRIDES(self) # <<<<<<<<<<<<<< @@ -3054,7 +3724,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ __pyx_v_info->strides = ((Py_ssize_t *)PyArray_STRIDES(__pyx_v_self)); - /* "numpy.pxd":233 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":233 * else: * info.strides = PyArray_STRIDES(self) * info.shape = PyArray_DIMS(self) # <<<<<<<<<<<<<< @@ -3065,7 +3735,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P } __pyx_L7:; - /* "numpy.pxd":234 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":234 * info.strides = PyArray_STRIDES(self) * info.shape = PyArray_DIMS(self) * info.suboffsets = NULL # <<<<<<<<<<<<<< @@ -3074,7 +3744,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ __pyx_v_info->suboffsets = NULL; - /* "numpy.pxd":235 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":235 * info.shape = PyArray_DIMS(self) * info.suboffsets = NULL * info.itemsize = PyArray_ITEMSIZE(self) # <<<<<<<<<<<<<< @@ -3083,16 +3753,16 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ __pyx_v_info->itemsize = PyArray_ITEMSIZE(__pyx_v_self); - /* "numpy.pxd":236 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":236 * info.suboffsets = NULL * info.itemsize = PyArray_ITEMSIZE(self) * info.readonly = not PyArray_ISWRITEABLE(self) # <<<<<<<<<<<<<< * * cdef int t */ - __pyx_v_info->readonly = (!PyArray_ISWRITEABLE(__pyx_v_self)); + __pyx_v_info->readonly = (!(PyArray_ISWRITEABLE(__pyx_v_self) != 0)); - /* "numpy.pxd":239 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":239 * * cdef int t * cdef char* f = NULL # <<<<<<<<<<<<<< @@ -3101,7 +3771,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ __pyx_v_f = NULL; - /* "numpy.pxd":240 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":240 * cdef int t * cdef char* f = NULL * cdef dtype descr = self.descr # <<<<<<<<<<<<<< @@ -3113,7 +3783,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P __pyx_v_descr = ((PyArray_Descr *)__pyx_t_4); __pyx_t_4 = 0; - /* "numpy.pxd":244 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":244 * cdef int offset * * cdef bint hasfields = PyDataType_HASFIELDS(descr) # <<<<<<<<<<<<<< @@ -3122,23 +3792,23 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ __pyx_v_hasfields = PyDataType_HASFIELDS(__pyx_v_descr); - /* "numpy.pxd":246 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":246 * cdef bint hasfields = PyDataType_HASFIELDS(descr) * * if not hasfields and not copy_shape: # <<<<<<<<<<<<<< * # do not call releasebuffer * info.obj = None */ - __pyx_t_2 = (!__pyx_v_hasfields); + __pyx_t_2 = ((!(__pyx_v_hasfields != 0)) != 0); if (__pyx_t_2) { - __pyx_t_3 = (!__pyx_v_copy_shape); + __pyx_t_3 = ((!(__pyx_v_copy_shape != 0)) != 0); __pyx_t_1 = __pyx_t_3; } else { __pyx_t_1 = __pyx_t_2; } if (__pyx_t_1) { - /* "numpy.pxd":248 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":248 * if not hasfields and not copy_shape: * # do not call releasebuffer * info.obj = None # <<<<<<<<<<<<<< @@ -3154,7 +3824,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P } /*else*/ { - /* "numpy.pxd":251 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":251 * else: * # need to call releasebuffer * info.obj = self # <<<<<<<<<<<<<< @@ -3169,17 +3839,17 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P } __pyx_L10:; - /* "numpy.pxd":253 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":253 * info.obj = self * * if not hasfields: # <<<<<<<<<<<<<< * t = descr.type_num * if ((descr.byteorder == c'>' and little_endian) or */ - __pyx_t_1 = (!__pyx_v_hasfields); + __pyx_t_1 = ((!(__pyx_v_hasfields != 0)) != 0); if (__pyx_t_1) { - /* "numpy.pxd":254 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":254 * * if not hasfields: * t = descr.type_num # <<<<<<<<<<<<<< @@ -3189,31 +3859,31 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P __pyx_t_5 = __pyx_v_descr->type_num; __pyx_v_t = __pyx_t_5; - /* "numpy.pxd":255 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":255 * if not hasfields: * t = descr.type_num * if ((descr.byteorder == c'>' and little_endian) or # <<<<<<<<<<<<<< * (descr.byteorder == c'<' and not little_endian)): * raise ValueError(u"Non-native byte order not supported") */ - __pyx_t_1 = (__pyx_v_descr->byteorder == '>'); + __pyx_t_1 = ((__pyx_v_descr->byteorder == '>') != 0); if (__pyx_t_1) { - __pyx_t_2 = __pyx_v_little_endian; + __pyx_t_2 = (__pyx_v_little_endian != 0); } else { __pyx_t_2 = __pyx_t_1; } if (!__pyx_t_2) { - /* "numpy.pxd":256 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":256 * t = descr.type_num * if ((descr.byteorder == c'>' and little_endian) or * (descr.byteorder == c'<' and not little_endian)): # <<<<<<<<<<<<<< * raise ValueError(u"Non-native byte order not supported") * if t == NPY_BYTE: f = "b" */ - __pyx_t_1 = (__pyx_v_descr->byteorder == '<'); + __pyx_t_1 = ((__pyx_v_descr->byteorder == '<') != 0); if (__pyx_t_1) { - __pyx_t_3 = (!__pyx_v_little_endian); + __pyx_t_3 = ((!(__pyx_v_little_endian != 0)) != 0); __pyx_t_7 = __pyx_t_3; } else { __pyx_t_7 = __pyx_t_1; @@ -3224,271 +3894,244 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P } if (__pyx_t_1) { - /* "numpy.pxd":257 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":257 * if ((descr.byteorder == c'>' and little_endian) or * (descr.byteorder == c'<' and not little_endian)): * raise ValueError(u"Non-native byte order not supported") # <<<<<<<<<<<<<< * if t == NPY_BYTE: f = "b" * elif t == NPY_UBYTE: f = "B" */ - __pyx_t_4 = PyObject_Call(__pyx_builtin_ValueError, ((PyObject *)__pyx_k_tuple_8), NULL); if (unlikely(!__pyx_t_4)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 257; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_4 = __Pyx_PyObject_Call(__pyx_builtin_ValueError, __pyx_tuple__5, NULL); if (unlikely(!__pyx_t_4)) {__pyx_filename = __pyx_f[2]; __pyx_lineno = 257; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_4); __Pyx_Raise(__pyx_t_4, 0, 0, 0); __Pyx_DECREF(__pyx_t_4); __pyx_t_4 = 0; - {__pyx_filename = __pyx_f[1]; __pyx_lineno = 257; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - goto __pyx_L12; + {__pyx_filename = __pyx_f[2]; __pyx_lineno = 257; __pyx_clineno = __LINE__; goto __pyx_L1_error;} } - __pyx_L12:; - /* "numpy.pxd":258 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":274 + * elif t == NPY_CDOUBLE: f = "Zd" + * elif t == NPY_CLONGDOUBLE: f = "Zg" + * elif t == NPY_OBJECT: f = "O" # <<<<<<<<<<<<<< + * else: + * raise ValueError(u"unknown dtype code in numpy.pxd (%d)" % t) + */ + switch (__pyx_v_t) { + + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":258 * (descr.byteorder == c'<' and not little_endian)): * raise ValueError(u"Non-native byte order not supported") * if t == NPY_BYTE: f = "b" # <<<<<<<<<<<<<< * elif t == NPY_UBYTE: f = "B" * elif t == NPY_SHORT: f = "h" */ - __pyx_t_1 = (__pyx_v_t == NPY_BYTE); - if (__pyx_t_1) { - __pyx_v_f = __pyx_k__b; - goto __pyx_L13; - } + case NPY_BYTE: + __pyx_v_f = __pyx_k_b; + break; - /* "numpy.pxd":259 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":259 * raise ValueError(u"Non-native byte order not supported") * if t == NPY_BYTE: f = "b" * elif t == NPY_UBYTE: f = "B" # <<<<<<<<<<<<<< * elif t == NPY_SHORT: f = "h" * elif t == NPY_USHORT: f = "H" */ - __pyx_t_1 = (__pyx_v_t == NPY_UBYTE); - if (__pyx_t_1) { - __pyx_v_f = __pyx_k__B; - goto __pyx_L13; - } + case NPY_UBYTE: + __pyx_v_f = __pyx_k_B; + break; - /* "numpy.pxd":260 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":260 * if t == NPY_BYTE: f = "b" * elif t == NPY_UBYTE: f = "B" * elif t == NPY_SHORT: f = "h" # <<<<<<<<<<<<<< * elif t == NPY_USHORT: f = "H" * elif t == NPY_INT: f = "i" */ - __pyx_t_1 = (__pyx_v_t == NPY_SHORT); - if (__pyx_t_1) { - __pyx_v_f = __pyx_k__h; - goto __pyx_L13; - } + case NPY_SHORT: + __pyx_v_f = __pyx_k_h; + break; - /* "numpy.pxd":261 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":261 * elif t == NPY_UBYTE: f = "B" * elif t == NPY_SHORT: f = "h" * elif t == NPY_USHORT: f = "H" # <<<<<<<<<<<<<< * elif t == NPY_INT: f = "i" * elif t == NPY_UINT: f = "I" */ - __pyx_t_1 = (__pyx_v_t == NPY_USHORT); - if (__pyx_t_1) { - __pyx_v_f = __pyx_k__H; - goto __pyx_L13; - } + case NPY_USHORT: + __pyx_v_f = __pyx_k_H; + break; - /* "numpy.pxd":262 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":262 * elif t == NPY_SHORT: f = "h" * elif t == NPY_USHORT: f = "H" * elif t == NPY_INT: f = "i" # <<<<<<<<<<<<<< * elif t == NPY_UINT: f = "I" * elif t == NPY_LONG: f = "l" */ - __pyx_t_1 = (__pyx_v_t == NPY_INT); - if (__pyx_t_1) { - __pyx_v_f = __pyx_k__i; - goto __pyx_L13; - } + case NPY_INT: + __pyx_v_f = __pyx_k_i; + break; - /* "numpy.pxd":263 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":263 * elif t == NPY_USHORT: f = "H" * elif t == NPY_INT: f = "i" * elif t == NPY_UINT: f = "I" # <<<<<<<<<<<<<< * elif t == NPY_LONG: f = "l" * elif t == NPY_ULONG: f = "L" */ - __pyx_t_1 = (__pyx_v_t == NPY_UINT); - if (__pyx_t_1) { - __pyx_v_f = __pyx_k__I; - goto __pyx_L13; - } + case NPY_UINT: + __pyx_v_f = __pyx_k_I; + break; - /* "numpy.pxd":264 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":264 * elif t == NPY_INT: f = "i" * elif t == NPY_UINT: f = "I" * elif t == NPY_LONG: f = "l" # <<<<<<<<<<<<<< * elif t == NPY_ULONG: f = "L" * elif t == NPY_LONGLONG: f = "q" */ - __pyx_t_1 = (__pyx_v_t == NPY_LONG); - if (__pyx_t_1) { - __pyx_v_f = __pyx_k__l; - goto __pyx_L13; - } + case NPY_LONG: + __pyx_v_f = __pyx_k_l; + break; - /* "numpy.pxd":265 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":265 * elif t == NPY_UINT: f = "I" * elif t == NPY_LONG: f = "l" * elif t == NPY_ULONG: f = "L" # <<<<<<<<<<<<<< * elif t == NPY_LONGLONG: f = "q" * elif t == NPY_ULONGLONG: f = "Q" */ - __pyx_t_1 = (__pyx_v_t == NPY_ULONG); - if (__pyx_t_1) { - __pyx_v_f = __pyx_k__L; - goto __pyx_L13; - } + case NPY_ULONG: + __pyx_v_f = __pyx_k_L; + break; - /* "numpy.pxd":266 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":266 * elif t == NPY_LONG: f = "l" * elif t == NPY_ULONG: f = "L" * elif t == NPY_LONGLONG: f = "q" # <<<<<<<<<<<<<< * elif t == NPY_ULONGLONG: f = "Q" * elif t == NPY_FLOAT: f = "f" */ - __pyx_t_1 = (__pyx_v_t == NPY_LONGLONG); - if (__pyx_t_1) { - __pyx_v_f = __pyx_k__q; - goto __pyx_L13; - } + case NPY_LONGLONG: + __pyx_v_f = __pyx_k_q; + break; - /* "numpy.pxd":267 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":267 * elif t == NPY_ULONG: f = "L" * elif t == NPY_LONGLONG: f = "q" * elif t == NPY_ULONGLONG: f = "Q" # <<<<<<<<<<<<<< * elif t == NPY_FLOAT: f = "f" * elif t == NPY_DOUBLE: f = "d" */ - __pyx_t_1 = (__pyx_v_t == NPY_ULONGLONG); - if (__pyx_t_1) { - __pyx_v_f = __pyx_k__Q; - goto __pyx_L13; - } + case NPY_ULONGLONG: + __pyx_v_f = __pyx_k_Q; + break; - /* "numpy.pxd":268 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":268 * elif t == NPY_LONGLONG: f = "q" * elif t == NPY_ULONGLONG: f = "Q" * elif t == NPY_FLOAT: f = "f" # <<<<<<<<<<<<<< * elif t == NPY_DOUBLE: f = "d" * elif t == NPY_LONGDOUBLE: f = "g" */ - __pyx_t_1 = (__pyx_v_t == NPY_FLOAT); - if (__pyx_t_1) { - __pyx_v_f = __pyx_k__f; - goto __pyx_L13; - } + case NPY_FLOAT: + __pyx_v_f = __pyx_k_f; + break; - /* "numpy.pxd":269 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":269 * elif t == NPY_ULONGLONG: f = "Q" * elif t == NPY_FLOAT: f = "f" * elif t == NPY_DOUBLE: f = "d" # <<<<<<<<<<<<<< * elif t == NPY_LONGDOUBLE: f = "g" * elif t == NPY_CFLOAT: f = "Zf" */ - __pyx_t_1 = (__pyx_v_t == NPY_DOUBLE); - if (__pyx_t_1) { - __pyx_v_f = __pyx_k__d; - goto __pyx_L13; - } + case NPY_DOUBLE: + __pyx_v_f = __pyx_k_d; + break; - /* "numpy.pxd":270 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":270 * elif t == NPY_FLOAT: f = "f" * elif t == NPY_DOUBLE: f = "d" * elif t == NPY_LONGDOUBLE: f = "g" # <<<<<<<<<<<<<< * elif t == NPY_CFLOAT: f = "Zf" * elif t == NPY_CDOUBLE: f = "Zd" */ - __pyx_t_1 = (__pyx_v_t == NPY_LONGDOUBLE); - if (__pyx_t_1) { - __pyx_v_f = __pyx_k__g; - goto __pyx_L13; - } + case NPY_LONGDOUBLE: + __pyx_v_f = __pyx_k_g; + break; - /* "numpy.pxd":271 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":271 * elif t == NPY_DOUBLE: f = "d" * elif t == NPY_LONGDOUBLE: f = "g" * elif t == NPY_CFLOAT: f = "Zf" # <<<<<<<<<<<<<< * elif t == NPY_CDOUBLE: f = "Zd" * elif t == NPY_CLONGDOUBLE: f = "Zg" */ - __pyx_t_1 = (__pyx_v_t == NPY_CFLOAT); 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__pyx_lineno = 794; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_3 = PyTuple_GET_ITEM(__pyx_t_1, __pyx_t_2); __Pyx_INCREF(__pyx_t_3); __pyx_t_2++; if (unlikely(0 < 0)) {__pyx_filename = __pyx_f[2]; __pyx_lineno = 794; __pyx_clineno = __LINE__; goto __pyx_L1_error;} #else - __pyx_t_3 = PySequence_ITEM(__pyx_t_1, __pyx_t_2); __pyx_t_2++; if (unlikely(!__pyx_t_3)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 794; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_3 = PySequence_ITEM(__pyx_t_1, __pyx_t_2); __pyx_t_2++; if (unlikely(!__pyx_t_3)) {__pyx_filename = __pyx_f[2]; __pyx_lineno = 794; __pyx_clineno = __LINE__; goto __pyx_L1_error;} #endif - __Pyx_XDECREF(__pyx_v_childname); - __pyx_v_childname = __pyx_t_3; + __Pyx_XDECREF_SET(__pyx_v_childname, __pyx_t_3); __pyx_t_3 = 0; - /* "numpy.pxd":795 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":795 * * for childname in descr.names: * fields = descr.fields[childname] # <<<<<<<<<<<<<< * child, new_offset = fields * */ - __pyx_t_3 = PyObject_GetItem(__pyx_v_descr->fields, __pyx_v_childname); if (!__pyx_t_3) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 795; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_3 = PyObject_GetItem(__pyx_v_descr->fields, __pyx_v_childname); if (unlikely(__pyx_t_3 == NULL)) {__pyx_filename = __pyx_f[2]; __pyx_lineno = 795; __pyx_clineno = __LINE__; goto __pyx_L1_error;}; __Pyx_GOTREF(__pyx_t_3); - if (!(likely(PyTuple_CheckExact(__pyx_t_3))||((__pyx_t_3) == Py_None)||(PyErr_Format(PyExc_TypeError, "Expected tuple, got %.200s", Py_TYPE(__pyx_t_3)->tp_name), 0))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 795; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_XDECREF(((PyObject *)__pyx_v_fields)); - __pyx_v_fields = ((PyObject*)__pyx_t_3); + if (!(likely(PyTuple_CheckExact(__pyx_t_3))||((__pyx_t_3) == Py_None)||(PyErr_Format(PyExc_TypeError, "Expected %.16s, got %.200s", "tuple", Py_TYPE(__pyx_t_3)->tp_name), 0))) {__pyx_filename = __pyx_f[2]; __pyx_lineno = 795; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_XDECREF_SET(__pyx_v_fields, ((PyObject*)__pyx_t_3)); __pyx_t_3 = 0; - /* "numpy.pxd":796 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":796 * for childname in descr.names: * fields = descr.fields[childname] * child, new_offset = fields # <<<<<<<<<<<<<< * - * if (end - f) - (new_offset - offset[0]) < 15: + * if (end - f) - (new_offset - offset[0]) < 15: */ - if (likely(PyTuple_CheckExact(((PyObject *)__pyx_v_fields)))) { - PyObject* sequence = ((PyObject *)__pyx_v_fields); + if (likely(__pyx_v_fields != Py_None)) { + PyObject* sequence = __pyx_v_fields; #if CYTHON_COMPILING_IN_CPYTHON Py_ssize_t size = Py_SIZE(sequence); #else @@ -3972,7 +4665,7 @@ static CYTHON_INLINE char *__pyx_f_5numpy__util_dtypestring(PyArray_Descr *__pyx if (unlikely(size != 2)) { if (size > 2) __Pyx_RaiseTooManyValuesError(2); else if (size >= 0) __Pyx_RaiseNeedMoreValuesError(size); - {__pyx_filename = __pyx_f[1]; __pyx_lineno = 796; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + {__pyx_filename = __pyx_f[2]; __pyx_lineno = 796; __pyx_clineno = __LINE__; 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__Pyx_GOTREF(__pyx_t_1); - if (PyObject_SetAttr(__pyx_m, __pyx_n_s__log_likelihood, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 126; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (PyDict_SetItem(__pyx_d, __pyx_n_s_log_likelihood, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 128; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; - /* "nipy/labs/group/glm_twolevel.pyx":174 + /* "nipy/labs/group/glm_twolevel.pyx":176 * * * def log_likelihood_ratio(Y, VY, X, C, int axis=0, int niter=DEF_NITER): # <<<<<<<<<<<<<< * """ * lda = em(y, vy, X, C, axis=0, niter=DEF_NITER). */ - __pyx_t_1 = __Pyx_GetName(__pyx_m, __pyx_n_s__DEF_NITER); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 174; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = __Pyx_GetModuleGlobalName(__pyx_n_s_DEF_NITER); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 176; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); - __pyx_t_2 = __Pyx_PyInt_AsInt(__pyx_t_1); if (unlikely((__pyx_t_2 == (int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 174; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_3 = __Pyx_PyInt_As_int(__pyx_t_1); if (unlikely((__pyx_t_3 == (int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 176; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; - __pyx_k_2 = __pyx_t_2; - __pyx_t_1 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_5group_12glm_twolevel_5log_likelihood_ratio, NULL, __pyx_n_s_20); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 174; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_k__2 = __pyx_t_3; + __pyx_t_1 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_5group_12glm_twolevel_5log_likelihood_ratio, NULL, __pyx_n_s_nipy_labs_group_glm_twolevel); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 176; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); - if (PyObject_SetAttr(__pyx_m, __pyx_n_s_25, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 174; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (PyDict_SetItem(__pyx_d, __pyx_n_s_log_likelihood_ratio, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 176; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; /* "nipy/labs/group/glm_twolevel.pyx":1 @@ -5306,11 +6064,11 @@ PyMODINIT_FUNC PyInit_glm_twolevel(void) * Two-level general linear model for group analyses. */ __pyx_t_1 = PyDict_New(); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 1; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_GOTREF(((PyObject *)__pyx_t_1)); - if (PyObject_SetAttr(__pyx_m, __pyx_n_s____test__, ((PyObject *)__pyx_t_1)) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 1; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_DECREF(((PyObject *)__pyx_t_1)); __pyx_t_1 = 0; + __Pyx_GOTREF(__pyx_t_1); + if (PyDict_SetItem(__pyx_d, __pyx_n_s_test, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 1; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; - /* "numpy.pxd":975 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":976 * arr.base = baseptr * * cdef inline object get_array_base(ndarray arr): # <<<<<<<<<<<<<< @@ -5320,6 +6078,7 @@ PyMODINIT_FUNC PyInit_glm_twolevel(void) goto __pyx_L0; __pyx_L1_error:; __Pyx_XDECREF(__pyx_t_1); + __Pyx_XDECREF(__pyx_t_2); if (__pyx_m) { __Pyx_AddTraceback("init nipy.labs.group.glm_twolevel", __pyx_clineno, __pyx_lineno, __pyx_filename); Py_DECREF(__pyx_m); __pyx_m = 0; @@ -5352,17 +6111,32 @@ static __Pyx_RefNannyAPIStruct *__Pyx_RefNannyImportAPI(const char *modname) { } #endif /* CYTHON_REFNANNY */ -static PyObject *__Pyx_GetName(PyObject *dict, PyObject *name) { +static PyObject *__Pyx_GetBuiltinName(PyObject *name) { + PyObject* result = __Pyx_PyObject_GetAttrStr(__pyx_b, name); + if (unlikely(!result)) { + PyErr_Format(PyExc_NameError, +#if PY_MAJOR_VERSION >= 3 + "name '%U' is not defined", name); +#else + "name '%.200s' is not defined", PyString_AS_STRING(name)); +#endif + } + return result; +} + +static CYTHON_INLINE PyObject *__Pyx_GetModuleGlobalName(PyObject *name) { PyObject *result; - result = PyObject_GetAttr(dict, name); +#if CYTHON_COMPILING_IN_CPYTHON + result = PyDict_GetItem(__pyx_d, name); + if (result) { + Py_INCREF(result); + } else { +#else + result = PyObject_GetItem(__pyx_d, name); if (!result) { - if (dict != __pyx_b) { - PyErr_Clear(); - result = PyObject_GetAttr(__pyx_b, name); - } - if (!result) { - PyErr_SetObject(PyExc_NameError, name); - } + PyErr_Clear(); +#endif + result = __Pyx_GetBuiltinName(name); } return result; } @@ -5387,7 +6161,7 @@ static void __Pyx_RaiseArgtupleInvalid( more_or_less = "exactly"; } PyErr_Format(PyExc_TypeError, - "%s() takes %s %" CYTHON_FORMAT_SSIZE_T "d positional argument%s (%" CYTHON_FORMAT_SSIZE_T "d given)", + "%.200s() takes %.8s %" CYTHON_FORMAT_SSIZE_T "d positional argument%.1s (%" CYTHON_FORMAT_SSIZE_T "d given)", func_name, more_or_less, num_expected, (num_expected == 1) ? "" : "s", num_found); } @@ -5491,12 +6265,12 @@ static int __Pyx_ParseOptionalKeywords( goto bad; invalid_keyword_type: PyErr_Format(PyExc_TypeError, - "%s() keywords must be strings", function_name); + "%.200s() keywords must be strings", function_name); goto bad; invalid_keyword: PyErr_Format(PyExc_TypeError, #if PY_MAJOR_VERSION < 3 - "%s() got an unexpected keyword argument '%s'", + "%.200s() got an unexpected keyword argument '%.200s'", function_name, PyString_AsString(key)); #else "%s() got an unexpected keyword argument '%U'", @@ -5506,29 +6280,58 @@ static int __Pyx_ParseOptionalKeywords( return -1; } -static int __Pyx_ArgTypeTest(PyObject *obj, PyTypeObject *type, int none_allowed, +static void __Pyx_RaiseArgumentTypeInvalid(const char* name, PyObject *obj, PyTypeObject *type) { + PyErr_Format(PyExc_TypeError, + "Argument '%.200s' has incorrect type (expected %.200s, got %.200s)", + name, type->tp_name, Py_TYPE(obj)->tp_name); +} +static CYTHON_INLINE int __Pyx_ArgTypeTest(PyObject *obj, PyTypeObject *type, int none_allowed, const char *name, int exact) { - if (!type) { - PyErr_Format(PyExc_SystemError, "Missing type object"); + if (unlikely(!type)) { + PyErr_SetString(PyExc_SystemError, "Missing type object"); return 0; } if (none_allowed && obj == Py_None) return 1; else if (exact) { - if (Py_TYPE(obj) == type) return 1; + if (likely(Py_TYPE(obj) == type)) return 1; + #if PY_MAJOR_VERSION == 2 + else if ((type == &PyBaseString_Type) && likely(__Pyx_PyBaseString_CheckExact(obj))) return 1; + #endif } else { - if (PyObject_TypeCheck(obj, type)) return 1; + if (likely(PyObject_TypeCheck(obj, type))) return 1; } - PyErr_Format(PyExc_TypeError, - "Argument '%s' has incorrect type (expected %s, got %s)", - name, type->tp_name, Py_TYPE(obj)->tp_name); + __Pyx_RaiseArgumentTypeInvalid(name, obj, type); return 0; } +#if CYTHON_COMPILING_IN_CPYTHON +static CYTHON_INLINE PyObject* __Pyx_PyObject_Call(PyObject *func, PyObject *arg, PyObject *kw) { + PyObject *result; + ternaryfunc call = func->ob_type->tp_call; + if (unlikely(!call)) + return PyObject_Call(func, arg, kw); +#if PY_VERSION_HEX >= 0x02060000 + if (unlikely(Py_EnterRecursiveCall((char*)" while calling a Python object"))) + return NULL; +#endif + result = (*call)(func, arg, kw); +#if PY_VERSION_HEX >= 0x02060000 + Py_LeaveRecursiveCall(); +#endif + if (unlikely(!result) && unlikely(!PyErr_Occurred())) { + PyErr_SetString( + PyExc_SystemError, + "NULL result without error in PyObject_Call"); + } + return result; +} +#endif + static CYTHON_INLINE int __Pyx_TypeTest(PyObject *obj, PyTypeObject *type) { if (unlikely(!type)) { - PyErr_Format(PyExc_SystemError, "Missing type object"); + PyErr_SetString(PyExc_SystemError, "Missing type object"); return 0; } if (likely(PyObject_TypeCheck(obj, type))) @@ -5538,6 +6341,54 @@ static CYTHON_INLINE int __Pyx_TypeTest(PyObject *obj, PyTypeObject *type) { return 0; } +static CYTHON_INLINE int __Pyx_SetItemInt_Generic(PyObject *o, PyObject *j, PyObject *v) { + int r; + if (!j) return -1; + r = PyObject_SetItem(o, j, v); + Py_DECREF(j); + return r; +} +static CYTHON_INLINE int __Pyx_SetItemInt_Fast(PyObject *o, Py_ssize_t i, PyObject *v, + int is_list, int wraparound, int boundscheck) { +#if CYTHON_COMPILING_IN_CPYTHON + if (is_list || PyList_CheckExact(o)) { + Py_ssize_t n = (!wraparound) ? i : ((likely(i >= 0)) ? i : i + PyList_GET_SIZE(o)); + if ((!boundscheck) || likely((n >= 0) & (n < PyList_GET_SIZE(o)))) { + PyObject* old = PyList_GET_ITEM(o, n); + Py_INCREF(v); + PyList_SET_ITEM(o, n, v); + Py_DECREF(old); + return 1; + } + } else { + PySequenceMethods *m = Py_TYPE(o)->tp_as_sequence; + if (likely(m && m->sq_ass_item)) { + if (wraparound && unlikely(i < 0) && likely(m->sq_length)) { + Py_ssize_t l = m->sq_length(o); + if (likely(l >= 0)) { + i += l; + } else { + if (PyErr_ExceptionMatches(PyExc_OverflowError)) + PyErr_Clear(); + else + return -1; + } + } + return m->sq_ass_item(o, i, v); + } + } +#else +#if CYTHON_COMPILING_IN_PYPY + if (is_list || (PySequence_Check(o) && !PyDict_Check(o))) { +#else + if (is_list || PySequence_Check(o)) { +#endif + return PySequence_SetItem(o, i, v); + } +#endif + return __Pyx_SetItemInt_Generic(o, PyInt_FromSsize_t(i), v); +} + static CYTHON_INLINE void __Pyx_RaiseTooManyValuesError(Py_ssize_t expected) { PyErr_Format(PyExc_ValueError, "too many values to unpack (expected %" CYTHON_FORMAT_SSIZE_T "d)", expected); @@ -5545,7 +6396,7 @@ static CYTHON_INLINE void __Pyx_RaiseTooManyValuesError(Py_ssize_t expected) { static CYTHON_INLINE void __Pyx_RaiseNeedMoreValuesError(Py_ssize_t index) { PyErr_Format(PyExc_ValueError, - "need more than %" CYTHON_FORMAT_SSIZE_T "d value%s to unpack", + "need more than %" CYTHON_FORMAT_SSIZE_T "d value%.1s to unpack", index, (index == 1) ? "" : "s"); } @@ -5663,24 +6514,23 @@ static void __Pyx_Raise(PyObject *type, PyObject *value, PyObject *tb, } value = type; #if PY_VERSION_HEX < 0x02050000 - if (PyInstance_Check(type)) { - type = (PyObject*) ((PyInstanceObject*)type)->in_class; - Py_INCREF(type); - } - else { - type = 0; - PyErr_SetString(PyExc_TypeError, - "raise: exception must be an old-style class or instance"); - goto raise_error; - } - #else - type = (PyObject*) Py_TYPE(type); + if (PyInstance_Check(type)) { + type = (PyObject*) ((PyInstanceObject*)type)->in_class; Py_INCREF(type); - if (!PyType_IsSubtype((PyTypeObject *)type, (PyTypeObject *)PyExc_BaseException)) { - PyErr_SetString(PyExc_TypeError, - "raise: exception class must be a subclass of BaseException"); - goto raise_error; - } + } else { + type = 0; + PyErr_SetString(PyExc_TypeError, + "raise: exception must be an old-style class or instance"); + goto raise_error; + } + #else + type = (PyObject*) Py_TYPE(type); + Py_INCREF(type); + if (!PyType_IsSubtype((PyTypeObject *)type, (PyTypeObject *)PyExc_BaseException)) { + PyErr_SetString(PyExc_TypeError, + "raise: exception class must be a subclass of BaseException"); + goto raise_error; + } #endif } __Pyx_ErrRestore(type, value, tb); @@ -5712,46 +6562,62 @@ static void __Pyx_Raise(PyObject *type, PyObject *value, PyObject *tb, PyObject value = type; type = (PyObject*) Py_TYPE(value); } else if (PyExceptionClass_Check(type)) { - PyObject *args; - if (!value) - args = PyTuple_New(0); - else if (PyTuple_Check(value)) { - Py_INCREF(value); - args = value; + PyObject *instance_class = NULL; + if (value && PyExceptionInstance_Check(value)) { + instance_class = (PyObject*) Py_TYPE(value); + if (instance_class != type) { + if (PyObject_IsSubclass(instance_class, type)) { + type = instance_class; + } else { + instance_class = NULL; + } + } } - else - args = PyTuple_Pack(1, value); - if (!args) - goto bad; - owned_instance = PyEval_CallObject(type, args); - Py_DECREF(args); - if (!owned_instance) - goto bad; - value = owned_instance; - if (!PyExceptionInstance_Check(value)) { - PyErr_Format(PyExc_TypeError, - "calling %R should have returned an instance of " - "BaseException, not %R", - type, Py_TYPE(value)); - goto bad; + if (!instance_class) { + PyObject *args; + if (!value) + args = PyTuple_New(0); + else if (PyTuple_Check(value)) { + Py_INCREF(value); + args = value; + } else + args = PyTuple_Pack(1, value); + if (!args) + goto bad; + owned_instance = PyObject_Call(type, args, NULL); + Py_DECREF(args); + if (!owned_instance) + goto bad; + value = owned_instance; + if (!PyExceptionInstance_Check(value)) { + PyErr_Format(PyExc_TypeError, + "calling %R should have returned an instance of " + "BaseException, not %R", + type, Py_TYPE(value)); + goto bad; + } } } else { PyErr_SetString(PyExc_TypeError, "raise: exception class must be a subclass of BaseException"); goto bad; } +#if PY_VERSION_HEX >= 0x03030000 + if (cause) { +#else if (cause && cause != Py_None) { +#endif PyObject *fixed_cause; - if (PyExceptionClass_Check(cause)) { + if (cause == Py_None) { + fixed_cause = NULL; + } else if (PyExceptionClass_Check(cause)) { fixed_cause = PyObject_CallObject(cause, NULL); if (fixed_cause == NULL) goto bad; - } - else if (PyExceptionInstance_Check(cause)) { + } else if (PyExceptionInstance_Check(cause)) { fixed_cause = cause; Py_INCREF(fixed_cause); - } - else { + } else { PyErr_SetString(PyExc_TypeError, "exception causes must derive from " "BaseException"); @@ -5779,16 +6645,31 @@ static CYTHON_INLINE void __Pyx_RaiseNoneNotIterableError(void) { PyErr_SetString(PyExc_TypeError, "'NoneType' object is not iterable"); } -static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, long level) { - PyObject *py_import = 0; +static PyObject* __Pyx_ImportFrom(PyObject* module, PyObject* name) { + PyObject* value = __Pyx_PyObject_GetAttrStr(module, name); + if (unlikely(!value) && PyErr_ExceptionMatches(PyExc_AttributeError)) { + PyErr_Format(PyExc_ImportError, + #if PY_MAJOR_VERSION < 3 + "cannot import name %.230s", PyString_AS_STRING(name)); + #else + "cannot import name %S", name); + #endif + } + return value; +} + +static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, int level) { PyObject *empty_list = 0; PyObject *module = 0; PyObject *global_dict = 0; PyObject *empty_dict = 0; PyObject *list; - py_import = __Pyx_GetAttrString(__pyx_b, "__import__"); + #if PY_VERSION_HEX < 0x03030000 + PyObject *py_import; + py_import = __Pyx_PyObject_GetAttrStr(__pyx_b, __pyx_n_s_import); if (!py_import) goto bad; + #endif if (from_list) list = from_list; else { @@ -5808,66 +6689,220 @@ static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, long level) { #if PY_MAJOR_VERSION >= 3 if (level == -1) { if (strchr(__Pyx_MODULE_NAME, '.')) { - /* try package relative import first */ + #if PY_VERSION_HEX < 0x03030000 PyObject *py_level = PyInt_FromLong(1); if (!py_level) goto bad; module = PyObject_CallFunctionObjArgs(py_import, name, global_dict, empty_dict, list, py_level, NULL); Py_DECREF(py_level); + #else + module = PyImport_ImportModuleLevelObject( + name, global_dict, empty_dict, list, 1); + #endif if (!module) { if (!PyErr_ExceptionMatches(PyExc_ImportError)) goto bad; PyErr_Clear(); } } - level = 0; /* try absolute import on failure */ + level = 0; /* try absolute import on failure */ + } + #endif + if (!module) { + #if PY_VERSION_HEX < 0x03030000 + PyObject *py_level = PyInt_FromLong(level); + if (!py_level) + goto bad; + module = PyObject_CallFunctionObjArgs(py_import, + name, global_dict, empty_dict, list, py_level, NULL); + Py_DECREF(py_level); + #else + module = PyImport_ImportModuleLevelObject( + name, global_dict, empty_dict, list, level); + #endif + } + } + #else + if (level>0) { + PyErr_SetString(PyExc_RuntimeError, "Relative import is not supported for Python <=2.4."); + goto bad; + } + module = PyObject_CallFunctionObjArgs(py_import, + name, global_dict, empty_dict, list, NULL); + #endif +bad: + #if PY_VERSION_HEX < 0x03030000 + Py_XDECREF(py_import); + #endif + Py_XDECREF(empty_list); + Py_XDECREF(empty_dict); + return module; +} + +#define __PYX_VERIFY_RETURN_INT(target_type, func_type, func) \ + { \ + func_type value = func(x); \ + if (sizeof(target_type) < sizeof(func_type)) { \ + if (unlikely(value != (func_type) (target_type) value)) { \ + func_type zero = 0; \ + PyErr_SetString(PyExc_OverflowError, \ + (is_unsigned && unlikely(value < zero)) ? \ + "can't convert negative value to " #target_type : \ + "value too large to convert to " #target_type); \ + return (target_type) -1; \ + } \ + } \ + return (target_type) value; \ + } + +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + #include "longintrepr.h" + #endif +#endif +static CYTHON_INLINE int __Pyx_PyInt_As_int(PyObject *x) { + const int neg_one = (int) -1, const_zero = 0; + const int is_unsigned = neg_one > const_zero; +#if PY_MAJOR_VERSION < 3 + if (likely(PyInt_Check(x))) { + if (sizeof(int) < sizeof(long)) { + __PYX_VERIFY_RETURN_INT(int, long, PyInt_AS_LONG) + } else { + long val = PyInt_AS_LONG(x); + if (is_unsigned && unlikely(val < 0)) { + PyErr_SetString(PyExc_OverflowError, + "can't convert negative value to int"); + return (int) -1; + } + return (int) val; + } + } else +#endif + if (likely(PyLong_Check(x))) { + if (is_unsigned) { +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + if (sizeof(digit) <= sizeof(int)) { + switch (Py_SIZE(x)) { + case 0: return 0; + case 1: return (int) ((PyLongObject*)x)->ob_digit[0]; + } + } + #endif +#endif + if (unlikely(Py_SIZE(x) < 0)) { + PyErr_SetString(PyExc_OverflowError, + "can't convert negative value to int"); + return (int) -1; + } + if (sizeof(int) <= sizeof(unsigned long)) { + __PYX_VERIFY_RETURN_INT(int, unsigned long, PyLong_AsUnsignedLong) + } else if (sizeof(int) <= sizeof(unsigned long long)) { + __PYX_VERIFY_RETURN_INT(int, unsigned long long, PyLong_AsUnsignedLongLong) + } + } else { +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + if (sizeof(digit) <= sizeof(int)) { + switch (Py_SIZE(x)) { + case 0: return 0; + case 1: return +(int) ((PyLongObject*)x)->ob_digit[0]; + case -1: return -(int) ((PyLongObject*)x)->ob_digit[0]; + } + } + #endif +#endif + if (sizeof(int) <= sizeof(long)) { + __PYX_VERIFY_RETURN_INT(int, long, PyLong_AsLong) + } else if (sizeof(int) <= sizeof(long long)) { + __PYX_VERIFY_RETURN_INT(int, long long, PyLong_AsLongLong) + } } - #endif - if (!module) { - PyObject *py_level = PyInt_FromLong(level); - if (!py_level) - goto bad; - module = PyObject_CallFunctionObjArgs(py_import, - name, global_dict, empty_dict, list, py_level, NULL); - Py_DECREF(py_level); + { +#if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) + PyErr_SetString(PyExc_RuntimeError, + "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); +#else + int val; + PyObject *v = __Pyx_PyNumber_Int(x); + #if PY_MAJOR_VERSION < 3 + if (likely(v) && !PyLong_Check(v)) { + PyObject *tmp = v; + v = PyNumber_Long(tmp); + Py_DECREF(tmp); + } + #endif + if (likely(v)) { + int one = 1; int is_little = (int)*(unsigned char *)&one; + unsigned char *bytes = (unsigned char *)&val; + int ret = _PyLong_AsByteArray((PyLongObject *)v, + bytes, sizeof(val), + is_little, !is_unsigned); + Py_DECREF(v); + if (likely(!ret)) + return val; + } +#endif + return (int) -1; } + } else { + int val; + PyObject *tmp = __Pyx_PyNumber_Int(x); + if (!tmp) return (int) -1; + val = __Pyx_PyInt_As_int(tmp); + Py_DECREF(tmp); + return val; } - #else - if (level>0) { - PyErr_SetString(PyExc_RuntimeError, "Relative import is not supported for Python <=2.4."); - goto bad; +} + +static CYTHON_INLINE PyObject* __Pyx_PyInt_From_int(int value) { + const int neg_one = (int) -1, const_zero = 0; + const int is_unsigned = neg_one > const_zero; + if (is_unsigned) { + if (sizeof(int) < sizeof(long)) { + return PyInt_FromLong((long) value); + } else if (sizeof(int) <= sizeof(unsigned long)) { + return PyLong_FromUnsignedLong((unsigned long) value); + } else if (sizeof(int) <= sizeof(unsigned long long)) { + return PyLong_FromUnsignedLongLong((unsigned long long) value); + } + } else { + if (sizeof(int) <= sizeof(long)) { + return PyInt_FromLong((long) value); + } else if (sizeof(int) <= sizeof(long long)) { + return PyLong_FromLongLong((long long) value); + } + } + { + int one = 1; int little = (int)*(unsigned char *)&one; + unsigned char *bytes = (unsigned char *)&value; + return _PyLong_FromByteArray(bytes, sizeof(int), + little, !is_unsigned); } - module = PyObject_CallFunctionObjArgs(py_import, - name, global_dict, empty_dict, list, NULL); - #endif -bad: - Py_XDECREF(empty_list); - Py_XDECREF(py_import); - Py_XDECREF(empty_dict); - return module; } -static CYTHON_INLINE PyObject *__Pyx_PyInt_to_py_Py_intptr_t(Py_intptr_t val) { - const Py_intptr_t neg_one = (Py_intptr_t)-1, const_zero = (Py_intptr_t)0; - const int is_unsigned = const_zero < neg_one; - if ((sizeof(Py_intptr_t) == sizeof(char)) || - (sizeof(Py_intptr_t) == sizeof(short))) { - return PyInt_FromLong((long)val); - } else if ((sizeof(Py_intptr_t) == sizeof(int)) || - (sizeof(Py_intptr_t) == sizeof(long))) { - if (is_unsigned) - return PyLong_FromUnsignedLong((unsigned long)val); - else - return PyInt_FromLong((long)val); - } else if (sizeof(Py_intptr_t) == sizeof(PY_LONG_LONG)) { - if (is_unsigned) - return PyLong_FromUnsignedLongLong((unsigned PY_LONG_LONG)val); - else - return PyLong_FromLongLong((PY_LONG_LONG)val); +static CYTHON_INLINE PyObject* __Pyx_PyInt_From_Py_intptr_t(Py_intptr_t value) { + const Py_intptr_t neg_one = (Py_intptr_t) -1, const_zero = 0; + const int is_unsigned = neg_one > const_zero; + if (is_unsigned) { + if (sizeof(Py_intptr_t) < sizeof(long)) { + return PyInt_FromLong((long) value); + } else if (sizeof(Py_intptr_t) <= sizeof(unsigned long)) { + return PyLong_FromUnsignedLong((unsigned long) value); + } else if (sizeof(Py_intptr_t) <= sizeof(unsigned long long)) { + return PyLong_FromUnsignedLongLong((unsigned long long) value); + } } else { + if (sizeof(Py_intptr_t) <= sizeof(long)) { + return PyInt_FromLong((long) value); + } else if (sizeof(Py_intptr_t) <= sizeof(long long)) { + return PyLong_FromLongLong((long long) value); + } + } + { int one = 1; int little = (int)*(unsigned char *)&one; - unsigned char *bytes = (unsigned char *)&val; + unsigned char *bytes = (unsigned char *)&value; return _PyLong_FromByteArray(bytes, sizeof(Py_intptr_t), little, !is_unsigned); } @@ -6113,401 +7148,127 @@ static CYTHON_INLINE PyObject *__Pyx_PyInt_to_py_Py_intptr_t(Py_intptr_t val) { #endif #endif -static CYTHON_INLINE unsigned char __Pyx_PyInt_AsUnsignedChar(PyObject* x) { - const unsigned char neg_one = (unsigned char)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(unsigned char) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(unsigned char)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to unsigned char" : - "value too large to convert to unsigned char"); - } - return (unsigned char)-1; - } - return (unsigned char)val; - } - return (unsigned char)__Pyx_PyInt_AsUnsignedLong(x); -} - -static CYTHON_INLINE unsigned short __Pyx_PyInt_AsUnsignedShort(PyObject* x) { - const unsigned short neg_one = (unsigned short)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(unsigned short) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(unsigned short)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to unsigned short" : - "value too large to convert to unsigned short"); - } - return (unsigned short)-1; - } - return (unsigned short)val; - } - return (unsigned short)__Pyx_PyInt_AsUnsignedLong(x); -} - -static CYTHON_INLINE unsigned int __Pyx_PyInt_AsUnsignedInt(PyObject* x) { - const unsigned int neg_one = (unsigned int)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(unsigned int) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(unsigned int)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to unsigned int" : - "value too large to convert to unsigned int"); - } - return (unsigned int)-1; - } - return (unsigned int)val; - } - return (unsigned int)__Pyx_PyInt_AsUnsignedLong(x); -} - -static CYTHON_INLINE char __Pyx_PyInt_AsChar(PyObject* x) { - const char neg_one = (char)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(char) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(char)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to char" : - "value too large to convert to char"); - } - return (char)-1; - } - return (char)val; - } - return (char)__Pyx_PyInt_AsLong(x); -} - -static CYTHON_INLINE short __Pyx_PyInt_AsShort(PyObject* x) { - const short neg_one = (short)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(short) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(short)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to short" : - "value too large to convert to short"); - } - return (short)-1; - } - return (short)val; - } - return (short)__Pyx_PyInt_AsLong(x); -} - -static CYTHON_INLINE int __Pyx_PyInt_AsInt(PyObject* x) { - const int neg_one = (int)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(int) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(int)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to int" : - "value too large to convert to int"); - } - return (int)-1; - } - return (int)val; - } - return (int)__Pyx_PyInt_AsLong(x); -} - -static CYTHON_INLINE signed char __Pyx_PyInt_AsSignedChar(PyObject* x) { - const signed char neg_one = (signed char)-1, const_zero = 0; +static CYTHON_INLINE PyObject* __Pyx_PyInt_From_long(long value) { + const long neg_one = (long) -1, const_zero = 0; const int is_unsigned = neg_one > const_zero; - if (sizeof(signed char) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(signed char)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to signed char" : - "value too large to convert to signed char"); - } - return (signed char)-1; - } - return (signed char)val; - } - return (signed char)__Pyx_PyInt_AsSignedLong(x); -} - -static CYTHON_INLINE signed short __Pyx_PyInt_AsSignedShort(PyObject* x) { - const signed short neg_one = (signed short)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(signed short) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(signed short)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to signed short" : - "value too large to convert to signed short"); - } - return (signed short)-1; + if (is_unsigned) { + if (sizeof(long) < sizeof(long)) { + return PyInt_FromLong((long) value); + } else if (sizeof(long) <= sizeof(unsigned long)) { + return PyLong_FromUnsignedLong((unsigned long) value); + } else if (sizeof(long) <= sizeof(unsigned long long)) { + return PyLong_FromUnsignedLongLong((unsigned long long) value); } - return (signed short)val; - } - return (signed short)__Pyx_PyInt_AsSignedLong(x); -} - -static CYTHON_INLINE signed int __Pyx_PyInt_AsSignedInt(PyObject* x) { - const signed int neg_one = (signed int)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(signed int) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(signed int)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to signed int" : - "value too large to convert to signed int"); - } - return (signed int)-1; + } else { + if (sizeof(long) <= sizeof(long)) { + return PyInt_FromLong((long) value); + } else if (sizeof(long) <= sizeof(long long)) { + return PyLong_FromLongLong((long long) value); } - return (signed int)val; } - return (signed int)__Pyx_PyInt_AsSignedLong(x); -} - -static CYTHON_INLINE int __Pyx_PyInt_AsLongDouble(PyObject* x) { - const int neg_one = (int)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(int) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(int)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to int" : - "value too large to convert to int"); - } - return (int)-1; - } - return (int)val; + { + int one = 1; int little = (int)*(unsigned char *)&one; + unsigned char *bytes = (unsigned char *)&value; + return _PyLong_FromByteArray(bytes, sizeof(long), + little, !is_unsigned); } - return (int)__Pyx_PyInt_AsLong(x); } -static CYTHON_INLINE unsigned long __Pyx_PyInt_AsUnsignedLong(PyObject* x) { - const unsigned long neg_one = (unsigned long)-1, const_zero = 0; +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + #include "longintrepr.h" + #endif +#endif +static CYTHON_INLINE long __Pyx_PyInt_As_long(PyObject *x) { + const long neg_one = (long) -1, const_zero = 0; const int is_unsigned = neg_one > const_zero; -#if PY_VERSION_HEX < 0x03000000 +#if PY_MAJOR_VERSION < 3 if (likely(PyInt_Check(x))) { - long val = PyInt_AS_LONG(x); - if (is_unsigned && unlikely(val < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to unsigned long"); - return (unsigned long)-1; - } - return (unsigned long)val; - } else -#endif - if (likely(PyLong_Check(x))) { - if (is_unsigned) { - if (unlikely(Py_SIZE(x) < 0)) { + if (sizeof(long) < sizeof(long)) { + __PYX_VERIFY_RETURN_INT(long, long, PyInt_AS_LONG) + } else { + long val = PyInt_AS_LONG(x); + if (is_unsigned && unlikely(val < 0)) { PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to unsigned long"); - return (unsigned long)-1; + "can't convert negative value to long"); + return (long) -1; } - return (unsigned long)PyLong_AsUnsignedLong(x); - } else { - return (unsigned long)PyLong_AsLong(x); - } - } else { - unsigned long val; - PyObject *tmp = __Pyx_PyNumber_Int(x); - if (!tmp) return (unsigned long)-1; - val = __Pyx_PyInt_AsUnsignedLong(tmp); - Py_DECREF(tmp); - return val; - } -} - -static CYTHON_INLINE unsigned PY_LONG_LONG __Pyx_PyInt_AsUnsignedLongLong(PyObject* x) { - const unsigned PY_LONG_LONG neg_one = (unsigned PY_LONG_LONG)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; -#if PY_VERSION_HEX < 0x03000000 - if (likely(PyInt_Check(x))) { - long val = PyInt_AS_LONG(x); - if (is_unsigned && unlikely(val < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to unsigned PY_LONG_LONG"); - return (unsigned PY_LONG_LONG)-1; + return (long) val; } - return (unsigned PY_LONG_LONG)val; } else #endif if (likely(PyLong_Check(x))) { if (is_unsigned) { - if (unlikely(Py_SIZE(x) < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to unsigned PY_LONG_LONG"); - return (unsigned PY_LONG_LONG)-1; +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + if (sizeof(digit) <= sizeof(long)) { + switch (Py_SIZE(x)) { + case 0: return 0; + case 1: return (long) ((PyLongObject*)x)->ob_digit[0]; + } } - return (unsigned PY_LONG_LONG)PyLong_AsUnsignedLongLong(x); - } else { - return (unsigned PY_LONG_LONG)PyLong_AsLongLong(x); - } - } else { - unsigned PY_LONG_LONG val; - PyObject *tmp = __Pyx_PyNumber_Int(x); - if (!tmp) return (unsigned PY_LONG_LONG)-1; - val = __Pyx_PyInt_AsUnsignedLongLong(tmp); - Py_DECREF(tmp); - return val; - } -} - -static CYTHON_INLINE long __Pyx_PyInt_AsLong(PyObject* x) { - const long neg_one = (long)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; -#if PY_VERSION_HEX < 0x03000000 - if (likely(PyInt_Check(x))) { - long val = PyInt_AS_LONG(x); - if (is_unsigned && unlikely(val < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to long"); - return (long)-1; - } - return (long)val; - } else + #endif #endif - if (likely(PyLong_Check(x))) { - if (is_unsigned) { if (unlikely(Py_SIZE(x) < 0)) { PyErr_SetString(PyExc_OverflowError, "can't convert negative value to long"); - return (long)-1; + return (long) -1; } - return (long)PyLong_AsUnsignedLong(x); - } else { - return (long)PyLong_AsLong(x); - } - } else { - long val; - PyObject *tmp = __Pyx_PyNumber_Int(x); - if (!tmp) return (long)-1; - val = __Pyx_PyInt_AsLong(tmp); - Py_DECREF(tmp); - return val; - } -} - -static CYTHON_INLINE PY_LONG_LONG __Pyx_PyInt_AsLongLong(PyObject* x) { - const PY_LONG_LONG neg_one = (PY_LONG_LONG)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; -#if PY_VERSION_HEX < 0x03000000 - if (likely(PyInt_Check(x))) { - long val = PyInt_AS_LONG(x); - if (is_unsigned && unlikely(val < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to PY_LONG_LONG"); - return (PY_LONG_LONG)-1; - } - return (PY_LONG_LONG)val; - } else -#endif - if (likely(PyLong_Check(x))) { - if (is_unsigned) { - if (unlikely(Py_SIZE(x) < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to PY_LONG_LONG"); - return (PY_LONG_LONG)-1; + if (sizeof(long) <= sizeof(unsigned long)) { + __PYX_VERIFY_RETURN_INT(long, unsigned long, PyLong_AsUnsignedLong) + } else if (sizeof(long) <= sizeof(unsigned long long)) { + __PYX_VERIFY_RETURN_INT(long, unsigned long long, PyLong_AsUnsignedLongLong) } - return (PY_LONG_LONG)PyLong_AsUnsignedLongLong(x); } else { - return (PY_LONG_LONG)PyLong_AsLongLong(x); - } - } else { - PY_LONG_LONG val; - PyObject *tmp = __Pyx_PyNumber_Int(x); - if (!tmp) return (PY_LONG_LONG)-1; - val = __Pyx_PyInt_AsLongLong(tmp); - Py_DECREF(tmp); - return val; - } -} - -static CYTHON_INLINE signed long __Pyx_PyInt_AsSignedLong(PyObject* x) { - const signed long neg_one = (signed long)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; -#if PY_VERSION_HEX < 0x03000000 - if (likely(PyInt_Check(x))) { - long val = PyInt_AS_LONG(x); - if (is_unsigned && unlikely(val < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to signed long"); - return (signed long)-1; - } - return (signed long)val; - } else +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + if (sizeof(digit) <= sizeof(long)) { + switch (Py_SIZE(x)) { + case 0: return 0; + case 1: return +(long) ((PyLongObject*)x)->ob_digit[0]; + case -1: return -(long) ((PyLongObject*)x)->ob_digit[0]; + } + } + #endif #endif - if (likely(PyLong_Check(x))) { - if (is_unsigned) { - if (unlikely(Py_SIZE(x) < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to signed long"); - return (signed long)-1; + if (sizeof(long) <= sizeof(long)) { + __PYX_VERIFY_RETURN_INT(long, long, PyLong_AsLong) + } else if (sizeof(long) <= sizeof(long long)) { + __PYX_VERIFY_RETURN_INT(long, long long, PyLong_AsLongLong) } - return (signed long)PyLong_AsUnsignedLong(x); - } else { - return (signed long)PyLong_AsLong(x); - } - } else { - signed long val; - PyObject *tmp = __Pyx_PyNumber_Int(x); - if (!tmp) return (signed long)-1; - val = __Pyx_PyInt_AsSignedLong(tmp); - Py_DECREF(tmp); - return val; - } -} - -static CYTHON_INLINE signed PY_LONG_LONG __Pyx_PyInt_AsSignedLongLong(PyObject* x) { - const signed PY_LONG_LONG neg_one = (signed PY_LONG_LONG)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; -#if PY_VERSION_HEX < 0x03000000 - if (likely(PyInt_Check(x))) { - long val = PyInt_AS_LONG(x); - if (is_unsigned && unlikely(val < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to signed PY_LONG_LONG"); - return (signed PY_LONG_LONG)-1; } - return (signed PY_LONG_LONG)val; - } else -#endif - if (likely(PyLong_Check(x))) { - if (is_unsigned) { - if (unlikely(Py_SIZE(x) < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to signed PY_LONG_LONG"); - return (signed PY_LONG_LONG)-1; + { +#if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) + PyErr_SetString(PyExc_RuntimeError, + "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); +#else + long val; + PyObject *v = __Pyx_PyNumber_Int(x); + #if PY_MAJOR_VERSION < 3 + if (likely(v) && !PyLong_Check(v)) { + PyObject *tmp = v; + v = PyNumber_Long(tmp); + Py_DECREF(tmp); } - return (signed PY_LONG_LONG)PyLong_AsUnsignedLongLong(x); - } else { - return (signed PY_LONG_LONG)PyLong_AsLongLong(x); + #endif + if (likely(v)) { + int one = 1; int is_little = (int)*(unsigned char *)&one; + unsigned char *bytes = (unsigned char *)&val; + int ret = _PyLong_AsByteArray((PyLongObject *)v, + bytes, sizeof(val), + is_little, !is_unsigned); + Py_DECREF(v); + if (likely(!ret)) + return val; + } +#endif + return (long) -1; } } else { - signed PY_LONG_LONG val; + long val; PyObject *tmp = __Pyx_PyNumber_Int(x); - if (!tmp) return (signed PY_LONG_LONG)-1; - val = __Pyx_PyInt_AsSignedLongLong(tmp); + if (!tmp) return (long) -1; + val = __Pyx_PyInt_As_long(tmp); Py_DECREF(tmp); return val; } @@ -6558,6 +7319,10 @@ static PyTypeObject *__Pyx_ImportType(const char *module_name, const char *class PyObject *result = 0; PyObject *py_name = 0; char warning[200]; + Py_ssize_t basicsize; +#ifdef Py_LIMITED_API + PyObject *py_basicsize; +#endif py_module = __Pyx_ImportModule(module_name); if (!py_module) goto bad; @@ -6573,11 +7338,23 @@ static PyTypeObject *__Pyx_ImportType(const char *module_name, const char *class goto bad; if (!PyType_Check(result)) { PyErr_Format(PyExc_TypeError, - "%s.%s is not a type object", + "%.200s.%.200s is not a type object", module_name, class_name); goto bad; } - if (!strict && (size_t)((PyTypeObject *)result)->tp_basicsize > size) { +#ifndef Py_LIMITED_API + basicsize = ((PyTypeObject *)result)->tp_basicsize; +#else + py_basicsize = PyObject_GetAttrString(result, "__basicsize__"); + if (!py_basicsize) + goto bad; + basicsize = PyLong_AsSsize_t(py_basicsize); + Py_DECREF(py_basicsize); + py_basicsize = 0; + if (basicsize == (Py_ssize_t)-1 && PyErr_Occurred()) + goto bad; +#endif + if (!strict && (size_t)basicsize > size) { PyOS_snprintf(warning, sizeof(warning), "%s.%s size changed, may indicate binary incompatibility", module_name, class_name); @@ -6587,9 +7364,9 @@ static PyTypeObject *__Pyx_ImportType(const char *module_name, const char *class if (PyErr_WarnEx(NULL, warning, 0) < 0) goto bad; #endif } - else if ((size_t)((PyTypeObject *)result)->tp_basicsize != size) { + else if ((size_t)basicsize != size) { PyErr_Format(PyExc_ValueError, - "%s.%s has the wrong size, try recompiling", + "%.200s.%.200s has the wrong size, try recompiling", module_name, class_name); goto bad; } @@ -6793,27 +7570,90 @@ static int __Pyx_InitStrings(__Pyx_StringTabEntry *t) { return 0; } - -/* Type Conversion Functions */ - +static CYTHON_INLINE PyObject* __Pyx_PyUnicode_FromString(const char* c_str) { + return __Pyx_PyUnicode_FromStringAndSize(c_str, strlen(c_str)); +} +static CYTHON_INLINE char* __Pyx_PyObject_AsString(PyObject* o) { + Py_ssize_t ignore; + return __Pyx_PyObject_AsStringAndSize(o, &ignore); +} +static CYTHON_INLINE char* __Pyx_PyObject_AsStringAndSize(PyObject* o, Py_ssize_t *length) { +#if __PYX_DEFAULT_STRING_ENCODING_IS_ASCII || __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT + if ( +#if PY_MAJOR_VERSION < 3 && __PYX_DEFAULT_STRING_ENCODING_IS_ASCII + __Pyx_sys_getdefaultencoding_not_ascii && +#endif + PyUnicode_Check(o)) { +#if PY_VERSION_HEX < 0x03030000 + char* defenc_c; + PyObject* defenc = _PyUnicode_AsDefaultEncodedString(o, NULL); + if (!defenc) return NULL; + defenc_c = PyBytes_AS_STRING(defenc); +#if __PYX_DEFAULT_STRING_ENCODING_IS_ASCII + { + char* end = defenc_c + PyBytes_GET_SIZE(defenc); + char* c; + for (c = defenc_c; c < end; c++) { + if ((unsigned char) (*c) >= 128) { + PyUnicode_AsASCIIString(o); + return NULL; + } + } + } +#endif /*__PYX_DEFAULT_STRING_ENCODING_IS_ASCII*/ + *length = PyBytes_GET_SIZE(defenc); + return defenc_c; +#else /* PY_VERSION_HEX < 0x03030000 */ + if (PyUnicode_READY(o) == -1) return NULL; +#if __PYX_DEFAULT_STRING_ENCODING_IS_ASCII + if (PyUnicode_IS_ASCII(o)) { + *length = PyUnicode_GET_LENGTH(o); + return PyUnicode_AsUTF8(o); + } else { + PyUnicode_AsASCIIString(o); + return NULL; + } +#else /* __PYX_DEFAULT_STRING_ENCODING_IS_ASCII */ + return PyUnicode_AsUTF8AndSize(o, length); +#endif /* __PYX_DEFAULT_STRING_ENCODING_IS_ASCII */ +#endif /* PY_VERSION_HEX < 0x03030000 */ + } else +#endif /* __PYX_DEFAULT_STRING_ENCODING_IS_ASCII || __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT */ +#if !CYTHON_COMPILING_IN_PYPY +#if PY_VERSION_HEX >= 0x02060000 + if (PyByteArray_Check(o)) { + *length = PyByteArray_GET_SIZE(o); + return PyByteArray_AS_STRING(o); + } else +#endif +#endif + { + char* result; + int r = PyBytes_AsStringAndSize(o, &result, length); + if (unlikely(r < 0)) { + return NULL; + } else { + return result; + } + } +} static CYTHON_INLINE int __Pyx_PyObject_IsTrue(PyObject* x) { int is_true = x == Py_True; if (is_true | (x == Py_False) | (x == Py_None)) return is_true; else return PyObject_IsTrue(x); } - static CYTHON_INLINE PyObject* __Pyx_PyNumber_Int(PyObject* x) { PyNumberMethods *m; const char *name = NULL; PyObject *res = NULL; -#if PY_VERSION_HEX < 0x03000000 +#if PY_MAJOR_VERSION < 3 if (PyInt_Check(x) || PyLong_Check(x)) #else if (PyLong_Check(x)) #endif return Py_INCREF(x), x; m = Py_TYPE(x)->tp_as_number; -#if PY_VERSION_HEX < 0x03000000 +#if PY_MAJOR_VERSION < 3 if (m && m->nb_int) { name = "int"; res = PyNumber_Int(x); @@ -6829,13 +7669,13 @@ static CYTHON_INLINE PyObject* __Pyx_PyNumber_Int(PyObject* x) { } #endif if (res) { -#if PY_VERSION_HEX < 0x03000000 +#if PY_MAJOR_VERSION < 3 if (!PyInt_Check(res) && !PyLong_Check(res)) { #else if (!PyLong_Check(res)) { #endif PyErr_Format(PyExc_TypeError, - "__%s__ returned non-%s (type %.200s)", + "__%.4s__ returned non-%.4s (type %.200s)", name, name, Py_TYPE(res)->tp_name); Py_DECREF(res); return NULL; @@ -6847,16 +7687,40 @@ static CYTHON_INLINE PyObject* __Pyx_PyNumber_Int(PyObject* x) { } return res; } - +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + #include "longintrepr.h" + #endif +#endif static CYTHON_INLINE Py_ssize_t __Pyx_PyIndex_AsSsize_t(PyObject* b) { Py_ssize_t ival; - PyObject* x = PyNumber_Index(b); + PyObject *x; +#if PY_MAJOR_VERSION < 3 + if (likely(PyInt_CheckExact(b))) + return PyInt_AS_LONG(b); +#endif + if (likely(PyLong_CheckExact(b))) { + #if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + switch (Py_SIZE(b)) { + case -1: return -(sdigit)((PyLongObject*)b)->ob_digit[0]; + case 0: return 0; + case 1: return ((PyLongObject*)b)->ob_digit[0]; + } + #endif + #endif + #if PY_VERSION_HEX < 0x02060000 + return PyInt_AsSsize_t(b); + #else + return PyLong_AsSsize_t(b); + #endif + } + x = PyNumber_Index(b); if (!x) return -1; ival = PyInt_AsSsize_t(x); Py_DECREF(x); return ival; } - static CYTHON_INLINE PyObject * __Pyx_PyInt_FromSize_t(size_t ival) { #if PY_VERSION_HEX < 0x02050000 if (ival <= LONG_MAX) @@ -6871,17 +7735,5 @@ static CYTHON_INLINE PyObject * __Pyx_PyInt_FromSize_t(size_t ival) { #endif } -static CYTHON_INLINE size_t __Pyx_PyInt_AsSize_t(PyObject* x) { - unsigned PY_LONG_LONG val = __Pyx_PyInt_AsUnsignedLongLong(x); - if (unlikely(val == (unsigned PY_LONG_LONG)-1 && PyErr_Occurred())) { - return (size_t)-1; - } else if (unlikely(val != (unsigned PY_LONG_LONG)(size_t)val)) { - PyErr_SetString(PyExc_OverflowError, - "value too large to convert to size_t"); - return (size_t)-1; - } - return (size_t)val; -} - #endif /* Py_PYTHON_H */ diff --git a/nipy/labs/group/glm_twolevel.pyx b/nipy/labs/group/glm_twolevel.pyx index c991e1227f..57adf32c58 100644 --- a/nipy/labs/group/glm_twolevel.pyx +++ b/nipy/labs/group/glm_twolevel.pyx @@ -9,6 +9,7 @@ __version__ = '0.1' # Includes from fff cimport * +include "fffpy_import_lapack.pxi" # Exports from fff_glm_twolevel.h cdef extern from "fff_glm_twolevel.h": @@ -39,6 +40,7 @@ cdef extern from "fff_glm_twolevel.h": fffpy_import_array() import_array() import numpy as np +fffpy_import_lapack() # Constants DEF_NITER = 2 diff --git a/nipy/labs/group/onesample.c b/nipy/labs/group/onesample.c index e84789f10d..6a6ac6a55b 100644 --- a/nipy/labs/group/onesample.c +++ b/nipy/labs/group/onesample.c @@ -1,12 +1,25 @@ -/* Generated by Cython 0.17.4 on Sat Jan 12 17:27:37 2013 */ +/* Generated by Cython 0.20.1post0 (Debian 0.20.1+git90-g0e6e38e-1ubuntu2) on Mon Nov 10 15:44:54 2014 */ #define PY_SSIZE_T_CLEAN +#ifndef CYTHON_USE_PYLONG_INTERNALS +#ifdef PYLONG_BITS_IN_DIGIT +#define CYTHON_USE_PYLONG_INTERNALS 0 +#else +#include "pyconfig.h" +#ifdef PYLONG_BITS_IN_DIGIT +#define CYTHON_USE_PYLONG_INTERNALS 1 +#else +#define CYTHON_USE_PYLONG_INTERNALS 0 +#endif +#endif +#endif #include "Python.h" #ifndef Py_PYTHON_H #error Python headers needed to compile C extensions, please install development version of Python. #elif PY_VERSION_HEX < 0x02040000 #error Cython requires Python 2.4+. #else +#define CYTHON_ABI "0_20_1post0" #include /* For offsetof */ #ifndef offsetof #define offsetof(type, member) ( (size_t) & ((type*)0) -> member ) @@ -41,6 +54,9 @@ #define CYTHON_COMPILING_IN_PYPY 0 #define CYTHON_COMPILING_IN_CPYTHON 1 #endif +#if CYTHON_COMPILING_IN_PYPY +#define Py_OptimizeFlag 0 +#endif #if PY_VERSION_HEX < 0x02050000 typedef int Py_ssize_t; #define PY_SSIZE_T_MAX INT_MAX @@ -48,7 +64,7 @@ #define PY_FORMAT_SIZE_T "" #define CYTHON_FORMAT_SSIZE_T "" #define PyInt_FromSsize_t(z) PyInt_FromLong(z) - #define PyInt_AsSsize_t(o) __Pyx_PyInt_AsInt(o) + #define PyInt_AsSsize_t(o) __Pyx_PyInt_As_int(o) #define PyNumber_Index(o) ((PyNumber_Check(o) && !PyFloat_Check(o)) ? PyNumber_Int(o) : \ (PyErr_Format(PyExc_TypeError, \ "expected index value, got %.200s", Py_TYPE(o)->tp_name), \ @@ -100,13 +116,15 @@ #if PY_MAJOR_VERSION < 3 #define __Pyx_BUILTIN_MODULE_NAME "__builtin__" #define __Pyx_PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) \ - PyCode_New(a, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) + PyCode_New(a+k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) + #define __Pyx_DefaultClassType PyClass_Type #else #define __Pyx_BUILTIN_MODULE_NAME "builtins" #define __Pyx_PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) \ PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) + #define __Pyx_DefaultClassType PyType_Type #endif -#if PY_MAJOR_VERSION < 3 && PY_MINOR_VERSION < 6 +#if PY_VERSION_HEX < 0x02060000 #define PyUnicode_FromString(s) PyUnicode_Decode(s, strlen(s), "UTF-8", "strict") #endif #if PY_MAJOR_VERSION >= 3 @@ -116,19 +134,47 @@ #if (PY_VERSION_HEX < 0x02060000) || (PY_MAJOR_VERSION >= 3) #define Py_TPFLAGS_HAVE_NEWBUFFER 0 #endif +#if PY_VERSION_HEX < 0x02060000 + #define Py_TPFLAGS_HAVE_VERSION_TAG 0 +#endif +#if PY_VERSION_HEX < 0x02060000 && !defined(Py_TPFLAGS_IS_ABSTRACT) + #define Py_TPFLAGS_IS_ABSTRACT 0 +#endif +#if PY_VERSION_HEX < 0x030400a1 && !defined(Py_TPFLAGS_HAVE_FINALIZE) + #define Py_TPFLAGS_HAVE_FINALIZE 0 +#endif #if PY_VERSION_HEX > 0x03030000 && defined(PyUnicode_KIND) #define CYTHON_PEP393_ENABLED 1 #define __Pyx_PyUnicode_READY(op) (likely(PyUnicode_IS_READY(op)) ? \ 0 : _PyUnicode_Ready((PyObject *)(op))) #define __Pyx_PyUnicode_GET_LENGTH(u) PyUnicode_GET_LENGTH(u) #define __Pyx_PyUnicode_READ_CHAR(u, i) PyUnicode_READ_CHAR(u, i) + #define __Pyx_PyUnicode_KIND(u) PyUnicode_KIND(u) + #define __Pyx_PyUnicode_DATA(u) PyUnicode_DATA(u) #define __Pyx_PyUnicode_READ(k, d, i) PyUnicode_READ(k, d, i) #else #define CYTHON_PEP393_ENABLED 0 #define __Pyx_PyUnicode_READY(op) (0) #define __Pyx_PyUnicode_GET_LENGTH(u) PyUnicode_GET_SIZE(u) #define __Pyx_PyUnicode_READ_CHAR(u, i) ((Py_UCS4)(PyUnicode_AS_UNICODE(u)[i])) - #define __Pyx_PyUnicode_READ(k, d, i) ((k=k), (Py_UCS4)(((Py_UNICODE*)d)[i])) + #define __Pyx_PyUnicode_KIND(u) (sizeof(Py_UNICODE)) + #define __Pyx_PyUnicode_DATA(u) ((void*)PyUnicode_AS_UNICODE(u)) + #define __Pyx_PyUnicode_READ(k, d, i) ((void)(k), (Py_UCS4)(((Py_UNICODE*)d)[i])) +#endif +#if CYTHON_COMPILING_IN_PYPY + #define __Pyx_PyUnicode_Concat(a, b) PyNumber_Add(a, b) + #define __Pyx_PyUnicode_ConcatSafe(a, b) PyNumber_Add(a, b) +#else + #define __Pyx_PyUnicode_Concat(a, b) PyUnicode_Concat(a, b) + #define __Pyx_PyUnicode_ConcatSafe(a, b) ((unlikely((a) == Py_None) || unlikely((b) == Py_None)) ? \ + PyNumber_Add(a, b) : __Pyx_PyUnicode_Concat(a, b)) +#endif +#define __Pyx_PyString_FormatSafe(a, b) ((unlikely((a) == Py_None)) ? PyNumber_Remainder(a, b) : __Pyx_PyString_Format(a, b)) +#define __Pyx_PyUnicode_FormatSafe(a, b) ((unlikely((a) == Py_None)) ? PyNumber_Remainder(a, b) : PyUnicode_Format(a, b)) +#if PY_MAJOR_VERSION >= 3 + #define __Pyx_PyString_Format(a, b) PyUnicode_Format(a, b) +#else + #define __Pyx_PyString_Format(a, b) PyString_Format(a, b) #endif #if PY_MAJOR_VERSION >= 3 #define PyBaseString_Type PyUnicode_Type @@ -155,6 +201,14 @@ #define PyBytes_Concat PyString_Concat #define PyBytes_ConcatAndDel PyString_ConcatAndDel #endif +#if PY_MAJOR_VERSION >= 3 + #define __Pyx_PyBaseString_Check(obj) PyUnicode_Check(obj) + #define __Pyx_PyBaseString_CheckExact(obj) PyUnicode_CheckExact(obj) +#else + #define __Pyx_PyBaseString_Check(obj) (PyString_CheckExact(obj) || PyUnicode_CheckExact(obj) || \ + PyString_Check(obj) || PyUnicode_Check(obj)) + #define __Pyx_PyBaseString_CheckExact(obj) (PyString_CheckExact(obj) || PyUnicode_CheckExact(obj)) +#endif #if PY_VERSION_HEX < 0x02060000 #define PySet_Check(obj) PyObject_TypeCheck(obj, &PySet_Type) #define PyFrozenSet_Check(obj) PyObject_TypeCheck(obj, &PyFrozenSet_Type) @@ -178,11 +232,12 @@ #define PyInt_AsSsize_t PyLong_AsSsize_t #define PyInt_AsUnsignedLongMask PyLong_AsUnsignedLongMask #define PyInt_AsUnsignedLongLongMask PyLong_AsUnsignedLongLongMask + #define PyNumber_Int PyNumber_Long #endif #if PY_MAJOR_VERSION >= 3 #define PyBoolObject PyLongObject #endif -#if PY_VERSION_HEX < 0x03020000 +#if PY_VERSION_HEX < 0x030200A4 typedef long Py_hash_t; #define __Pyx_PyInt_FromHash_t PyInt_FromLong #define __Pyx_PyInt_AsHash_t PyInt_AsLong @@ -227,6 +282,46 @@ #define __Pyx_NAMESTR(n) (n) #define __Pyx_DOCSTR(n) (n) #endif +#ifndef CYTHON_INLINE + #if defined(__GNUC__) + #define CYTHON_INLINE __inline__ + #elif defined(_MSC_VER) + #define CYTHON_INLINE __inline + #elif defined (__STDC_VERSION__) && __STDC_VERSION__ >= 199901L + #define CYTHON_INLINE inline + #else + #define CYTHON_INLINE + #endif +#endif +#ifndef CYTHON_RESTRICT + #if defined(__GNUC__) + #define CYTHON_RESTRICT __restrict__ + #elif defined(_MSC_VER) && _MSC_VER >= 1400 + #define CYTHON_RESTRICT __restrict + #elif defined (__STDC_VERSION__) && __STDC_VERSION__ >= 199901L + #define CYTHON_RESTRICT restrict + #else + #define CYTHON_RESTRICT + #endif +#endif +#ifdef NAN +#define __PYX_NAN() ((float) NAN) +#else +static CYTHON_INLINE float __PYX_NAN() { + /* Initialize NaN. The sign is irrelevant, an exponent with all bits 1 and + a nonzero mantissa means NaN. If the first bit in the mantissa is 1, it is + a quiet NaN. */ + float value; + memset(&value, 0xFF, sizeof(value)); + return value; +} +#endif +#ifdef __cplusplus +template +void __Pyx_call_destructor(T* x) { + x->~T(); +} +#endif #if PY_MAJOR_VERSION >= 3 @@ -251,6 +346,7 @@ #include #define __PYX_HAVE__nipy__labs__group__onesample #define __PYX_HAVE_API__nipy__labs__group__onesample +#include "string.h" #include "stdio.h" #include "stdlib.h" #include "numpy/arrayobject.h" @@ -269,21 +365,6 @@ #define CYTHON_WITHOUT_ASSERTIONS #endif - -/* inline attribute */ -#ifndef CYTHON_INLINE - #if defined(__GNUC__) - #define CYTHON_INLINE __inline__ - #elif defined(_MSC_VER) - #define CYTHON_INLINE __inline - #elif defined (__STDC_VERSION__) && __STDC_VERSION__ >= 199901L - #define CYTHON_INLINE inline - #else - #define CYTHON_INLINE - #endif -#endif - -/* unused attribute */ #ifndef CYTHON_UNUSED # if defined(__GNUC__) # if !(defined(__cplusplus)) || (__GNUC__ > 3 || (__GNUC__ == 3 && __GNUC_MINOR__ >= 4)) @@ -297,46 +378,155 @@ # define CYTHON_UNUSED # endif #endif - -typedef struct {PyObject **p; char *s; const long n; const char* encoding; const char is_unicode; const char is_str; const char intern; } __Pyx_StringTabEntry; /*proto*/ - - -/* Type Conversion Predeclarations */ - -#define __Pyx_PyBytes_FromUString(s) PyBytes_FromString((char*)s) -#define __Pyx_PyBytes_AsUString(s) ((unsigned char*) PyBytes_AsString(s)) - +typedef struct {PyObject **p; char *s; const Py_ssize_t n; const char* encoding; + const char is_unicode; const char is_str; const char intern; } __Pyx_StringTabEntry; /*proto*/ + +#define __PYX_DEFAULT_STRING_ENCODING_IS_ASCII 0 +#define __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT 0 +#define __PYX_DEFAULT_STRING_ENCODING "" +#define __Pyx_PyObject_FromString __Pyx_PyBytes_FromString +#define __Pyx_PyObject_FromStringAndSize __Pyx_PyBytes_FromStringAndSize +#define __Pyx_fits_Py_ssize_t(v, type, is_signed) ( \ + (sizeof(type) < sizeof(Py_ssize_t)) || \ + (sizeof(type) > sizeof(Py_ssize_t) && \ + likely(v < (type)PY_SSIZE_T_MAX || \ + v == (type)PY_SSIZE_T_MAX) && \ + (!is_signed || likely(v > (type)PY_SSIZE_T_MIN || \ + v == (type)PY_SSIZE_T_MIN))) || \ + (sizeof(type) == sizeof(Py_ssize_t) && \ + (is_signed || likely(v < (type)PY_SSIZE_T_MAX || \ + v == (type)PY_SSIZE_T_MAX))) ) +static CYTHON_INLINE char* __Pyx_PyObject_AsString(PyObject*); +static CYTHON_INLINE char* __Pyx_PyObject_AsStringAndSize(PyObject*, Py_ssize_t* length); +#define __Pyx_PyByteArray_FromString(s) PyByteArray_FromStringAndSize((const char*)s, strlen((const char*)s)) +#define __Pyx_PyByteArray_FromStringAndSize(s, l) PyByteArray_FromStringAndSize((const char*)s, l) +#define __Pyx_PyBytes_FromString PyBytes_FromString +#define __Pyx_PyBytes_FromStringAndSize PyBytes_FromStringAndSize +static CYTHON_INLINE PyObject* __Pyx_PyUnicode_FromString(const char*); +#if PY_MAJOR_VERSION < 3 + #define __Pyx_PyStr_FromString __Pyx_PyBytes_FromString + #define __Pyx_PyStr_FromStringAndSize __Pyx_PyBytes_FromStringAndSize +#else + #define __Pyx_PyStr_FromString __Pyx_PyUnicode_FromString + #define __Pyx_PyStr_FromStringAndSize __Pyx_PyUnicode_FromStringAndSize +#endif +#define __Pyx_PyObject_AsSString(s) ((signed char*) __Pyx_PyObject_AsString(s)) +#define __Pyx_PyObject_AsUString(s) ((unsigned char*) __Pyx_PyObject_AsString(s)) +#define __Pyx_PyObject_FromUString(s) __Pyx_PyObject_FromString((const char*)s) +#define __Pyx_PyBytes_FromUString(s) __Pyx_PyBytes_FromString((const char*)s) +#define __Pyx_PyByteArray_FromUString(s) __Pyx_PyByteArray_FromString((const char*)s) +#define __Pyx_PyStr_FromUString(s) __Pyx_PyStr_FromString((const char*)s) +#define __Pyx_PyUnicode_FromUString(s) __Pyx_PyUnicode_FromString((const char*)s) +#if PY_MAJOR_VERSION < 3 +static CYTHON_INLINE size_t __Pyx_Py_UNICODE_strlen(const Py_UNICODE *u) +{ + const Py_UNICODE *u_end = u; + while (*u_end++) ; + return u_end - u - 1; +} +#else +#define __Pyx_Py_UNICODE_strlen Py_UNICODE_strlen +#endif +#define __Pyx_PyUnicode_FromUnicode(u) PyUnicode_FromUnicode(u, __Pyx_Py_UNICODE_strlen(u)) +#define __Pyx_PyUnicode_FromUnicodeAndLength PyUnicode_FromUnicode +#define __Pyx_PyUnicode_AsUnicode PyUnicode_AsUnicode #define __Pyx_Owned_Py_None(b) (Py_INCREF(Py_None), Py_None) #define __Pyx_PyBool_FromLong(b) ((b) ? (Py_INCREF(Py_True), Py_True) : (Py_INCREF(Py_False), Py_False)) static CYTHON_INLINE int __Pyx_PyObject_IsTrue(PyObject*); static CYTHON_INLINE PyObject* __Pyx_PyNumber_Int(PyObject* x); - static CYTHON_INLINE Py_ssize_t __Pyx_PyIndex_AsSsize_t(PyObject*); static CYTHON_INLINE PyObject * __Pyx_PyInt_FromSize_t(size_t); -static CYTHON_INLINE size_t __Pyx_PyInt_AsSize_t(PyObject*); - #if CYTHON_COMPILING_IN_CPYTHON #define __pyx_PyFloat_AsDouble(x) (PyFloat_CheckExact(x) ? PyFloat_AS_DOUBLE(x) : PyFloat_AsDouble(x)) #else #define __pyx_PyFloat_AsDouble(x) PyFloat_AsDouble(x) #endif #define __pyx_PyFloat_AsFloat(x) ((float) __pyx_PyFloat_AsDouble(x)) +#if PY_MAJOR_VERSION < 3 && __PYX_DEFAULT_STRING_ENCODING_IS_ASCII +static int __Pyx_sys_getdefaultencoding_not_ascii; +static int __Pyx_init_sys_getdefaultencoding_params(void) { + PyObject* sys = NULL; + PyObject* default_encoding = NULL; + PyObject* ascii_chars_u = NULL; + PyObject* ascii_chars_b = NULL; + sys = PyImport_ImportModule("sys"); + if (sys == NULL) goto bad; + default_encoding = PyObject_CallMethod(sys, (char*) (const char*) "getdefaultencoding", NULL); + if (default_encoding == NULL) goto bad; + if (strcmp(PyBytes_AsString(default_encoding), "ascii") == 0) { + __Pyx_sys_getdefaultencoding_not_ascii = 0; + } else { + const char* default_encoding_c = PyBytes_AS_STRING(default_encoding); + char ascii_chars[128]; + int c; + for (c = 0; c < 128; c++) { + ascii_chars[c] = c; + } + __Pyx_sys_getdefaultencoding_not_ascii = 1; + ascii_chars_u = PyUnicode_DecodeASCII(ascii_chars, 128, NULL); + if (ascii_chars_u == NULL) goto bad; + ascii_chars_b = PyUnicode_AsEncodedString(ascii_chars_u, default_encoding_c, NULL); + if (ascii_chars_b == NULL || strncmp(ascii_chars, PyBytes_AS_STRING(ascii_chars_b), 128) != 0) { + PyErr_Format( + PyExc_ValueError, + "This module compiled with c_string_encoding=ascii, but default encoding '%.200s' is not a superset of ascii.", + default_encoding_c); + goto bad; + } + } + Py_XDECREF(sys); + Py_XDECREF(default_encoding); + Py_XDECREF(ascii_chars_u); + Py_XDECREF(ascii_chars_b); + return 0; +bad: + Py_XDECREF(sys); + Py_XDECREF(default_encoding); + Py_XDECREF(ascii_chars_u); + Py_XDECREF(ascii_chars_b); + return -1; +} +#endif +#if __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT && PY_MAJOR_VERSION >= 3 +#define __Pyx_PyUnicode_FromStringAndSize(c_str, size) PyUnicode_DecodeUTF8(c_str, size, NULL) +#else +#define __Pyx_PyUnicode_FromStringAndSize(c_str, size) PyUnicode_Decode(c_str, size, __PYX_DEFAULT_STRING_ENCODING, NULL) +#if __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT +static char* __PYX_DEFAULT_STRING_ENCODING; +static int __Pyx_init_sys_getdefaultencoding_params(void) { + PyObject* sys = NULL; + PyObject* default_encoding = NULL; + char* default_encoding_c; + sys = PyImport_ImportModule("sys"); + if (sys == NULL) goto bad; + default_encoding = PyObject_CallMethod(sys, (char*) (const char*) "getdefaultencoding", NULL); + if (default_encoding == NULL) goto bad; + default_encoding_c = PyBytes_AS_STRING(default_encoding); + __PYX_DEFAULT_STRING_ENCODING = (char*) malloc(strlen(default_encoding_c)); + strcpy(__PYX_DEFAULT_STRING_ENCODING, default_encoding_c); + Py_DECREF(sys); + Py_DECREF(default_encoding); + return 0; +bad: + Py_XDECREF(sys); + Py_XDECREF(default_encoding); + return -1; +} +#endif +#endif + -#ifdef __GNUC__ - /* Test for GCC > 2.95 */ - #if __GNUC__ > 2 || (__GNUC__ == 2 && (__GNUC_MINOR__ > 95)) - #define likely(x) __builtin_expect(!!(x), 1) - #define unlikely(x) __builtin_expect(!!(x), 0) - #else /* __GNUC__ > 2 ... */ - #define likely(x) (x) - #define unlikely(x) (x) - #endif /* __GNUC__ > 2 ... */ -#else /* __GNUC__ */ +/* Test for GCC > 2.95 */ +#if defined(__GNUC__) && (__GNUC__ > 2 || (__GNUC__ == 2 && (__GNUC_MINOR__ > 95))) + #define likely(x) __builtin_expect(!!(x), 1) + #define unlikely(x) __builtin_expect(!!(x), 0) +#else /* !__GNUC__ or GCC < 2.95 */ #define likely(x) (x) #define unlikely(x) (x) #endif /* __GNUC__ */ - + static PyObject *__pyx_m; +static PyObject *__pyx_d; static PyObject *__pyx_b; static PyObject *__pyx_empty_tuple; static PyObject *__pyx_empty_bytes; @@ -369,11 +559,12 @@ static const char *__pyx_filename; static const char *__pyx_f[] = { "onesample.pyx", - "numpy.pxd", + "fffpy_import_lapack.pxi", + "__init__.pxd", "type.pxd", }; -/* "numpy.pxd":723 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":723 * # in Cython to enable them only on the right systems. * * ctypedef npy_int8 int8_t # <<<<<<<<<<<<<< @@ -382,7 +573,7 @@ static const char *__pyx_f[] = { */ typedef npy_int8 __pyx_t_5numpy_int8_t; -/* "numpy.pxd":724 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":724 * * ctypedef npy_int8 int8_t * ctypedef npy_int16 int16_t # <<<<<<<<<<<<<< @@ -391,7 +582,7 @@ typedef npy_int8 __pyx_t_5numpy_int8_t; */ typedef npy_int16 __pyx_t_5numpy_int16_t; -/* "numpy.pxd":725 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":725 * ctypedef npy_int8 int8_t * ctypedef npy_int16 int16_t * ctypedef npy_int32 int32_t # <<<<<<<<<<<<<< @@ -400,7 +591,7 @@ typedef npy_int16 __pyx_t_5numpy_int16_t; */ typedef npy_int32 __pyx_t_5numpy_int32_t; -/* "numpy.pxd":726 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":726 * ctypedef npy_int16 int16_t * ctypedef npy_int32 int32_t * ctypedef npy_int64 int64_t # <<<<<<<<<<<<<< @@ -409,7 +600,7 @@ typedef npy_int32 __pyx_t_5numpy_int32_t; */ typedef npy_int64 __pyx_t_5numpy_int64_t; -/* "numpy.pxd":730 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":730 * #ctypedef npy_int128 int128_t * * ctypedef npy_uint8 uint8_t # <<<<<<<<<<<<<< @@ -418,7 +609,7 @@ typedef npy_int64 __pyx_t_5numpy_int64_t; */ typedef npy_uint8 __pyx_t_5numpy_uint8_t; -/* "numpy.pxd":731 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":731 * * ctypedef npy_uint8 uint8_t * ctypedef npy_uint16 uint16_t # <<<<<<<<<<<<<< @@ -427,7 +618,7 @@ typedef npy_uint8 __pyx_t_5numpy_uint8_t; */ typedef npy_uint16 __pyx_t_5numpy_uint16_t; -/* "numpy.pxd":732 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":732 * ctypedef npy_uint8 uint8_t * ctypedef npy_uint16 uint16_t * ctypedef npy_uint32 uint32_t # <<<<<<<<<<<<<< @@ -436,7 +627,7 @@ typedef npy_uint16 __pyx_t_5numpy_uint16_t; */ typedef npy_uint32 __pyx_t_5numpy_uint32_t; -/* "numpy.pxd":733 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":733 * ctypedef npy_uint16 uint16_t * ctypedef npy_uint32 uint32_t * ctypedef npy_uint64 uint64_t # <<<<<<<<<<<<<< @@ -445,7 +636,7 @@ typedef npy_uint32 __pyx_t_5numpy_uint32_t; */ typedef npy_uint64 __pyx_t_5numpy_uint64_t; -/* "numpy.pxd":737 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":737 * #ctypedef npy_uint128 uint128_t * * ctypedef npy_float32 float32_t # <<<<<<<<<<<<<< @@ -454,7 +645,7 @@ typedef npy_uint64 __pyx_t_5numpy_uint64_t; */ typedef npy_float32 __pyx_t_5numpy_float32_t; -/* "numpy.pxd":738 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":738 * * ctypedef npy_float32 float32_t * ctypedef npy_float64 float64_t # <<<<<<<<<<<<<< @@ -463,7 +654,7 @@ typedef npy_float32 __pyx_t_5numpy_float32_t; */ typedef npy_float64 __pyx_t_5numpy_float64_t; -/* "numpy.pxd":747 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":747 * # The int types are mapped a bit surprising -- * # numpy.int corresponds to 'l' and numpy.long to 'q' * ctypedef npy_long int_t # <<<<<<<<<<<<<< @@ -472,7 +663,7 @@ typedef npy_float64 __pyx_t_5numpy_float64_t; */ typedef npy_long __pyx_t_5numpy_int_t; -/* "numpy.pxd":748 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":748 * # numpy.int corresponds to 'l' and numpy.long to 'q' * ctypedef npy_long int_t * ctypedef npy_longlong long_t # <<<<<<<<<<<<<< @@ -481,7 +672,7 @@ typedef npy_long __pyx_t_5numpy_int_t; */ typedef npy_longlong __pyx_t_5numpy_long_t; -/* "numpy.pxd":749 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":749 * ctypedef npy_long int_t * ctypedef npy_longlong long_t * ctypedef npy_longlong longlong_t # <<<<<<<<<<<<<< @@ -490,7 +681,7 @@ typedef npy_longlong __pyx_t_5numpy_long_t; */ typedef npy_longlong __pyx_t_5numpy_longlong_t; -/* "numpy.pxd":751 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":751 * ctypedef npy_longlong longlong_t * * ctypedef npy_ulong uint_t # <<<<<<<<<<<<<< @@ -499,7 +690,7 @@ typedef npy_longlong __pyx_t_5numpy_longlong_t; */ typedef npy_ulong __pyx_t_5numpy_uint_t; -/* "numpy.pxd":752 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":752 * * ctypedef npy_ulong uint_t * ctypedef npy_ulonglong ulong_t # <<<<<<<<<<<<<< @@ -508,7 +699,7 @@ typedef npy_ulong __pyx_t_5numpy_uint_t; */ typedef npy_ulonglong __pyx_t_5numpy_ulong_t; -/* "numpy.pxd":753 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":753 * ctypedef npy_ulong uint_t * ctypedef npy_ulonglong ulong_t * ctypedef npy_ulonglong ulonglong_t # <<<<<<<<<<<<<< @@ -517,7 +708,7 @@ typedef npy_ulonglong __pyx_t_5numpy_ulong_t; */ typedef npy_ulonglong __pyx_t_5numpy_ulonglong_t; -/* "numpy.pxd":755 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":755 * ctypedef npy_ulonglong ulonglong_t * * ctypedef npy_intp intp_t # <<<<<<<<<<<<<< @@ -526,7 +717,7 @@ typedef npy_ulonglong __pyx_t_5numpy_ulonglong_t; */ typedef npy_intp __pyx_t_5numpy_intp_t; -/* "numpy.pxd":756 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":756 * * ctypedef npy_intp intp_t * ctypedef npy_uintp uintp_t # <<<<<<<<<<<<<< @@ -535,7 +726,7 @@ typedef npy_intp __pyx_t_5numpy_intp_t; */ typedef npy_uintp __pyx_t_5numpy_uintp_t; -/* "numpy.pxd":758 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":758 * ctypedef npy_uintp uintp_t * * ctypedef npy_double float_t # <<<<<<<<<<<<<< @@ -544,7 +735,7 @@ typedef npy_uintp __pyx_t_5numpy_uintp_t; */ typedef npy_double __pyx_t_5numpy_float_t; -/* "numpy.pxd":759 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":759 * * ctypedef npy_double float_t * ctypedef npy_double double_t # <<<<<<<<<<<<<< @@ -553,7 +744,7 @@ typedef npy_double __pyx_t_5numpy_float_t; */ typedef npy_double __pyx_t_5numpy_double_t; -/* "numpy.pxd":760 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":760 * ctypedef npy_double float_t * ctypedef npy_double double_t * ctypedef npy_longdouble longdouble_t # <<<<<<<<<<<<<< @@ -562,12 +753,12 @@ typedef npy_double __pyx_t_5numpy_double_t; */ typedef npy_longdouble __pyx_t_5numpy_longdouble_t; -/* "fff.pxd":9 +/* "fff.pxd":10 * * # Redefine size_t * ctypedef unsigned long int size_t # <<<<<<<<<<<<<< * - * + * # Exports from fff_base.h */ typedef unsigned long __pyx_t_3fff_size_t; #if CYTHON_CCOMPLEX @@ -593,7 +784,7 @@ typedef unsigned long __pyx_t_3fff_size_t; /*--- Type declarations ---*/ -/* "numpy.pxd":762 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":762 * ctypedef npy_longdouble longdouble_t * * ctypedef npy_cfloat cfloat_t # <<<<<<<<<<<<<< @@ -602,7 +793,7 @@ typedef unsigned long __pyx_t_3fff_size_t; */ typedef npy_cfloat __pyx_t_5numpy_cfloat_t; -/* "numpy.pxd":763 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":763 * * ctypedef npy_cfloat cfloat_t * ctypedef npy_cdouble cdouble_t # <<<<<<<<<<<<<< @@ -611,7 +802,7 @@ typedef npy_cfloat __pyx_t_5numpy_cfloat_t; */ typedef npy_cdouble __pyx_t_5numpy_cdouble_t; -/* "numpy.pxd":764 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":764 * ctypedef npy_cfloat cfloat_t * ctypedef npy_cdouble cdouble_t * ctypedef npy_clongdouble clongdouble_t # <<<<<<<<<<<<<< @@ -620,7 +811,7 @@ typedef npy_cdouble __pyx_t_5numpy_cdouble_t; */ typedef npy_clongdouble __pyx_t_5numpy_clongdouble_t; -/* "numpy.pxd":766 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":766 * ctypedef npy_clongdouble clongdouble_t * * ctypedef npy_cdouble complex_t # <<<<<<<<<<<<<< @@ -679,10 +870,35 @@ typedef npy_cdouble __pyx_t_5numpy_complex_t; #define __Pyx_XGOTREF(r) #define __Pyx_XGIVEREF(r) #endif /* CYTHON_REFNANNY */ +#define __Pyx_XDECREF_SET(r, v) do { \ + PyObject *tmp = (PyObject *) r; \ + r = v; __Pyx_XDECREF(tmp); \ + } while (0) +#define __Pyx_DECREF_SET(r, v) do { \ + PyObject *tmp = (PyObject *) r; \ + r = v; __Pyx_DECREF(tmp); \ + } while (0) #define __Pyx_CLEAR(r) do { PyObject* tmp = ((PyObject*)(r)); r = NULL; __Pyx_DECREF(tmp);} while(0) #define __Pyx_XCLEAR(r) do { if((r) != NULL) {PyObject* tmp = ((PyObject*)(r)); r = NULL; __Pyx_DECREF(tmp);}} while(0) -static PyObject *__Pyx_GetName(PyObject *dict, PyObject *name); /*proto*/ +#if CYTHON_COMPILING_IN_CPYTHON +static CYTHON_INLINE PyObject* __Pyx_PyObject_GetAttrStr(PyObject* obj, PyObject* attr_name) { + PyTypeObject* tp = Py_TYPE(obj); + if (likely(tp->tp_getattro)) + return tp->tp_getattro(obj, attr_name); +#if PY_MAJOR_VERSION < 3 + if (likely(tp->tp_getattr)) + return tp->tp_getattr(obj, PyString_AS_STRING(attr_name)); +#endif + return PyObject_GetAttr(obj, attr_name); +} +#else +#define __Pyx_PyObject_GetAttrStr(o,n) PyObject_GetAttr(o,n) +#endif + +static PyObject *__Pyx_GetBuiltinName(PyObject *name); /*proto*/ + +static CYTHON_INLINE PyObject *__Pyx_GetModuleGlobalName(PyObject *name); /*proto*/ static void __Pyx_RaiseDoubleKeywordsError(const char* func_name, PyObject* kw_name); /*proto*/ @@ -693,11 +909,11 @@ static int __Pyx_ParseOptionalKeywords(PyObject *kwds, PyObject **argnames[], \ static void __Pyx_RaiseArgtupleInvalid(const char* func_name, int exact, Py_ssize_t num_min, Py_ssize_t num_max, Py_ssize_t num_found); /*proto*/ -static int __Pyx_ArgTypeTest(PyObject *obj, PyTypeObject *type, int none_allowed, +static CYTHON_INLINE int __Pyx_ArgTypeTest(PyObject *obj, PyTypeObject *type, int none_allowed, const char *name, int exact); /*proto*/ #if CYTHON_COMPILING_IN_CPYTHON -static CYTHON_INLINE int __Pyx_PyList_Append(PyObject* list, PyObject* x) { +static CYTHON_INLINE int __Pyx_ListComp_Append(PyObject* list, PyObject* x) { PyListObject* L = (PyListObject*) list; Py_ssize_t len = Py_SIZE(list); if (likely(L->allocated > len)) { @@ -709,52 +925,23 @@ static CYTHON_INLINE int __Pyx_PyList_Append(PyObject* list, PyObject* x) { return PyList_Append(list, x); } #else -#define __Pyx_PyList_Append(L,x) PyList_Append(L,x) +#define __Pyx_ListComp_Append(L,x) PyList_Append(L,x) #endif -#define __Pyx_SetItemInt(o, i, v, size, to_py_func) (((size) <= sizeof(Py_ssize_t)) ? \ - __Pyx_SetItemInt_Fast(o, i, v) : \ - __Pyx_SetItemInt_Generic(o, to_py_func(i), v)) -static CYTHON_INLINE int __Pyx_SetItemInt_Generic(PyObject *o, PyObject *j, PyObject *v) { - int r; - if (!j) return -1; - r = PyObject_SetItem(o, j, v); - Py_DECREF(j); - return r; -} -static CYTHON_INLINE int __Pyx_SetItemInt_Fast(PyObject *o, Py_ssize_t i, PyObject *v) { +#define __Pyx_SetItemInt(o, i, v, type, is_signed, to_py_func, is_list, wraparound, boundscheck) \ + (__Pyx_fits_Py_ssize_t(i, type, is_signed) ? \ + __Pyx_SetItemInt_Fast(o, (Py_ssize_t)i, v, is_list, wraparound, boundscheck) : \ + (is_list ? (PyErr_SetString(PyExc_IndexError, "list assignment index out of range"), -1) : \ + __Pyx_SetItemInt_Generic(o, to_py_func(i), v))) +static CYTHON_INLINE int __Pyx_SetItemInt_Generic(PyObject *o, PyObject *j, PyObject *v); +static CYTHON_INLINE int __Pyx_SetItemInt_Fast(PyObject *o, Py_ssize_t i, PyObject *v, + int is_list, int wraparound, int boundscheck); + #if CYTHON_COMPILING_IN_CPYTHON - if (PyList_CheckExact(o)) { - Py_ssize_t n = (likely(i >= 0)) ? i : i + PyList_GET_SIZE(o); - if (likely((n >= 0) & (n < PyList_GET_SIZE(o)))) { - PyObject* old = PyList_GET_ITEM(o, n); - Py_INCREF(v); - PyList_SET_ITEM(o, n, v); - Py_DECREF(old); - return 1; - } - } else { /* inlined PySequence_SetItem() */ - PySequenceMethods *m = Py_TYPE(o)->tp_as_sequence; - if (likely(m && m->sq_ass_item)) { - if (unlikely(i < 0) && likely(m->sq_length)) { - Py_ssize_t l = m->sq_length(o); - if (unlikely(l < 0)) return -1; - i += l; - } - return m->sq_ass_item(o, i, v); - } - } -#else -#if CYTHON_COMPILING_IN_PYPY - if (PySequence_Check(o) && !PyDict_Check(o)) { +static CYTHON_INLINE PyObject* __Pyx_PyObject_Call(PyObject *func, PyObject *arg, PyObject *kw); /*proto*/ #else - if (PySequence_Check(o)) { -#endif - return PySequence_SetItem(o, i, v); - } +#define __Pyx_PyObject_Call(func, arg, kw) PyObject_Call(func, arg, kw) #endif - return __Pyx_SetItemInt_Generic(o, PyInt_FromSsize_t(i), v); -} static CYTHON_INLINE void __Pyx_ErrRestore(PyObject *type, PyObject *value, PyObject *tb); /*proto*/ static CYTHON_INLINE void __Pyx_ErrFetch(PyObject **type, PyObject **value, PyObject **tb); /*proto*/ @@ -767,15 +954,21 @@ static CYTHON_INLINE void __Pyx_RaiseNeedMoreValuesError(Py_ssize_t index); static CYTHON_INLINE void __Pyx_RaiseNoneNotIterableError(void); -static CYTHON_INLINE int __Pyx_IterFinish(void); /*proto*/ +static CYTHON_INLINE int __Pyx_TypeTest(PyObject *obj, PyTypeObject *type); /*proto*/ -static int __Pyx_IternextUnpackEndCheck(PyObject *retval, Py_ssize_t expected); /*proto*/ +static PyObject* __Pyx_ImportFrom(PyObject* module, PyObject* name); /*proto*/ -static CYTHON_INLINE int __Pyx_TypeTest(PyObject *obj, PyTypeObject *type); /*proto*/ +static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, int level); /*proto*/ -static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, long level); /*proto*/ +static CYTHON_INLINE int __Pyx_PyInt_As_int(PyObject *); -static CYTHON_INLINE PyObject *__Pyx_PyInt_to_py_Py_intptr_t(Py_intptr_t); +static CYTHON_INLINE unsigned int __Pyx_PyInt_As_unsigned_int(PyObject *); + +static CYTHON_INLINE PyObject* __Pyx_PyInt_From_int(int value); + +static CYTHON_INLINE PyObject* __Pyx_PyInt_From_Py_intptr_t(Py_intptr_t value); + +static CYTHON_INLINE PyObject* __Pyx_PyInt_From_unsigned_long(unsigned long value); #if CYTHON_CCOMPLEX #ifdef __cplusplus @@ -789,7 +982,7 @@ static CYTHON_INLINE PyObject *__Pyx_PyInt_to_py_Py_intptr_t(Py_intptr_t); #define __Pyx_CREAL(z) ((z).real) #define __Pyx_CIMAG(z) ((z).imag) #endif -#if defined(_WIN32) && defined(__cplusplus) && CYTHON_CCOMPLEX +#if (defined(_WIN32) || defined(__clang__)) && defined(__cplusplus) && CYTHON_CCOMPLEX #define __Pyx_SET_CREAL(z,x) ((z).real(x)) #define __Pyx_SET_CIMAG(z,y) ((z).imag(y)) #else @@ -875,37 +1068,9 @@ static CYTHON_INLINE __pyx_t_double_complex __pyx_t_double_complex_from_parts(do #endif #endif -static CYTHON_INLINE unsigned char __Pyx_PyInt_AsUnsignedChar(PyObject *); - -static CYTHON_INLINE unsigned short __Pyx_PyInt_AsUnsignedShort(PyObject *); - -static CYTHON_INLINE unsigned int __Pyx_PyInt_AsUnsignedInt(PyObject *); - -static CYTHON_INLINE char __Pyx_PyInt_AsChar(PyObject *); - -static CYTHON_INLINE short __Pyx_PyInt_AsShort(PyObject *); - -static CYTHON_INLINE int __Pyx_PyInt_AsInt(PyObject *); - -static CYTHON_INLINE signed char __Pyx_PyInt_AsSignedChar(PyObject *); - -static CYTHON_INLINE signed short __Pyx_PyInt_AsSignedShort(PyObject *); - -static CYTHON_INLINE signed int __Pyx_PyInt_AsSignedInt(PyObject *); - -static CYTHON_INLINE int __Pyx_PyInt_AsLongDouble(PyObject *); - -static CYTHON_INLINE unsigned long __Pyx_PyInt_AsUnsignedLong(PyObject *); - -static CYTHON_INLINE unsigned PY_LONG_LONG __Pyx_PyInt_AsUnsignedLongLong(PyObject *); - -static CYTHON_INLINE long __Pyx_PyInt_AsLong(PyObject *); - -static CYTHON_INLINE PY_LONG_LONG __Pyx_PyInt_AsLongLong(PyObject *); +static CYTHON_INLINE PyObject* __Pyx_PyInt_From_long(long value); -static CYTHON_INLINE signed long __Pyx_PyInt_AsSignedLong(PyObject *); - -static CYTHON_INLINE signed PY_LONG_LONG __Pyx_PyInt_AsSignedLongLong(PyObject *); +static CYTHON_INLINE long __Pyx_PyInt_As_long(PyObject *); static int __Pyx_check_binary_version(void); @@ -945,6 +1110,8 @@ static int __Pyx_InitStrings(__Pyx_StringTabEntry *t); /*proto*/ /* Module declarations from 'cpython.ref' */ +/* Module declarations from 'libc.string' */ + /* Module declarations from 'libc.stdio' */ /* Module declarations from 'cpython.object' */ @@ -969,6 +1136,7 @@ static CYTHON_INLINE char *__pyx_f_5numpy__util_dtypestring(PyArray_Descr *, cha /* Module declarations from 'fff' */ /* Module declarations from 'nipy.labs.group.onesample' */ +static PyObject *__pyx_f_4nipy_4labs_5group_9onesample_fffpy_import_lapack(void); /*proto*/ #define __Pyx_MODULE_NAME "nipy.labs.group.onesample" int __pyx_module_is_main_nipy__labs__group__onesample = 0; @@ -982,297 +1150,793 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_4pdf_fit_mfx(CYTHON_UNUS static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_6pdf_fit_gmfx(CYTHON_UNUSED PyObject *__pyx_self, PyArrayObject *__pyx_v_Y, PyArrayObject *__pyx_v_V, int __pyx_v_axis, int __pyx_v_niter, int __pyx_v_constraint, double __pyx_v_base); /* proto */ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, Py_buffer *__pyx_v_info, int __pyx_v_flags); /* proto */ static void __pyx_pf_5numpy_7ndarray_2__releasebuffer__(PyArrayObject *__pyx_v_self, Py_buffer *__pyx_v_info); /* proto */ -static char __pyx_k_1[] = "ndarray is not C contiguous"; -static char __pyx_k_3[] = "ndarray is not Fortran contiguous"; -static char __pyx_k_5[] = "Non-native byte order not supported"; -static char __pyx_k_7[] = "unknown dtype code in numpy.pxd (%d)"; -static char __pyx_k_8[] = "Format string allocated too short, see comment in numpy.pxd"; -static char __pyx_k_11[] = "Format string allocated too short."; -static char __pyx_k_13[] = "\nRoutines for massively univariate random-effect and mixed-effect analysis.\n\nAuthor: Alexis Roche, 2008.\n"; -static char __pyx_k_14[] = "0.1"; -static char __pyx_k_17[] = "/Users/mb312/dev_trees/nipy/nipy/labs/group/onesample.pyx"; -static char __pyx_k_18[] = "nipy.labs.group.onesample"; -static char __pyx_k__B[] = "B"; -static char __pyx_k__H[] = "H"; -static char __pyx_k__I[] = "I"; -static char __pyx_k__L[] = "L"; -static char __pyx_k__O[] = "O"; -static char __pyx_k__Q[] = "Q"; -static char __pyx_k__T[] = "T"; -static char __pyx_k__V[] = "V"; -static char __pyx_k__W[] = "W"; -static char __pyx_k__Y[] = "Y"; -static char __pyx_k__Z[] = "Z"; -static char __pyx_k__b[] = "b"; -static char __pyx_k__d[] = "d"; -static char __pyx_k__f[] = "f"; -static char __pyx_k__g[] = "g"; -static char __pyx_k__h[] = "h"; -static char __pyx_k__i[] = "i"; -static char __pyx_k__l[] = "l"; -static char __pyx_k__n[] = "n"; -static char __pyx_k__q[] = "q"; -static char __pyx_k__t[] = "t"; -static char __pyx_k__v[] = "v"; -static char __pyx_k__w[] = "w"; -static char __pyx_k__y[] = "y"; -static char __pyx_k__z[] = "z"; -static char __pyx_k__MU[] = "MU"; -static char __pyx_k__S2[] = "S2"; -static char __pyx_k__Zd[] = "Zd"; -static char __pyx_k__Zf[] = "Zf"; -static char __pyx_k__Zg[] = "Zg"; -static char __pyx_k__id[] = "id"; -static char __pyx_k__mu[] = "mu"; -static char __pyx_k__np[] = "np"; -static char __pyx_k__s2[] = "s2"; -static char __pyx_k__yp[] = "yp"; -static char __pyx_k__elr[] = "elr"; -static char __pyx_k__idx[] = "idx"; -static char __pyx_k__axis[] = "axis"; -static char __pyx_k__base[] = "base"; -static char __pyx_k__dims[] = "dims"; -static char __pyx_k__mean[] = "mean"; -static char __pyx_k__sign[] = "sign"; -static char __pyx_k__simu[] = "simu"; -static char __pyx_k__stat[] = "stat"; -static char __pyx_k__grubb[] = "grubb"; -static char __pyx_k__magic[] = "magic"; -static char __pyx_k__multi[] = "multi"; -static char __pyx_k__niter[] = "niter"; -static char __pyx_k__nsimu[] = "nsimu"; -static char __pyx_k__numpy[] = "numpy"; -static char __pyx_k__range[] = "range"; -static char __pyx_k__stats[] = "stats"; -static char __pyx_k__tukey[] = "tukey"; -static char __pyx_k__zeros[] = "zeros"; -static char __pyx_k__Magics[] = "Magics"; -static char __pyx_k__magics[] = "magics"; -static char __pyx_k__median[] = "median"; -static char __pyx_k__elr_mfx[] = "elr_mfx"; -static char __pyx_k__laplace[] = "laplace"; -static char __pyx_k__student[] = "student"; -static char __pyx_k____main__[] = "__main__"; -static char __pyx_k____test__[] = "__test__"; -static char __pyx_k__mean_mfx[] = "mean_mfx"; -static char __pyx_k__sign_mfx[] = "sign_mfx"; -static char __pyx_k__stat_mfx[] = "stat_mfx"; -static char __pyx_k__wilcoxon[] = "wilcoxon"; -static char __pyx_k__flag_stat[] = "flag_stat"; -static char __pyx_k__nsimu_max[] = "nsimu_max"; -static char __pyx_k__ValueError[] = "ValueError"; -static char __pyx_k__constraint[] = "constraint"; -static char __pyx_k__median_mfx[] = "median_mfx"; -static char __pyx_k____version__[] = "__version__"; -static char __pyx_k__pdf_fit_mfx[] = "pdf_fit_mfx"; -static char __pyx_k__student_mfx[] = "student_mfx"; -static char __pyx_k__RuntimeError[] = "RuntimeError"; -static char __pyx_k__pdf_fit_gmfx[] = "pdf_fit_gmfx"; -static char __pyx_k__wilcoxon_mfx[] = "wilcoxon_mfx"; -static char __pyx_k__mean_gauss_mfx[] = "mean_gauss_mfx"; -static PyObject *__pyx_kp_u_1; -static PyObject *__pyx_kp_u_11; -static PyObject *__pyx_kp_s_14; -static PyObject *__pyx_kp_s_17; -static PyObject *__pyx_n_s_18; -static PyObject *__pyx_kp_u_3; -static PyObject *__pyx_kp_u_5; -static PyObject *__pyx_kp_u_7; -static PyObject *__pyx_kp_u_8; -static PyObject *__pyx_n_s__MU; -static PyObject *__pyx_n_s__Magics; -static PyObject *__pyx_n_s__RuntimeError; -static PyObject *__pyx_n_s__S2; -static PyObject *__pyx_n_s__T; -static PyObject *__pyx_n_s__V; -static PyObject *__pyx_n_s__ValueError; -static PyObject *__pyx_n_s__W; -static PyObject *__pyx_n_s__Y; -static PyObject *__pyx_n_s__Z; -static PyObject *__pyx_n_s____main__; -static PyObject *__pyx_n_s____test__; -static PyObject *__pyx_n_s____version__; -static PyObject *__pyx_n_s__axis; -static PyObject *__pyx_n_s__base; -static PyObject *__pyx_n_s__constraint; -static PyObject *__pyx_n_s__dims; -static PyObject *__pyx_n_s__elr; -static PyObject *__pyx_n_s__elr_mfx; -static PyObject *__pyx_n_s__flag_stat; -static PyObject *__pyx_n_s__grubb; -static PyObject *__pyx_n_s__i; -static PyObject *__pyx_n_s__id; -static PyObject *__pyx_n_s__idx; -static PyObject *__pyx_n_s__laplace; -static PyObject *__pyx_n_s__magic; -static PyObject *__pyx_n_s__magics; -static PyObject *__pyx_n_s__mean; -static PyObject *__pyx_n_s__mean_gauss_mfx; -static PyObject *__pyx_n_s__mean_mfx; -static PyObject *__pyx_n_s__median; -static PyObject *__pyx_n_s__median_mfx; -static PyObject *__pyx_n_s__mu; -static PyObject *__pyx_n_s__multi; -static PyObject *__pyx_n_s__n; -static PyObject *__pyx_n_s__niter; -static PyObject *__pyx_n_s__np; -static PyObject *__pyx_n_s__nsimu; -static PyObject *__pyx_n_s__nsimu_max; -static PyObject *__pyx_n_s__numpy; -static PyObject *__pyx_n_s__pdf_fit_gmfx; -static PyObject *__pyx_n_s__pdf_fit_mfx; -static PyObject *__pyx_n_s__range; -static PyObject *__pyx_n_s__s2; -static PyObject *__pyx_n_s__sign; -static PyObject *__pyx_n_s__sign_mfx; -static PyObject *__pyx_n_s__simu; -static PyObject *__pyx_n_s__stat; -static PyObject *__pyx_n_s__stat_mfx; -static PyObject *__pyx_n_s__stats; -static PyObject *__pyx_n_s__student; -static PyObject *__pyx_n_s__student_mfx; -static PyObject *__pyx_n_s__t; -static PyObject *__pyx_n_s__tukey; -static PyObject *__pyx_n_s__v; -static PyObject *__pyx_n_s__w; -static PyObject *__pyx_n_s__wilcoxon; -static PyObject *__pyx_n_s__wilcoxon_mfx; -static PyObject *__pyx_n_s__y; -static PyObject *__pyx_n_s__yp; -static PyObject *__pyx_n_s__z; -static PyObject *__pyx_n_s__zeros; +static char __pyx_k_B[] = "B"; +static char __pyx_k_H[] = "H"; +static char __pyx_k_I[] = "I"; +static char __pyx_k_L[] = "L"; +static char __pyx_k_O[] = "O"; +static char __pyx_k_Q[] = "Q"; +static char __pyx_k_T[] = "T"; +static char __pyx_k_V[] = "V"; +static char __pyx_k_W[] = "W"; +static char __pyx_k_Y[] = "Y"; +static char __pyx_k_Z[] = "Z"; +static char __pyx_k_b[] = "b"; +static char __pyx_k_d[] = "d"; +static char __pyx_k_f[] = "f"; +static char __pyx_k_g[] = "g"; +static char __pyx_k_h[] = "h"; +static char __pyx_k_i[] = "i"; +static char __pyx_k_l[] = "l"; +static char __pyx_k_n[] = "n"; +static char __pyx_k_q[] = "q"; +static char __pyx_k_t[] = "t"; +static char __pyx_k_v[] = "v"; +static char __pyx_k_w[] = "w"; +static char __pyx_k_y[] = "y"; +static char __pyx_k_z[] = "z"; +static char __pyx_k_MU[] = "MU"; +static char __pyx_k_S2[] = "S2"; +static char __pyx_k_Zd[] = "Zd"; +static char __pyx_k_Zf[] = "Zf"; +static char __pyx_k_Zg[] = "Zg"; +static char __pyx_k_id[] = "id"; +static char __pyx_k_mu[] = "mu"; +static char __pyx_k_np[] = "np"; +static char __pyx_k_s2[] = "s2"; +static char __pyx_k_yp[] = "yp"; +static char __pyx_k_0_1[] = "0.1"; +static char __pyx_k_elr[] = "elr"; +static char __pyx_k_idx[] = "idx"; +static char __pyx_k_axis[] = "axis"; +static char __pyx_k_base[] = "base"; +static char __pyx_k_ddot[] = "ddot"; +static char __pyx_k_dger[] = "dger"; +static char __pyx_k_dims[] = "dims"; +static char __pyx_k_drot[] = "drot"; +static char __pyx_k_main[] = "__main__"; +static char __pyx_k_mean[] = "mean"; +static char __pyx_k_sign[] = "sign"; +static char __pyx_k_simu[] = "simu"; +static char __pyx_k_stat[] = "stat"; +static char __pyx_k_test[] = "__test__"; +static char __pyx_k_dasum[] = "dasum"; +static char __pyx_k_daxpy[] = "daxpy"; +static char __pyx_k_dcopy[] = "dcopy"; +static char __pyx_k_dgemm[] = "dgemm"; +static char __pyx_k_dgemv[] = "dgemv"; +static char __pyx_k_dnrm2[] = "dnrm2"; +static char __pyx_k_drotg[] = "drotg"; +static char __pyx_k_drotm[] = "drotm"; +static char __pyx_k_dscal[] = "dscal"; +static char __pyx_k_dswap[] = "dswap"; +static char __pyx_k_dsymm[] = "dsymm"; +static char __pyx_k_dsymv[] = "dsymv"; +static char __pyx_k_dsyrk[] = "dsyrk"; +static char __pyx_k_dtrmv[] = "dtrmv"; +static char __pyx_k_grubb[] = "grubb"; +static char __pyx_k_magic[] = "magic"; +static char __pyx_k_multi[] = "multi"; +static char __pyx_k_niter[] = "niter"; +static char __pyx_k_nsimu[] = "nsimu"; +static char __pyx_k_numpy[] = "numpy"; +static char __pyx_k_range[] = "range"; +static char __pyx_k_stats[] = "stats"; +static char __pyx_k_tukey[] = "tukey"; +static char __pyx_k_zeros[] = "zeros"; +static char __pyx_k_Magics[] = "Magics"; +static char __pyx_k_dgeqrf[] = "dgeqrf"; +static char __pyx_k_dgesdd[] = "dgesdd"; +static char __pyx_k_dgetrf[] = "dgetrf"; +static char __pyx_k_dpotrf[] = "dpotrf"; +static char __pyx_k_drotmg[] = "drotmg"; +static char __pyx_k_dsyr2k[] = "dsyr2k"; +static char __pyx_k_idamax[] = "idamax"; +static char __pyx_k_import[] = "__import__"; +static char __pyx_k_magics[] = "magics"; +static char __pyx_k_median[] = "median"; +static char __pyx_k_elr_mfx[] = "elr_mfx"; +static char __pyx_k_laplace[] = "laplace"; +static char __pyx_k_student[] = "student"; +static char __pyx_k_version[] = "__version__"; +static char __pyx_k_cpointer[] = "_cpointer"; +static char __pyx_k_mean_mfx[] = "mean_mfx"; +static char __pyx_k_sign_mfx[] = "sign_mfx"; +static char __pyx_k_stat_mfx[] = "stat_mfx"; +static char __pyx_k_wilcoxon[] = "wilcoxon"; +static char __pyx_k_flag_stat[] = "flag_stat"; 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- /* "nipy/labs/group/onesample.pyx":122 + /* "nipy/labs/group/onesample.pyx":123 * # Create local structure * stat = fff_onesample_stat_new(n, flag_stat, base) * yp = fff_vector_new(n) # <<<<<<<<<<<<<< @@ -1465,7 +2126,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_stat(CYTHON_UNUSED PyObj */ __pyx_v_yp = fff_vector_new(__pyx_v_n); - /* "nipy/labs/group/onesample.pyx":125 + /* "nipy/labs/group/onesample.pyx":126 * * # Multi-iterator * multi = fffpy_multi_iterator_new(2, axis, Y, T) # <<<<<<<<<<<<<< @@ -1474,7 +2135,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_stat(CYTHON_UNUSED PyObj */ __pyx_v_multi = fffpy_multi_iterator_new(2, __pyx_v_axis, ((void *)__pyx_v_Y), ((void *)__pyx_v_T)); - /* "nipy/labs/group/onesample.pyx":128 + /* "nipy/labs/group/onesample.pyx":129 * * # Vector views * y = multi.vector[0] # <<<<<<<<<<<<<< @@ -1483,7 +2144,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_stat(CYTHON_UNUSED PyObj */ __pyx_v_y = (__pyx_v_multi->vector[0]); - /* "nipy/labs/group/onesample.pyx":129 + /* "nipy/labs/group/onesample.pyx":130 * # Vector views * y = multi.vector[0] * t = multi.vector[1] # <<<<<<<<<<<<<< @@ -1492,7 +2153,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_stat(CYTHON_UNUSED PyObj */ __pyx_v_t = (__pyx_v_multi->vector[1]); - /* "nipy/labs/group/onesample.pyx":132 + /* "nipy/labs/group/onesample.pyx":133 * * # Loop * for simu from 0 <= simu < nsimu: # <<<<<<<<<<<<<< @@ -1502,7 +2163,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_stat(CYTHON_UNUSED PyObj __pyx_t_9 = __pyx_v_nsimu; for (__pyx_v_simu = 0; __pyx_v_simu < __pyx_t_9; __pyx_v_simu++) { - /* "nipy/labs/group/onesample.pyx":135 + /* "nipy/labs/group/onesample.pyx":136 * * # Set the magic number * magic = magics.data[simu*magics.stride] # <<<<<<<<<<<<<< @@ -1511,7 +2172,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_stat(CYTHON_UNUSED PyObj */ __pyx_v_magic = (__pyx_v_magics->data[(__pyx_v_simu * __pyx_v_magics->stride)]); - /* "nipy/labs/group/onesample.pyx":138 + /* "nipy/labs/group/onesample.pyx":139 * * # Reset the multi-iterator * fffpy_multi_iterator_reset(multi); # <<<<<<<<<<<<<< @@ -1520,7 +2181,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_stat(CYTHON_UNUSED PyObj */ fffpy_multi_iterator_reset(__pyx_v_multi); - /* "nipy/labs/group/onesample.pyx":141 + /* "nipy/labs/group/onesample.pyx":142 * * # Perform the loop * idx = simu*t.stride # <<<<<<<<<<<<<< @@ -1529,7 +2190,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_stat(CYTHON_UNUSED PyObj */ __pyx_v_idx = (__pyx_v_simu * __pyx_v_t->stride); - /* "nipy/labs/group/onesample.pyx":142 + /* "nipy/labs/group/onesample.pyx":143 * # Perform the loop * idx = simu*t.stride * while(multi.index < multi.size): # <<<<<<<<<<<<<< @@ -1537,10 +2198,10 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_stat(CYTHON_UNUSED PyObj * t.data[idx] = fff_onesample_stat_eval(stat, yp) */ while (1) { - __pyx_t_4 = (__pyx_v_multi->index < __pyx_v_multi->size); + __pyx_t_4 = ((__pyx_v_multi->index < __pyx_v_multi->size) != 0); if (!__pyx_t_4) break; - /* "nipy/labs/group/onesample.pyx":143 + /* "nipy/labs/group/onesample.pyx":144 * idx = simu*t.stride * while(multi.index < multi.size): * fff_onesample_permute_signs(yp, y, magic) # <<<<<<<<<<<<<< @@ -1549,7 +2210,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_stat(CYTHON_UNUSED PyObj */ fff_onesample_permute_signs(__pyx_v_yp, __pyx_v_y, __pyx_v_magic); - /* "nipy/labs/group/onesample.pyx":144 + /* "nipy/labs/group/onesample.pyx":145 * while(multi.index < multi.size): * fff_onesample_permute_signs(yp, y, magic) * t.data[idx] = fff_onesample_stat_eval(stat, yp) # <<<<<<<<<<<<<< @@ -1558,7 +2219,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_stat(CYTHON_UNUSED PyObj */ (__pyx_v_t->data[__pyx_v_idx]) = fff_onesample_stat_eval(__pyx_v_stat, __pyx_v_yp); - /* "nipy/labs/group/onesample.pyx":145 + /* "nipy/labs/group/onesample.pyx":146 * fff_onesample_permute_signs(yp, y, magic) * t.data[idx] = fff_onesample_stat_eval(stat, yp) * fffpy_multi_iterator_update(multi) # <<<<<<<<<<<<<< @@ -1569,7 +2230,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_stat(CYTHON_UNUSED PyObj } } - /* "nipy/labs/group/onesample.pyx":148 + /* "nipy/labs/group/onesample.pyx":149 * * # Free memory * fffpy_multi_iterator_delete(multi) # <<<<<<<<<<<<<< @@ -1578,7 +2239,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_stat(CYTHON_UNUSED PyObj */ fffpy_multi_iterator_delete(__pyx_v_multi); - /* "nipy/labs/group/onesample.pyx":149 + /* "nipy/labs/group/onesample.pyx":150 * # Free memory * fffpy_multi_iterator_delete(multi) * fff_vector_delete(yp) # <<<<<<<<<<<<<< @@ -1587,7 +2248,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_stat(CYTHON_UNUSED PyObj */ fff_vector_delete(__pyx_v_yp); - /* "nipy/labs/group/onesample.pyx":150 + /* "nipy/labs/group/onesample.pyx":151 * fffpy_multi_iterator_delete(multi) * fff_vector_delete(yp) * fff_vector_delete(magics) # <<<<<<<<<<<<<< @@ -1596,7 +2257,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_stat(CYTHON_UNUSED PyObj */ fff_vector_delete(__pyx_v_magics); - /* "nipy/labs/group/onesample.pyx":151 + /* "nipy/labs/group/onesample.pyx":152 * fff_vector_delete(yp) * fff_vector_delete(magics) * fff_onesample_stat_delete(stat) # <<<<<<<<<<<<<< @@ -1605,7 +2266,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_stat(CYTHON_UNUSED PyObj */ fff_onesample_stat_delete(__pyx_v_stat); - /* "nipy/labs/group/onesample.pyx":154 + /* "nipy/labs/group/onesample.pyx":155 * * # Return * return T # <<<<<<<<<<<<<< @@ -1617,8 +2278,15 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_stat(CYTHON_UNUSED PyObj __pyx_r = __pyx_v_T; goto __pyx_L0; - __pyx_r = Py_None; __Pyx_INCREF(Py_None); - goto __pyx_L0; + /* "nipy/labs/group/onesample.pyx":89 + * + * # Test stat without mixed-effect correction + * def stat(ndarray Y, id='student', double base=0.0, # <<<<<<<<<<<<<< + * int axis=0, ndarray Magics=None): + * """ + */ + + /* function exit code */ __pyx_L1_error:; __Pyx_XDECREF(__pyx_t_1); __Pyx_XDECREF(__pyx_t_2); @@ -1633,6 +2301,14 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_stat(CYTHON_UNUSED PyObj return __pyx_r; } +/* "nipy/labs/group/onesample.pyx":158 + * + * + * def stat_mfx(ndarray Y, ndarray V, id='student_mfx', double base=0.0, # <<<<<<<<<<<<<< + * int axis=0, ndarray Magics=None, unsigned int niter=5): + * """ + */ + /* Python wrapper */ static PyObject *__pyx_pw_4nipy_4labs_5group_9onesample_3stat_mfx(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/ static char __pyx_doc_4nipy_4labs_5group_9onesample_2stat_mfx[] = "\n T = stat_mfx(Y, V, id='student_mfx', base=0.0, axis=0, magics=None, niter=5).\n \n Compute a one-sample test statistic, with mixed-effect correction,\n over a number of deterministic or random permutations.\n "; @@ -1645,15 +2321,18 @@ static PyObject *__pyx_pw_4nipy_4labs_5group_9onesample_3stat_mfx(PyObject *__py int __pyx_v_axis; PyArrayObject *__pyx_v_Magics = 0; unsigned int __pyx_v_niter; + int __pyx_lineno = 0; + const char *__pyx_filename = NULL; + int __pyx_clineno = 0; PyObject *__pyx_r = 0; __Pyx_RefNannyDeclarations __Pyx_RefNannySetupContext("stat_mfx (wrapper)", 0); { - static PyObject **__pyx_pyargnames[] = {&__pyx_n_s__Y,&__pyx_n_s__V,&__pyx_n_s__id,&__pyx_n_s__base,&__pyx_n_s__axis,&__pyx_n_s__Magics,&__pyx_n_s__niter,0}; + static PyObject **__pyx_pyargnames[] = {&__pyx_n_s_Y,&__pyx_n_s_V,&__pyx_n_s_id,&__pyx_n_s_base,&__pyx_n_s_axis,&__pyx_n_s_Magics,&__pyx_n_s_niter,0}; PyObject* values[7] = {0,0,0,0,0,0,0}; - values[2] = ((PyObject *)__pyx_n_s__student_mfx); + values[2] = ((PyObject *)__pyx_n_s_student_mfx); - /* "nipy/labs/group/onesample.pyx":158 + /* "nipy/labs/group/onesample.pyx":159 * * def stat_mfx(ndarray Y, ndarray V, id='student_mfx', double base=0.0, * int axis=0, ndarray Magics=None, unsigned int niter=5): # <<<<<<<<<<<<<< @@ -1678,41 +2357,41 @@ static PyObject *__pyx_pw_4nipy_4labs_5group_9onesample_3stat_mfx(PyObject *__py kw_args = PyDict_Size(__pyx_kwds); switch (pos_args) { case 0: - if (likely((values[0] = PyDict_GetItem(__pyx_kwds, __pyx_n_s__Y)) != 0)) kw_args--; + if (likely((values[0] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_Y)) != 0)) kw_args--; else goto __pyx_L5_argtuple_error; case 1: - if (likely((values[1] = PyDict_GetItem(__pyx_kwds, __pyx_n_s__V)) != 0)) kw_args--; + if (likely((values[1] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_V)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("stat_mfx", 0, 2, 7, 1); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 157; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("stat_mfx", 0, 2, 7, 1); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 158; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } case 2: if (kw_args > 0) { - PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s__id); + PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s_id); if (value) { values[2] = value; kw_args--; } } case 3: if (kw_args > 0) { - PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s__base); + PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s_base); if (value) { values[3] = value; kw_args--; } } case 4: if (kw_args > 0) { - PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s__axis); + PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s_axis); if (value) { values[4] = value; kw_args--; } } case 5: if (kw_args > 0) { - PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s__Magics); + PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s_Magics); if (value) { values[5] = value; kw_args--; } } case 6: if (kw_args > 0) { - PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s__niter); + PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s_niter); if (value) { values[6] = value; kw_args--; } } } if (unlikely(kw_args > 0)) { - if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "stat_mfx") < 0)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 157; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "stat_mfx") < 0)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 158; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } else { switch (PyTuple_GET_SIZE(__pyx_args)) { @@ -1731,42 +2410,44 @@ static PyObject *__pyx_pw_4nipy_4labs_5group_9onesample_3stat_mfx(PyObject *__py __pyx_v_V = ((PyArrayObject *)values[1]); __pyx_v_id = values[2]; if (values[3]) { - __pyx_v_base = __pyx_PyFloat_AsDouble(values[3]); if (unlikely((__pyx_v_base == (double)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 157; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_base = __pyx_PyFloat_AsDouble(values[3]); if (unlikely((__pyx_v_base == (double)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 158; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } else { - - /* "nipy/labs/group/onesample.pyx":157 - * - * - * def stat_mfx(ndarray Y, ndarray V, id='student_mfx', double base=0.0, # <<<<<<<<<<<<<< - * int axis=0, ndarray Magics=None, unsigned int niter=5): - * """ - */ __pyx_v_base = ((double)0.0); } if (values[4]) { - __pyx_v_axis = __Pyx_PyInt_AsInt(values[4]); 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- /* "nipy/labs/group/onesample.pyx":198 + /* "nipy/labs/group/onesample.pyx":199 * * # Vector views * y = multi.vector[0] # <<<<<<<<<<<<<< @@ -1990,7 +2668,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_2stat_mfx(CYTHON_UNUSED */ __pyx_v_y = (__pyx_v_multi->vector[0]); - /* "nipy/labs/group/onesample.pyx":199 + /* "nipy/labs/group/onesample.pyx":200 * # Vector views * y = multi.vector[0] * v = multi.vector[1] # <<<<<<<<<<<<<< @@ -1999,7 +2677,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_2stat_mfx(CYTHON_UNUSED */ __pyx_v_v = (__pyx_v_multi->vector[1]); - /* "nipy/labs/group/onesample.pyx":200 + /* "nipy/labs/group/onesample.pyx":201 * y = multi.vector[0] * v = multi.vector[1] * t = multi.vector[2] # <<<<<<<<<<<<<< @@ -2008,7 +2686,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_2stat_mfx(CYTHON_UNUSED */ __pyx_v_t = (__pyx_v_multi->vector[2]); - /* "nipy/labs/group/onesample.pyx":203 + /* "nipy/labs/group/onesample.pyx":204 * * # Loop * for simu from 0 <= simu < nsimu: # <<<<<<<<<<<<<< @@ -2018,7 +2696,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_2stat_mfx(CYTHON_UNUSED __pyx_t_5 = __pyx_v_nsimu; for (__pyx_v_simu = 0; __pyx_v_simu < __pyx_t_5; __pyx_v_simu++) { - /* "nipy/labs/group/onesample.pyx":206 + /* "nipy/labs/group/onesample.pyx":207 * * # Set the magic number * magic = magics.data[simu*magics.stride] # <<<<<<<<<<<<<< @@ -2027,7 +2705,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_2stat_mfx(CYTHON_UNUSED */ __pyx_v_magic = (__pyx_v_magics->data[(__pyx_v_simu * __pyx_v_magics->stride)]); - /* "nipy/labs/group/onesample.pyx":209 + /* "nipy/labs/group/onesample.pyx":210 * * # Reset the multi-iterator * fffpy_multi_iterator_reset(multi) # <<<<<<<<<<<<<< @@ -2036,7 +2714,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_2stat_mfx(CYTHON_UNUSED */ fffpy_multi_iterator_reset(__pyx_v_multi); - /* "nipy/labs/group/onesample.pyx":212 + /* "nipy/labs/group/onesample.pyx":213 * * # Perform the loop * idx = simu*t.stride # <<<<<<<<<<<<<< @@ -2045,7 +2723,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_2stat_mfx(CYTHON_UNUSED */ __pyx_v_idx = (__pyx_v_simu * __pyx_v_t->stride); - /* "nipy/labs/group/onesample.pyx":213 + /* "nipy/labs/group/onesample.pyx":214 * # Perform the loop * idx = simu*t.stride * while(multi.index < multi.size): # <<<<<<<<<<<<<< @@ -2053,10 +2731,10 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_2stat_mfx(CYTHON_UNUSED * t.data[idx] = fff_onesample_stat_mfx_eval(stat, yp, v) */ while (1) { - __pyx_t_4 = (__pyx_v_multi->index < __pyx_v_multi->size); + __pyx_t_4 = ((__pyx_v_multi->index < __pyx_v_multi->size) != 0); if (!__pyx_t_4) break; - /* "nipy/labs/group/onesample.pyx":214 + /* "nipy/labs/group/onesample.pyx":215 * idx = simu*t.stride * while(multi.index < multi.size): * fff_onesample_permute_signs(yp, y, magic) # <<<<<<<<<<<<<< @@ -2065,7 +2743,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_2stat_mfx(CYTHON_UNUSED */ fff_onesample_permute_signs(__pyx_v_yp, __pyx_v_y, __pyx_v_magic); - /* "nipy/labs/group/onesample.pyx":215 + /* "nipy/labs/group/onesample.pyx":216 * while(multi.index < multi.size): * fff_onesample_permute_signs(yp, y, magic) * t.data[idx] = fff_onesample_stat_mfx_eval(stat, yp, v) # <<<<<<<<<<<<<< @@ -2074,7 +2752,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_2stat_mfx(CYTHON_UNUSED */ (__pyx_v_t->data[__pyx_v_idx]) = fff_onesample_stat_mfx_eval(__pyx_v_stat, __pyx_v_yp, __pyx_v_v); - /* "nipy/labs/group/onesample.pyx":216 + /* "nipy/labs/group/onesample.pyx":217 * fff_onesample_permute_signs(yp, y, magic) * t.data[idx] = fff_onesample_stat_mfx_eval(stat, yp, v) * fffpy_multi_iterator_update(multi) # <<<<<<<<<<<<<< @@ -2085,7 +2763,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_2stat_mfx(CYTHON_UNUSED } } - /* "nipy/labs/group/onesample.pyx":220 + /* "nipy/labs/group/onesample.pyx":221 * * # Free memory * fffpy_multi_iterator_delete(multi) # <<<<<<<<<<<<<< @@ -2094,7 +2772,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_2stat_mfx(CYTHON_UNUSED */ fffpy_multi_iterator_delete(__pyx_v_multi); - /* "nipy/labs/group/onesample.pyx":221 + /* "nipy/labs/group/onesample.pyx":222 * # Free memory * fffpy_multi_iterator_delete(multi) * fff_vector_delete(yp) # <<<<<<<<<<<<<< @@ -2103,7 +2781,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_2stat_mfx(CYTHON_UNUSED */ fff_vector_delete(__pyx_v_yp); - /* "nipy/labs/group/onesample.pyx":222 + /* "nipy/labs/group/onesample.pyx":223 * fffpy_multi_iterator_delete(multi) * fff_vector_delete(yp) * fff_vector_delete(magics) # <<<<<<<<<<<<<< @@ -2112,7 +2790,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_2stat_mfx(CYTHON_UNUSED */ fff_vector_delete(__pyx_v_magics); - /* "nipy/labs/group/onesample.pyx":223 + /* "nipy/labs/group/onesample.pyx":224 * fff_vector_delete(yp) * fff_vector_delete(magics) * fff_onesample_stat_mfx_delete(stat) # <<<<<<<<<<<<<< @@ -2121,7 +2799,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_2stat_mfx(CYTHON_UNUSED */ fff_onesample_stat_mfx_delete(__pyx_v_stat); - /* "nipy/labs/group/onesample.pyx":226 + /* "nipy/labs/group/onesample.pyx":227 * * # Return * return T # <<<<<<<<<<<<<< @@ -2133,8 +2811,15 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_2stat_mfx(CYTHON_UNUSED __pyx_r = __pyx_v_T; goto __pyx_L0; - __pyx_r = Py_None; __Pyx_INCREF(Py_None); - goto __pyx_L0; + /* "nipy/labs/group/onesample.pyx":158 + * + * + * def stat_mfx(ndarray Y, ndarray V, id='student_mfx', double base=0.0, # <<<<<<<<<<<<<< + * int axis=0, ndarray Magics=None, unsigned int niter=5): + * """ + */ + + /* function exit code */ __pyx_L1_error:; __Pyx_XDECREF(__pyx_t_1); __Pyx_XDECREF(__pyx_t_2); @@ -2149,6 +2834,14 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_2stat_mfx(CYTHON_UNUSED return __pyx_r; } +/* "nipy/labs/group/onesample.pyx":231 + * + * + * def pdf_fit_mfx(ndarray Y, ndarray V, int axis=0, int niter=5, int constraint=0, double base=0.0): # <<<<<<<<<<<<<< + * """ + * (W, Z) = pdf_fit_mfx(data=Y, vardata=V, axis=0, niter=5, constraint=False, base=0.0). + */ + /* Python wrapper */ static PyObject *__pyx_pw_4nipy_4labs_5group_9onesample_5pdf_fit_mfx(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/ static char __pyx_doc_4nipy_4labs_5group_9onesample_4pdf_fit_mfx[] = "\n (W, Z) = pdf_fit_mfx(data=Y, vardata=V, axis=0, niter=5, constraint=False, base=0.0).\n \n Comments to follow.\n "; @@ -2160,11 +2853,14 @@ static PyObject *__pyx_pw_4nipy_4labs_5group_9onesample_5pdf_fit_mfx(PyObject *_ int __pyx_v_niter; int __pyx_v_constraint; double __pyx_v_base; + int __pyx_lineno = 0; + const char *__pyx_filename = NULL; + int __pyx_clineno = 0; PyObject *__pyx_r = 0; __Pyx_RefNannyDeclarations __Pyx_RefNannySetupContext("pdf_fit_mfx (wrapper)", 0); { - static PyObject **__pyx_pyargnames[] = {&__pyx_n_s__Y,&__pyx_n_s__V,&__pyx_n_s__axis,&__pyx_n_s__niter,&__pyx_n_s__constraint,&__pyx_n_s__base,0}; + static PyObject **__pyx_pyargnames[] = {&__pyx_n_s_Y,&__pyx_n_s_V,&__pyx_n_s_axis,&__pyx_n_s_niter,&__pyx_n_s_constraint,&__pyx_n_s_base,0}; PyObject* values[6] = {0,0,0,0,0,0}; if (unlikely(__pyx_kwds)) { Py_ssize_t kw_args; @@ -2182,36 +2878,36 @@ static PyObject *__pyx_pw_4nipy_4labs_5group_9onesample_5pdf_fit_mfx(PyObject *_ kw_args = PyDict_Size(__pyx_kwds); switch (pos_args) { case 0: - if (likely((values[0] = PyDict_GetItem(__pyx_kwds, __pyx_n_s__Y)) != 0)) kw_args--; + if (likely((values[0] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_Y)) != 0)) kw_args--; else goto __pyx_L5_argtuple_error; case 1: - if (likely((values[1] = PyDict_GetItem(__pyx_kwds, __pyx_n_s__V)) != 0)) kw_args--; + if (likely((values[1] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_V)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("pdf_fit_mfx", 0, 2, 6, 1); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 230; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("pdf_fit_mfx", 0, 2, 6, 1); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 231; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } case 2: if (kw_args > 0) { - PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s__axis); + PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s_axis); if (value) { values[2] = value; kw_args--; } } case 3: if (kw_args > 0) { - PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s__niter); + PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s_niter); if (value) { values[3] = value; kw_args--; } } case 4: if (kw_args > 0) { - PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s__constraint); + PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s_constraint); if (value) { values[4] = value; kw_args--; } } case 5: if (kw_args > 0) { - PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s__base); + PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s_base); if (value) { values[5] = value; kw_args--; } } } if (unlikely(kw_args > 0)) { - if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "pdf_fit_mfx") < 0)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 230; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "pdf_fit_mfx") < 0)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 231; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } else { switch (PyTuple_GET_SIZE(__pyx_args)) { @@ -2228,45 +2924,39 @@ static PyObject *__pyx_pw_4nipy_4labs_5group_9onesample_5pdf_fit_mfx(PyObject *_ __pyx_v_Y = ((PyArrayObject *)values[0]); __pyx_v_V = ((PyArrayObject *)values[1]); if (values[2]) { - __pyx_v_axis = __Pyx_PyInt_AsInt(values[2]); if (unlikely((__pyx_v_axis == (int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 230; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_axis = __Pyx_PyInt_As_int(values[2]); if (unlikely((__pyx_v_axis == (int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 231; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } else { __pyx_v_axis = ((int)0); } if (values[3]) { - __pyx_v_niter = __Pyx_PyInt_AsInt(values[3]); if (unlikely((__pyx_v_niter == (int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 230; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_niter = __Pyx_PyInt_As_int(values[3]); if (unlikely((__pyx_v_niter == (int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 231; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } else { __pyx_v_niter = ((int)5); } if (values[4]) { - __pyx_v_constraint = __Pyx_PyInt_AsInt(values[4]); if (unlikely((__pyx_v_constraint == (int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 230; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_constraint = __Pyx_PyInt_As_int(values[4]); if (unlikely((__pyx_v_constraint == (int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 231; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } else { __pyx_v_constraint = ((int)0); } if (values[5]) { - __pyx_v_base = __pyx_PyFloat_AsDouble(values[5]); if (unlikely((__pyx_v_base == (double)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 230; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_base = __pyx_PyFloat_AsDouble(values[5]); if (unlikely((__pyx_v_base == (double)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 231; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } else { - - /* "nipy/labs/group/onesample.pyx":230 - * - * - * def pdf_fit_mfx(ndarray Y, ndarray V, int axis=0, int niter=5, int constraint=0, double base=0.0): # <<<<<<<<<<<<<< - * """ - * (W, Z) = pdf_fit_mfx(data=Y, vardata=V, axis=0, niter=5, constraint=False, base=0.0). - */ __pyx_v_base = ((double)0.0); } } goto __pyx_L4_argument_unpacking_done; __pyx_L5_argtuple_error:; - __Pyx_RaiseArgtupleInvalid("pdf_fit_mfx", 0, 2, 6, PyTuple_GET_SIZE(__pyx_args)); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 230; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("pdf_fit_mfx", 0, 2, 6, PyTuple_GET_SIZE(__pyx_args)); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 231; __pyx_clineno = __LINE__; 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__pyx_lineno = 271; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_GOTREF(__pyx_t_1); + __pyx_t_4 = PyTuple_New(2); if (unlikely(!__pyx_t_4)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 272; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_GOTREF(__pyx_t_4); __Pyx_INCREF(__pyx_v_W); - PyTuple_SET_ITEM(__pyx_t_1, 0, __pyx_v_W); + PyTuple_SET_ITEM(__pyx_t_4, 0, __pyx_v_W); __Pyx_GIVEREF(__pyx_v_W); __Pyx_INCREF(__pyx_v_Z); - PyTuple_SET_ITEM(__pyx_t_1, 1, __pyx_v_Z); + PyTuple_SET_ITEM(__pyx_t_4, 1, __pyx_v_Z); __Pyx_GIVEREF(__pyx_v_Z); - __pyx_r = ((PyObject *)__pyx_t_1); - __pyx_t_1 = 0; + __pyx_r = __pyx_t_4; + __pyx_t_4 = 0; goto __pyx_L0; - __pyx_r = Py_None; __Pyx_INCREF(Py_None); - goto __pyx_L0; + /* "nipy/labs/group/onesample.pyx":231 + * + * + * def pdf_fit_mfx(ndarray Y, ndarray V, int axis=0, int niter=5, int constraint=0, double base=0.0): # <<<<<<<<<<<<<< + * """ + * (W, Z) = pdf_fit_mfx(data=Y, vardata=V, axis=0, niter=5, constraint=False, base=0.0). + */ + + /* function exit code */ __pyx_L1_error:; __Pyx_XDECREF(__pyx_t_1); __Pyx_XDECREF(__pyx_t_4); @@ -2537,6 +3231,14 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_4pdf_fit_mfx(CYTHON_UNUS return __pyx_r; } +/* "nipy/labs/group/onesample.pyx":275 + * + * + * def pdf_fit_gmfx(ndarray Y, ndarray V, int axis=0, int niter=5, int constraint=0, double base=0.0): # <<<<<<<<<<<<<< + * """ + * (MU, S2) = pdf_fit_gmfx(data=Y, vardata=V, axis=0, niter=5, constraint=False, base=0.0). + */ + /* Python wrapper */ static PyObject *__pyx_pw_4nipy_4labs_5group_9onesample_7pdf_fit_gmfx(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/ static char __pyx_doc_4nipy_4labs_5group_9onesample_6pdf_fit_gmfx[] = "\n (MU, S2) = pdf_fit_gmfx(data=Y, vardata=V, axis=0, niter=5, constraint=False, base=0.0).\n \n Comments to follow.\n "; @@ -2548,11 +3250,14 @@ static PyObject *__pyx_pw_4nipy_4labs_5group_9onesample_7pdf_fit_gmfx(PyObject * int __pyx_v_niter; int __pyx_v_constraint; double __pyx_v_base; + int __pyx_lineno = 0; + const char *__pyx_filename = NULL; + int __pyx_clineno = 0; PyObject *__pyx_r = 0; __Pyx_RefNannyDeclarations __Pyx_RefNannySetupContext("pdf_fit_gmfx (wrapper)", 0); { - static PyObject **__pyx_pyargnames[] = {&__pyx_n_s__Y,&__pyx_n_s__V,&__pyx_n_s__axis,&__pyx_n_s__niter,&__pyx_n_s__constraint,&__pyx_n_s__base,0}; + static PyObject **__pyx_pyargnames[] = {&__pyx_n_s_Y,&__pyx_n_s_V,&__pyx_n_s_axis,&__pyx_n_s_niter,&__pyx_n_s_constraint,&__pyx_n_s_base,0}; PyObject* values[6] = {0,0,0,0,0,0}; if (unlikely(__pyx_kwds)) { Py_ssize_t kw_args; @@ -2570,36 +3275,36 @@ static PyObject *__pyx_pw_4nipy_4labs_5group_9onesample_7pdf_fit_gmfx(PyObject * kw_args = PyDict_Size(__pyx_kwds); switch (pos_args) { case 0: - if (likely((values[0] = PyDict_GetItem(__pyx_kwds, __pyx_n_s__Y)) != 0)) kw_args--; + if (likely((values[0] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_Y)) != 0)) kw_args--; else goto __pyx_L5_argtuple_error; case 1: - if (likely((values[1] = PyDict_GetItem(__pyx_kwds, __pyx_n_s__V)) != 0)) kw_args--; + if (likely((values[1] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_V)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("pdf_fit_gmfx", 0, 2, 6, 1); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 274; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("pdf_fit_gmfx", 0, 2, 6, 1); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 275; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } case 2: if (kw_args > 0) { - PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s__axis); + PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s_axis); if (value) { values[2] = value; kw_args--; } } case 3: if (kw_args > 0) { - PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s__niter); + PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s_niter); if (value) { values[3] = value; kw_args--; } } case 4: if (kw_args > 0) { - PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s__constraint); + PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s_constraint); if (value) { values[4] = value; kw_args--; } } case 5: if (kw_args > 0) { - PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s__base); + PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s_base); if (value) { values[5] = value; kw_args--; } } } if (unlikely(kw_args > 0)) { - if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "pdf_fit_gmfx") < 0)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 274; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "pdf_fit_gmfx") < 0)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 275; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } else { switch (PyTuple_GET_SIZE(__pyx_args)) { @@ -2616,45 +3321,39 @@ static PyObject *__pyx_pw_4nipy_4labs_5group_9onesample_7pdf_fit_gmfx(PyObject * __pyx_v_Y = ((PyArrayObject *)values[0]); __pyx_v_V = ((PyArrayObject *)values[1]); if (values[2]) { - __pyx_v_axis = __Pyx_PyInt_AsInt(values[2]); if (unlikely((__pyx_v_axis == (int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; 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__pyx_lineno = 316; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_GOTREF(__pyx_t_1); + __pyx_t_4 = PyTuple_New(2); if (unlikely(!__pyx_t_4)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 317; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_GOTREF(__pyx_t_4); __Pyx_INCREF(__pyx_v_MU); - PyTuple_SET_ITEM(__pyx_t_1, 0, __pyx_v_MU); + PyTuple_SET_ITEM(__pyx_t_4, 0, __pyx_v_MU); __Pyx_GIVEREF(__pyx_v_MU); __Pyx_INCREF(__pyx_v_S2); - PyTuple_SET_ITEM(__pyx_t_1, 1, __pyx_v_S2); + PyTuple_SET_ITEM(__pyx_t_4, 1, __pyx_v_S2); __Pyx_GIVEREF(__pyx_v_S2); - __pyx_r = ((PyObject *)__pyx_t_1); - __pyx_t_1 = 0; + __pyx_r = __pyx_t_4; + __pyx_t_4 = 0; goto __pyx_L0; - __pyx_r = Py_None; __Pyx_INCREF(Py_None); - goto __pyx_L0; + /* "nipy/labs/group/onesample.pyx":275 + * + * + * def pdf_fit_gmfx(ndarray Y, ndarray V, int axis=0, int niter=5, int constraint=0, double base=0.0): # <<<<<<<<<<<<<< + * """ + * (MU, S2) = pdf_fit_gmfx(data=Y, vardata=V, axis=0, niter=5, constraint=False, base=0.0). + */ + + /* function exit code */ __pyx_L1_error:; __Pyx_XDECREF(__pyx_t_1); __Pyx_XDECREF(__pyx_t_4); @@ -2934,6 +3637,14 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_6pdf_fit_gmfx(CYTHON_UNU return __pyx_r; } +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":194 + * # experimental exception made for __getbuffer__ and __releasebuffer__ + * # -- the details of this may change. + * def __getbuffer__(ndarray self, Py_buffer* info, int flags): # <<<<<<<<<<<<<< + * # This implementation of getbuffer is geared towards Cython + * # requirements, and does not yet fullfill the PEP. + */ + /* Python wrapper */ static CYTHON_UNUSED int __pyx_pw_5numpy_7ndarray_1__getbuffer__(PyObject *__pyx_v_self, Py_buffer *__pyx_v_info, int __pyx_v_flags); /*proto*/ static CYTHON_UNUSED int __pyx_pw_5numpy_7ndarray_1__getbuffer__(PyObject *__pyx_v_self, Py_buffer *__pyx_v_info, int __pyx_v_flags) { @@ -2941,18 +3652,12 @@ static CYTHON_UNUSED int __pyx_pw_5numpy_7ndarray_1__getbuffer__(PyObject *__pyx __Pyx_RefNannyDeclarations __Pyx_RefNannySetupContext("__getbuffer__ (wrapper)", 0); __pyx_r = __pyx_pf_5numpy_7ndarray___getbuffer__(((PyArrayObject *)__pyx_v_self), ((Py_buffer *)__pyx_v_info), ((int)__pyx_v_flags)); + + /* function exit code */ __Pyx_RefNannyFinishContext(); return __pyx_r; } -/* "numpy.pxd":194 - * # experimental exception made for __getbuffer__ and __releasebuffer__ - * # -- the details of this may change. - * def __getbuffer__(ndarray self, Py_buffer* info, int flags): # <<<<<<<<<<<<<< - * # This implementation of getbuffer is geared towards Cython - * # requirements, and does not yet fullfill the PEP. - */ - static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, Py_buffer *__pyx_v_info, int __pyx_v_flags) { int __pyx_v_copy_shape; int __pyx_v_i; @@ -2984,22 +3689,20 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P __Pyx_GIVEREF(__pyx_v_info->obj); } - /* "numpy.pxd":200 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":200 * # of flags * * if info == NULL: return # <<<<<<<<<<<<<< * * cdef int copy_shape, i, ndim */ - __pyx_t_1 = (__pyx_v_info == NULL); 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- /* "numpy.pxd":208 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":208 * ndim = PyArray_NDIM(self) * * if sizeof(npy_intp) != sizeof(Py_ssize_t): # <<<<<<<<<<<<<< * copy_shape = 1 * else: */ - __pyx_t_1 = ((sizeof(npy_intp)) != (sizeof(Py_ssize_t))); + __pyx_t_1 = (((sizeof(npy_intp)) != (sizeof(Py_ssize_t))) != 0); if (__pyx_t_1) { - /* "numpy.pxd":209 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":209 * * if sizeof(npy_intp) != sizeof(Py_ssize_t): * copy_shape = 1 # <<<<<<<<<<<<<< @@ -3048,7 +3751,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P } /*else*/ { - /* "numpy.pxd":211 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":211 * copy_shape = 1 * else: * copy_shape = 0 # <<<<<<<<<<<<<< @@ -3059,87 +3762,83 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P } __pyx_L4:; - /* "numpy.pxd":213 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":213 * copy_shape = 0 * * if ((flags & pybuf.PyBUF_C_CONTIGUOUS == pybuf.PyBUF_C_CONTIGUOUS) # <<<<<<<<<<<<<< * and not PyArray_CHKFLAGS(self, NPY_C_CONTIGUOUS)): * raise ValueError(u"ndarray is not C contiguous") */ - __pyx_t_1 = ((__pyx_v_flags & PyBUF_C_CONTIGUOUS) == PyBUF_C_CONTIGUOUS); + __pyx_t_1 = (((__pyx_v_flags & PyBUF_C_CONTIGUOUS) == PyBUF_C_CONTIGUOUS) != 0); if (__pyx_t_1) { - /* "numpy.pxd":214 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":214 * * if ((flags & pybuf.PyBUF_C_CONTIGUOUS == pybuf.PyBUF_C_CONTIGUOUS) * and not PyArray_CHKFLAGS(self, NPY_C_CONTIGUOUS)): # <<<<<<<<<<<<<< * raise ValueError(u"ndarray is not C contiguous") * */ - __pyx_t_2 = (!PyArray_CHKFLAGS(__pyx_v_self, NPY_C_CONTIGUOUS)); + __pyx_t_2 = ((!(PyArray_CHKFLAGS(__pyx_v_self, NPY_C_CONTIGUOUS) != 0)) != 0); __pyx_t_3 = __pyx_t_2; } else { __pyx_t_3 = __pyx_t_1; } if (__pyx_t_3) { - /* "numpy.pxd":215 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":215 * if ((flags & pybuf.PyBUF_C_CONTIGUOUS == pybuf.PyBUF_C_CONTIGUOUS) * and not PyArray_CHKFLAGS(self, NPY_C_CONTIGUOUS)): * raise ValueError(u"ndarray is not C contiguous") # <<<<<<<<<<<<<< * * if ((flags & pybuf.PyBUF_F_CONTIGUOUS == pybuf.PyBUF_F_CONTIGUOUS) */ - __pyx_t_4 = PyObject_Call(__pyx_builtin_ValueError, ((PyObject *)__pyx_k_tuple_2), NULL); if (unlikely(!__pyx_t_4)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 215; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_4 = __Pyx_PyObject_Call(__pyx_builtin_ValueError, __pyx_tuple_, NULL); if (unlikely(!__pyx_t_4)) {__pyx_filename = __pyx_f[2]; __pyx_lineno = 215; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_4); __Pyx_Raise(__pyx_t_4, 0, 0, 0); __Pyx_DECREF(__pyx_t_4); __pyx_t_4 = 0; - {__pyx_filename = __pyx_f[1]; __pyx_lineno = 215; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - goto __pyx_L5; + {__pyx_filename = __pyx_f[2]; __pyx_lineno = 215; __pyx_clineno = __LINE__; goto __pyx_L1_error;} } - __pyx_L5:; - /* "numpy.pxd":217 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":217 * raise ValueError(u"ndarray is not C contiguous") * * if ((flags & pybuf.PyBUF_F_CONTIGUOUS == pybuf.PyBUF_F_CONTIGUOUS) # <<<<<<<<<<<<<< * and not PyArray_CHKFLAGS(self, NPY_F_CONTIGUOUS)): * raise ValueError(u"ndarray is not Fortran contiguous") */ - __pyx_t_3 = ((__pyx_v_flags & PyBUF_F_CONTIGUOUS) == PyBUF_F_CONTIGUOUS); + __pyx_t_3 = (((__pyx_v_flags & PyBUF_F_CONTIGUOUS) == PyBUF_F_CONTIGUOUS) != 0); if (__pyx_t_3) { - /* "numpy.pxd":218 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":218 * * if ((flags & pybuf.PyBUF_F_CONTIGUOUS == pybuf.PyBUF_F_CONTIGUOUS) * and not PyArray_CHKFLAGS(self, NPY_F_CONTIGUOUS)): # <<<<<<<<<<<<<< * raise ValueError(u"ndarray is not Fortran contiguous") * */ - __pyx_t_1 = (!PyArray_CHKFLAGS(__pyx_v_self, NPY_F_CONTIGUOUS)); + __pyx_t_1 = ((!(PyArray_CHKFLAGS(__pyx_v_self, NPY_F_CONTIGUOUS) != 0)) != 0); __pyx_t_2 = __pyx_t_1; } else { __pyx_t_2 = __pyx_t_3; } if (__pyx_t_2) { - /* "numpy.pxd":219 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":219 * if ((flags & pybuf.PyBUF_F_CONTIGUOUS == pybuf.PyBUF_F_CONTIGUOUS) * and not PyArray_CHKFLAGS(self, NPY_F_CONTIGUOUS)): * raise ValueError(u"ndarray is not Fortran contiguous") # <<<<<<<<<<<<<< * * info.buf = PyArray_DATA(self) */ - __pyx_t_4 = PyObject_Call(__pyx_builtin_ValueError, ((PyObject *)__pyx_k_tuple_4), NULL); if (unlikely(!__pyx_t_4)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 219; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_4 = __Pyx_PyObject_Call(__pyx_builtin_ValueError, __pyx_tuple__2, NULL); if (unlikely(!__pyx_t_4)) {__pyx_filename = __pyx_f[2]; __pyx_lineno = 219; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_4); __Pyx_Raise(__pyx_t_4, 0, 0, 0); __Pyx_DECREF(__pyx_t_4); __pyx_t_4 = 0; - {__pyx_filename = __pyx_f[1]; __pyx_lineno = 219; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - goto __pyx_L6; + {__pyx_filename = __pyx_f[2]; __pyx_lineno = 219; __pyx_clineno = __LINE__; goto __pyx_L1_error;} } - __pyx_L6:; - /* "numpy.pxd":221 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":221 * raise ValueError(u"ndarray is not Fortran contiguous") * * info.buf = PyArray_DATA(self) # <<<<<<<<<<<<<< @@ -3148,7 +3847,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ __pyx_v_info->buf = PyArray_DATA(__pyx_v_self); - /* "numpy.pxd":222 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":222 * * info.buf = PyArray_DATA(self) * info.ndim = ndim # <<<<<<<<<<<<<< @@ -3157,16 +3856,17 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ __pyx_v_info->ndim = __pyx_v_ndim; - /* "numpy.pxd":223 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":223 * info.buf = PyArray_DATA(self) * info.ndim = ndim * if copy_shape: # <<<<<<<<<<<<<< * # Allocate new buffer for strides and shape info. * # This is allocated as one block, strides first. */ - if (__pyx_v_copy_shape) { + __pyx_t_2 = (__pyx_v_copy_shape != 0); + if (__pyx_t_2) { - /* "numpy.pxd":226 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":226 * # Allocate new buffer for strides and shape info. * # This is allocated as one block, strides first. * info.strides = stdlib.malloc(sizeof(Py_ssize_t) * ndim * 2) # <<<<<<<<<<<<<< @@ -3175,7 +3875,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ __pyx_v_info->strides = ((Py_ssize_t *)malloc((((sizeof(Py_ssize_t)) * ((size_t)__pyx_v_ndim)) * 2))); - /* "numpy.pxd":227 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":227 * # This is allocated as one block, strides first. * info.strides = stdlib.malloc(sizeof(Py_ssize_t) * ndim * 2) * info.shape = info.strides + ndim # <<<<<<<<<<<<<< @@ -3184,7 +3884,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ __pyx_v_info->shape = (__pyx_v_info->strides + __pyx_v_ndim); - /* "numpy.pxd":228 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":228 * info.strides = stdlib.malloc(sizeof(Py_ssize_t) * ndim * 2) * info.shape = info.strides + ndim * for i in range(ndim): # <<<<<<<<<<<<<< @@ -3195,7 +3895,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P for (__pyx_t_6 = 0; __pyx_t_6 < __pyx_t_5; __pyx_t_6+=1) { __pyx_v_i = __pyx_t_6; - /* "numpy.pxd":229 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":229 * info.shape = info.strides + ndim * for i in range(ndim): * info.strides[i] = PyArray_STRIDES(self)[i] # <<<<<<<<<<<<<< @@ -3204,7 +3904,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ (__pyx_v_info->strides[__pyx_v_i]) = (PyArray_STRIDES(__pyx_v_self)[__pyx_v_i]); - /* "numpy.pxd":230 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":230 * for i in range(ndim): * info.strides[i] = PyArray_STRIDES(self)[i] * info.shape[i] = PyArray_DIMS(self)[i] # <<<<<<<<<<<<<< @@ -3217,7 +3917,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P } /*else*/ { - /* "numpy.pxd":232 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":232 * info.shape[i] = PyArray_DIMS(self)[i] * else: * info.strides = PyArray_STRIDES(self) # <<<<<<<<<<<<<< @@ -3226,7 +3926,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ __pyx_v_info->strides = ((Py_ssize_t *)PyArray_STRIDES(__pyx_v_self)); - /* "numpy.pxd":233 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":233 * else: * info.strides = PyArray_STRIDES(self) * info.shape = PyArray_DIMS(self) # <<<<<<<<<<<<<< @@ -3237,7 +3937,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P } __pyx_L7:; - /* "numpy.pxd":234 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":234 * info.strides = PyArray_STRIDES(self) * info.shape = PyArray_DIMS(self) * info.suboffsets = NULL # <<<<<<<<<<<<<< @@ -3246,7 +3946,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ __pyx_v_info->suboffsets = NULL; - /* "numpy.pxd":235 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":235 * info.shape = PyArray_DIMS(self) * info.suboffsets = NULL * info.itemsize = PyArray_ITEMSIZE(self) # <<<<<<<<<<<<<< @@ -3255,16 +3955,16 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ __pyx_v_info->itemsize = PyArray_ITEMSIZE(__pyx_v_self); - /* "numpy.pxd":236 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":236 * info.suboffsets = NULL * info.itemsize = PyArray_ITEMSIZE(self) * info.readonly = not PyArray_ISWRITEABLE(self) # <<<<<<<<<<<<<< * * cdef int t */ - __pyx_v_info->readonly = (!PyArray_ISWRITEABLE(__pyx_v_self)); + __pyx_v_info->readonly = (!(PyArray_ISWRITEABLE(__pyx_v_self) != 0)); - /* "numpy.pxd":239 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":239 * * cdef int t * cdef char* f = NULL # <<<<<<<<<<<<<< @@ -3273,7 +3973,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ __pyx_v_f = NULL; - /* "numpy.pxd":240 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":240 * cdef int t * cdef char* f = NULL * cdef dtype descr = self.descr # <<<<<<<<<<<<<< @@ -3285,7 +3985,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P __pyx_v_descr = ((PyArray_Descr *)__pyx_t_4); __pyx_t_4 = 0; - /* "numpy.pxd":244 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":244 * cdef int offset * * cdef bint hasfields = PyDataType_HASFIELDS(descr) # <<<<<<<<<<<<<< @@ -3294,23 +3994,23 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ __pyx_v_hasfields = PyDataType_HASFIELDS(__pyx_v_descr); - /* "numpy.pxd":246 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":246 * cdef bint hasfields = PyDataType_HASFIELDS(descr) * * if not hasfields and not copy_shape: # <<<<<<<<<<<<<< * # do not call releasebuffer * info.obj = None */ - __pyx_t_2 = (!__pyx_v_hasfields); + __pyx_t_2 = ((!(__pyx_v_hasfields != 0)) != 0); if (__pyx_t_2) { - __pyx_t_3 = (!__pyx_v_copy_shape); + __pyx_t_3 = ((!(__pyx_v_copy_shape != 0)) != 0); __pyx_t_1 = __pyx_t_3; } else { __pyx_t_1 = __pyx_t_2; } if (__pyx_t_1) { - /* "numpy.pxd":248 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":248 * if not hasfields and not copy_shape: * # do not call releasebuffer * info.obj = None # <<<<<<<<<<<<<< @@ -3326,7 +4026,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P } /*else*/ { - /* "numpy.pxd":251 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":251 * else: * # need to call releasebuffer * info.obj = self # <<<<<<<<<<<<<< @@ -3341,17 +4041,17 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P } __pyx_L10:; - /* "numpy.pxd":253 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":253 * info.obj = self * * if not hasfields: # <<<<<<<<<<<<<< * t = descr.type_num * if ((descr.byteorder == c'>' and little_endian) or */ - __pyx_t_1 = (!__pyx_v_hasfields); + __pyx_t_1 = ((!(__pyx_v_hasfields != 0)) != 0); if (__pyx_t_1) { - /* "numpy.pxd":254 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":254 * * if not hasfields: * t = descr.type_num # <<<<<<<<<<<<<< @@ -3361,31 +4061,31 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P __pyx_t_5 = __pyx_v_descr->type_num; __pyx_v_t = __pyx_t_5; - /* "numpy.pxd":255 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":255 * if not hasfields: * t = descr.type_num * if ((descr.byteorder == c'>' and little_endian) or # <<<<<<<<<<<<<< * (descr.byteorder == c'<' and not little_endian)): * raise ValueError(u"Non-native byte order not supported") */ - __pyx_t_1 = (__pyx_v_descr->byteorder == '>'); + __pyx_t_1 = ((__pyx_v_descr->byteorder == '>') != 0); if (__pyx_t_1) { - __pyx_t_2 = __pyx_v_little_endian; + __pyx_t_2 = (__pyx_v_little_endian != 0); } else { __pyx_t_2 = __pyx_t_1; } if (!__pyx_t_2) { - /* "numpy.pxd":256 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":256 * t = descr.type_num * if ((descr.byteorder == c'>' and little_endian) or * (descr.byteorder == c'<' and not little_endian)): # <<<<<<<<<<<<<< * raise ValueError(u"Non-native byte order not supported") * if t == NPY_BYTE: f = "b" */ - __pyx_t_1 = (__pyx_v_descr->byteorder == '<'); + __pyx_t_1 = ((__pyx_v_descr->byteorder == '<') != 0); if (__pyx_t_1) { - __pyx_t_3 = (!__pyx_v_little_endian); + __pyx_t_3 = ((!(__pyx_v_little_endian != 0)) != 0); __pyx_t_7 = __pyx_t_3; } else { __pyx_t_7 = __pyx_t_1; @@ -3396,271 +4096,244 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P } if (__pyx_t_1) { - /* "numpy.pxd":257 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":257 * if ((descr.byteorder == c'>' and little_endian) or * (descr.byteorder == c'<' and not little_endian)): * raise ValueError(u"Non-native byte order not supported") # <<<<<<<<<<<<<< * if t == NPY_BYTE: f = "b" * elif t == NPY_UBYTE: f = "B" */ - __pyx_t_4 = PyObject_Call(__pyx_builtin_ValueError, ((PyObject *)__pyx_k_tuple_6), NULL); if (unlikely(!__pyx_t_4)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 257; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_4 = __Pyx_PyObject_Call(__pyx_builtin_ValueError, __pyx_tuple__3, NULL); if (unlikely(!__pyx_t_4)) {__pyx_filename = __pyx_f[2]; __pyx_lineno = 257; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_4); __Pyx_Raise(__pyx_t_4, 0, 0, 0); __Pyx_DECREF(__pyx_t_4); __pyx_t_4 = 0; - {__pyx_filename = __pyx_f[1]; __pyx_lineno = 257; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - goto __pyx_L12; + {__pyx_filename = __pyx_f[2]; __pyx_lineno = 257; __pyx_clineno = __LINE__; goto __pyx_L1_error;} } - __pyx_L12:; - /* "numpy.pxd":258 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":274 + * elif t == NPY_CDOUBLE: f = "Zd" + * elif t == NPY_CLONGDOUBLE: f = "Zg" + * elif t == NPY_OBJECT: f = "O" # <<<<<<<<<<<<<< + * else: + * raise ValueError(u"unknown dtype code in numpy.pxd (%d)" % t) + */ + switch (__pyx_v_t) { + + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":258 * (descr.byteorder == c'<' and not little_endian)): * raise ValueError(u"Non-native byte order not supported") * if t == NPY_BYTE: f = "b" # <<<<<<<<<<<<<< * elif t == NPY_UBYTE: f = "B" * elif t == NPY_SHORT: f = "h" */ - __pyx_t_1 = (__pyx_v_t == NPY_BYTE); - if (__pyx_t_1) { - __pyx_v_f = __pyx_k__b; - goto __pyx_L13; - } + case NPY_BYTE: + __pyx_v_f = __pyx_k_b; + break; - /* "numpy.pxd":259 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":259 * raise ValueError(u"Non-native byte order not supported") * if t == NPY_BYTE: f = "b" * elif t == NPY_UBYTE: f = "B" # <<<<<<<<<<<<<< * elif t == NPY_SHORT: f = "h" * elif t == NPY_USHORT: f = "H" */ - __pyx_t_1 = (__pyx_v_t == NPY_UBYTE); - if (__pyx_t_1) { - __pyx_v_f = __pyx_k__B; - goto __pyx_L13; - } + case NPY_UBYTE: + __pyx_v_f = __pyx_k_B; + break; - /* "numpy.pxd":260 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":260 * if t == NPY_BYTE: f = "b" * elif t == NPY_UBYTE: f = "B" * elif t == NPY_SHORT: f = "h" # <<<<<<<<<<<<<< * elif t == NPY_USHORT: f = "H" * elif t == NPY_INT: f = "i" */ - __pyx_t_1 = (__pyx_v_t == NPY_SHORT); - if (__pyx_t_1) { - __pyx_v_f = __pyx_k__h; - goto __pyx_L13; - } + case NPY_SHORT: + __pyx_v_f = __pyx_k_h; + break; - /* "numpy.pxd":261 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":261 * elif t == NPY_UBYTE: f = "B" * elif t == NPY_SHORT: f = "h" * elif t == NPY_USHORT: f = "H" # <<<<<<<<<<<<<< * elif t == NPY_INT: f = "i" * elif t == NPY_UINT: f = "I" */ - __pyx_t_1 = (__pyx_v_t == NPY_USHORT); - if (__pyx_t_1) { - __pyx_v_f = __pyx_k__H; - goto __pyx_L13; - } + case NPY_USHORT: + __pyx_v_f = __pyx_k_H; + break; - /* "numpy.pxd":262 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":262 * elif t == NPY_SHORT: f = "h" * elif t == NPY_USHORT: f = "H" * elif t == NPY_INT: f = "i" # <<<<<<<<<<<<<< * elif t == NPY_UINT: f = "I" * elif t == NPY_LONG: f = "l" */ - __pyx_t_1 = (__pyx_v_t == NPY_INT); - if (__pyx_t_1) { - __pyx_v_f = __pyx_k__i; - goto __pyx_L13; - } + case NPY_INT: + __pyx_v_f = __pyx_k_i; + break; - /* "numpy.pxd":263 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":263 * elif t == NPY_USHORT: f = "H" * elif t == NPY_INT: f = "i" * elif t == NPY_UINT: f = "I" # <<<<<<<<<<<<<< * elif t == NPY_LONG: f = "l" * elif t == NPY_ULONG: f = "L" */ - __pyx_t_1 = (__pyx_v_t == NPY_UINT); - if (__pyx_t_1) { - __pyx_v_f = __pyx_k__I; - goto __pyx_L13; - } + case NPY_UINT: + __pyx_v_f = __pyx_k_I; + break; - /* "numpy.pxd":264 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":264 * elif t == NPY_INT: f = "i" * elif t == NPY_UINT: f = "I" * elif t == NPY_LONG: f = "l" # <<<<<<<<<<<<<< * elif t == NPY_ULONG: f = "L" * elif t == NPY_LONGLONG: f = "q" */ - __pyx_t_1 = (__pyx_v_t == NPY_LONG); - if (__pyx_t_1) { - __pyx_v_f = __pyx_k__l; - goto __pyx_L13; - } + case NPY_LONG: + __pyx_v_f = __pyx_k_l; + break; - /* "numpy.pxd":265 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":265 * elif t == NPY_UINT: f = "I" * elif t == NPY_LONG: f = "l" * elif t == NPY_ULONG: f = "L" # <<<<<<<<<<<<<< * elif t == NPY_LONGLONG: f = "q" * elif t == NPY_ULONGLONG: f = "Q" */ - __pyx_t_1 = (__pyx_v_t == NPY_ULONG); - if (__pyx_t_1) { - __pyx_v_f = __pyx_k__L; - goto __pyx_L13; - } + case NPY_ULONG: + __pyx_v_f = __pyx_k_L; + break; - /* "numpy.pxd":266 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":266 * elif t == NPY_LONG: f = "l" * elif t == NPY_ULONG: f = "L" * elif t == NPY_LONGLONG: f = "q" # <<<<<<<<<<<<<< * elif t == NPY_ULONGLONG: f = "Q" * elif t == NPY_FLOAT: f = "f" */ - __pyx_t_1 = (__pyx_v_t == NPY_LONGLONG); 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if (PyDict_SetItem(__pyx_t_1, __pyx_n_s_student_mfx, __pyx_t_2) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 70; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0; - /* "nipy/labs/group/onesample.pyx":82 + /* "nipy/labs/group/onesample.pyx":83 * 'mean_gauss_mfx': FFF_ONESAMPLE_GAUSSIAN_MEAN_MFX, * 'student_mfx': FFF_ONESAMPLE_STUDENT_MFX, * 'sign_mfx': FFF_ONESAMPLE_SIGN_STAT_MFX, # <<<<<<<<<<<<<< * 'wilcoxon_mfx': FFF_ONESAMPLE_WILCOXON_MFX, * 'elr_mfx': FFF_ONESAMPLE_ELR_MFX} */ - __pyx_t_2 = PyInt_FromLong(FFF_ONESAMPLE_SIGN_STAT_MFX); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 82; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_2 = PyInt_FromLong(FFF_ONESAMPLE_SIGN_STAT_MFX); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 83; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_2); - if (PyDict_SetItem(__pyx_t_1, ((PyObject *)__pyx_n_s__sign_mfx), __pyx_t_2) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 69; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (PyDict_SetItem(__pyx_t_1, __pyx_n_s_sign_mfx, __pyx_t_2) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 70; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0; - /* "nipy/labs/group/onesample.pyx":83 + /* "nipy/labs/group/onesample.pyx":84 * 'student_mfx': FFF_ONESAMPLE_STUDENT_MFX, * 'sign_mfx': FFF_ONESAMPLE_SIGN_STAT_MFX, * 'wilcoxon_mfx': FFF_ONESAMPLE_WILCOXON_MFX, # <<<<<<<<<<<<<< * 'elr_mfx': FFF_ONESAMPLE_ELR_MFX} * */ - __pyx_t_2 = PyInt_FromLong(FFF_ONESAMPLE_WILCOXON_MFX); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 83; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_2 = PyInt_FromLong(FFF_ONESAMPLE_WILCOXON_MFX); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 84; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_2); - if (PyDict_SetItem(__pyx_t_1, ((PyObject *)__pyx_n_s__wilcoxon_mfx), __pyx_t_2) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 69; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (PyDict_SetItem(__pyx_t_1, __pyx_n_s_wilcoxon_mfx, __pyx_t_2) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 70; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0; - /* "nipy/labs/group/onesample.pyx":84 + /* "nipy/labs/group/onesample.pyx":85 * 'sign_mfx': FFF_ONESAMPLE_SIGN_STAT_MFX, * 'wilcoxon_mfx': FFF_ONESAMPLE_WILCOXON_MFX, * 'elr_mfx': FFF_ONESAMPLE_ELR_MFX} # <<<<<<<<<<<<<< * * */ - __pyx_t_2 = PyInt_FromLong(FFF_ONESAMPLE_ELR_MFX); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 84; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_2 = PyInt_FromLong(FFF_ONESAMPLE_ELR_MFX); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 85; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_2); - if (PyDict_SetItem(__pyx_t_1, ((PyObject *)__pyx_n_s__elr_mfx), __pyx_t_2) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 69; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (PyDict_SetItem(__pyx_t_1, __pyx_n_s_elr_mfx, __pyx_t_2) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 70; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0; - if (PyObject_SetAttr(__pyx_m, __pyx_n_s__stats, ((PyObject *)__pyx_t_1)) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 69; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_DECREF(((PyObject *)__pyx_t_1)); __pyx_t_1 = 0; + if (PyDict_SetItem(__pyx_d, __pyx_n_s_stats, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 70; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; - /* "nipy/labs/group/onesample.pyx":88 + /* "nipy/labs/group/onesample.pyx":89 * * # Test stat without mixed-effect correction * def stat(ndarray Y, id='student', double base=0.0, # <<<<<<<<<<<<<< * int axis=0, ndarray Magics=None): * """ */ - __pyx_t_1 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_5group_9onesample_1stat, NULL, __pyx_n_s_18); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 88; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_5group_9onesample_1stat, NULL, __pyx_n_s_nipy_labs_group_onesample); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 89; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); - if (PyObject_SetAttr(__pyx_m, __pyx_n_s__stat, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 88; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (PyDict_SetItem(__pyx_d, __pyx_n_s_stat, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 89; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; - /* "nipy/labs/group/onesample.pyx":157 + /* "nipy/labs/group/onesample.pyx":158 * * * def stat_mfx(ndarray Y, ndarray V, id='student_mfx', double base=0.0, # <<<<<<<<<<<<<< * int axis=0, ndarray Magics=None, unsigned int niter=5): * """ */ - __pyx_t_1 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_5group_9onesample_3stat_mfx, NULL, __pyx_n_s_18); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 157; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_5group_9onesample_3stat_mfx, NULL, __pyx_n_s_nipy_labs_group_onesample); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 158; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); - if (PyObject_SetAttr(__pyx_m, __pyx_n_s__stat_mfx, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 157; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (PyDict_SetItem(__pyx_d, __pyx_n_s_stat_mfx, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 158; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; - /* "nipy/labs/group/onesample.pyx":230 + /* "nipy/labs/group/onesample.pyx":231 * * * def pdf_fit_mfx(ndarray Y, ndarray V, int axis=0, int niter=5, int constraint=0, double base=0.0): # <<<<<<<<<<<<<< * """ * (W, Z) = pdf_fit_mfx(data=Y, vardata=V, axis=0, niter=5, constraint=False, base=0.0). */ - __pyx_t_1 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_5group_9onesample_5pdf_fit_mfx, NULL, __pyx_n_s_18); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 230; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_5group_9onesample_5pdf_fit_mfx, NULL, __pyx_n_s_nipy_labs_group_onesample); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 231; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); - if (PyObject_SetAttr(__pyx_m, __pyx_n_s__pdf_fit_mfx, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 230; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (PyDict_SetItem(__pyx_d, __pyx_n_s_pdf_fit_mfx, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 231; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; - /* "nipy/labs/group/onesample.pyx":274 + /* "nipy/labs/group/onesample.pyx":275 * * * def pdf_fit_gmfx(ndarray Y, ndarray V, int axis=0, int niter=5, int constraint=0, double base=0.0): # <<<<<<<<<<<<<< * """ * (MU, S2) = pdf_fit_gmfx(data=Y, vardata=V, axis=0, niter=5, constraint=False, base=0.0). */ - __pyx_t_1 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_5group_9onesample_7pdf_fit_gmfx, NULL, __pyx_n_s_18); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 274; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_5group_9onesample_7pdf_fit_gmfx, NULL, __pyx_n_s_nipy_labs_group_onesample); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 275; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); - if (PyObject_SetAttr(__pyx_m, __pyx_n_s__pdf_fit_gmfx, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 274; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (PyDict_SetItem(__pyx_d, __pyx_n_s_pdf_fit_gmfx, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 275; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; /* "nipy/labs/group/onesample.pyx":1 @@ -5772,11 +6477,11 @@ PyMODINIT_FUNC PyInit_onesample(void) * */ __pyx_t_1 = PyDict_New(); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 1; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_GOTREF(((PyObject *)__pyx_t_1)); - if (PyObject_SetAttr(__pyx_m, __pyx_n_s____test__, ((PyObject *)__pyx_t_1)) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 1; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_DECREF(((PyObject *)__pyx_t_1)); __pyx_t_1 = 0; + __Pyx_GOTREF(__pyx_t_1); + if (PyDict_SetItem(__pyx_d, __pyx_n_s_test, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 1; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; - /* "numpy.pxd":975 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":976 * arr.base = baseptr * * cdef inline object get_array_base(ndarray arr): # <<<<<<<<<<<<<< @@ -5819,17 +6524,32 @@ static __Pyx_RefNannyAPIStruct *__Pyx_RefNannyImportAPI(const char *modname) { } #endif /* CYTHON_REFNANNY */ -static PyObject *__Pyx_GetName(PyObject *dict, PyObject *name) { +static PyObject *__Pyx_GetBuiltinName(PyObject *name) { + PyObject* result = __Pyx_PyObject_GetAttrStr(__pyx_b, name); + if (unlikely(!result)) { + PyErr_Format(PyExc_NameError, +#if PY_MAJOR_VERSION >= 3 + "name '%U' is not defined", name); +#else + "name '%.200s' is not defined", PyString_AS_STRING(name)); +#endif + } + return result; +} + +static CYTHON_INLINE PyObject *__Pyx_GetModuleGlobalName(PyObject *name) { PyObject *result; - result = PyObject_GetAttr(dict, name); +#if CYTHON_COMPILING_IN_CPYTHON + result = PyDict_GetItem(__pyx_d, name); + if (result) { + Py_INCREF(result); + } else { +#else + result = PyObject_GetItem(__pyx_d, name); if (!result) { - if (dict != __pyx_b) { - PyErr_Clear(); - result = PyObject_GetAttr(__pyx_b, name); - } - if (!result) { - PyErr_SetObject(PyExc_NameError, name); - } + PyErr_Clear(); +#endif + result = __Pyx_GetBuiltinName(name); } return result; } @@ -5933,12 +6653,12 @@ static int __Pyx_ParseOptionalKeywords( goto bad; invalid_keyword_type: PyErr_Format(PyExc_TypeError, - "%s() keywords must be strings", function_name); + "%.200s() keywords must be strings", function_name); goto bad; invalid_keyword: PyErr_Format(PyExc_TypeError, #if PY_MAJOR_VERSION < 3 - "%s() got an unexpected keyword argument '%s'", + "%.200s() got an unexpected keyword argument '%.200s'", function_name, PyString_AsString(key)); #else "%s() got an unexpected keyword argument '%U'", @@ -5968,31 +6688,108 @@ static void __Pyx_RaiseArgtupleInvalid( more_or_less = "exactly"; } PyErr_Format(PyExc_TypeError, - "%s() takes %s %" CYTHON_FORMAT_SSIZE_T "d positional argument%s (%" CYTHON_FORMAT_SSIZE_T "d given)", + "%.200s() takes %.8s %" CYTHON_FORMAT_SSIZE_T "d positional argument%.1s (%" CYTHON_FORMAT_SSIZE_T "d given)", func_name, more_or_less, num_expected, (num_expected == 1) ? "" : "s", num_found); } -static int __Pyx_ArgTypeTest(PyObject *obj, PyTypeObject *type, int none_allowed, +static void __Pyx_RaiseArgumentTypeInvalid(const char* name, PyObject *obj, PyTypeObject *type) { + PyErr_Format(PyExc_TypeError, + "Argument '%.200s' has incorrect type (expected %.200s, got %.200s)", + name, type->tp_name, Py_TYPE(obj)->tp_name); +} +static CYTHON_INLINE int __Pyx_ArgTypeTest(PyObject *obj, PyTypeObject *type, int none_allowed, const char *name, int exact) { - if (!type) { - PyErr_Format(PyExc_SystemError, "Missing type object"); + if (unlikely(!type)) { + PyErr_SetString(PyExc_SystemError, "Missing type object"); return 0; } if (none_allowed && obj == Py_None) return 1; else if (exact) { - if (Py_TYPE(obj) == type) return 1; + if (likely(Py_TYPE(obj) == type)) return 1; + #if PY_MAJOR_VERSION == 2 + else if ((type == &PyBaseString_Type) && likely(__Pyx_PyBaseString_CheckExact(obj))) return 1; + #endif } else { - if (PyObject_TypeCheck(obj, type)) return 1; + if (likely(PyObject_TypeCheck(obj, type))) return 1; } - PyErr_Format(PyExc_TypeError, - "Argument '%s' has incorrect type (expected %s, got %s)", - name, type->tp_name, Py_TYPE(obj)->tp_name); + __Pyx_RaiseArgumentTypeInvalid(name, obj, type); return 0; } +static CYTHON_INLINE int __Pyx_SetItemInt_Generic(PyObject *o, PyObject *j, PyObject *v) { + int r; + if (!j) return -1; + r = PyObject_SetItem(o, j, v); + Py_DECREF(j); + return r; +} +static CYTHON_INLINE int __Pyx_SetItemInt_Fast(PyObject *o, Py_ssize_t i, PyObject *v, + int is_list, int wraparound, int boundscheck) { +#if CYTHON_COMPILING_IN_CPYTHON + if (is_list || PyList_CheckExact(o)) { + Py_ssize_t n = (!wraparound) ? i : ((likely(i >= 0)) ? i : i + PyList_GET_SIZE(o)); + if ((!boundscheck) || likely((n >= 0) & (n < PyList_GET_SIZE(o)))) { + PyObject* old = PyList_GET_ITEM(o, n); + Py_INCREF(v); + PyList_SET_ITEM(o, n, v); + Py_DECREF(old); + return 1; + } + } else { + PySequenceMethods *m = Py_TYPE(o)->tp_as_sequence; + if (likely(m && m->sq_ass_item)) { + if (wraparound && unlikely(i < 0) && likely(m->sq_length)) { + Py_ssize_t l = m->sq_length(o); + if (likely(l >= 0)) { + i += l; + } else { + if (PyErr_ExceptionMatches(PyExc_OverflowError)) + PyErr_Clear(); + else + return -1; + } + } + return m->sq_ass_item(o, i, v); + } + } +#else +#if CYTHON_COMPILING_IN_PYPY + if (is_list || (PySequence_Check(o) && !PyDict_Check(o))) { +#else + if (is_list || PySequence_Check(o)) { +#endif + return PySequence_SetItem(o, i, v); + } +#endif + return __Pyx_SetItemInt_Generic(o, PyInt_FromSsize_t(i), v); +} + +#if CYTHON_COMPILING_IN_CPYTHON +static CYTHON_INLINE PyObject* __Pyx_PyObject_Call(PyObject *func, PyObject *arg, PyObject *kw) { + PyObject *result; + ternaryfunc call = func->ob_type->tp_call; + if (unlikely(!call)) + return PyObject_Call(func, arg, kw); +#if PY_VERSION_HEX >= 0x02060000 + if (unlikely(Py_EnterRecursiveCall((char*)" while calling a Python object"))) + return NULL; +#endif + result = (*call)(func, arg, kw); +#if PY_VERSION_HEX >= 0x02060000 + Py_LeaveRecursiveCall(); +#endif + if (unlikely(!result) && unlikely(!PyErr_Occurred())) { + PyErr_SetString( + PyExc_SystemError, + "NULL result without error in PyObject_Call"); + } + return result; +} +#endif + static CYTHON_INLINE void __Pyx_ErrRestore(PyObject *type, PyObject *value, PyObject *tb) { #if CYTHON_COMPILING_IN_CPYTHON PyObject *tmp_type, *tmp_value, *tmp_tb; @@ -6062,24 +6859,23 @@ static void __Pyx_Raise(PyObject *type, PyObject *value, PyObject *tb, } value = type; #if PY_VERSION_HEX < 0x02050000 - if (PyInstance_Check(type)) { - type = (PyObject*) ((PyInstanceObject*)type)->in_class; - Py_INCREF(type); - } - else { - type = 0; - PyErr_SetString(PyExc_TypeError, - "raise: exception must be an old-style class or instance"); - goto raise_error; - } - #else - type = (PyObject*) Py_TYPE(type); + if (PyInstance_Check(type)) { + type = (PyObject*) ((PyInstanceObject*)type)->in_class; Py_INCREF(type); - if (!PyType_IsSubtype((PyTypeObject *)type, (PyTypeObject *)PyExc_BaseException)) { - PyErr_SetString(PyExc_TypeError, - "raise: exception class must be a subclass of BaseException"); - goto raise_error; - } + } else { + type = 0; + PyErr_SetString(PyExc_TypeError, + "raise: exception must be an old-style class or instance"); + goto raise_error; + } + #else + type = (PyObject*) Py_TYPE(type); + Py_INCREF(type); + if (!PyType_IsSubtype((PyTypeObject *)type, (PyTypeObject *)PyExc_BaseException)) { + PyErr_SetString(PyExc_TypeError, + "raise: exception class must be a subclass of BaseException"); + goto raise_error; + } #endif } __Pyx_ErrRestore(type, value, tb); @@ -6111,46 +6907,62 @@ static void __Pyx_Raise(PyObject *type, PyObject *value, PyObject *tb, PyObject value = type; type = (PyObject*) Py_TYPE(value); } else if (PyExceptionClass_Check(type)) { - PyObject *args; - if (!value) - args = PyTuple_New(0); - else if (PyTuple_Check(value)) { - Py_INCREF(value); - args = value; + PyObject *instance_class = NULL; + if (value && PyExceptionInstance_Check(value)) { + instance_class = (PyObject*) Py_TYPE(value); + if (instance_class != type) { + if (PyObject_IsSubclass(instance_class, type)) { + type = instance_class; + } else { + instance_class = NULL; + } + } } - else - args = PyTuple_Pack(1, value); - if (!args) - goto bad; - owned_instance = PyEval_CallObject(type, args); - Py_DECREF(args); - if (!owned_instance) - goto bad; - value = owned_instance; - if (!PyExceptionInstance_Check(value)) { - PyErr_Format(PyExc_TypeError, - "calling %R should have returned an instance of " - "BaseException, not %R", - type, Py_TYPE(value)); - goto bad; + if (!instance_class) { + PyObject *args; + if (!value) + args = PyTuple_New(0); + else if (PyTuple_Check(value)) { + Py_INCREF(value); + args = value; + } else + args = PyTuple_Pack(1, value); + if (!args) + goto bad; + owned_instance = PyObject_Call(type, args, NULL); + Py_DECREF(args); + if (!owned_instance) + goto bad; + value = owned_instance; + if (!PyExceptionInstance_Check(value)) { + PyErr_Format(PyExc_TypeError, + "calling %R should have returned an instance of " + "BaseException, not %R", + type, Py_TYPE(value)); + goto bad; + } } } else { PyErr_SetString(PyExc_TypeError, "raise: exception class must be a subclass of BaseException"); goto bad; } +#if PY_VERSION_HEX >= 0x03030000 + if (cause) { +#else if (cause && cause != Py_None) { +#endif PyObject *fixed_cause; - if (PyExceptionClass_Check(cause)) { + if (cause == Py_None) { + fixed_cause = NULL; + } else if (PyExceptionClass_Check(cause)) { fixed_cause = PyObject_CallObject(cause, NULL); if (fixed_cause == NULL) goto bad; - } - else if (PyExceptionInstance_Check(cause)) { + } else if (PyExceptionInstance_Check(cause)) { fixed_cause = cause; Py_INCREF(fixed_cause); - } - else { + } else { PyErr_SetString(PyExc_TypeError, "exception causes must derive from " "BaseException"); @@ -6181,7 +6993,7 @@ static CYTHON_INLINE void __Pyx_RaiseTooManyValuesError(Py_ssize_t expected) { static CYTHON_INLINE void __Pyx_RaiseNeedMoreValuesError(Py_ssize_t index) { PyErr_Format(PyExc_ValueError, - "need more than %" CYTHON_FORMAT_SSIZE_T "d value%s to unpack", + "need more than %" CYTHON_FORMAT_SSIZE_T "d value%.1s to unpack", index, (index == 1) ? "" : "s"); } @@ -6189,54 +7001,9 @@ static CYTHON_INLINE void __Pyx_RaiseNoneNotIterableError(void) { PyErr_SetString(PyExc_TypeError, "'NoneType' object is not iterable"); } -static CYTHON_INLINE int __Pyx_IterFinish(void) { -#if CYTHON_COMPILING_IN_CPYTHON - PyThreadState *tstate = PyThreadState_GET(); - PyObject* exc_type = tstate->curexc_type; - if (unlikely(exc_type)) { - if (likely(exc_type == PyExc_StopIteration) || PyErr_GivenExceptionMatches(exc_type, PyExc_StopIteration)) { - PyObject *exc_value, *exc_tb; - exc_value = tstate->curexc_value; - exc_tb = tstate->curexc_traceback; - tstate->curexc_type = 0; - tstate->curexc_value = 0; - tstate->curexc_traceback = 0; - Py_DECREF(exc_type); - Py_XDECREF(exc_value); - Py_XDECREF(exc_tb); - return 0; - } else { - return -1; - } - } - return 0; -#else - if (unlikely(PyErr_Occurred())) { - if (likely(PyErr_ExceptionMatches(PyExc_StopIteration))) { - PyErr_Clear(); - return 0; - } else { - return -1; - } - } - return 0; -#endif -} - -static int __Pyx_IternextUnpackEndCheck(PyObject *retval, Py_ssize_t expected) { - if (unlikely(retval)) { - Py_DECREF(retval); - __Pyx_RaiseTooManyValuesError(expected); - return -1; - } else { - return __Pyx_IterFinish(); - } - return 0; -} - static CYTHON_INLINE int __Pyx_TypeTest(PyObject *obj, PyTypeObject *type) { if (unlikely(!type)) { - PyErr_Format(PyExc_SystemError, "Missing type object"); + PyErr_SetString(PyExc_SystemError, "Missing type object"); return 0; } if (likely(PyObject_TypeCheck(obj, type))) @@ -6246,16 +7013,31 @@ static CYTHON_INLINE int __Pyx_TypeTest(PyObject *obj, PyTypeObject *type) { return 0; } -static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, long level) { - PyObject *py_import = 0; +static PyObject* __Pyx_ImportFrom(PyObject* module, PyObject* name) { + PyObject* value = __Pyx_PyObject_GetAttrStr(module, name); + if (unlikely(!value) && PyErr_ExceptionMatches(PyExc_AttributeError)) { + PyErr_Format(PyExc_ImportError, + #if PY_MAJOR_VERSION < 3 + "cannot import name %.230s", PyString_AS_STRING(name)); + #else + "cannot import name %S", name); + #endif + } + return value; +} + +static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, int level) { PyObject *empty_list = 0; PyObject *module = 0; PyObject *global_dict = 0; PyObject *empty_dict = 0; PyObject *list; - py_import = __Pyx_GetAttrString(__pyx_b, "__import__"); + #if PY_VERSION_HEX < 0x03030000 + PyObject *py_import; + py_import = __Pyx_PyObject_GetAttrStr(__pyx_b, __pyx_n_s_import); if (!py_import) goto bad; + #endif if (from_list) list = from_list; else { @@ -6275,13 +7057,17 @@ static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, long level) { #if PY_MAJOR_VERSION >= 3 if (level == -1) { if (strchr(__Pyx_MODULE_NAME, '.')) { - /* try package relative import first */ + #if PY_VERSION_HEX < 0x03030000 PyObject *py_level = PyInt_FromLong(1); if (!py_level) goto bad; module = PyObject_CallFunctionObjArgs(py_import, name, global_dict, empty_dict, list, py_level, NULL); Py_DECREF(py_level); + #else + module = PyImport_ImportModuleLevelObject( + name, global_dict, empty_dict, list, 1); + #endif if (!module) { if (!PyErr_ExceptionMatches(PyExc_ImportError)) goto bad; @@ -6290,56 +7076,332 @@ static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, long level) { } level = 0; /* try absolute import on failure */ } - #endif - if (!module) { - PyObject *py_level = PyInt_FromLong(level); - if (!py_level) - goto bad; - module = PyObject_CallFunctionObjArgs(py_import, - name, global_dict, empty_dict, list, py_level, NULL); - Py_DECREF(py_level); + #endif + if (!module) { + #if PY_VERSION_HEX < 0x03030000 + PyObject *py_level = PyInt_FromLong(level); + if (!py_level) + goto bad; + module = PyObject_CallFunctionObjArgs(py_import, + name, global_dict, empty_dict, list, py_level, NULL); + Py_DECREF(py_level); + #else + module = PyImport_ImportModuleLevelObject( + name, global_dict, empty_dict, list, level); + #endif + } + } + #else + if (level>0) { + PyErr_SetString(PyExc_RuntimeError, "Relative import is not supported for Python <=2.4."); + goto bad; + } + module = PyObject_CallFunctionObjArgs(py_import, + name, global_dict, empty_dict, list, NULL); + #endif +bad: + #if PY_VERSION_HEX < 0x03030000 + Py_XDECREF(py_import); + #endif + Py_XDECREF(empty_list); + Py_XDECREF(empty_dict); + return module; +} + +#define __PYX_VERIFY_RETURN_INT(target_type, func_type, func) \ + { \ + func_type value = func(x); \ + if (sizeof(target_type) < sizeof(func_type)) { \ + if (unlikely(value != (func_type) (target_type) value)) { \ + func_type zero = 0; \ + PyErr_SetString(PyExc_OverflowError, \ + (is_unsigned && unlikely(value < zero)) ? \ + "can't convert negative value to " #target_type : \ + "value too large to convert to " #target_type); \ + return (target_type) -1; \ + } \ + } \ + return (target_type) value; \ + } + +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + #include "longintrepr.h" + #endif +#endif +static CYTHON_INLINE int __Pyx_PyInt_As_int(PyObject *x) { + const int neg_one = (int) -1, const_zero = 0; + const int is_unsigned = neg_one > const_zero; +#if PY_MAJOR_VERSION < 3 + if (likely(PyInt_Check(x))) { + if (sizeof(int) < sizeof(long)) { + __PYX_VERIFY_RETURN_INT(int, long, PyInt_AS_LONG) + } else { + long val = PyInt_AS_LONG(x); + if (is_unsigned && unlikely(val < 0)) { + PyErr_SetString(PyExc_OverflowError, + "can't convert negative value to int"); + return (int) -1; + } + return (int) val; + } + } else +#endif + if (likely(PyLong_Check(x))) { + if (is_unsigned) { +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + if (sizeof(digit) <= sizeof(int)) { + switch (Py_SIZE(x)) { + case 0: return 0; + case 1: return (int) ((PyLongObject*)x)->ob_digit[0]; + } + } + #endif +#endif + if (unlikely(Py_SIZE(x) < 0)) { + PyErr_SetString(PyExc_OverflowError, + "can't convert negative value to int"); + return (int) -1; + } + if (sizeof(int) <= sizeof(unsigned long)) { + __PYX_VERIFY_RETURN_INT(int, unsigned long, PyLong_AsUnsignedLong) + } else if (sizeof(int) <= sizeof(unsigned long long)) { + __PYX_VERIFY_RETURN_INT(int, unsigned long long, PyLong_AsUnsignedLongLong) + } + } else { +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + if (sizeof(digit) <= sizeof(int)) { + switch (Py_SIZE(x)) { + case 0: return 0; + case 1: return +(int) ((PyLongObject*)x)->ob_digit[0]; + case -1: return -(int) ((PyLongObject*)x)->ob_digit[0]; + } + } + #endif +#endif + if (sizeof(int) <= sizeof(long)) { + __PYX_VERIFY_RETURN_INT(int, long, PyLong_AsLong) + } else if (sizeof(int) <= sizeof(long long)) { + __PYX_VERIFY_RETURN_INT(int, long long, PyLong_AsLongLong) + } + } + { +#if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) + PyErr_SetString(PyExc_RuntimeError, + "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); +#else + int val; + PyObject *v = __Pyx_PyNumber_Int(x); + #if PY_MAJOR_VERSION < 3 + if (likely(v) && !PyLong_Check(v)) { + PyObject *tmp = v; + v = PyNumber_Long(tmp); + Py_DECREF(tmp); + } + #endif + if (likely(v)) { + int one = 1; int is_little = (int)*(unsigned char *)&one; + unsigned char *bytes = (unsigned char *)&val; + int ret = _PyLong_AsByteArray((PyLongObject *)v, + bytes, sizeof(val), + is_little, !is_unsigned); + Py_DECREF(v); + if (likely(!ret)) + return val; + } +#endif + return (int) -1; + } + } else { + int val; + PyObject *tmp = __Pyx_PyNumber_Int(x); + if (!tmp) return (int) -1; + val = __Pyx_PyInt_As_int(tmp); + Py_DECREF(tmp); + return val; + } +} + +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + #include "longintrepr.h" + #endif +#endif +static CYTHON_INLINE unsigned int __Pyx_PyInt_As_unsigned_int(PyObject *x) { + const unsigned int neg_one = (unsigned int) -1, const_zero = 0; + const int is_unsigned = neg_one > const_zero; +#if PY_MAJOR_VERSION < 3 + if (likely(PyInt_Check(x))) { + if (sizeof(unsigned int) < sizeof(long)) { + __PYX_VERIFY_RETURN_INT(unsigned int, long, PyInt_AS_LONG) + } else { + long val = PyInt_AS_LONG(x); + if (is_unsigned && unlikely(val < 0)) { + PyErr_SetString(PyExc_OverflowError, + "can't convert negative value to unsigned int"); + return (unsigned int) -1; + } + return (unsigned int) val; + } + } else +#endif + if (likely(PyLong_Check(x))) { + if (is_unsigned) { +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + if (sizeof(digit) <= sizeof(unsigned int)) { + switch (Py_SIZE(x)) { + case 0: return 0; + case 1: return (unsigned int) ((PyLongObject*)x)->ob_digit[0]; + } + } + #endif +#endif + if (unlikely(Py_SIZE(x) < 0)) { + PyErr_SetString(PyExc_OverflowError, + "can't convert negative value to unsigned int"); + return (unsigned int) -1; + } + if (sizeof(unsigned int) <= sizeof(unsigned long)) { + __PYX_VERIFY_RETURN_INT(unsigned int, unsigned long, PyLong_AsUnsignedLong) + } else if (sizeof(unsigned int) <= sizeof(unsigned long long)) { + __PYX_VERIFY_RETURN_INT(unsigned int, unsigned long long, PyLong_AsUnsignedLongLong) + } + } else { +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + if (sizeof(digit) <= sizeof(unsigned int)) { + switch (Py_SIZE(x)) { + case 0: return 0; + case 1: return +(unsigned int) ((PyLongObject*)x)->ob_digit[0]; + case -1: return -(unsigned int) ((PyLongObject*)x)->ob_digit[0]; + } + } + #endif +#endif + if (sizeof(unsigned int) <= sizeof(long)) { + __PYX_VERIFY_RETURN_INT(unsigned int, long, PyLong_AsLong) + } else if (sizeof(unsigned int) <= sizeof(long long)) { + __PYX_VERIFY_RETURN_INT(unsigned int, long long, PyLong_AsLongLong) + } + } + { +#if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) + PyErr_SetString(PyExc_RuntimeError, + "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); +#else + unsigned int val; + PyObject *v = __Pyx_PyNumber_Int(x); + #if PY_MAJOR_VERSION < 3 + if (likely(v) && !PyLong_Check(v)) { + PyObject *tmp = v; + v = PyNumber_Long(tmp); + Py_DECREF(tmp); + } + #endif + if (likely(v)) { + int one = 1; int is_little = (int)*(unsigned char *)&one; + unsigned char *bytes = (unsigned char *)&val; + int ret = _PyLong_AsByteArray((PyLongObject *)v, + bytes, sizeof(val), + is_little, !is_unsigned); + Py_DECREF(v); + if (likely(!ret)) + return val; + } +#endif + return (unsigned int) -1; + } + } else { + unsigned int val; + PyObject *tmp = __Pyx_PyNumber_Int(x); + if (!tmp) return (unsigned int) -1; + val = __Pyx_PyInt_As_unsigned_int(tmp); + Py_DECREF(tmp); + return val; + } +} + +static CYTHON_INLINE PyObject* __Pyx_PyInt_From_int(int value) { + const int neg_one = (int) -1, const_zero = 0; + const int is_unsigned = neg_one > const_zero; + if (is_unsigned) { + if (sizeof(int) < sizeof(long)) { + return PyInt_FromLong((long) value); + } else if (sizeof(int) <= sizeof(unsigned long)) { + return PyLong_FromUnsignedLong((unsigned long) value); + } else if (sizeof(int) <= sizeof(unsigned long long)) { + return PyLong_FromUnsignedLongLong((unsigned long long) value); + } + } else { + if (sizeof(int) <= sizeof(long)) { + return PyInt_FromLong((long) value); + } else if (sizeof(int) <= sizeof(long long)) { + return PyLong_FromLongLong((long long) value); } } - #else - if (level>0) { - PyErr_SetString(PyExc_RuntimeError, "Relative import is not supported for Python <=2.4."); - goto bad; + { + int one = 1; int little = (int)*(unsigned char *)&one; + unsigned char *bytes = (unsigned char *)&value; + return _PyLong_FromByteArray(bytes, sizeof(int), + little, !is_unsigned); } - module = PyObject_CallFunctionObjArgs(py_import, - name, global_dict, empty_dict, list, NULL); - #endif -bad: - Py_XDECREF(empty_list); - Py_XDECREF(py_import); - Py_XDECREF(empty_dict); - return module; } -static CYTHON_INLINE PyObject *__Pyx_PyInt_to_py_Py_intptr_t(Py_intptr_t val) { - const Py_intptr_t neg_one = (Py_intptr_t)-1, const_zero = (Py_intptr_t)0; - const int is_unsigned = const_zero < neg_one; - if ((sizeof(Py_intptr_t) == sizeof(char)) || - (sizeof(Py_intptr_t) == sizeof(short))) { - return PyInt_FromLong((long)val); - } else if ((sizeof(Py_intptr_t) == sizeof(int)) || - (sizeof(Py_intptr_t) == sizeof(long))) { - if (is_unsigned) - return PyLong_FromUnsignedLong((unsigned long)val); - else - return PyInt_FromLong((long)val); - } else if (sizeof(Py_intptr_t) == sizeof(PY_LONG_LONG)) { - if (is_unsigned) - return PyLong_FromUnsignedLongLong((unsigned PY_LONG_LONG)val); - else - return PyLong_FromLongLong((PY_LONG_LONG)val); +static CYTHON_INLINE PyObject* __Pyx_PyInt_From_Py_intptr_t(Py_intptr_t value) { + const Py_intptr_t neg_one = (Py_intptr_t) -1, const_zero = 0; + const int is_unsigned = neg_one > const_zero; + if (is_unsigned) { + if (sizeof(Py_intptr_t) < sizeof(long)) { + return PyInt_FromLong((long) value); + } else if (sizeof(Py_intptr_t) <= sizeof(unsigned long)) { + return PyLong_FromUnsignedLong((unsigned long) value); + } else if (sizeof(Py_intptr_t) <= sizeof(unsigned long long)) { + return PyLong_FromUnsignedLongLong((unsigned long long) value); + } } else { + if (sizeof(Py_intptr_t) <= sizeof(long)) { + return PyInt_FromLong((long) value); + } else if (sizeof(Py_intptr_t) <= sizeof(long long)) { + return PyLong_FromLongLong((long long) value); + } + } + { int one = 1; int little = (int)*(unsigned char *)&one; - unsigned char *bytes = (unsigned char *)&val; + unsigned char *bytes = (unsigned char *)&value; return _PyLong_FromByteArray(bytes, sizeof(Py_intptr_t), little, !is_unsigned); } } +static CYTHON_INLINE PyObject* __Pyx_PyInt_From_unsigned_long(unsigned long value) { + const unsigned long neg_one = (unsigned long) -1, const_zero = 0; + const int is_unsigned = neg_one > const_zero; + if (is_unsigned) { + if (sizeof(unsigned long) < sizeof(long)) { + return PyInt_FromLong((long) value); + } else if (sizeof(unsigned long) <= sizeof(unsigned long)) { + return PyLong_FromUnsignedLong((unsigned long) value); + } else if (sizeof(unsigned long) <= sizeof(unsigned long long)) { + return PyLong_FromUnsignedLongLong((unsigned long long) value); + } + } else { + if (sizeof(unsigned long) <= sizeof(long)) { + return PyInt_FromLong((long) value); + } else if (sizeof(unsigned long) <= sizeof(long long)) { + return PyLong_FromLongLong((long long) value); + } + } + { + int one = 1; int little = (int)*(unsigned char *)&one; + unsigned char *bytes = (unsigned char *)&value; + return _PyLong_FromByteArray(bytes, sizeof(unsigned long), + little, !is_unsigned); + } +} + #if CYTHON_CCOMPLEX #ifdef __cplusplus static CYTHON_INLINE __pyx_t_float_complex __pyx_t_float_complex_from_parts(float x, float y) { @@ -6580,401 +7642,127 @@ static CYTHON_INLINE PyObject *__Pyx_PyInt_to_py_Py_intptr_t(Py_intptr_t val) { #endif #endif -static CYTHON_INLINE unsigned char __Pyx_PyInt_AsUnsignedChar(PyObject* x) { - const unsigned char neg_one = (unsigned char)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(unsigned char) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(unsigned char)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to unsigned char" : - "value too large to convert to unsigned char"); - } - return (unsigned char)-1; - } - return (unsigned char)val; - } - return (unsigned char)__Pyx_PyInt_AsUnsignedLong(x); -} - -static CYTHON_INLINE unsigned short __Pyx_PyInt_AsUnsignedShort(PyObject* x) { - const unsigned short neg_one = (unsigned short)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(unsigned short) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(unsigned short)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to unsigned short" : - "value too large to convert to unsigned short"); - } - return (unsigned short)-1; - } - return (unsigned short)val; - } - return (unsigned short)__Pyx_PyInt_AsUnsignedLong(x); -} - -static CYTHON_INLINE unsigned int __Pyx_PyInt_AsUnsignedInt(PyObject* x) { - const unsigned int neg_one = (unsigned int)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(unsigned int) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(unsigned int)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to unsigned int" : - "value too large to convert to unsigned int"); - } - return (unsigned int)-1; - } - return (unsigned int)val; - } - return (unsigned int)__Pyx_PyInt_AsUnsignedLong(x); -} - -static CYTHON_INLINE char __Pyx_PyInt_AsChar(PyObject* x) { - const char neg_one = (char)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(char) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(char)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to char" : - "value too large to convert to char"); - } - return (char)-1; - } - return (char)val; - } - return (char)__Pyx_PyInt_AsLong(x); -} - -static CYTHON_INLINE short __Pyx_PyInt_AsShort(PyObject* x) { - const short neg_one = (short)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(short) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(short)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to short" : - "value too large to convert to short"); - } - return (short)-1; - } - return (short)val; - } - return (short)__Pyx_PyInt_AsLong(x); -} - -static CYTHON_INLINE int __Pyx_PyInt_AsInt(PyObject* x) { - const int neg_one = (int)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(int) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(int)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to int" : - "value too large to convert to int"); - } - return (int)-1; - } - return (int)val; - } - return (int)__Pyx_PyInt_AsLong(x); -} - -static CYTHON_INLINE signed char __Pyx_PyInt_AsSignedChar(PyObject* x) { - const signed char neg_one = (signed char)-1, const_zero = 0; +static CYTHON_INLINE PyObject* __Pyx_PyInt_From_long(long value) { + const long neg_one = (long) -1, const_zero = 0; const int is_unsigned = neg_one > const_zero; - if (sizeof(signed char) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(signed char)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to signed char" : - "value too large to convert to signed char"); - } - return (signed char)-1; - } - return (signed char)val; - } - return (signed char)__Pyx_PyInt_AsSignedLong(x); -} - -static CYTHON_INLINE signed short __Pyx_PyInt_AsSignedShort(PyObject* x) { - const signed short neg_one = (signed short)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(signed short) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(signed short)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to signed short" : - "value too large to convert to signed short"); - } - return (signed short)-1; + if (is_unsigned) { + if (sizeof(long) < sizeof(long)) { + return PyInt_FromLong((long) value); + } else if (sizeof(long) <= sizeof(unsigned long)) { + return PyLong_FromUnsignedLong((unsigned long) value); + } else if (sizeof(long) <= sizeof(unsigned long long)) { + return PyLong_FromUnsignedLongLong((unsigned long long) value); } - return (signed short)val; - } - return (signed short)__Pyx_PyInt_AsSignedLong(x); -} - -static CYTHON_INLINE signed int __Pyx_PyInt_AsSignedInt(PyObject* x) { - const signed int neg_one = (signed int)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(signed int) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(signed int)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to signed int" : - "value too large to convert to signed int"); - } - return (signed int)-1; + } else { + if (sizeof(long) <= sizeof(long)) { + return PyInt_FromLong((long) value); + } else if (sizeof(long) <= sizeof(long long)) { + return PyLong_FromLongLong((long long) value); } - return (signed int)val; } - return (signed int)__Pyx_PyInt_AsSignedLong(x); -} - -static CYTHON_INLINE int __Pyx_PyInt_AsLongDouble(PyObject* x) { - const int neg_one = (int)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(int) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(int)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to int" : - "value too large to convert to int"); - } - return (int)-1; - } - return (int)val; + { + int one = 1; int little = (int)*(unsigned char *)&one; + unsigned char *bytes = (unsigned char *)&value; + return _PyLong_FromByteArray(bytes, sizeof(long), + little, !is_unsigned); } - return (int)__Pyx_PyInt_AsLong(x); } -static CYTHON_INLINE unsigned long __Pyx_PyInt_AsUnsignedLong(PyObject* x) { - const unsigned long neg_one = (unsigned long)-1, const_zero = 0; +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + #include "longintrepr.h" + #endif +#endif +static CYTHON_INLINE long __Pyx_PyInt_As_long(PyObject *x) { + const long neg_one = (long) -1, const_zero = 0; const int is_unsigned = neg_one > const_zero; -#if PY_VERSION_HEX < 0x03000000 +#if PY_MAJOR_VERSION < 3 if (likely(PyInt_Check(x))) { - long val = PyInt_AS_LONG(x); - if (is_unsigned && unlikely(val < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to unsigned long"); - return (unsigned long)-1; - } - return (unsigned long)val; - } else -#endif - if (likely(PyLong_Check(x))) { - if (is_unsigned) { - if (unlikely(Py_SIZE(x) < 0)) { + if (sizeof(long) < sizeof(long)) { + __PYX_VERIFY_RETURN_INT(long, long, PyInt_AS_LONG) + } else { + long val = PyInt_AS_LONG(x); + if (is_unsigned && unlikely(val < 0)) { PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to unsigned long"); - return (unsigned long)-1; + "can't convert negative value to long"); + return (long) -1; } - return (unsigned long)PyLong_AsUnsignedLong(x); - } else { - return (unsigned long)PyLong_AsLong(x); - } - } else { - unsigned long val; - PyObject *tmp = __Pyx_PyNumber_Int(x); - if (!tmp) return (unsigned long)-1; - val = __Pyx_PyInt_AsUnsignedLong(tmp); - Py_DECREF(tmp); - return val; - } -} - -static CYTHON_INLINE unsigned PY_LONG_LONG __Pyx_PyInt_AsUnsignedLongLong(PyObject* x) { - const unsigned PY_LONG_LONG neg_one = (unsigned PY_LONG_LONG)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; -#if PY_VERSION_HEX < 0x03000000 - if (likely(PyInt_Check(x))) { - long val = PyInt_AS_LONG(x); - if (is_unsigned && unlikely(val < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to unsigned PY_LONG_LONG"); - return (unsigned PY_LONG_LONG)-1; + return (long) val; } - return (unsigned PY_LONG_LONG)val; } else #endif if (likely(PyLong_Check(x))) { if (is_unsigned) { - if (unlikely(Py_SIZE(x) < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to unsigned PY_LONG_LONG"); - return (unsigned PY_LONG_LONG)-1; +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + if (sizeof(digit) <= sizeof(long)) { + switch (Py_SIZE(x)) { + case 0: return 0; + case 1: return (long) ((PyLongObject*)x)->ob_digit[0]; + } } - return (unsigned PY_LONG_LONG)PyLong_AsUnsignedLongLong(x); - } else { - return (unsigned PY_LONG_LONG)PyLong_AsLongLong(x); - } - } else { - unsigned PY_LONG_LONG val; - PyObject *tmp = __Pyx_PyNumber_Int(x); - if (!tmp) return (unsigned PY_LONG_LONG)-1; - val = __Pyx_PyInt_AsUnsignedLongLong(tmp); - Py_DECREF(tmp); - return val; - } -} - -static CYTHON_INLINE long __Pyx_PyInt_AsLong(PyObject* x) { - const long neg_one = (long)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; -#if PY_VERSION_HEX < 0x03000000 - if (likely(PyInt_Check(x))) { - long val = PyInt_AS_LONG(x); - if (is_unsigned && unlikely(val < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to long"); - return (long)-1; - } - return (long)val; - } else + #endif #endif - if (likely(PyLong_Check(x))) { - if (is_unsigned) { if (unlikely(Py_SIZE(x) < 0)) { PyErr_SetString(PyExc_OverflowError, "can't convert negative value to long"); - return (long)-1; + return (long) -1; } - return (long)PyLong_AsUnsignedLong(x); - } else { - return (long)PyLong_AsLong(x); - } - } else { - long val; - PyObject *tmp = __Pyx_PyNumber_Int(x); - if (!tmp) return (long)-1; - val = __Pyx_PyInt_AsLong(tmp); - Py_DECREF(tmp); - return val; - } -} - -static CYTHON_INLINE PY_LONG_LONG __Pyx_PyInt_AsLongLong(PyObject* x) { - const PY_LONG_LONG neg_one = (PY_LONG_LONG)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; -#if PY_VERSION_HEX < 0x03000000 - if (likely(PyInt_Check(x))) { - long val = PyInt_AS_LONG(x); - if (is_unsigned && unlikely(val < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to PY_LONG_LONG"); - return (PY_LONG_LONG)-1; - } - return (PY_LONG_LONG)val; - } else -#endif - if (likely(PyLong_Check(x))) { - if (is_unsigned) { - if (unlikely(Py_SIZE(x) < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to PY_LONG_LONG"); - return (PY_LONG_LONG)-1; + if (sizeof(long) <= sizeof(unsigned long)) { + __PYX_VERIFY_RETURN_INT(long, unsigned long, PyLong_AsUnsignedLong) + } else if (sizeof(long) <= sizeof(unsigned long long)) { + __PYX_VERIFY_RETURN_INT(long, unsigned long long, PyLong_AsUnsignedLongLong) } - return (PY_LONG_LONG)PyLong_AsUnsignedLongLong(x); } else { - return (PY_LONG_LONG)PyLong_AsLongLong(x); - } - } else { - PY_LONG_LONG val; - PyObject *tmp = __Pyx_PyNumber_Int(x); - if (!tmp) return (PY_LONG_LONG)-1; - val = __Pyx_PyInt_AsLongLong(tmp); - Py_DECREF(tmp); - return val; - } -} - -static CYTHON_INLINE signed long __Pyx_PyInt_AsSignedLong(PyObject* x) { - const signed long neg_one = (signed long)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; -#if PY_VERSION_HEX < 0x03000000 - if (likely(PyInt_Check(x))) { - long val = PyInt_AS_LONG(x); - if (is_unsigned && unlikely(val < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to signed long"); - return (signed long)-1; - } - return (signed long)val; - } else +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + if (sizeof(digit) <= sizeof(long)) { + switch (Py_SIZE(x)) { + case 0: return 0; + case 1: return +(long) ((PyLongObject*)x)->ob_digit[0]; + case -1: return -(long) ((PyLongObject*)x)->ob_digit[0]; + } + } + #endif #endif - if (likely(PyLong_Check(x))) { - if (is_unsigned) { - if (unlikely(Py_SIZE(x) < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to signed long"); - return (signed long)-1; + if (sizeof(long) <= sizeof(long)) { + __PYX_VERIFY_RETURN_INT(long, long, PyLong_AsLong) + } else if (sizeof(long) <= sizeof(long long)) { + __PYX_VERIFY_RETURN_INT(long, long long, PyLong_AsLongLong) } - return (signed long)PyLong_AsUnsignedLong(x); - } else { - return (signed long)PyLong_AsLong(x); - } - } else { - signed long val; - PyObject *tmp = __Pyx_PyNumber_Int(x); - if (!tmp) return (signed long)-1; - val = __Pyx_PyInt_AsSignedLong(tmp); - Py_DECREF(tmp); - return val; - } -} - -static CYTHON_INLINE signed PY_LONG_LONG __Pyx_PyInt_AsSignedLongLong(PyObject* x) { - const signed PY_LONG_LONG neg_one = (signed PY_LONG_LONG)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; -#if PY_VERSION_HEX < 0x03000000 - if (likely(PyInt_Check(x))) { - long val = PyInt_AS_LONG(x); - if (is_unsigned && unlikely(val < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to signed PY_LONG_LONG"); - return (signed PY_LONG_LONG)-1; } - return (signed PY_LONG_LONG)val; - } else -#endif - if (likely(PyLong_Check(x))) { - if (is_unsigned) { - if (unlikely(Py_SIZE(x) < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to signed PY_LONG_LONG"); - return (signed PY_LONG_LONG)-1; + { +#if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) + PyErr_SetString(PyExc_RuntimeError, + "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); +#else + long val; + PyObject *v = __Pyx_PyNumber_Int(x); + #if PY_MAJOR_VERSION < 3 + if (likely(v) && !PyLong_Check(v)) { + PyObject *tmp = v; + v = PyNumber_Long(tmp); + Py_DECREF(tmp); } - return (signed PY_LONG_LONG)PyLong_AsUnsignedLongLong(x); - } else { - return (signed PY_LONG_LONG)PyLong_AsLongLong(x); + #endif + if (likely(v)) { + int one = 1; int is_little = (int)*(unsigned char *)&one; + unsigned char *bytes = (unsigned char *)&val; + int ret = _PyLong_AsByteArray((PyLongObject *)v, + bytes, sizeof(val), + is_little, !is_unsigned); + Py_DECREF(v); + if (likely(!ret)) + return val; + } +#endif + return (long) -1; } } else { - signed PY_LONG_LONG val; + long val; PyObject *tmp = __Pyx_PyNumber_Int(x); - if (!tmp) return (signed PY_LONG_LONG)-1; - val = __Pyx_PyInt_AsSignedLongLong(tmp); + if (!tmp) return (long) -1; + val = __Pyx_PyInt_As_long(tmp); Py_DECREF(tmp); return val; } @@ -7025,6 +7813,10 @@ static PyTypeObject *__Pyx_ImportType(const char *module_name, const char *class PyObject *result = 0; PyObject *py_name = 0; char warning[200]; + Py_ssize_t basicsize; +#ifdef Py_LIMITED_API + PyObject *py_basicsize; +#endif py_module = __Pyx_ImportModule(module_name); if (!py_module) goto bad; @@ -7040,11 +7832,23 @@ static PyTypeObject *__Pyx_ImportType(const char *module_name, const char *class goto bad; if (!PyType_Check(result)) { PyErr_Format(PyExc_TypeError, - "%s.%s is not a type object", + "%.200s.%.200s is not a type object", module_name, class_name); goto bad; } - if (!strict && (size_t)((PyTypeObject *)result)->tp_basicsize > size) { +#ifndef Py_LIMITED_API + basicsize = ((PyTypeObject *)result)->tp_basicsize; +#else + py_basicsize = PyObject_GetAttrString(result, "__basicsize__"); + if (!py_basicsize) + goto bad; + basicsize = PyLong_AsSsize_t(py_basicsize); + Py_DECREF(py_basicsize); + py_basicsize = 0; + if (basicsize == (Py_ssize_t)-1 && PyErr_Occurred()) + goto bad; +#endif + if (!strict && (size_t)basicsize > size) { PyOS_snprintf(warning, sizeof(warning), "%s.%s size changed, may indicate binary incompatibility", module_name, class_name); @@ -7054,9 +7858,9 @@ static PyTypeObject *__Pyx_ImportType(const char *module_name, const char *class if (PyErr_WarnEx(NULL, warning, 0) < 0) goto bad; #endif } - else if ((size_t)((PyTypeObject *)result)->tp_basicsize != size) { + else if ((size_t)basicsize != size) { PyErr_Format(PyExc_ValueError, - "%s.%s has the wrong size, try recompiling", + "%.200s.%.200s has the wrong size, try recompiling", module_name, class_name); goto bad; } @@ -7260,27 +8064,90 @@ static int __Pyx_InitStrings(__Pyx_StringTabEntry *t) { return 0; } - -/* Type Conversion Functions */ - +static CYTHON_INLINE PyObject* __Pyx_PyUnicode_FromString(const char* c_str) { + return __Pyx_PyUnicode_FromStringAndSize(c_str, strlen(c_str)); +} +static CYTHON_INLINE char* __Pyx_PyObject_AsString(PyObject* o) { + Py_ssize_t ignore; + return __Pyx_PyObject_AsStringAndSize(o, &ignore); +} +static CYTHON_INLINE char* __Pyx_PyObject_AsStringAndSize(PyObject* o, Py_ssize_t *length) { +#if __PYX_DEFAULT_STRING_ENCODING_IS_ASCII || __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT + if ( +#if PY_MAJOR_VERSION < 3 && __PYX_DEFAULT_STRING_ENCODING_IS_ASCII + __Pyx_sys_getdefaultencoding_not_ascii && +#endif + PyUnicode_Check(o)) { +#if PY_VERSION_HEX < 0x03030000 + char* defenc_c; + PyObject* defenc = _PyUnicode_AsDefaultEncodedString(o, NULL); + if (!defenc) return NULL; + defenc_c = PyBytes_AS_STRING(defenc); +#if __PYX_DEFAULT_STRING_ENCODING_IS_ASCII + { + char* end = defenc_c + PyBytes_GET_SIZE(defenc); + char* c; + for (c = defenc_c; c < end; c++) { + if ((unsigned char) (*c) >= 128) { + PyUnicode_AsASCIIString(o); + return NULL; + } + } + } +#endif /*__PYX_DEFAULT_STRING_ENCODING_IS_ASCII*/ + *length = PyBytes_GET_SIZE(defenc); + return defenc_c; +#else /* PY_VERSION_HEX < 0x03030000 */ + if (PyUnicode_READY(o) == -1) return NULL; +#if __PYX_DEFAULT_STRING_ENCODING_IS_ASCII + if (PyUnicode_IS_ASCII(o)) { + *length = PyUnicode_GET_LENGTH(o); + return PyUnicode_AsUTF8(o); + } else { + PyUnicode_AsASCIIString(o); + return NULL; + } +#else /* __PYX_DEFAULT_STRING_ENCODING_IS_ASCII */ + return PyUnicode_AsUTF8AndSize(o, length); +#endif /* __PYX_DEFAULT_STRING_ENCODING_IS_ASCII */ +#endif /* PY_VERSION_HEX < 0x03030000 */ + } else +#endif /* __PYX_DEFAULT_STRING_ENCODING_IS_ASCII || __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT */ +#if !CYTHON_COMPILING_IN_PYPY +#if PY_VERSION_HEX >= 0x02060000 + if (PyByteArray_Check(o)) { + *length = PyByteArray_GET_SIZE(o); + return PyByteArray_AS_STRING(o); + } else +#endif +#endif + { + char* result; + int r = PyBytes_AsStringAndSize(o, &result, length); + if (unlikely(r < 0)) { + return NULL; + } else { + return result; + } + } +} static CYTHON_INLINE int __Pyx_PyObject_IsTrue(PyObject* x) { int is_true = x == Py_True; if (is_true | (x == Py_False) | (x == Py_None)) return is_true; else return PyObject_IsTrue(x); } - static CYTHON_INLINE PyObject* __Pyx_PyNumber_Int(PyObject* x) { PyNumberMethods *m; const char *name = NULL; PyObject *res = NULL; -#if PY_VERSION_HEX < 0x03000000 +#if PY_MAJOR_VERSION < 3 if (PyInt_Check(x) || PyLong_Check(x)) #else if (PyLong_Check(x)) #endif return Py_INCREF(x), x; m = Py_TYPE(x)->tp_as_number; -#if PY_VERSION_HEX < 0x03000000 +#if PY_MAJOR_VERSION < 3 if (m && m->nb_int) { name = "int"; res = PyNumber_Int(x); @@ -7296,13 +8163,13 @@ static CYTHON_INLINE PyObject* __Pyx_PyNumber_Int(PyObject* x) { } #endif if (res) { -#if PY_VERSION_HEX < 0x03000000 +#if PY_MAJOR_VERSION < 3 if (!PyInt_Check(res) && !PyLong_Check(res)) { #else if (!PyLong_Check(res)) { #endif PyErr_Format(PyExc_TypeError, - "__%s__ returned non-%s (type %.200s)", + "__%.4s__ returned non-%.4s (type %.200s)", name, name, Py_TYPE(res)->tp_name); Py_DECREF(res); return NULL; @@ -7314,16 +8181,40 @@ static CYTHON_INLINE PyObject* __Pyx_PyNumber_Int(PyObject* x) { } return res; } - +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + #include "longintrepr.h" + #endif +#endif static CYTHON_INLINE Py_ssize_t __Pyx_PyIndex_AsSsize_t(PyObject* b) { Py_ssize_t ival; - PyObject* x = PyNumber_Index(b); + PyObject *x; +#if PY_MAJOR_VERSION < 3 + if (likely(PyInt_CheckExact(b))) + return PyInt_AS_LONG(b); +#endif + if (likely(PyLong_CheckExact(b))) { + #if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + switch (Py_SIZE(b)) { + case -1: return -(sdigit)((PyLongObject*)b)->ob_digit[0]; + case 0: return 0; + case 1: return ((PyLongObject*)b)->ob_digit[0]; + } + #endif + #endif + #if PY_VERSION_HEX < 0x02060000 + return PyInt_AsSsize_t(b); + #else + return PyLong_AsSsize_t(b); + #endif + } + x = PyNumber_Index(b); if (!x) return -1; ival = PyInt_AsSsize_t(x); Py_DECREF(x); return ival; } - static CYTHON_INLINE PyObject * __Pyx_PyInt_FromSize_t(size_t ival) { #if PY_VERSION_HEX < 0x02050000 if (ival <= LONG_MAX) @@ -7338,17 +8229,5 @@ static CYTHON_INLINE PyObject * __Pyx_PyInt_FromSize_t(size_t ival) { #endif } -static CYTHON_INLINE size_t __Pyx_PyInt_AsSize_t(PyObject* x) { - unsigned PY_LONG_LONG val = __Pyx_PyInt_AsUnsignedLongLong(x); - if (unlikely(val == (unsigned PY_LONG_LONG)-1 && PyErr_Occurred())) { - return (size_t)-1; - } else if (unlikely(val != (unsigned PY_LONG_LONG)(size_t)val)) { - PyErr_SetString(PyExc_OverflowError, - "value too large to convert to size_t"); - return (size_t)-1; - } - return (size_t)val; -} - #endif /* Py_PYTHON_H */ diff --git a/nipy/labs/group/onesample.pyx b/nipy/labs/group/onesample.pyx index bc6ab6b8cc..b5892d5452 100644 --- a/nipy/labs/group/onesample.pyx +++ b/nipy/labs/group/onesample.pyx @@ -12,6 +12,7 @@ __version__ = '0.1' # Includes from fff cimport * +include "fffpy_import_lapack.pxi" # Exports from fff_onesample_stat.h cdef extern from "fff_onesample_stat.h": @@ -63,7 +64,7 @@ cdef extern from "fff_onesample_stat.h": fffpy_import_array() import_array() import numpy as np - +fffpy_import_lapack() # Stat dictionary stats = {'mean': FFF_ONESAMPLE_EMPIRICAL_MEAN, diff --git a/nipy/labs/group/setup.py b/nipy/labs/group/setup.py index 48e5832567..a163c7f8db 100644 --- a/nipy/labs/group/setup.py +++ b/nipy/labs/group/setup.py @@ -1,36 +1,17 @@ def configuration(parent_package='',top_path=None): from numpy.distutils.misc_util import Configuration - # We need this because libcstat.a is linked to lapack, which can - # be a fortran library, and the linker needs this information. - from numpy.distutils.system_info import get_info - # First, try 'lapack_info', as that seems to provide more details on Linux - # (both 32 and 64 bits): - lapack_info = get_info('lapack_opt', 0) - if 'libraries' not in lapack_info: - # But on OSX that may not give us what we need, so try with 'lapack' - # instead. NOTE: scipy.linalg uses lapack_opt, not 'lapack'... - lapack_info = get_info('lapack',0) config = Configuration('group', parent_package, top_path) config.add_subpackage('tests') - config.add_extension( - 'onesample', - sources=['onesample.pyx'], - libraries=['cstat'], - extra_info=lapack_info, - ) - config.add_extension( - 'twosample', - sources=['twosample.pyx'], - libraries=['cstat'], - extra_info=lapack_info, - ) - config.add_extension( - 'glm_twolevel', - sources=['glm_twolevel.pyx'], - libraries=['cstat'], - extra_info=lapack_info, - ) + config.add_extension('onesample', + sources=['onesample.pyx'], + libraries=['cstat']) + config.add_extension('twosample', + sources=['twosample.pyx'], + libraries=['cstat']) + config.add_extension('glm_twolevel', + sources=['glm_twolevel.pyx'], + libraries=['cstat']) return config diff --git a/nipy/labs/group/twosample.c b/nipy/labs/group/twosample.c index db3cb9fdee..2d16d2ec99 100644 --- a/nipy/labs/group/twosample.c +++ b/nipy/labs/group/twosample.c @@ -1,12 +1,25 @@ -/* Generated by Cython 0.17.4 on Sat Jan 12 17:27:39 2013 */ +/* Generated by Cython 0.20.1post0 (Debian 0.20.1+git90-g0e6e38e-1ubuntu2) on Mon Nov 10 15:44:59 2014 */ #define PY_SSIZE_T_CLEAN +#ifndef CYTHON_USE_PYLONG_INTERNALS +#ifdef PYLONG_BITS_IN_DIGIT +#define CYTHON_USE_PYLONG_INTERNALS 0 +#else +#include "pyconfig.h" +#ifdef PYLONG_BITS_IN_DIGIT +#define CYTHON_USE_PYLONG_INTERNALS 1 +#else +#define CYTHON_USE_PYLONG_INTERNALS 0 +#endif +#endif +#endif #include "Python.h" #ifndef Py_PYTHON_H #error Python headers needed to compile C extensions, please install development version of Python. #elif PY_VERSION_HEX < 0x02040000 #error Cython requires Python 2.4+. #else +#define CYTHON_ABI "0_20_1post0" #include /* For offsetof */ #ifndef offsetof #define offsetof(type, member) ( (size_t) & ((type*)0) -> member ) @@ -41,6 +54,9 @@ #define CYTHON_COMPILING_IN_PYPY 0 #define CYTHON_COMPILING_IN_CPYTHON 1 #endif +#if CYTHON_COMPILING_IN_PYPY +#define Py_OptimizeFlag 0 +#endif #if PY_VERSION_HEX < 0x02050000 typedef int Py_ssize_t; #define PY_SSIZE_T_MAX INT_MAX @@ -48,7 +64,7 @@ #define PY_FORMAT_SIZE_T "" #define CYTHON_FORMAT_SSIZE_T "" #define PyInt_FromSsize_t(z) PyInt_FromLong(z) - #define PyInt_AsSsize_t(o) __Pyx_PyInt_AsInt(o) + #define PyInt_AsSsize_t(o) __Pyx_PyInt_As_int(o) #define PyNumber_Index(o) ((PyNumber_Check(o) && !PyFloat_Check(o)) ? PyNumber_Int(o) : \ (PyErr_Format(PyExc_TypeError, \ "expected index value, got %.200s", Py_TYPE(o)->tp_name), \ @@ -100,13 +116,15 @@ #if PY_MAJOR_VERSION < 3 #define __Pyx_BUILTIN_MODULE_NAME "__builtin__" #define __Pyx_PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) \ - PyCode_New(a, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) + PyCode_New(a+k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) + #define __Pyx_DefaultClassType PyClass_Type #else #define __Pyx_BUILTIN_MODULE_NAME "builtins" #define __Pyx_PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) \ PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) + #define __Pyx_DefaultClassType PyType_Type #endif -#if PY_MAJOR_VERSION < 3 && PY_MINOR_VERSION < 6 +#if PY_VERSION_HEX < 0x02060000 #define PyUnicode_FromString(s) PyUnicode_Decode(s, strlen(s), "UTF-8", "strict") #endif #if PY_MAJOR_VERSION >= 3 @@ -116,19 +134,47 @@ #if (PY_VERSION_HEX < 0x02060000) || (PY_MAJOR_VERSION >= 3) #define Py_TPFLAGS_HAVE_NEWBUFFER 0 #endif +#if PY_VERSION_HEX < 0x02060000 + #define Py_TPFLAGS_HAVE_VERSION_TAG 0 +#endif +#if PY_VERSION_HEX < 0x02060000 && !defined(Py_TPFLAGS_IS_ABSTRACT) + #define Py_TPFLAGS_IS_ABSTRACT 0 +#endif +#if PY_VERSION_HEX < 0x030400a1 && !defined(Py_TPFLAGS_HAVE_FINALIZE) + #define Py_TPFLAGS_HAVE_FINALIZE 0 +#endif #if PY_VERSION_HEX > 0x03030000 && defined(PyUnicode_KIND) #define CYTHON_PEP393_ENABLED 1 #define __Pyx_PyUnicode_READY(op) (likely(PyUnicode_IS_READY(op)) ? \ 0 : _PyUnicode_Ready((PyObject *)(op))) #define __Pyx_PyUnicode_GET_LENGTH(u) PyUnicode_GET_LENGTH(u) #define __Pyx_PyUnicode_READ_CHAR(u, i) PyUnicode_READ_CHAR(u, i) + #define __Pyx_PyUnicode_KIND(u) PyUnicode_KIND(u) + #define __Pyx_PyUnicode_DATA(u) PyUnicode_DATA(u) #define __Pyx_PyUnicode_READ(k, d, i) PyUnicode_READ(k, d, i) #else #define CYTHON_PEP393_ENABLED 0 #define __Pyx_PyUnicode_READY(op) (0) #define __Pyx_PyUnicode_GET_LENGTH(u) PyUnicode_GET_SIZE(u) #define __Pyx_PyUnicode_READ_CHAR(u, i) ((Py_UCS4)(PyUnicode_AS_UNICODE(u)[i])) - #define __Pyx_PyUnicode_READ(k, d, i) ((k=k), (Py_UCS4)(((Py_UNICODE*)d)[i])) + #define __Pyx_PyUnicode_KIND(u) (sizeof(Py_UNICODE)) + #define __Pyx_PyUnicode_DATA(u) ((void*)PyUnicode_AS_UNICODE(u)) + #define __Pyx_PyUnicode_READ(k, d, i) ((void)(k), (Py_UCS4)(((Py_UNICODE*)d)[i])) +#endif +#if CYTHON_COMPILING_IN_PYPY + #define __Pyx_PyUnicode_Concat(a, b) PyNumber_Add(a, b) + #define __Pyx_PyUnicode_ConcatSafe(a, b) PyNumber_Add(a, b) +#else + #define __Pyx_PyUnicode_Concat(a, b) PyUnicode_Concat(a, b) + #define __Pyx_PyUnicode_ConcatSafe(a, b) ((unlikely((a) == Py_None) || unlikely((b) == Py_None)) ? \ + PyNumber_Add(a, b) : __Pyx_PyUnicode_Concat(a, b)) +#endif +#define __Pyx_PyString_FormatSafe(a, b) ((unlikely((a) == Py_None)) ? PyNumber_Remainder(a, b) : __Pyx_PyString_Format(a, b)) +#define __Pyx_PyUnicode_FormatSafe(a, b) ((unlikely((a) == Py_None)) ? PyNumber_Remainder(a, b) : PyUnicode_Format(a, b)) +#if PY_MAJOR_VERSION >= 3 + #define __Pyx_PyString_Format(a, b) PyUnicode_Format(a, b) +#else + #define __Pyx_PyString_Format(a, b) PyString_Format(a, b) #endif #if PY_MAJOR_VERSION >= 3 #define PyBaseString_Type PyUnicode_Type @@ -155,6 +201,14 @@ #define PyBytes_Concat PyString_Concat #define PyBytes_ConcatAndDel PyString_ConcatAndDel #endif +#if PY_MAJOR_VERSION >= 3 + #define __Pyx_PyBaseString_Check(obj) PyUnicode_Check(obj) + #define __Pyx_PyBaseString_CheckExact(obj) PyUnicode_CheckExact(obj) +#else + #define __Pyx_PyBaseString_Check(obj) (PyString_CheckExact(obj) || PyUnicode_CheckExact(obj) || \ + PyString_Check(obj) || PyUnicode_Check(obj)) + #define __Pyx_PyBaseString_CheckExact(obj) (PyString_CheckExact(obj) || PyUnicode_CheckExact(obj)) +#endif #if PY_VERSION_HEX < 0x02060000 #define PySet_Check(obj) PyObject_TypeCheck(obj, &PySet_Type) #define PyFrozenSet_Check(obj) PyObject_TypeCheck(obj, &PyFrozenSet_Type) @@ -178,11 +232,12 @@ #define PyInt_AsSsize_t PyLong_AsSsize_t #define PyInt_AsUnsignedLongMask PyLong_AsUnsignedLongMask #define PyInt_AsUnsignedLongLongMask PyLong_AsUnsignedLongLongMask + #define PyNumber_Int PyNumber_Long #endif #if PY_MAJOR_VERSION >= 3 #define PyBoolObject PyLongObject #endif -#if PY_VERSION_HEX < 0x03020000 +#if PY_VERSION_HEX < 0x030200A4 typedef long Py_hash_t; #define __Pyx_PyInt_FromHash_t PyInt_FromLong #define __Pyx_PyInt_AsHash_t PyInt_AsLong @@ -227,6 +282,46 @@ #define __Pyx_NAMESTR(n) (n) #define __Pyx_DOCSTR(n) (n) #endif +#ifndef CYTHON_INLINE + #if defined(__GNUC__) + #define CYTHON_INLINE __inline__ + #elif defined(_MSC_VER) + #define CYTHON_INLINE __inline + #elif defined (__STDC_VERSION__) && __STDC_VERSION__ >= 199901L + #define CYTHON_INLINE inline + #else + #define CYTHON_INLINE + #endif +#endif +#ifndef CYTHON_RESTRICT + #if defined(__GNUC__) + #define CYTHON_RESTRICT __restrict__ + #elif defined(_MSC_VER) && _MSC_VER >= 1400 + #define CYTHON_RESTRICT __restrict + #elif defined (__STDC_VERSION__) && __STDC_VERSION__ >= 199901L + #define CYTHON_RESTRICT restrict + #else + #define CYTHON_RESTRICT + #endif +#endif +#ifdef NAN +#define __PYX_NAN() ((float) NAN) +#else +static CYTHON_INLINE float __PYX_NAN() { + /* Initialize NaN. The sign is irrelevant, an exponent with all bits 1 and + a nonzero mantissa means NaN. If the first bit in the mantissa is 1, it is + a quiet NaN. */ + float value; + memset(&value, 0xFF, sizeof(value)); + return value; +} +#endif +#ifdef __cplusplus +template +void __Pyx_call_destructor(T* x) { + x->~T(); +} +#endif #if PY_MAJOR_VERSION >= 3 @@ -251,6 +346,7 @@ #include #define __PYX_HAVE__nipy__labs__group__twosample #define __PYX_HAVE_API__nipy__labs__group__twosample +#include "string.h" #include "stdio.h" #include "stdlib.h" #include "numpy/arrayobject.h" @@ -269,21 +365,6 @@ #define CYTHON_WITHOUT_ASSERTIONS #endif - -/* inline attribute */ -#ifndef CYTHON_INLINE - #if defined(__GNUC__) - #define CYTHON_INLINE __inline__ - #elif defined(_MSC_VER) - #define CYTHON_INLINE __inline - #elif defined (__STDC_VERSION__) && __STDC_VERSION__ >= 199901L - #define CYTHON_INLINE inline - #else - #define CYTHON_INLINE - #endif -#endif - -/* unused attribute */ #ifndef CYTHON_UNUSED # if defined(__GNUC__) # if !(defined(__cplusplus)) || (__GNUC__ > 3 || (__GNUC__ == 3 && __GNUC_MINOR__ >= 4)) @@ -297,46 +378,155 @@ # define CYTHON_UNUSED # endif #endif - -typedef struct {PyObject **p; char *s; const long n; const char* encoding; const char is_unicode; const char is_str; const char intern; } __Pyx_StringTabEntry; /*proto*/ - - -/* Type Conversion Predeclarations */ - -#define __Pyx_PyBytes_FromUString(s) PyBytes_FromString((char*)s) -#define __Pyx_PyBytes_AsUString(s) ((unsigned char*) PyBytes_AsString(s)) - +typedef struct {PyObject **p; char *s; const Py_ssize_t n; const char* encoding; + const char is_unicode; const char is_str; const char intern; } __Pyx_StringTabEntry; /*proto*/ + +#define __PYX_DEFAULT_STRING_ENCODING_IS_ASCII 0 +#define __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT 0 +#define __PYX_DEFAULT_STRING_ENCODING "" +#define __Pyx_PyObject_FromString __Pyx_PyBytes_FromString +#define __Pyx_PyObject_FromStringAndSize __Pyx_PyBytes_FromStringAndSize +#define __Pyx_fits_Py_ssize_t(v, type, is_signed) ( \ + (sizeof(type) < sizeof(Py_ssize_t)) || \ + (sizeof(type) > sizeof(Py_ssize_t) && \ + likely(v < (type)PY_SSIZE_T_MAX || \ + v == (type)PY_SSIZE_T_MAX) && \ + (!is_signed || likely(v > (type)PY_SSIZE_T_MIN || \ + v == (type)PY_SSIZE_T_MIN))) || \ + (sizeof(type) == sizeof(Py_ssize_t) && \ + (is_signed || likely(v < (type)PY_SSIZE_T_MAX || \ + v == (type)PY_SSIZE_T_MAX))) ) +static CYTHON_INLINE char* __Pyx_PyObject_AsString(PyObject*); +static CYTHON_INLINE char* __Pyx_PyObject_AsStringAndSize(PyObject*, Py_ssize_t* length); +#define __Pyx_PyByteArray_FromString(s) PyByteArray_FromStringAndSize((const char*)s, strlen((const char*)s)) +#define __Pyx_PyByteArray_FromStringAndSize(s, l) PyByteArray_FromStringAndSize((const char*)s, l) +#define __Pyx_PyBytes_FromString PyBytes_FromString +#define __Pyx_PyBytes_FromStringAndSize PyBytes_FromStringAndSize +static CYTHON_INLINE PyObject* __Pyx_PyUnicode_FromString(const char*); +#if PY_MAJOR_VERSION < 3 + #define __Pyx_PyStr_FromString __Pyx_PyBytes_FromString + #define __Pyx_PyStr_FromStringAndSize __Pyx_PyBytes_FromStringAndSize +#else + #define __Pyx_PyStr_FromString __Pyx_PyUnicode_FromString + #define __Pyx_PyStr_FromStringAndSize __Pyx_PyUnicode_FromStringAndSize +#endif +#define __Pyx_PyObject_AsSString(s) ((signed char*) __Pyx_PyObject_AsString(s)) +#define __Pyx_PyObject_AsUString(s) ((unsigned char*) __Pyx_PyObject_AsString(s)) +#define __Pyx_PyObject_FromUString(s) __Pyx_PyObject_FromString((const char*)s) +#define __Pyx_PyBytes_FromUString(s) __Pyx_PyBytes_FromString((const char*)s) +#define __Pyx_PyByteArray_FromUString(s) __Pyx_PyByteArray_FromString((const char*)s) +#define __Pyx_PyStr_FromUString(s) __Pyx_PyStr_FromString((const char*)s) +#define __Pyx_PyUnicode_FromUString(s) __Pyx_PyUnicode_FromString((const char*)s) +#if PY_MAJOR_VERSION < 3 +static CYTHON_INLINE size_t __Pyx_Py_UNICODE_strlen(const Py_UNICODE *u) +{ + const Py_UNICODE *u_end = u; + while (*u_end++) ; + return u_end - u - 1; +} +#else +#define __Pyx_Py_UNICODE_strlen Py_UNICODE_strlen +#endif +#define __Pyx_PyUnicode_FromUnicode(u) PyUnicode_FromUnicode(u, __Pyx_Py_UNICODE_strlen(u)) +#define __Pyx_PyUnicode_FromUnicodeAndLength PyUnicode_FromUnicode +#define __Pyx_PyUnicode_AsUnicode PyUnicode_AsUnicode #define __Pyx_Owned_Py_None(b) (Py_INCREF(Py_None), Py_None) #define __Pyx_PyBool_FromLong(b) ((b) ? (Py_INCREF(Py_True), Py_True) : (Py_INCREF(Py_False), Py_False)) static CYTHON_INLINE int __Pyx_PyObject_IsTrue(PyObject*); static CYTHON_INLINE PyObject* __Pyx_PyNumber_Int(PyObject* x); - static CYTHON_INLINE Py_ssize_t __Pyx_PyIndex_AsSsize_t(PyObject*); static CYTHON_INLINE PyObject * __Pyx_PyInt_FromSize_t(size_t); -static CYTHON_INLINE size_t __Pyx_PyInt_AsSize_t(PyObject*); - #if CYTHON_COMPILING_IN_CPYTHON #define __pyx_PyFloat_AsDouble(x) (PyFloat_CheckExact(x) ? PyFloat_AS_DOUBLE(x) : PyFloat_AsDouble(x)) #else #define __pyx_PyFloat_AsDouble(x) PyFloat_AsDouble(x) #endif #define __pyx_PyFloat_AsFloat(x) ((float) __pyx_PyFloat_AsDouble(x)) +#if PY_MAJOR_VERSION < 3 && __PYX_DEFAULT_STRING_ENCODING_IS_ASCII +static int __Pyx_sys_getdefaultencoding_not_ascii; +static int __Pyx_init_sys_getdefaultencoding_params(void) { + PyObject* sys = NULL; + PyObject* default_encoding = NULL; + PyObject* ascii_chars_u = NULL; + PyObject* ascii_chars_b = NULL; + sys = PyImport_ImportModule("sys"); + if (sys == NULL) goto bad; + default_encoding = PyObject_CallMethod(sys, (char*) (const char*) "getdefaultencoding", NULL); + if (default_encoding == NULL) goto bad; + if (strcmp(PyBytes_AsString(default_encoding), "ascii") == 0) { + __Pyx_sys_getdefaultencoding_not_ascii = 0; + } else { + const char* default_encoding_c = PyBytes_AS_STRING(default_encoding); + char ascii_chars[128]; + int c; + for (c = 0; c < 128; c++) { + ascii_chars[c] = c; + } + __Pyx_sys_getdefaultencoding_not_ascii = 1; + ascii_chars_u = PyUnicode_DecodeASCII(ascii_chars, 128, NULL); + if (ascii_chars_u == NULL) goto bad; + ascii_chars_b = PyUnicode_AsEncodedString(ascii_chars_u, default_encoding_c, NULL); + if (ascii_chars_b == NULL || strncmp(ascii_chars, PyBytes_AS_STRING(ascii_chars_b), 128) != 0) { + PyErr_Format( + PyExc_ValueError, + "This module compiled with c_string_encoding=ascii, but default encoding '%.200s' is not a superset of ascii.", + default_encoding_c); + goto bad; + } + } + Py_XDECREF(sys); + Py_XDECREF(default_encoding); + Py_XDECREF(ascii_chars_u); + Py_XDECREF(ascii_chars_b); + return 0; +bad: + Py_XDECREF(sys); + Py_XDECREF(default_encoding); + Py_XDECREF(ascii_chars_u); + Py_XDECREF(ascii_chars_b); + return -1; +} +#endif +#if __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT && PY_MAJOR_VERSION >= 3 +#define __Pyx_PyUnicode_FromStringAndSize(c_str, size) PyUnicode_DecodeUTF8(c_str, size, NULL) +#else +#define __Pyx_PyUnicode_FromStringAndSize(c_str, size) PyUnicode_Decode(c_str, size, __PYX_DEFAULT_STRING_ENCODING, NULL) +#if __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT +static char* __PYX_DEFAULT_STRING_ENCODING; +static int __Pyx_init_sys_getdefaultencoding_params(void) { + PyObject* sys = NULL; + PyObject* default_encoding = NULL; + char* default_encoding_c; + sys = PyImport_ImportModule("sys"); + if (sys == NULL) goto bad; + default_encoding = PyObject_CallMethod(sys, (char*) (const char*) "getdefaultencoding", NULL); + if (default_encoding == NULL) goto bad; + default_encoding_c = PyBytes_AS_STRING(default_encoding); + __PYX_DEFAULT_STRING_ENCODING = (char*) malloc(strlen(default_encoding_c)); + strcpy(__PYX_DEFAULT_STRING_ENCODING, default_encoding_c); + Py_DECREF(sys); + Py_DECREF(default_encoding); + return 0; +bad: + Py_XDECREF(sys); + Py_XDECREF(default_encoding); + return -1; +} +#endif +#endif + -#ifdef __GNUC__ - /* Test for GCC > 2.95 */ - #if __GNUC__ > 2 || (__GNUC__ == 2 && (__GNUC_MINOR__ > 95)) - #define likely(x) __builtin_expect(!!(x), 1) - #define unlikely(x) __builtin_expect(!!(x), 0) - #else /* __GNUC__ > 2 ... */ - #define likely(x) (x) - #define unlikely(x) (x) - #endif /* __GNUC__ > 2 ... */ -#else /* __GNUC__ */ +/* Test for GCC > 2.95 */ +#if defined(__GNUC__) && (__GNUC__ > 2 || (__GNUC__ == 2 && (__GNUC_MINOR__ > 95))) + #define likely(x) __builtin_expect(!!(x), 1) + #define unlikely(x) __builtin_expect(!!(x), 0) +#else /* !__GNUC__ or GCC < 2.95 */ #define likely(x) (x) #define unlikely(x) (x) #endif /* __GNUC__ */ - + static PyObject *__pyx_m; +static PyObject *__pyx_d; static PyObject *__pyx_b; static PyObject *__pyx_empty_tuple; static PyObject *__pyx_empty_bytes; @@ -369,11 +559,12 @@ static const char *__pyx_filename; static const char *__pyx_f[] = { "twosample.pyx", - "numpy.pxd", + "fffpy_import_lapack.pxi", + "__init__.pxd", "type.pxd", }; -/* "numpy.pxd":723 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":723 * # in Cython to enable them only on the right systems. * * ctypedef npy_int8 int8_t # <<<<<<<<<<<<<< @@ -382,7 +573,7 @@ static const char *__pyx_f[] = { */ typedef npy_int8 __pyx_t_5numpy_int8_t; -/* "numpy.pxd":724 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":724 * * ctypedef npy_int8 int8_t * ctypedef npy_int16 int16_t # <<<<<<<<<<<<<< @@ -391,7 +582,7 @@ typedef npy_int8 __pyx_t_5numpy_int8_t; */ typedef npy_int16 __pyx_t_5numpy_int16_t; -/* "numpy.pxd":725 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":725 * ctypedef npy_int8 int8_t * ctypedef npy_int16 int16_t * ctypedef npy_int32 int32_t # <<<<<<<<<<<<<< @@ -400,7 +591,7 @@ typedef npy_int16 __pyx_t_5numpy_int16_t; */ typedef npy_int32 __pyx_t_5numpy_int32_t; -/* "numpy.pxd":726 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":726 * ctypedef npy_int16 int16_t * ctypedef npy_int32 int32_t * ctypedef npy_int64 int64_t # <<<<<<<<<<<<<< @@ -409,7 +600,7 @@ typedef npy_int32 __pyx_t_5numpy_int32_t; */ typedef npy_int64 __pyx_t_5numpy_int64_t; -/* "numpy.pxd":730 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":730 * #ctypedef npy_int128 int128_t * * ctypedef npy_uint8 uint8_t # <<<<<<<<<<<<<< @@ -418,7 +609,7 @@ typedef npy_int64 __pyx_t_5numpy_int64_t; */ typedef npy_uint8 __pyx_t_5numpy_uint8_t; -/* "numpy.pxd":731 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":731 * * ctypedef npy_uint8 uint8_t * ctypedef npy_uint16 uint16_t # <<<<<<<<<<<<<< @@ -427,7 +618,7 @@ typedef npy_uint8 __pyx_t_5numpy_uint8_t; */ typedef npy_uint16 __pyx_t_5numpy_uint16_t; -/* "numpy.pxd":732 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":732 * ctypedef npy_uint8 uint8_t * ctypedef npy_uint16 uint16_t * ctypedef npy_uint32 uint32_t # <<<<<<<<<<<<<< @@ -436,7 +627,7 @@ typedef npy_uint16 __pyx_t_5numpy_uint16_t; */ typedef npy_uint32 __pyx_t_5numpy_uint32_t; -/* "numpy.pxd":733 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":733 * ctypedef npy_uint16 uint16_t * ctypedef npy_uint32 uint32_t * ctypedef npy_uint64 uint64_t # <<<<<<<<<<<<<< @@ -445,7 +636,7 @@ typedef npy_uint32 __pyx_t_5numpy_uint32_t; */ typedef npy_uint64 __pyx_t_5numpy_uint64_t; -/* "numpy.pxd":737 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":737 * #ctypedef npy_uint128 uint128_t * * ctypedef npy_float32 float32_t # <<<<<<<<<<<<<< @@ -454,7 +645,7 @@ typedef npy_uint64 __pyx_t_5numpy_uint64_t; */ typedef npy_float32 __pyx_t_5numpy_float32_t; -/* "numpy.pxd":738 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":738 * * ctypedef npy_float32 float32_t * ctypedef npy_float64 float64_t # <<<<<<<<<<<<<< @@ -463,7 +654,7 @@ typedef npy_float32 __pyx_t_5numpy_float32_t; */ typedef npy_float64 __pyx_t_5numpy_float64_t; -/* "numpy.pxd":747 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":747 * # The int types are mapped a bit surprising -- * # numpy.int corresponds to 'l' and numpy.long to 'q' * ctypedef npy_long int_t # <<<<<<<<<<<<<< @@ -472,7 +663,7 @@ typedef npy_float64 __pyx_t_5numpy_float64_t; */ typedef npy_long __pyx_t_5numpy_int_t; -/* "numpy.pxd":748 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":748 * # numpy.int corresponds to 'l' and numpy.long to 'q' * ctypedef npy_long int_t * ctypedef npy_longlong long_t # <<<<<<<<<<<<<< @@ -481,7 +672,7 @@ typedef npy_long __pyx_t_5numpy_int_t; */ typedef npy_longlong __pyx_t_5numpy_long_t; -/* "numpy.pxd":749 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":749 * ctypedef npy_long int_t * ctypedef npy_longlong long_t * ctypedef npy_longlong longlong_t # <<<<<<<<<<<<<< @@ -490,7 +681,7 @@ typedef npy_longlong __pyx_t_5numpy_long_t; */ typedef npy_longlong __pyx_t_5numpy_longlong_t; -/* "numpy.pxd":751 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":751 * ctypedef npy_longlong longlong_t * * ctypedef npy_ulong uint_t # <<<<<<<<<<<<<< @@ -499,7 +690,7 @@ typedef npy_longlong __pyx_t_5numpy_longlong_t; */ typedef npy_ulong __pyx_t_5numpy_uint_t; -/* "numpy.pxd":752 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":752 * * ctypedef npy_ulong uint_t * ctypedef npy_ulonglong ulong_t # <<<<<<<<<<<<<< @@ -508,7 +699,7 @@ typedef npy_ulong __pyx_t_5numpy_uint_t; */ typedef npy_ulonglong __pyx_t_5numpy_ulong_t; -/* "numpy.pxd":753 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":753 * ctypedef npy_ulong uint_t * ctypedef npy_ulonglong ulong_t * ctypedef npy_ulonglong ulonglong_t # <<<<<<<<<<<<<< @@ -517,7 +708,7 @@ typedef npy_ulonglong __pyx_t_5numpy_ulong_t; */ typedef npy_ulonglong __pyx_t_5numpy_ulonglong_t; -/* "numpy.pxd":755 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":755 * ctypedef npy_ulonglong ulonglong_t * * ctypedef npy_intp intp_t # <<<<<<<<<<<<<< @@ -526,7 +717,7 @@ typedef npy_ulonglong __pyx_t_5numpy_ulonglong_t; */ typedef npy_intp __pyx_t_5numpy_intp_t; -/* "numpy.pxd":756 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":756 * * ctypedef npy_intp intp_t * ctypedef npy_uintp uintp_t # <<<<<<<<<<<<<< @@ -535,7 +726,7 @@ typedef npy_intp __pyx_t_5numpy_intp_t; */ typedef npy_uintp __pyx_t_5numpy_uintp_t; -/* "numpy.pxd":758 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":758 * ctypedef npy_uintp uintp_t * * ctypedef npy_double float_t # <<<<<<<<<<<<<< @@ -544,7 +735,7 @@ typedef npy_uintp __pyx_t_5numpy_uintp_t; */ typedef npy_double __pyx_t_5numpy_float_t; -/* "numpy.pxd":759 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":759 * * ctypedef npy_double float_t * ctypedef npy_double double_t # <<<<<<<<<<<<<< @@ -553,7 +744,7 @@ typedef npy_double __pyx_t_5numpy_float_t; */ typedef npy_double __pyx_t_5numpy_double_t; -/* "numpy.pxd":760 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":760 * ctypedef npy_double float_t * ctypedef npy_double double_t * ctypedef npy_longdouble longdouble_t # <<<<<<<<<<<<<< @@ -562,12 +753,12 @@ typedef npy_double __pyx_t_5numpy_double_t; */ typedef npy_longdouble __pyx_t_5numpy_longdouble_t; -/* "fff.pxd":9 +/* "fff.pxd":10 * * # Redefine size_t * ctypedef unsigned long int size_t # <<<<<<<<<<<<<< * - * + * # Exports from fff_base.h */ typedef unsigned long __pyx_t_3fff_size_t; #if CYTHON_CCOMPLEX @@ -593,7 +784,7 @@ typedef unsigned long __pyx_t_3fff_size_t; /*--- Type declarations ---*/ -/* "numpy.pxd":762 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":762 * ctypedef npy_longdouble longdouble_t * * ctypedef npy_cfloat cfloat_t # <<<<<<<<<<<<<< @@ -602,7 +793,7 @@ typedef unsigned long __pyx_t_3fff_size_t; */ typedef npy_cfloat __pyx_t_5numpy_cfloat_t; -/* "numpy.pxd":763 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":763 * * ctypedef npy_cfloat cfloat_t * ctypedef npy_cdouble cdouble_t # <<<<<<<<<<<<<< @@ -611,7 +802,7 @@ typedef npy_cfloat __pyx_t_5numpy_cfloat_t; */ typedef npy_cdouble __pyx_t_5numpy_cdouble_t; -/* "numpy.pxd":764 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":764 * ctypedef npy_cfloat cfloat_t * ctypedef npy_cdouble cdouble_t * ctypedef npy_clongdouble clongdouble_t # <<<<<<<<<<<<<< @@ -620,7 +811,7 @@ typedef npy_cdouble __pyx_t_5numpy_cdouble_t; */ typedef npy_clongdouble __pyx_t_5numpy_clongdouble_t; -/* "numpy.pxd":766 +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":766 * ctypedef npy_clongdouble clongdouble_t * * ctypedef npy_cdouble complex_t # <<<<<<<<<<<<<< @@ -679,10 +870,35 @@ typedef npy_cdouble __pyx_t_5numpy_complex_t; #define __Pyx_XGOTREF(r) #define __Pyx_XGIVEREF(r) #endif /* CYTHON_REFNANNY */ +#define __Pyx_XDECREF_SET(r, v) do { \ + PyObject *tmp = (PyObject *) r; \ + r = v; __Pyx_XDECREF(tmp); \ + } while (0) +#define __Pyx_DECREF_SET(r, v) do { \ + PyObject *tmp = (PyObject *) r; \ + r = v; __Pyx_DECREF(tmp); \ + } while (0) #define __Pyx_CLEAR(r) do { PyObject* tmp = ((PyObject*)(r)); r = NULL; __Pyx_DECREF(tmp);} while(0) #define __Pyx_XCLEAR(r) do { if((r) != NULL) {PyObject* tmp = ((PyObject*)(r)); r = NULL; __Pyx_DECREF(tmp);}} while(0) -static PyObject *__Pyx_GetName(PyObject *dict, PyObject *name); /*proto*/ +#if CYTHON_COMPILING_IN_CPYTHON +static CYTHON_INLINE PyObject* __Pyx_PyObject_GetAttrStr(PyObject* obj, PyObject* attr_name) { + PyTypeObject* tp = Py_TYPE(obj); + if (likely(tp->tp_getattro)) + return tp->tp_getattro(obj, attr_name); +#if PY_MAJOR_VERSION < 3 + if (likely(tp->tp_getattr)) + return tp->tp_getattr(obj, PyString_AS_STRING(attr_name)); +#endif + return PyObject_GetAttr(obj, attr_name); +} +#else +#define __Pyx_PyObject_GetAttrStr(o,n) PyObject_GetAttr(o,n) +#endif + +static PyObject *__Pyx_GetBuiltinName(PyObject *name); /*proto*/ + +static CYTHON_INLINE PyObject *__Pyx_GetModuleGlobalName(PyObject *name); /*proto*/ static void __Pyx_RaiseArgtupleInvalid(const char* func_name, int exact, Py_ssize_t num_min, Py_ssize_t num_max, Py_ssize_t num_found); /*proto*/ @@ -693,11 +909,17 @@ static int __Pyx_ParseOptionalKeywords(PyObject *kwds, PyObject **argnames[], \ PyObject *kwds2, PyObject *values[], Py_ssize_t num_pos_args, \ const char* function_name); /*proto*/ -static int __Pyx_ArgTypeTest(PyObject *obj, PyTypeObject *type, int none_allowed, +#if CYTHON_COMPILING_IN_CPYTHON +static CYTHON_INLINE PyObject* __Pyx_PyObject_Call(PyObject *func, PyObject *arg, PyObject *kw); /*proto*/ +#else +#define __Pyx_PyObject_Call(func, arg, kw) PyObject_Call(func, arg, kw) +#endif + +static CYTHON_INLINE int __Pyx_ArgTypeTest(PyObject *obj, PyTypeObject *type, int none_allowed, const char *name, int exact); /*proto*/ #if CYTHON_COMPILING_IN_CPYTHON -static CYTHON_INLINE int __Pyx_PyList_Append(PyObject* list, PyObject* x) { +static CYTHON_INLINE int __Pyx_ListComp_Append(PyObject* list, PyObject* x) { PyListObject* L = (PyListObject*) list; Py_ssize_t len = Py_SIZE(list); if (likely(L->allocated > len)) { @@ -709,52 +931,17 @@ static CYTHON_INLINE int __Pyx_PyList_Append(PyObject* list, PyObject* x) { return PyList_Append(list, x); } #else -#define __Pyx_PyList_Append(L,x) PyList_Append(L,x) +#define __Pyx_ListComp_Append(L,x) PyList_Append(L,x) #endif -#define __Pyx_SetItemInt(o, i, v, size, to_py_func) (((size) <= sizeof(Py_ssize_t)) ? \ - __Pyx_SetItemInt_Fast(o, i, v) : \ - __Pyx_SetItemInt_Generic(o, to_py_func(i), v)) -static CYTHON_INLINE int __Pyx_SetItemInt_Generic(PyObject *o, PyObject *j, PyObject *v) { - int r; - if (!j) return -1; - r = PyObject_SetItem(o, j, v); - Py_DECREF(j); - return r; -} -static CYTHON_INLINE int __Pyx_SetItemInt_Fast(PyObject *o, Py_ssize_t i, PyObject *v) { -#if CYTHON_COMPILING_IN_CPYTHON - if (PyList_CheckExact(o)) { - Py_ssize_t n = (likely(i >= 0)) ? i : i + PyList_GET_SIZE(o); - if (likely((n >= 0) & (n < PyList_GET_SIZE(o)))) { - PyObject* old = PyList_GET_ITEM(o, n); - Py_INCREF(v); - PyList_SET_ITEM(o, n, v); - Py_DECREF(old); - return 1; - } - } else { /* inlined PySequence_SetItem() */ - PySequenceMethods *m = Py_TYPE(o)->tp_as_sequence; - if (likely(m && m->sq_ass_item)) { - if (unlikely(i < 0) && likely(m->sq_length)) { - Py_ssize_t l = m->sq_length(o); - if (unlikely(l < 0)) return -1; - i += l; - } - return m->sq_ass_item(o, i, v); - } - } -#else -#if CYTHON_COMPILING_IN_PYPY - if (PySequence_Check(o) && !PyDict_Check(o)) { -#else - if (PySequence_Check(o)) { -#endif - return PySequence_SetItem(o, i, v); - } -#endif - return __Pyx_SetItemInt_Generic(o, PyInt_FromSsize_t(i), v); -} +#define __Pyx_SetItemInt(o, i, v, type, is_signed, to_py_func, is_list, wraparound, boundscheck) \ + (__Pyx_fits_Py_ssize_t(i, type, is_signed) ? \ + __Pyx_SetItemInt_Fast(o, (Py_ssize_t)i, v, is_list, wraparound, boundscheck) : \ + (is_list ? (PyErr_SetString(PyExc_IndexError, "list assignment index out of range"), -1) : \ + __Pyx_SetItemInt_Generic(o, to_py_func(i), v))) +static CYTHON_INLINE int __Pyx_SetItemInt_Generic(PyObject *o, PyObject *j, PyObject *v); +static CYTHON_INLINE int __Pyx_SetItemInt_Fast(PyObject *o, Py_ssize_t i, PyObject *v, + int is_list, int wraparound, int boundscheck); static CYTHON_INLINE void __Pyx_ErrRestore(PyObject *type, PyObject *value, PyObject *tb); /*proto*/ static CYTHON_INLINE void __Pyx_ErrFetch(PyObject **type, PyObject **value, PyObject **tb); /*proto*/ @@ -767,15 +954,21 @@ static CYTHON_INLINE void __Pyx_RaiseNeedMoreValuesError(Py_ssize_t index); static CYTHON_INLINE void __Pyx_RaiseNoneNotIterableError(void); -static CYTHON_INLINE int __Pyx_IterFinish(void); /*proto*/ +static CYTHON_INLINE int __Pyx_TypeTest(PyObject *obj, PyTypeObject *type); /*proto*/ -static int __Pyx_IternextUnpackEndCheck(PyObject *retval, Py_ssize_t expected); /*proto*/ +static PyObject* __Pyx_ImportFrom(PyObject* module, PyObject* name); /*proto*/ -static CYTHON_INLINE int __Pyx_TypeTest(PyObject *obj, PyTypeObject *type); /*proto*/ +static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, int level); /*proto*/ + +static CYTHON_INLINE unsigned int __Pyx_PyInt_As_unsigned_int(PyObject *); + +static CYTHON_INLINE int __Pyx_PyInt_As_int(PyObject *); -static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, long level); /*proto*/ +static CYTHON_INLINE PyObject* __Pyx_PyInt_From_int(int value); -static CYTHON_INLINE PyObject *__Pyx_PyInt_to_py_Py_intptr_t(Py_intptr_t); +static CYTHON_INLINE PyObject* __Pyx_PyInt_From_Py_intptr_t(Py_intptr_t value); + +static CYTHON_INLINE PyObject* __Pyx_PyInt_From_unsigned_long(unsigned long value); #if CYTHON_CCOMPLEX #ifdef __cplusplus @@ -789,7 +982,7 @@ static CYTHON_INLINE PyObject *__Pyx_PyInt_to_py_Py_intptr_t(Py_intptr_t); #define __Pyx_CREAL(z) ((z).real) #define __Pyx_CIMAG(z) ((z).imag) #endif -#if defined(_WIN32) && defined(__cplusplus) && CYTHON_CCOMPLEX +#if (defined(_WIN32) || defined(__clang__)) && defined(__cplusplus) && CYTHON_CCOMPLEX #define __Pyx_SET_CREAL(z,x) ((z).real(x)) #define __Pyx_SET_CIMAG(z,y) ((z).imag(y)) #else @@ -875,37 +1068,9 @@ static CYTHON_INLINE __pyx_t_double_complex __pyx_t_double_complex_from_parts(do #endif #endif -static CYTHON_INLINE unsigned char __Pyx_PyInt_AsUnsignedChar(PyObject *); - -static CYTHON_INLINE unsigned short __Pyx_PyInt_AsUnsignedShort(PyObject *); - -static CYTHON_INLINE unsigned int __Pyx_PyInt_AsUnsignedInt(PyObject *); - -static CYTHON_INLINE char __Pyx_PyInt_AsChar(PyObject *); - -static CYTHON_INLINE short __Pyx_PyInt_AsShort(PyObject *); - -static CYTHON_INLINE int __Pyx_PyInt_AsInt(PyObject *); - -static CYTHON_INLINE signed char __Pyx_PyInt_AsSignedChar(PyObject *); - -static CYTHON_INLINE signed short __Pyx_PyInt_AsSignedShort(PyObject *); +static CYTHON_INLINE PyObject* __Pyx_PyInt_From_long(long value); -static CYTHON_INLINE signed int __Pyx_PyInt_AsSignedInt(PyObject *); - -static CYTHON_INLINE int __Pyx_PyInt_AsLongDouble(PyObject *); - -static CYTHON_INLINE unsigned long __Pyx_PyInt_AsUnsignedLong(PyObject *); - -static CYTHON_INLINE unsigned PY_LONG_LONG __Pyx_PyInt_AsUnsignedLongLong(PyObject *); - -static CYTHON_INLINE long __Pyx_PyInt_AsLong(PyObject *); - -static CYTHON_INLINE PY_LONG_LONG __Pyx_PyInt_AsLongLong(PyObject *); - -static CYTHON_INLINE signed long __Pyx_PyInt_AsSignedLong(PyObject *); - -static CYTHON_INLINE signed PY_LONG_LONG __Pyx_PyInt_AsSignedLongLong(PyObject *); +static CYTHON_INLINE long __Pyx_PyInt_As_long(PyObject *); static int __Pyx_check_binary_version(void); @@ -945,6 +1110,8 @@ static int __Pyx_InitStrings(__Pyx_StringTabEntry *t); /*proto*/ /* Module declarations from 'cpython.ref' */ +/* Module declarations from 'libc.string' */ + /* Module declarations from 'libc.stdio' */ /* Module declarations from 'cpython.object' */ @@ -969,6 +1136,7 @@ static CYTHON_INLINE char *__pyx_f_5numpy__util_dtypestring(PyArray_Descr *, cha /* Module declarations from 'fff' */ /* Module declarations from 'nipy.labs.group.twosample' */ +static PyObject *__pyx_f_4nipy_4labs_5group_9twosample_fffpy_import_lapack(void); /*proto*/ #define __Pyx_MODULE_NAME "nipy.labs.group.twosample" int __pyx_module_is_main_nipy__labs__group__twosample = 0; @@ -981,270 +1149,773 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_2stat(CYTHON_UNUSED PyOb static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_4stat_mfx(CYTHON_UNUSED PyObject *__pyx_self, PyArrayObject *__pyx_v_Y1, PyArrayObject *__pyx_v_V1, PyArrayObject *__pyx_v_Y2, PyArrayObject *__pyx_v_V2, PyObject *__pyx_v_id, int __pyx_v_axis, PyArrayObject *__pyx_v_Magics, unsigned int __pyx_v_niter); /* proto */ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, Py_buffer *__pyx_v_info, int __pyx_v_flags); /* proto */ static void __pyx_pf_5numpy_7ndarray_2__releasebuffer__(PyArrayObject *__pyx_v_self, Py_buffer *__pyx_v_info); /* proto */ -static char __pyx_k_1[] = "ndarray is not C contiguous"; -static char __pyx_k_3[] = "ndarray is not Fortran contiguous"; -static char __pyx_k_5[] = "Non-native byte order not supported"; -static char __pyx_k_7[] = "unknown dtype code in numpy.pxd (%d)"; -static char __pyx_k_8[] = "Format string allocated too short, see comment in numpy.pxd"; -static char __pyx_k_11[] = "Format string allocated too short."; -static char __pyx_k_13[] = "\nRoutines for massively univariate random-effect and mixed-effect\nanalysis. Two-sample case.\n\nAuthor: Alexis Roche, 2008.\n"; -static char __pyx_k_14[] = "0.1"; -static char __pyx_k_17[] = "/Users/mb312/dev_trees/nipy/nipy/labs/group/twosample.pyx"; -static char __pyx_k_18[] = "nipy.labs.group.twosample"; -static char __pyx_k__B[] = "B"; -static char __pyx_k__H[] = "H"; -static char __pyx_k__I[] = "I"; -static char __pyx_k__L[] = "L"; -static char __pyx_k__O[] = "O"; -static char __pyx_k__Q[] = "Q"; -static char __pyx_k__T[] = "T"; -static char __pyx_k__b[] = "b"; -static char __pyx_k__d[] = "d"; -static char __pyx_k__f[] = "f"; -static char __pyx_k__g[] = "g"; -static char __pyx_k__h[] = "h"; -static char __pyx_k__i[] = "i"; -static char __pyx_k__l[] = "l"; -static char __pyx_k__n[] = "n"; -static char __pyx_k__q[] = "q"; -static char __pyx_k__t[] = "t"; -static char __pyx_k__V1[] = "V1"; -static char __pyx_k__V2[] = "V2"; -static char __pyx_k__Y1[] = "Y1"; -static char __pyx_k__Y2[] = "Y2"; -static char __pyx_k__Zd[] = "Zd"; -static char __pyx_k__Zf[] = "Zf"; 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if (value) { values[2] = value; kw_args--; } } case 3: if (kw_args > 0) { - PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s__axis); + PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s_axis); if (value) { values[3] = value; kw_args--; } } case 4: if (kw_args > 0) { - PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s__Magics); + PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s_Magics); if (value) { values[4] = value; kw_args--; } } } if (unlikely(kw_args > 0)) { - if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "stat") < 0)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 66; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "stat") < 0)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 67; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } else { switch (PyTuple_GET_SIZE(__pyx_args)) { @@ -1326,7 +1992,7 @@ static PyObject *__pyx_pw_4nipy_4labs_5group_9twosample_3stat(PyObject *__pyx_se __pyx_v_Y2 = ((PyArrayObject *)values[1]); 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- /* "nipy/labs/group/twosample.pyx":102 + /* "nipy/labs/group/twosample.pyx":103 * # Create local structure * yp = fff_vector_new(n) * idx1 = fff_array_new1d(FFF_UINT, n1) # <<<<<<<<<<<<<< @@ -1564,7 +2229,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_2stat(CYTHON_UNUSED PyOb */ __pyx_v_idx1 = fff_array_new1d(FFF_UINT, __pyx_v_n1); - /* "nipy/labs/group/twosample.pyx":103 + /* "nipy/labs/group/twosample.pyx":104 * yp = fff_vector_new(n) * idx1 = fff_array_new1d(FFF_UINT, n1) * idx2 = fff_array_new1d(FFF_UINT, n2) # <<<<<<<<<<<<<< @@ -1573,7 +2238,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_2stat(CYTHON_UNUSED PyOb */ __pyx_v_idx2 = fff_array_new1d(FFF_UINT, __pyx_v_n2); - /* "nipy/labs/group/twosample.pyx":104 + /* "nipy/labs/group/twosample.pyx":105 * idx1 = fff_array_new1d(FFF_UINT, n1) * idx2 = fff_array_new1d(FFF_UINT, n2) * stat = fff_twosample_stat_new(n1, n2, flag_stat) # <<<<<<<<<<<<<< @@ -1582,7 +2247,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_2stat(CYTHON_UNUSED PyOb */ __pyx_v_stat = fff_twosample_stat_new(__pyx_v_n1, __pyx_v_n2, __pyx_v_flag_stat); - /* "nipy/labs/group/twosample.pyx":107 + /* "nipy/labs/group/twosample.pyx":108 * * # Multi-iterator * multi = fffpy_multi_iterator_new(3, axis, Y1, Y2, T) # <<<<<<<<<<<<<< @@ -1591,7 +2256,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_2stat(CYTHON_UNUSED PyOb */ __pyx_v_multi = fffpy_multi_iterator_new(3, __pyx_v_axis, ((void *)__pyx_v_Y1), ((void *)__pyx_v_Y2), ((void *)__pyx_v_T)); - /* "nipy/labs/group/twosample.pyx":110 + /* "nipy/labs/group/twosample.pyx":111 * * # Vector views * y1 = multi.vector[0] # <<<<<<<<<<<<<< @@ -1600,7 +2265,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_2stat(CYTHON_UNUSED PyOb */ __pyx_v_y1 = (__pyx_v_multi->vector[0]); - /* "nipy/labs/group/twosample.pyx":111 + /* "nipy/labs/group/twosample.pyx":112 * # Vector views * y1 = multi.vector[0] * y2 = multi.vector[1] # <<<<<<<<<<<<<< @@ -1609,7 +2274,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_2stat(CYTHON_UNUSED PyOb */ __pyx_v_y2 = (__pyx_v_multi->vector[1]); - /* "nipy/labs/group/twosample.pyx":112 + /* "nipy/labs/group/twosample.pyx":113 * y1 = multi.vector[0] * y2 = multi.vector[1] * t = multi.vector[2] # <<<<<<<<<<<<<< @@ -1618,7 +2283,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_2stat(CYTHON_UNUSED PyOb */ __pyx_v_t = (__pyx_v_multi->vector[2]); - /* "nipy/labs/group/twosample.pyx":115 + /* "nipy/labs/group/twosample.pyx":116 * * # Loop * for simu from 0 <= simu < nsimu: # <<<<<<<<<<<<<< @@ -1628,7 +2293,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_2stat(CYTHON_UNUSED PyOb __pyx_t_9 = __pyx_v_nsimu; for (__pyx_v_simu = 0; __pyx_v_simu < __pyx_t_9; __pyx_v_simu++) { - /* "nipy/labs/group/twosample.pyx":118 + /* "nipy/labs/group/twosample.pyx":119 * * # Set the magic number * magic = magics.data[simu*magics.stride] # <<<<<<<<<<<<<< @@ -1637,16 +2302,16 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_2stat(CYTHON_UNUSED PyOb */ __pyx_v_magic = (__pyx_v_magics->data[(__pyx_v_simu * __pyx_v_magics->stride)]); - /* "nipy/labs/group/twosample.pyx":123 - * nex = fff_twosample_permutation(idx1.data, - * idx2.data, - * n1, n2, &magic) # <<<<<<<<<<<<<< + /* "nipy/labs/group/twosample.pyx":122 * - * # Reset the multi-iterator + * # Generate permutation + * nex = fff_twosample_permutation(idx1.data, # <<<<<<<<<<<<<< + * idx2.data, + * n1, n2, &magic) */ __pyx_v_nex = fff_twosample_permutation(((unsigned int *)__pyx_v_idx1->data), ((unsigned int *)__pyx_v_idx2->data), __pyx_v_n1, __pyx_v_n2, (&__pyx_v_magic)); - /* "nipy/labs/group/twosample.pyx":126 + /* "nipy/labs/group/twosample.pyx":127 * * # Reset the multi-iterator * fffpy_multi_iterator_reset(multi) # <<<<<<<<<<<<<< @@ -1655,7 +2320,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_2stat(CYTHON_UNUSED PyOb */ fffpy_multi_iterator_reset(__pyx_v_multi); - /* "nipy/labs/group/twosample.pyx":129 + /* "nipy/labs/group/twosample.pyx":130 * * # Perform the loop * idx = simu*t.stride # <<<<<<<<<<<<<< @@ -1664,7 +2329,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_2stat(CYTHON_UNUSED PyOb */ __pyx_v_idx = (__pyx_v_simu * __pyx_v_t->stride); - /* "nipy/labs/group/twosample.pyx":130 + /* "nipy/labs/group/twosample.pyx":131 * # Perform the loop * idx = simu*t.stride * while(multi.index < multi.size): # <<<<<<<<<<<<<< @@ -1672,19 +2337,19 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_2stat(CYTHON_UNUSED PyOb * idx1.data, */ while (1) { - __pyx_t_4 = (__pyx_v_multi->index < __pyx_v_multi->size); + __pyx_t_4 = ((__pyx_v_multi->index < __pyx_v_multi->size) != 0); if (!__pyx_t_4) break; - /* "nipy/labs/group/twosample.pyx":133 - * fff_twosample_apply_permutation(yp, NULL, y1, NULL, y2, NULL, nex, + /* "nipy/labs/group/twosample.pyx":132 + * idx = simu*t.stride + * while(multi.index < multi.size): + * fff_twosample_apply_permutation(yp, NULL, y1, NULL, y2, NULL, nex, # <<<<<<<<<<<<<< * idx1.data, - * idx2.data) # <<<<<<<<<<<<<< - * t.data[idx] = fff_twosample_stat_eval(stat, yp) - * fffpy_multi_iterator_update(multi) + * idx2.data) */ fff_twosample_apply_permutation(__pyx_v_yp, NULL, __pyx_v_y1, NULL, __pyx_v_y2, NULL, __pyx_v_nex, ((unsigned int *)__pyx_v_idx1->data), ((unsigned int *)__pyx_v_idx2->data)); - /* "nipy/labs/group/twosample.pyx":134 + /* "nipy/labs/group/twosample.pyx":135 * idx1.data, * idx2.data) * t.data[idx] = fff_twosample_stat_eval(stat, yp) # <<<<<<<<<<<<<< @@ -1693,7 +2358,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_2stat(CYTHON_UNUSED PyOb */ (__pyx_v_t->data[__pyx_v_idx]) = fff_twosample_stat_eval(__pyx_v_stat, __pyx_v_yp); - /* "nipy/labs/group/twosample.pyx":135 + /* "nipy/labs/group/twosample.pyx":136 * idx2.data) * t.data[idx] = fff_twosample_stat_eval(stat, yp) * fffpy_multi_iterator_update(multi) # <<<<<<<<<<<<<< @@ -1704,7 +2369,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_2stat(CYTHON_UNUSED PyOb } } - /* "nipy/labs/group/twosample.pyx":138 + /* "nipy/labs/group/twosample.pyx":139 * * # Delete local structures * fffpy_multi_iterator_delete(multi) # <<<<<<<<<<<<<< @@ -1713,7 +2378,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_2stat(CYTHON_UNUSED PyOb */ fffpy_multi_iterator_delete(__pyx_v_multi); - /* "nipy/labs/group/twosample.pyx":139 + /* "nipy/labs/group/twosample.pyx":140 * # Delete local structures * fffpy_multi_iterator_delete(multi) * fff_vector_delete(magics) # <<<<<<<<<<<<<< @@ -1722,7 +2387,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_2stat(CYTHON_UNUSED PyOb */ fff_vector_delete(__pyx_v_magics); - /* "nipy/labs/group/twosample.pyx":140 + /* "nipy/labs/group/twosample.pyx":141 * fffpy_multi_iterator_delete(multi) * fff_vector_delete(magics) * fff_vector_delete(yp) # <<<<<<<<<<<<<< @@ -1731,7 +2396,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_2stat(CYTHON_UNUSED PyOb */ fff_vector_delete(__pyx_v_yp); - /* "nipy/labs/group/twosample.pyx":141 + /* "nipy/labs/group/twosample.pyx":142 * fff_vector_delete(magics) * fff_vector_delete(yp) * fff_array_delete(idx1) # <<<<<<<<<<<<<< @@ -1740,7 +2405,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_2stat(CYTHON_UNUSED PyOb */ fff_array_delete(__pyx_v_idx1); - /* "nipy/labs/group/twosample.pyx":142 + /* "nipy/labs/group/twosample.pyx":143 * fff_vector_delete(yp) * fff_array_delete(idx1) * fff_array_delete(idx2) # <<<<<<<<<<<<<< @@ -1749,7 +2414,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_2stat(CYTHON_UNUSED PyOb */ fff_array_delete(__pyx_v_idx2); - /* "nipy/labs/group/twosample.pyx":143 + /* "nipy/labs/group/twosample.pyx":144 * fff_array_delete(idx1) * fff_array_delete(idx2) * fff_twosample_stat_delete(stat) # <<<<<<<<<<<<<< @@ -1758,7 +2423,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_2stat(CYTHON_UNUSED PyOb */ fff_twosample_stat_delete(__pyx_v_stat); - /* "nipy/labs/group/twosample.pyx":146 + /* "nipy/labs/group/twosample.pyx":147 * * # Return * return T # <<<<<<<<<<<<<< @@ -1770,8 +2435,15 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_2stat(CYTHON_UNUSED PyOb __pyx_r = __pyx_v_T; goto __pyx_L0; - __pyx_r = Py_None; __Pyx_INCREF(Py_None); - goto __pyx_L0; + /* "nipy/labs/group/twosample.pyx":67 + * + * + * def stat(ndarray Y1, ndarray Y2, id='student', int axis=0, ndarray Magics=None): # <<<<<<<<<<<<<< + * """ + * T = stat(Y1, Y2, id='student', axis=0, magics=None). + */ + + /* function exit code */ __pyx_L1_error:; __Pyx_XDECREF(__pyx_t_1); __Pyx_XDECREF(__pyx_t_2); @@ -1786,6 +2458,14 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_2stat(CYTHON_UNUSED PyOb return __pyx_r; } +/* "nipy/labs/group/twosample.pyx":150 + * + * + * def stat_mfx(ndarray Y1, ndarray V1, ndarray Y2, ndarray V2, # <<<<<<<<<<<<<< + * id='student_mfx', int axis=0, ndarray Magics=None, + * unsigned int niter=5): + */ + /* Python wrapper */ static PyObject *__pyx_pw_4nipy_4labs_5group_9twosample_5stat_mfx(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/ static char __pyx_doc_4nipy_4labs_5group_9twosample_4stat_mfx[] = "\n T = stat(Y1, V1, Y2, V2, id='student', axis=0, magics=None, niter=5).\n \n Compute a two-sample test statistic (Y1>Y2) over a number of\n deterministic or random permutations.\n "; @@ -1799,15 +2479,18 @@ static PyObject *__pyx_pw_4nipy_4labs_5group_9twosample_5stat_mfx(PyObject *__py int __pyx_v_axis; PyArrayObject *__pyx_v_Magics = 0; unsigned int __pyx_v_niter; + int __pyx_lineno = 0; + const char *__pyx_filename = NULL; + int __pyx_clineno = 0; PyObject *__pyx_r = 0; __Pyx_RefNannyDeclarations __Pyx_RefNannySetupContext("stat_mfx (wrapper)", 0); { - static PyObject **__pyx_pyargnames[] = {&__pyx_n_s__Y1,&__pyx_n_s__V1,&__pyx_n_s__Y2,&__pyx_n_s__V2,&__pyx_n_s__id,&__pyx_n_s__axis,&__pyx_n_s__Magics,&__pyx_n_s__niter,0}; + static PyObject **__pyx_pyargnames[] = {&__pyx_n_s_Y1,&__pyx_n_s_V1,&__pyx_n_s_Y2,&__pyx_n_s_V2,&__pyx_n_s_id,&__pyx_n_s_axis,&__pyx_n_s_Magics,&__pyx_n_s_niter,0}; PyObject* values[8] = {0,0,0,0,0,0,0,0}; - values[4] = ((PyObject *)__pyx_n_s__student_mfx); + values[4] = ((PyObject *)__pyx_n_s_student_mfx); - /* "nipy/labs/group/twosample.pyx":150 + /* "nipy/labs/group/twosample.pyx":151 * * def stat_mfx(ndarray Y1, ndarray V1, ndarray Y2, ndarray V2, * id='student_mfx', int axis=0, ndarray Magics=None, # <<<<<<<<<<<<<< @@ -1833,46 +2516,46 @@ static PyObject *__pyx_pw_4nipy_4labs_5group_9twosample_5stat_mfx(PyObject *__py kw_args = PyDict_Size(__pyx_kwds); switch (pos_args) { case 0: - if (likely((values[0] = PyDict_GetItem(__pyx_kwds, __pyx_n_s__Y1)) != 0)) kw_args--; + if (likely((values[0] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_Y1)) != 0)) kw_args--; else goto __pyx_L5_argtuple_error; case 1: - if (likely((values[1] = PyDict_GetItem(__pyx_kwds, __pyx_n_s__V1)) != 0)) kw_args--; + if (likely((values[1] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_V1)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("stat_mfx", 0, 4, 8, 1); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 149; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("stat_mfx", 0, 4, 8, 1); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 150; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } case 2: - if (likely((values[2] = PyDict_GetItem(__pyx_kwds, __pyx_n_s__Y2)) != 0)) kw_args--; + if (likely((values[2] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_Y2)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("stat_mfx", 0, 4, 8, 2); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 149; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("stat_mfx", 0, 4, 8, 2); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 150; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } case 3: - if (likely((values[3] = PyDict_GetItem(__pyx_kwds, __pyx_n_s__V2)) != 0)) kw_args--; + if (likely((values[3] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_V2)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("stat_mfx", 0, 4, 8, 3); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 149; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("stat_mfx", 0, 4, 8, 3); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 150; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } case 4: if (kw_args > 0) { - PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s__id); + PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s_id); if (value) { values[4] = value; kw_args--; } } case 5: if (kw_args > 0) { - PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s__axis); + PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s_axis); if (value) { values[5] = value; kw_args--; } } case 6: if (kw_args > 0) { - PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s__Magics); + PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s_Magics); if (value) { values[6] = value; kw_args--; } } case 7: if (kw_args > 0) { - PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s__niter); + PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s_niter); if (value) { values[7] = value; kw_args--; } } } if (unlikely(kw_args > 0)) { - if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "stat_mfx") < 0)) {__pyx_filename = __pyx_f[0]; 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- /* "nipy/labs/group/twosample.pyx":187 + /* "nipy/labs/group/twosample.pyx":188 * # Create local structure * yp = fff_vector_new(n) * vp = fff_vector_new(n) # <<<<<<<<<<<<<< @@ -2150,7 +2832,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_4stat_mfx(CYTHON_UNUSED */ __pyx_v_vp = fff_vector_new(__pyx_v_n); - /* "nipy/labs/group/twosample.pyx":188 + /* "nipy/labs/group/twosample.pyx":189 * yp = fff_vector_new(n) * vp = fff_vector_new(n) * idx1 = fff_array_new1d(FFF_UINT, n1) # <<<<<<<<<<<<<< @@ -2159,7 +2841,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_4stat_mfx(CYTHON_UNUSED */ __pyx_v_idx1 = fff_array_new1d(FFF_UINT, __pyx_v_n1); - /* "nipy/labs/group/twosample.pyx":189 + /* "nipy/labs/group/twosample.pyx":190 * vp = fff_vector_new(n) * idx1 = fff_array_new1d(FFF_UINT, n1) * idx2 = fff_array_new1d(FFF_UINT, n2) # <<<<<<<<<<<<<< @@ -2168,7 +2850,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_4stat_mfx(CYTHON_UNUSED */ __pyx_v_idx2 = fff_array_new1d(FFF_UINT, __pyx_v_n2); - /* "nipy/labs/group/twosample.pyx":190 + /* "nipy/labs/group/twosample.pyx":191 * idx1 = fff_array_new1d(FFF_UINT, n1) * idx2 = fff_array_new1d(FFF_UINT, n2) * stat = fff_twosample_stat_mfx_new(n1, n2, flag_stat) # <<<<<<<<<<<<<< @@ -2177,7 +2859,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_4stat_mfx(CYTHON_UNUSED */ __pyx_v_stat = fff_twosample_stat_mfx_new(__pyx_v_n1, __pyx_v_n2, __pyx_v_flag_stat); - /* "nipy/labs/group/twosample.pyx":191 + /* "nipy/labs/group/twosample.pyx":192 * idx2 = fff_array_new1d(FFF_UINT, n2) * stat = fff_twosample_stat_mfx_new(n1, n2, flag_stat) * stat.niter = niter # <<<<<<<<<<<<<< @@ -2186,16 +2868,16 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_4stat_mfx(CYTHON_UNUSED */ __pyx_v_stat->niter = __pyx_v_niter; - /* "nipy/labs/group/twosample.pyx":197 + /* "nipy/labs/group/twosample.pyx":195 + * + * # Multi-iterator + * multi = fffpy_multi_iterator_new(5, axis, # <<<<<<<<<<<<<< * Y1, V1, * Y2, V2, - * T) # <<<<<<<<<<<<<< - * - * # Vector views */ __pyx_v_multi = fffpy_multi_iterator_new(5, __pyx_v_axis, ((void *)__pyx_v_Y1), ((void *)__pyx_v_V1), ((void *)__pyx_v_Y2), ((void *)__pyx_v_V2), ((void *)__pyx_v_T)); - /* "nipy/labs/group/twosample.pyx":200 + /* "nipy/labs/group/twosample.pyx":201 * * # Vector views * y1 = multi.vector[0] # <<<<<<<<<<<<<< @@ -2204,7 +2886,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_4stat_mfx(CYTHON_UNUSED */ __pyx_v_y1 = (__pyx_v_multi->vector[0]); - /* "nipy/labs/group/twosample.pyx":201 + /* "nipy/labs/group/twosample.pyx":202 * # Vector views * y1 = multi.vector[0] * v1 = multi.vector[1] # <<<<<<<<<<<<<< @@ -2213,7 +2895,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_4stat_mfx(CYTHON_UNUSED */ __pyx_v_v1 = (__pyx_v_multi->vector[1]); - /* "nipy/labs/group/twosample.pyx":202 + /* "nipy/labs/group/twosample.pyx":203 * y1 = multi.vector[0] * v1 = multi.vector[1] * y2 = multi.vector[2] # <<<<<<<<<<<<<< @@ -2222,7 +2904,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_4stat_mfx(CYTHON_UNUSED */ __pyx_v_y2 = (__pyx_v_multi->vector[2]); - /* "nipy/labs/group/twosample.pyx":203 + /* "nipy/labs/group/twosample.pyx":204 * v1 = multi.vector[1] * y2 = multi.vector[2] * v2 = multi.vector[3] # <<<<<<<<<<<<<< @@ -2231,7 +2913,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_4stat_mfx(CYTHON_UNUSED */ __pyx_v_v2 = (__pyx_v_multi->vector[3]); - /* "nipy/labs/group/twosample.pyx":204 + /* "nipy/labs/group/twosample.pyx":205 * y2 = multi.vector[2] * v2 = multi.vector[3] * t = multi.vector[4] # <<<<<<<<<<<<<< @@ -2240,7 +2922,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_4stat_mfx(CYTHON_UNUSED */ __pyx_v_t = (__pyx_v_multi->vector[4]); - /* "nipy/labs/group/twosample.pyx":207 + /* "nipy/labs/group/twosample.pyx":208 * * # Loop * for simu from 0 <= simu < nsimu: # <<<<<<<<<<<<<< @@ -2250,7 +2932,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_4stat_mfx(CYTHON_UNUSED __pyx_t_9 = __pyx_v_nsimu; for (__pyx_v_simu = 0; __pyx_v_simu < __pyx_t_9; __pyx_v_simu++) { - /* "nipy/labs/group/twosample.pyx":210 + /* "nipy/labs/group/twosample.pyx":211 * * # Set the magic number * magic = magics.data[simu*magics.stride] # <<<<<<<<<<<<<< @@ -2259,16 +2941,16 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_4stat_mfx(CYTHON_UNUSED */ __pyx_v_magic = (__pyx_v_magics->data[(__pyx_v_simu * __pyx_v_magics->stride)]); - /* "nipy/labs/group/twosample.pyx":215 - * nex = fff_twosample_permutation(idx1.data, - * idx2.data, - * n1, n2, &magic) # <<<<<<<<<<<<<< + /* "nipy/labs/group/twosample.pyx":214 * - * # Reset the multi-iterator + * # Generate permutation + * nex = fff_twosample_permutation(idx1.data, # <<<<<<<<<<<<<< + * idx2.data, + * n1, n2, &magic) */ __pyx_v_nex = fff_twosample_permutation(((unsigned int *)__pyx_v_idx1->data), ((unsigned int *)__pyx_v_idx2->data), __pyx_v_n1, __pyx_v_n2, (&__pyx_v_magic)); - /* "nipy/labs/group/twosample.pyx":218 + /* "nipy/labs/group/twosample.pyx":219 * * # Reset the multi-iterator * fffpy_multi_iterator_reset(multi) # <<<<<<<<<<<<<< @@ -2277,7 +2959,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_4stat_mfx(CYTHON_UNUSED */ fffpy_multi_iterator_reset(__pyx_v_multi); - /* "nipy/labs/group/twosample.pyx":221 + /* "nipy/labs/group/twosample.pyx":222 * * # Perform the loop * idx = simu*t.stride # <<<<<<<<<<<<<< @@ -2286,7 +2968,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_4stat_mfx(CYTHON_UNUSED */ __pyx_v_idx = (__pyx_v_simu * __pyx_v_t->stride); 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- /* "nipy/labs/group/twosample.pyx":226 + /* "nipy/labs/group/twosample.pyx":227 * idx1.data, * idx2.data) * t.data[idx] = fff_twosample_stat_mfx_eval(stat, yp, vp) # <<<<<<<<<<<<<< @@ -2315,7 +2997,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_4stat_mfx(CYTHON_UNUSED */ (__pyx_v_t->data[__pyx_v_idx]) = fff_twosample_stat_mfx_eval(__pyx_v_stat, __pyx_v_yp, __pyx_v_vp); - /* "nipy/labs/group/twosample.pyx":227 + /* "nipy/labs/group/twosample.pyx":228 * idx2.data) * t.data[idx] = fff_twosample_stat_mfx_eval(stat, yp, vp) * fffpy_multi_iterator_update(multi) # <<<<<<<<<<<<<< @@ -2326,7 +3008,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_4stat_mfx(CYTHON_UNUSED } } - /* "nipy/labs/group/twosample.pyx":230 + /* "nipy/labs/group/twosample.pyx":231 * * # Delete local structures * fffpy_multi_iterator_delete(multi) # <<<<<<<<<<<<<< @@ -2335,7 +3017,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_4stat_mfx(CYTHON_UNUSED */ fffpy_multi_iterator_delete(__pyx_v_multi); - /* "nipy/labs/group/twosample.pyx":231 + /* "nipy/labs/group/twosample.pyx":232 * # Delete local structures * fffpy_multi_iterator_delete(multi) * fff_vector_delete(magics) # <<<<<<<<<<<<<< @@ -2344,7 +3026,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_4stat_mfx(CYTHON_UNUSED */ fff_vector_delete(__pyx_v_magics); - /* "nipy/labs/group/twosample.pyx":232 + /* "nipy/labs/group/twosample.pyx":233 * fffpy_multi_iterator_delete(multi) * fff_vector_delete(magics) * fff_vector_delete(yp) # <<<<<<<<<<<<<< @@ -2353,7 +3035,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_4stat_mfx(CYTHON_UNUSED */ fff_vector_delete(__pyx_v_yp); - /* "nipy/labs/group/twosample.pyx":233 + /* "nipy/labs/group/twosample.pyx":234 * fff_vector_delete(magics) * fff_vector_delete(yp) * fff_vector_delete(vp) # <<<<<<<<<<<<<< @@ -2362,7 +3044,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_4stat_mfx(CYTHON_UNUSED */ fff_vector_delete(__pyx_v_vp); - /* "nipy/labs/group/twosample.pyx":234 + /* "nipy/labs/group/twosample.pyx":235 * fff_vector_delete(yp) * fff_vector_delete(vp) * fff_array_delete(idx1) # <<<<<<<<<<<<<< @@ -2371,7 +3053,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_4stat_mfx(CYTHON_UNUSED */ fff_array_delete(__pyx_v_idx1); - /* "nipy/labs/group/twosample.pyx":235 + /* "nipy/labs/group/twosample.pyx":236 * fff_vector_delete(vp) * fff_array_delete(idx1) * fff_array_delete(idx2) # <<<<<<<<<<<<<< @@ -2380,7 +3062,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_4stat_mfx(CYTHON_UNUSED */ fff_array_delete(__pyx_v_idx2); - /* "nipy/labs/group/twosample.pyx":236 + /* "nipy/labs/group/twosample.pyx":237 * fff_array_delete(idx1) * fff_array_delete(idx2) * fff_twosample_stat_mfx_delete(stat) # <<<<<<<<<<<<<< @@ -2389,7 +3071,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_4stat_mfx(CYTHON_UNUSED */ fff_twosample_stat_mfx_delete(__pyx_v_stat); - /* "nipy/labs/group/twosample.pyx":239 + /* "nipy/labs/group/twosample.pyx":240 * * # Return * return T # <<<<<<<<<<<<<< @@ -2399,8 +3081,15 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_4stat_mfx(CYTHON_UNUSED __pyx_r = __pyx_v_T; goto __pyx_L0; - __pyx_r = Py_None; __Pyx_INCREF(Py_None); - goto __pyx_L0; + /* "nipy/labs/group/twosample.pyx":150 + * + * + * def stat_mfx(ndarray Y1, ndarray V1, ndarray Y2, ndarray V2, # <<<<<<<<<<<<<< + * id='student_mfx', int axis=0, ndarray Magics=None, + * unsigned int niter=5): + */ + + /* function exit code */ __pyx_L1_error:; 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__pyx_r = __pyx_pf_5numpy_7ndarray___getbuffer__(((PyArrayObject *)__pyx_v_self), ((Py_buffer *)__pyx_v_info), ((int)__pyx_v_flags)); + + /* function exit code */ __Pyx_RefNannyFinishContext(); return __pyx_r; } -/* "numpy.pxd":194 - * # experimental exception made for __getbuffer__ and __releasebuffer__ - * # -- the details of this may change. - * def __getbuffer__(ndarray self, Py_buffer* info, int flags): # <<<<<<<<<<<<<< - * # This implementation of getbuffer is geared towards Cython - * # requirements, and does not yet fullfill the PEP. - */ - static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, Py_buffer *__pyx_v_info, int __pyx_v_flags) { int __pyx_v_copy_shape; int __pyx_v_i; @@ -2465,22 +3156,20 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P __Pyx_GIVEREF(__pyx_v_info->obj); } - /* "numpy.pxd":200 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":200 * # of flags * * if info == NULL: return # <<<<<<<<<<<<<< * * cdef int copy_shape, i, ndim */ - __pyx_t_1 = (__pyx_v_info == NULL); + __pyx_t_1 = ((__pyx_v_info == NULL) != 0); if (__pyx_t_1) { __pyx_r = 0; goto __pyx_L0; - goto __pyx_L3; } - __pyx_L3:; - /* "numpy.pxd":203 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":203 * * cdef int copy_shape, i, ndim * cdef int endian_detector = 1 # <<<<<<<<<<<<<< @@ -2489,7 +3178,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ __pyx_v_endian_detector = 1; - /* "numpy.pxd":204 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":204 * cdef int copy_shape, i, ndim * cdef int endian_detector = 1 * cdef bint little_endian = ((&endian_detector)[0] != 0) # <<<<<<<<<<<<<< @@ -2498,7 +3187,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ __pyx_v_little_endian = ((((char *)(&__pyx_v_endian_detector))[0]) != 0); - /* "numpy.pxd":206 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":206 * cdef bint little_endian = ((&endian_detector)[0] != 0) * * ndim = PyArray_NDIM(self) # <<<<<<<<<<<<<< @@ -2507,17 +3196,17 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ __pyx_v_ndim = PyArray_NDIM(__pyx_v_self); - /* "numpy.pxd":208 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":208 * ndim = PyArray_NDIM(self) * * if sizeof(npy_intp) != sizeof(Py_ssize_t): # <<<<<<<<<<<<<< * copy_shape = 1 * else: */ - __pyx_t_1 = ((sizeof(npy_intp)) != (sizeof(Py_ssize_t))); + __pyx_t_1 = (((sizeof(npy_intp)) != (sizeof(Py_ssize_t))) != 0); if (__pyx_t_1) { - /* "numpy.pxd":209 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":209 * * if sizeof(npy_intp) != sizeof(Py_ssize_t): * copy_shape = 1 # <<<<<<<<<<<<<< @@ -2529,7 +3218,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P } /*else*/ { - /* "numpy.pxd":211 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":211 * copy_shape = 1 * else: * copy_shape = 0 # <<<<<<<<<<<<<< @@ -2540,87 +3229,83 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P } __pyx_L4:; - /* "numpy.pxd":213 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":213 * copy_shape = 0 * * if ((flags & pybuf.PyBUF_C_CONTIGUOUS == pybuf.PyBUF_C_CONTIGUOUS) # <<<<<<<<<<<<<< * and not PyArray_CHKFLAGS(self, NPY_C_CONTIGUOUS)): * raise ValueError(u"ndarray is not C contiguous") */ - __pyx_t_1 = ((__pyx_v_flags & PyBUF_C_CONTIGUOUS) == PyBUF_C_CONTIGUOUS); + __pyx_t_1 = (((__pyx_v_flags & PyBUF_C_CONTIGUOUS) == PyBUF_C_CONTIGUOUS) != 0); if (__pyx_t_1) { - /* "numpy.pxd":214 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":214 * * if ((flags & pybuf.PyBUF_C_CONTIGUOUS == pybuf.PyBUF_C_CONTIGUOUS) * and not PyArray_CHKFLAGS(self, NPY_C_CONTIGUOUS)): # <<<<<<<<<<<<<< * raise ValueError(u"ndarray is not C contiguous") * */ - __pyx_t_2 = (!PyArray_CHKFLAGS(__pyx_v_self, NPY_C_CONTIGUOUS)); + __pyx_t_2 = ((!(PyArray_CHKFLAGS(__pyx_v_self, NPY_C_CONTIGUOUS) != 0)) != 0); __pyx_t_3 = __pyx_t_2; } else { __pyx_t_3 = __pyx_t_1; } if (__pyx_t_3) { - /* "numpy.pxd":215 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":215 * if ((flags & pybuf.PyBUF_C_CONTIGUOUS == pybuf.PyBUF_C_CONTIGUOUS) * and not PyArray_CHKFLAGS(self, NPY_C_CONTIGUOUS)): * raise ValueError(u"ndarray is not C contiguous") # <<<<<<<<<<<<<< * * if ((flags & pybuf.PyBUF_F_CONTIGUOUS == pybuf.PyBUF_F_CONTIGUOUS) */ - __pyx_t_4 = PyObject_Call(__pyx_builtin_ValueError, ((PyObject *)__pyx_k_tuple_2), NULL); if (unlikely(!__pyx_t_4)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 215; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_4 = __Pyx_PyObject_Call(__pyx_builtin_ValueError, __pyx_tuple_, NULL); if (unlikely(!__pyx_t_4)) {__pyx_filename = __pyx_f[2]; __pyx_lineno = 215; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_4); __Pyx_Raise(__pyx_t_4, 0, 0, 0); __Pyx_DECREF(__pyx_t_4); __pyx_t_4 = 0; - {__pyx_filename = __pyx_f[1]; __pyx_lineno = 215; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - goto __pyx_L5; + {__pyx_filename = __pyx_f[2]; __pyx_lineno = 215; __pyx_clineno = __LINE__; goto __pyx_L1_error;} } - __pyx_L5:; - /* "numpy.pxd":217 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":217 * raise ValueError(u"ndarray is not C contiguous") * * if ((flags & pybuf.PyBUF_F_CONTIGUOUS == pybuf.PyBUF_F_CONTIGUOUS) # <<<<<<<<<<<<<< * and not PyArray_CHKFLAGS(self, NPY_F_CONTIGUOUS)): * raise ValueError(u"ndarray is not Fortran contiguous") */ - __pyx_t_3 = ((__pyx_v_flags & PyBUF_F_CONTIGUOUS) == PyBUF_F_CONTIGUOUS); + __pyx_t_3 = (((__pyx_v_flags & PyBUF_F_CONTIGUOUS) == PyBUF_F_CONTIGUOUS) != 0); if (__pyx_t_3) { - /* "numpy.pxd":218 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":218 * * if ((flags & pybuf.PyBUF_F_CONTIGUOUS == pybuf.PyBUF_F_CONTIGUOUS) * and not PyArray_CHKFLAGS(self, NPY_F_CONTIGUOUS)): # <<<<<<<<<<<<<< * raise ValueError(u"ndarray is not Fortran contiguous") * */ - __pyx_t_1 = (!PyArray_CHKFLAGS(__pyx_v_self, NPY_F_CONTIGUOUS)); + __pyx_t_1 = ((!(PyArray_CHKFLAGS(__pyx_v_self, NPY_F_CONTIGUOUS) != 0)) != 0); __pyx_t_2 = __pyx_t_1; } else { __pyx_t_2 = __pyx_t_3; } if (__pyx_t_2) { - /* "numpy.pxd":219 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":219 * if ((flags & pybuf.PyBUF_F_CONTIGUOUS == pybuf.PyBUF_F_CONTIGUOUS) * and not PyArray_CHKFLAGS(self, NPY_F_CONTIGUOUS)): * raise ValueError(u"ndarray is not Fortran contiguous") # <<<<<<<<<<<<<< * * info.buf = PyArray_DATA(self) */ - __pyx_t_4 = PyObject_Call(__pyx_builtin_ValueError, ((PyObject *)__pyx_k_tuple_4), NULL); if (unlikely(!__pyx_t_4)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 219; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_4 = __Pyx_PyObject_Call(__pyx_builtin_ValueError, __pyx_tuple__2, NULL); if (unlikely(!__pyx_t_4)) {__pyx_filename = __pyx_f[2]; __pyx_lineno = 219; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_4); __Pyx_Raise(__pyx_t_4, 0, 0, 0); __Pyx_DECREF(__pyx_t_4); __pyx_t_4 = 0; - {__pyx_filename = __pyx_f[1]; __pyx_lineno = 219; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - goto __pyx_L6; + {__pyx_filename = __pyx_f[2]; __pyx_lineno = 219; __pyx_clineno = __LINE__; goto __pyx_L1_error;} } - __pyx_L6:; - /* "numpy.pxd":221 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":221 * raise ValueError(u"ndarray is not Fortran contiguous") * * info.buf = PyArray_DATA(self) # <<<<<<<<<<<<<< @@ -2629,7 +3314,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ __pyx_v_info->buf = PyArray_DATA(__pyx_v_self); - /* "numpy.pxd":222 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":222 * * info.buf = PyArray_DATA(self) * info.ndim = ndim # <<<<<<<<<<<<<< @@ -2638,16 +3323,17 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ __pyx_v_info->ndim = __pyx_v_ndim; - /* "numpy.pxd":223 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":223 * info.buf = PyArray_DATA(self) * info.ndim = ndim * if copy_shape: # <<<<<<<<<<<<<< * # Allocate new buffer for strides and shape info. * # This is allocated as one block, strides first. */ - if (__pyx_v_copy_shape) { + __pyx_t_2 = (__pyx_v_copy_shape != 0); + if (__pyx_t_2) { - /* "numpy.pxd":226 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":226 * # Allocate new buffer for strides and shape info. * # This is allocated as one block, strides first. * info.strides = stdlib.malloc(sizeof(Py_ssize_t) * ndim * 2) # <<<<<<<<<<<<<< @@ -2656,7 +3342,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ __pyx_v_info->strides = ((Py_ssize_t *)malloc((((sizeof(Py_ssize_t)) * ((size_t)__pyx_v_ndim)) * 2))); - /* "numpy.pxd":227 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":227 * # This is allocated as one block, strides first. * info.strides = stdlib.malloc(sizeof(Py_ssize_t) * ndim * 2) * info.shape = info.strides + ndim # <<<<<<<<<<<<<< @@ -2665,7 +3351,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ __pyx_v_info->shape = (__pyx_v_info->strides + __pyx_v_ndim); - /* "numpy.pxd":228 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":228 * info.strides = stdlib.malloc(sizeof(Py_ssize_t) * ndim * 2) * info.shape = info.strides + ndim * for i in range(ndim): # <<<<<<<<<<<<<< @@ -2676,7 +3362,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P for (__pyx_t_6 = 0; __pyx_t_6 < __pyx_t_5; __pyx_t_6+=1) { __pyx_v_i = __pyx_t_6; - /* "numpy.pxd":229 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":229 * info.shape = info.strides + ndim * for i in range(ndim): * info.strides[i] = PyArray_STRIDES(self)[i] # <<<<<<<<<<<<<< @@ -2685,7 +3371,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ (__pyx_v_info->strides[__pyx_v_i]) = (PyArray_STRIDES(__pyx_v_self)[__pyx_v_i]); - /* "numpy.pxd":230 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":230 * for i in range(ndim): * info.strides[i] = PyArray_STRIDES(self)[i] * info.shape[i] = PyArray_DIMS(self)[i] # <<<<<<<<<<<<<< @@ -2698,7 +3384,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P } /*else*/ { - /* "numpy.pxd":232 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":232 * info.shape[i] = PyArray_DIMS(self)[i] * else: * info.strides = PyArray_STRIDES(self) # <<<<<<<<<<<<<< @@ -2707,7 +3393,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ __pyx_v_info->strides = ((Py_ssize_t *)PyArray_STRIDES(__pyx_v_self)); - /* "numpy.pxd":233 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":233 * else: * info.strides = PyArray_STRIDES(self) * info.shape = PyArray_DIMS(self) # <<<<<<<<<<<<<< @@ -2718,7 +3404,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P } __pyx_L7:; - /* "numpy.pxd":234 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":234 * info.strides = PyArray_STRIDES(self) * info.shape = PyArray_DIMS(self) * info.suboffsets = NULL # <<<<<<<<<<<<<< @@ -2727,7 +3413,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ __pyx_v_info->suboffsets = NULL; - /* "numpy.pxd":235 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":235 * info.shape = PyArray_DIMS(self) * info.suboffsets = NULL * info.itemsize = PyArray_ITEMSIZE(self) # <<<<<<<<<<<<<< @@ -2736,16 +3422,16 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ __pyx_v_info->itemsize = PyArray_ITEMSIZE(__pyx_v_self); - /* "numpy.pxd":236 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":236 * info.suboffsets = NULL * info.itemsize = PyArray_ITEMSIZE(self) * info.readonly = not PyArray_ISWRITEABLE(self) # <<<<<<<<<<<<<< * * cdef int t */ - __pyx_v_info->readonly = (!PyArray_ISWRITEABLE(__pyx_v_self)); + __pyx_v_info->readonly = (!(PyArray_ISWRITEABLE(__pyx_v_self) != 0)); - /* "numpy.pxd":239 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":239 * * cdef int t * cdef char* f = NULL # <<<<<<<<<<<<<< @@ -2754,7 +3440,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ __pyx_v_f = NULL; - /* "numpy.pxd":240 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":240 * cdef int t * cdef char* f = NULL * cdef dtype descr = self.descr # <<<<<<<<<<<<<< @@ -2766,7 +3452,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P __pyx_v_descr = ((PyArray_Descr *)__pyx_t_4); __pyx_t_4 = 0; - /* "numpy.pxd":244 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":244 * cdef int offset * * cdef bint hasfields = PyDataType_HASFIELDS(descr) # <<<<<<<<<<<<<< @@ -2775,23 +3461,23 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P */ __pyx_v_hasfields = PyDataType_HASFIELDS(__pyx_v_descr); - /* "numpy.pxd":246 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":246 * cdef bint hasfields = PyDataType_HASFIELDS(descr) * * if not hasfields and not copy_shape: # <<<<<<<<<<<<<< * # do not call releasebuffer * info.obj = None */ - __pyx_t_2 = (!__pyx_v_hasfields); + __pyx_t_2 = ((!(__pyx_v_hasfields != 0)) != 0); if (__pyx_t_2) { - __pyx_t_3 = (!__pyx_v_copy_shape); + __pyx_t_3 = ((!(__pyx_v_copy_shape != 0)) != 0); __pyx_t_1 = __pyx_t_3; } else { __pyx_t_1 = __pyx_t_2; } if (__pyx_t_1) { - /* "numpy.pxd":248 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":248 * if not hasfields and not copy_shape: * # do not call releasebuffer * info.obj = None # <<<<<<<<<<<<<< @@ -2807,7 +3493,7 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P } /*else*/ { - /* "numpy.pxd":251 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":251 * else: * # need to call releasebuffer * info.obj = self # <<<<<<<<<<<<<< @@ -2822,17 +3508,17 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P } __pyx_L10:; - /* "numpy.pxd":253 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":253 * info.obj = self * * if not hasfields: # <<<<<<<<<<<<<< * t = descr.type_num * if ((descr.byteorder == c'>' and little_endian) or */ - __pyx_t_1 = (!__pyx_v_hasfields); + __pyx_t_1 = ((!(__pyx_v_hasfields != 0)) != 0); if (__pyx_t_1) { - /* "numpy.pxd":254 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":254 * * if not hasfields: * t = descr.type_num # <<<<<<<<<<<<<< @@ -2842,31 +3528,31 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P __pyx_t_5 = __pyx_v_descr->type_num; __pyx_v_t = __pyx_t_5; - /* "numpy.pxd":255 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":255 * if not hasfields: * t = descr.type_num * if ((descr.byteorder == c'>' and little_endian) or # <<<<<<<<<<<<<< * (descr.byteorder == c'<' and not little_endian)): * raise ValueError(u"Non-native byte order not supported") */ - __pyx_t_1 = (__pyx_v_descr->byteorder == '>'); + __pyx_t_1 = ((__pyx_v_descr->byteorder == '>') != 0); if (__pyx_t_1) { - __pyx_t_2 = __pyx_v_little_endian; + __pyx_t_2 = (__pyx_v_little_endian != 0); } else { __pyx_t_2 = __pyx_t_1; } if (!__pyx_t_2) { - /* "numpy.pxd":256 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":256 * t = descr.type_num * if ((descr.byteorder == c'>' and little_endian) or * (descr.byteorder == c'<' and not little_endian)): # <<<<<<<<<<<<<< * raise ValueError(u"Non-native byte order not supported") * if t == NPY_BYTE: f = "b" */ - __pyx_t_1 = (__pyx_v_descr->byteorder == '<'); + __pyx_t_1 = ((__pyx_v_descr->byteorder == '<') != 0); if (__pyx_t_1) { - __pyx_t_3 = (!__pyx_v_little_endian); + __pyx_t_3 = ((!(__pyx_v_little_endian != 0)) != 0); __pyx_t_7 = __pyx_t_3; } else { __pyx_t_7 = __pyx_t_1; @@ -2877,271 +3563,244 @@ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, P } if (__pyx_t_1) { - /* "numpy.pxd":257 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":257 * if ((descr.byteorder == c'>' and little_endian) or * (descr.byteorder == c'<' and not little_endian)): * raise ValueError(u"Non-native byte order not supported") # <<<<<<<<<<<<<< * if t == NPY_BYTE: f = "b" * elif t == NPY_UBYTE: f = "B" */ - __pyx_t_4 = PyObject_Call(__pyx_builtin_ValueError, ((PyObject *)__pyx_k_tuple_6), NULL); if (unlikely(!__pyx_t_4)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 257; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_4 = __Pyx_PyObject_Call(__pyx_builtin_ValueError, __pyx_tuple__3, NULL); if (unlikely(!__pyx_t_4)) {__pyx_filename = __pyx_f[2]; __pyx_lineno = 257; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_4); __Pyx_Raise(__pyx_t_4, 0, 0, 0); __Pyx_DECREF(__pyx_t_4); __pyx_t_4 = 0; - {__pyx_filename = __pyx_f[1]; __pyx_lineno = 257; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - goto __pyx_L12; + {__pyx_filename = __pyx_f[2]; __pyx_lineno = 257; __pyx_clineno = __LINE__; goto __pyx_L1_error;} } - __pyx_L12:; - /* "numpy.pxd":258 + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":274 + * elif t == NPY_CDOUBLE: f = "Zd" + * elif t == NPY_CLONGDOUBLE: f = "Zg" + * elif t == NPY_OBJECT: f = "O" # <<<<<<<<<<<<<< + * else: + * raise ValueError(u"unknown dtype code in numpy.pxd (%d)" % t) + */ + switch (__pyx_v_t) { + + /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":258 * (descr.byteorder == c'<' and not little_endian)): * raise ValueError(u"Non-native byte order not supported") * if t == NPY_BYTE: f = "b" # <<<<<<<<<<<<<< * elif t == NPY_UBYTE: f = "B" * elif t == NPY_SHORT: f = "h" */ - __pyx_t_1 = (__pyx_v_t == NPY_BYTE); 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= __Pyx_GetBuiltinName(name); } return result; } @@ -5088,7 +5845,7 @@ static void __Pyx_RaiseArgtupleInvalid( more_or_less = "exactly"; } PyErr_Format(PyExc_TypeError, - "%s() takes %s %" CYTHON_FORMAT_SSIZE_T "d positional argument%s (%" CYTHON_FORMAT_SSIZE_T "d given)", + "%.200s() takes %.8s %" CYTHON_FORMAT_SSIZE_T "d positional argument%.1s (%" CYTHON_FORMAT_SSIZE_T "d given)", func_name, more_or_less, num_expected, (num_expected == 1) ? "" : "s", num_found); } @@ -5192,12 +5949,12 @@ static int __Pyx_ParseOptionalKeywords( goto bad; invalid_keyword_type: PyErr_Format(PyExc_TypeError, - "%s() keywords must be strings", function_name); + "%.200s() keywords must be strings", function_name); goto bad; invalid_keyword: PyErr_Format(PyExc_TypeError, #if PY_MAJOR_VERSION < 3 - "%s() got an unexpected keyword argument '%s'", + "%.200s() got an unexpected keyword argument '%.200s'", function_name, PyString_AsString(key)); #else "%s() got an unexpected keyword argument '%U'", @@ -5207,26 +5964,103 @@ static int __Pyx_ParseOptionalKeywords( return -1; } -static int __Pyx_ArgTypeTest(PyObject *obj, PyTypeObject *type, int none_allowed, +#if CYTHON_COMPILING_IN_CPYTHON +static CYTHON_INLINE PyObject* __Pyx_PyObject_Call(PyObject *func, PyObject *arg, PyObject *kw) { + PyObject *result; + ternaryfunc call = func->ob_type->tp_call; + if (unlikely(!call)) + return PyObject_Call(func, arg, kw); +#if PY_VERSION_HEX >= 0x02060000 + if (unlikely(Py_EnterRecursiveCall((char*)" while calling a Python object"))) + return NULL; +#endif + result = (*call)(func, arg, kw); +#if PY_VERSION_HEX >= 0x02060000 + Py_LeaveRecursiveCall(); +#endif + if (unlikely(!result) && unlikely(!PyErr_Occurred())) { + PyErr_SetString( + PyExc_SystemError, + "NULL result without error in PyObject_Call"); + } + return result; +} +#endif + +static void __Pyx_RaiseArgumentTypeInvalid(const char* name, PyObject *obj, PyTypeObject *type) { + PyErr_Format(PyExc_TypeError, + "Argument '%.200s' has incorrect type (expected %.200s, got %.200s)", + name, type->tp_name, Py_TYPE(obj)->tp_name); +} +static CYTHON_INLINE int __Pyx_ArgTypeTest(PyObject *obj, PyTypeObject *type, int none_allowed, const char *name, int exact) { - if (!type) { - PyErr_Format(PyExc_SystemError, "Missing type object"); + if (unlikely(!type)) { + PyErr_SetString(PyExc_SystemError, "Missing type object"); return 0; } if (none_allowed && obj == Py_None) return 1; else if (exact) { - if (Py_TYPE(obj) == type) return 1; + if (likely(Py_TYPE(obj) == type)) return 1; + #if PY_MAJOR_VERSION == 2 + else if ((type == &PyBaseString_Type) && likely(__Pyx_PyBaseString_CheckExact(obj))) return 1; + #endif } else { - if (PyObject_TypeCheck(obj, type)) return 1; + if (likely(PyObject_TypeCheck(obj, type))) return 1; } - PyErr_Format(PyExc_TypeError, - "Argument '%s' has incorrect type (expected %s, got %s)", - name, type->tp_name, Py_TYPE(obj)->tp_name); + __Pyx_RaiseArgumentTypeInvalid(name, obj, type); return 0; } +static CYTHON_INLINE int __Pyx_SetItemInt_Generic(PyObject *o, PyObject *j, PyObject *v) { + int r; + if (!j) return -1; + r = PyObject_SetItem(o, j, v); + Py_DECREF(j); + return r; +} +static CYTHON_INLINE int __Pyx_SetItemInt_Fast(PyObject *o, Py_ssize_t i, PyObject *v, + int is_list, int wraparound, int boundscheck) { +#if CYTHON_COMPILING_IN_CPYTHON + if (is_list || PyList_CheckExact(o)) { + Py_ssize_t n = (!wraparound) ? i : ((likely(i >= 0)) ? i : i + PyList_GET_SIZE(o)); + if ((!boundscheck) || likely((n >= 0) & (n < PyList_GET_SIZE(o)))) { + PyObject* old = PyList_GET_ITEM(o, n); + Py_INCREF(v); + PyList_SET_ITEM(o, n, v); + Py_DECREF(old); + return 1; + } + } else { + PySequenceMethods *m = Py_TYPE(o)->tp_as_sequence; + if (likely(m && m->sq_ass_item)) { + if (wraparound && unlikely(i < 0) && likely(m->sq_length)) { + Py_ssize_t l = m->sq_length(o); + if (likely(l >= 0)) { + i += l; + } else { + if (PyErr_ExceptionMatches(PyExc_OverflowError)) + PyErr_Clear(); + else + return -1; + } + } + return m->sq_ass_item(o, i, v); + } + } +#else +#if CYTHON_COMPILING_IN_PYPY + if (is_list || (PySequence_Check(o) && !PyDict_Check(o))) { +#else + if (is_list || PySequence_Check(o)) { +#endif + return PySequence_SetItem(o, i, v); + } +#endif + return __Pyx_SetItemInt_Generic(o, PyInt_FromSsize_t(i), v); +} + static CYTHON_INLINE void __Pyx_ErrRestore(PyObject *type, PyObject *value, PyObject *tb) { #if CYTHON_COMPILING_IN_CPYTHON PyObject *tmp_type, *tmp_value, *tmp_tb; @@ -5296,24 +6130,23 @@ static void __Pyx_Raise(PyObject *type, PyObject *value, PyObject *tb, } value = type; #if PY_VERSION_HEX < 0x02050000 - if (PyInstance_Check(type)) { - type = (PyObject*) ((PyInstanceObject*)type)->in_class; - Py_INCREF(type); - } - else { - type = 0; - PyErr_SetString(PyExc_TypeError, - "raise: exception must be an old-style class or instance"); - goto raise_error; - } - #else - type = (PyObject*) Py_TYPE(type); + if (PyInstance_Check(type)) { + type = (PyObject*) ((PyInstanceObject*)type)->in_class; Py_INCREF(type); - if (!PyType_IsSubtype((PyTypeObject *)type, (PyTypeObject *)PyExc_BaseException)) { - PyErr_SetString(PyExc_TypeError, - "raise: exception class must be a subclass of BaseException"); - goto raise_error; - } + } else { + type = 0; + PyErr_SetString(PyExc_TypeError, + "raise: exception must be an old-style class or instance"); + goto raise_error; + } + #else + type = (PyObject*) Py_TYPE(type); + Py_INCREF(type); + if (!PyType_IsSubtype((PyTypeObject *)type, (PyTypeObject *)PyExc_BaseException)) { + PyErr_SetString(PyExc_TypeError, + "raise: exception class must be a subclass of BaseException"); + goto raise_error; + } #endif } __Pyx_ErrRestore(type, value, tb); @@ -5345,46 +6178,62 @@ static void __Pyx_Raise(PyObject *type, PyObject *value, PyObject *tb, PyObject value = type; type = (PyObject*) Py_TYPE(value); } else if (PyExceptionClass_Check(type)) { - PyObject *args; - if (!value) - args = PyTuple_New(0); - else if (PyTuple_Check(value)) { - Py_INCREF(value); - args = value; + PyObject *instance_class = NULL; + if (value && PyExceptionInstance_Check(value)) { + instance_class = (PyObject*) Py_TYPE(value); + if (instance_class != type) { + if (PyObject_IsSubclass(instance_class, type)) { + type = instance_class; + } else { + instance_class = NULL; + } + } } - else - args = PyTuple_Pack(1, value); - if (!args) - goto bad; - owned_instance = PyEval_CallObject(type, args); - Py_DECREF(args); - if (!owned_instance) - goto bad; - value = owned_instance; - if (!PyExceptionInstance_Check(value)) { - PyErr_Format(PyExc_TypeError, - "calling %R should have returned an instance of " - "BaseException, not %R", - type, Py_TYPE(value)); - goto bad; + if (!instance_class) { + PyObject *args; + if (!value) + args = PyTuple_New(0); + else if (PyTuple_Check(value)) { + Py_INCREF(value); + args = value; + } else + args = PyTuple_Pack(1, value); + if (!args) + goto bad; + owned_instance = PyObject_Call(type, args, NULL); + Py_DECREF(args); + if (!owned_instance) + goto bad; + value = owned_instance; + if (!PyExceptionInstance_Check(value)) { + PyErr_Format(PyExc_TypeError, + "calling %R should have returned an instance of " + "BaseException, not %R", + type, Py_TYPE(value)); + goto bad; + } } } else { PyErr_SetString(PyExc_TypeError, "raise: exception class must be a subclass of BaseException"); goto bad; } +#if PY_VERSION_HEX >= 0x03030000 + if (cause) { +#else if (cause && cause != Py_None) { +#endif PyObject *fixed_cause; - if (PyExceptionClass_Check(cause)) { + if (cause == Py_None) { + fixed_cause = NULL; + } else if (PyExceptionClass_Check(cause)) { fixed_cause = PyObject_CallObject(cause, NULL); if (fixed_cause == NULL) goto bad; - } - else if (PyExceptionInstance_Check(cause)) { + } else if (PyExceptionInstance_Check(cause)) { fixed_cause = cause; Py_INCREF(fixed_cause); - } - else { + } else { PyErr_SetString(PyExc_TypeError, "exception causes must derive from " "BaseException"); @@ -5415,7 +6264,7 @@ static CYTHON_INLINE void __Pyx_RaiseTooManyValuesError(Py_ssize_t expected) { static CYTHON_INLINE void __Pyx_RaiseNeedMoreValuesError(Py_ssize_t index) { PyErr_Format(PyExc_ValueError, - "need more than %" CYTHON_FORMAT_SSIZE_T "d value%s to unpack", + "need more than %" CYTHON_FORMAT_SSIZE_T "d value%.1s to unpack", index, (index == 1) ? "" : "s"); } @@ -5423,54 +6272,9 @@ static CYTHON_INLINE void __Pyx_RaiseNoneNotIterableError(void) { PyErr_SetString(PyExc_TypeError, "'NoneType' object is not iterable"); } -static CYTHON_INLINE int __Pyx_IterFinish(void) { -#if CYTHON_COMPILING_IN_CPYTHON - PyThreadState *tstate = PyThreadState_GET(); - PyObject* exc_type = tstate->curexc_type; - if (unlikely(exc_type)) { - if (likely(exc_type == PyExc_StopIteration) || PyErr_GivenExceptionMatches(exc_type, PyExc_StopIteration)) { - PyObject *exc_value, *exc_tb; - exc_value = tstate->curexc_value; - exc_tb = tstate->curexc_traceback; - tstate->curexc_type = 0; - tstate->curexc_value = 0; - tstate->curexc_traceback = 0; - Py_DECREF(exc_type); - Py_XDECREF(exc_value); - Py_XDECREF(exc_tb); - return 0; - } else { - return -1; - } - } - return 0; -#else - if (unlikely(PyErr_Occurred())) { - if (likely(PyErr_ExceptionMatches(PyExc_StopIteration))) { - PyErr_Clear(); - return 0; - } else { - return -1; - } - } - return 0; -#endif -} - -static int __Pyx_IternextUnpackEndCheck(PyObject *retval, Py_ssize_t expected) { - if (unlikely(retval)) { - Py_DECREF(retval); - __Pyx_RaiseTooManyValuesError(expected); - return -1; - } else { - return __Pyx_IterFinish(); - } - return 0; -} - static CYTHON_INLINE int __Pyx_TypeTest(PyObject *obj, PyTypeObject *type) { if (unlikely(!type)) { - PyErr_Format(PyExc_SystemError, "Missing type object"); + PyErr_SetString(PyExc_SystemError, "Missing type object"); return 0; } if (likely(PyObject_TypeCheck(obj, type))) @@ -5480,16 +6284,31 @@ static CYTHON_INLINE int __Pyx_TypeTest(PyObject *obj, PyTypeObject *type) { return 0; } -static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, long level) { - PyObject *py_import = 0; +static PyObject* __Pyx_ImportFrom(PyObject* module, PyObject* name) { + PyObject* value = __Pyx_PyObject_GetAttrStr(module, name); + if (unlikely(!value) && PyErr_ExceptionMatches(PyExc_AttributeError)) { + PyErr_Format(PyExc_ImportError, + #if PY_MAJOR_VERSION < 3 + "cannot import name %.230s", PyString_AS_STRING(name)); + #else + "cannot import name %S", name); + #endif + } + return value; +} + +static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, int level) { PyObject *empty_list = 0; PyObject *module = 0; PyObject *global_dict = 0; PyObject *empty_dict = 0; PyObject *list; - py_import = __Pyx_GetAttrString(__pyx_b, "__import__"); + #if PY_VERSION_HEX < 0x03030000 + PyObject *py_import; + py_import = __Pyx_PyObject_GetAttrStr(__pyx_b, __pyx_n_s_import); if (!py_import) goto bad; + #endif if (from_list) list = from_list; else { @@ -5509,13 +6328,17 @@ static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, long level) { #if PY_MAJOR_VERSION >= 3 if (level == -1) { if (strchr(__Pyx_MODULE_NAME, '.')) { - /* try package relative import first */ + #if PY_VERSION_HEX < 0x03030000 PyObject *py_level = PyInt_FromLong(1); if (!py_level) goto bad; module = PyObject_CallFunctionObjArgs(py_import, name, global_dict, empty_dict, list, py_level, NULL); Py_DECREF(py_level); + #else + module = PyImport_ImportModuleLevelObject( + name, global_dict, empty_dict, list, 1); + #endif if (!module) { if (!PyErr_ExceptionMatches(PyExc_ImportError)) goto bad; @@ -5524,56 +6347,332 @@ static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, long level) { } level = 0; /* try absolute import on failure */ } - #endif - if (!module) { - PyObject *py_level = PyInt_FromLong(level); - if (!py_level) - goto bad; - module = PyObject_CallFunctionObjArgs(py_import, - name, global_dict, empty_dict, list, py_level, NULL); - Py_DECREF(py_level); + #endif + if (!module) { + #if PY_VERSION_HEX < 0x03030000 + PyObject *py_level = PyInt_FromLong(level); + if (!py_level) + goto bad; + module = PyObject_CallFunctionObjArgs(py_import, + name, global_dict, empty_dict, list, py_level, NULL); + Py_DECREF(py_level); + #else + module = PyImport_ImportModuleLevelObject( + name, global_dict, empty_dict, list, level); + #endif + } + } + #else + if (level>0) { + PyErr_SetString(PyExc_RuntimeError, "Relative import is not supported for Python <=2.4."); + goto bad; + } + module = PyObject_CallFunctionObjArgs(py_import, + name, global_dict, empty_dict, list, NULL); + #endif +bad: + #if PY_VERSION_HEX < 0x03030000 + Py_XDECREF(py_import); + #endif + Py_XDECREF(empty_list); + Py_XDECREF(empty_dict); + return module; +} + +#define __PYX_VERIFY_RETURN_INT(target_type, func_type, func) \ + { \ + func_type value = func(x); \ + if (sizeof(target_type) < sizeof(func_type)) { \ + if (unlikely(value != (func_type) (target_type) value)) { \ + func_type zero = 0; \ + PyErr_SetString(PyExc_OverflowError, \ + (is_unsigned && unlikely(value < zero)) ? \ + "can't convert negative value to " #target_type : \ + "value too large to convert to " #target_type); \ + return (target_type) -1; \ + } \ + } \ + return (target_type) value; \ + } + +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + #include "longintrepr.h" + #endif +#endif +static CYTHON_INLINE unsigned int __Pyx_PyInt_As_unsigned_int(PyObject *x) { + const unsigned int neg_one = (unsigned int) -1, const_zero = 0; + const int is_unsigned = neg_one > const_zero; +#if PY_MAJOR_VERSION < 3 + if (likely(PyInt_Check(x))) { + if (sizeof(unsigned int) < sizeof(long)) { + __PYX_VERIFY_RETURN_INT(unsigned int, long, PyInt_AS_LONG) + } else { + long val = PyInt_AS_LONG(x); + if (is_unsigned && unlikely(val < 0)) { + PyErr_SetString(PyExc_OverflowError, + "can't convert negative value to unsigned int"); + return (unsigned int) -1; + } + return (unsigned int) val; + } + } else +#endif + if (likely(PyLong_Check(x))) { + if (is_unsigned) { +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + if (sizeof(digit) <= sizeof(unsigned int)) { + switch (Py_SIZE(x)) { + case 0: return 0; + case 1: return (unsigned int) ((PyLongObject*)x)->ob_digit[0]; + } + } + #endif +#endif + if (unlikely(Py_SIZE(x) < 0)) { + PyErr_SetString(PyExc_OverflowError, + "can't convert negative value to unsigned int"); + return (unsigned int) -1; + } + if (sizeof(unsigned int) <= sizeof(unsigned long)) { + __PYX_VERIFY_RETURN_INT(unsigned int, unsigned long, PyLong_AsUnsignedLong) + } else if (sizeof(unsigned int) <= sizeof(unsigned long long)) { + __PYX_VERIFY_RETURN_INT(unsigned int, unsigned long long, PyLong_AsUnsignedLongLong) + } + } else { +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + if (sizeof(digit) <= sizeof(unsigned int)) { + switch (Py_SIZE(x)) { + case 0: return 0; + case 1: return +(unsigned int) ((PyLongObject*)x)->ob_digit[0]; + case -1: return -(unsigned int) ((PyLongObject*)x)->ob_digit[0]; + } + } + #endif +#endif + if (sizeof(unsigned int) <= sizeof(long)) { + __PYX_VERIFY_RETURN_INT(unsigned int, long, PyLong_AsLong) + } else if (sizeof(unsigned int) <= sizeof(long long)) { + __PYX_VERIFY_RETURN_INT(unsigned int, long long, PyLong_AsLongLong) + } + } + { +#if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) + PyErr_SetString(PyExc_RuntimeError, + "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); +#else + unsigned int val; + PyObject *v = __Pyx_PyNumber_Int(x); + #if PY_MAJOR_VERSION < 3 + if (likely(v) && !PyLong_Check(v)) { + PyObject *tmp = v; + v = PyNumber_Long(tmp); + Py_DECREF(tmp); + } + #endif + if (likely(v)) { + int one = 1; int is_little = (int)*(unsigned char *)&one; + unsigned char *bytes = (unsigned char *)&val; + int ret = _PyLong_AsByteArray((PyLongObject *)v, + bytes, sizeof(val), + is_little, !is_unsigned); + Py_DECREF(v); + if (likely(!ret)) + return val; + } +#endif + return (unsigned int) -1; + } + } else { + unsigned int val; + PyObject *tmp = __Pyx_PyNumber_Int(x); + if (!tmp) return (unsigned int) -1; + val = __Pyx_PyInt_As_unsigned_int(tmp); + Py_DECREF(tmp); + return val; + } +} + +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + #include "longintrepr.h" + #endif +#endif +static CYTHON_INLINE int __Pyx_PyInt_As_int(PyObject *x) { + const int neg_one = (int) -1, const_zero = 0; + const int is_unsigned = neg_one > const_zero; +#if PY_MAJOR_VERSION < 3 + if (likely(PyInt_Check(x))) { + if (sizeof(int) < sizeof(long)) { + __PYX_VERIFY_RETURN_INT(int, long, PyInt_AS_LONG) + } else { + long val = PyInt_AS_LONG(x); + if (is_unsigned && unlikely(val < 0)) { + PyErr_SetString(PyExc_OverflowError, + "can't convert negative value to int"); + return (int) -1; + } + return (int) val; + } + } else +#endif + if (likely(PyLong_Check(x))) { + if (is_unsigned) { +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + if (sizeof(digit) <= sizeof(int)) { + switch (Py_SIZE(x)) { + case 0: return 0; + case 1: return (int) ((PyLongObject*)x)->ob_digit[0]; + } + } + #endif +#endif + if (unlikely(Py_SIZE(x) < 0)) { + PyErr_SetString(PyExc_OverflowError, + "can't convert negative value to int"); + return (int) -1; + } + if (sizeof(int) <= sizeof(unsigned long)) { + __PYX_VERIFY_RETURN_INT(int, unsigned long, PyLong_AsUnsignedLong) + } else if (sizeof(int) <= sizeof(unsigned long long)) { + __PYX_VERIFY_RETURN_INT(int, unsigned long long, PyLong_AsUnsignedLongLong) + } + } else { +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + if (sizeof(digit) <= sizeof(int)) { + switch (Py_SIZE(x)) { + case 0: return 0; + case 1: return +(int) ((PyLongObject*)x)->ob_digit[0]; + case -1: return -(int) ((PyLongObject*)x)->ob_digit[0]; + } + } + #endif +#endif + if (sizeof(int) <= sizeof(long)) { + __PYX_VERIFY_RETURN_INT(int, long, PyLong_AsLong) + } else if (sizeof(int) <= sizeof(long long)) { + __PYX_VERIFY_RETURN_INT(int, long long, PyLong_AsLongLong) + } + } + { +#if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) + PyErr_SetString(PyExc_RuntimeError, + "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); +#else + int val; + PyObject *v = __Pyx_PyNumber_Int(x); + #if PY_MAJOR_VERSION < 3 + if (likely(v) && !PyLong_Check(v)) { + PyObject *tmp = v; + v = PyNumber_Long(tmp); + Py_DECREF(tmp); + } + #endif + if (likely(v)) { + int one = 1; int is_little = (int)*(unsigned char *)&one; + unsigned char *bytes = (unsigned char *)&val; + int ret = _PyLong_AsByteArray((PyLongObject *)v, + bytes, sizeof(val), + is_little, !is_unsigned); + Py_DECREF(v); + if (likely(!ret)) + return val; + } +#endif + return (int) -1; + } + } else { + int val; + PyObject *tmp = __Pyx_PyNumber_Int(x); + if (!tmp) return (int) -1; + val = __Pyx_PyInt_As_int(tmp); + Py_DECREF(tmp); + return val; + } +} + +static CYTHON_INLINE PyObject* __Pyx_PyInt_From_int(int value) { + const int neg_one = (int) -1, const_zero = 0; + const int is_unsigned = neg_one > const_zero; + if (is_unsigned) { + if (sizeof(int) < sizeof(long)) { + return PyInt_FromLong((long) value); + } else if (sizeof(int) <= sizeof(unsigned long)) { + return PyLong_FromUnsignedLong((unsigned long) value); + } else if (sizeof(int) <= sizeof(unsigned long long)) { + return PyLong_FromUnsignedLongLong((unsigned long long) value); + } + } else { + if (sizeof(int) <= sizeof(long)) { + return PyInt_FromLong((long) value); + } else if (sizeof(int) <= sizeof(long long)) { + return PyLong_FromLongLong((long long) value); } } - #else - if (level>0) { - PyErr_SetString(PyExc_RuntimeError, "Relative import is not supported for Python <=2.4."); - goto bad; + { + int one = 1; int little = (int)*(unsigned char *)&one; + unsigned char *bytes = (unsigned char *)&value; + return _PyLong_FromByteArray(bytes, sizeof(int), + little, !is_unsigned); } - module = PyObject_CallFunctionObjArgs(py_import, - name, global_dict, empty_dict, list, NULL); - #endif -bad: - Py_XDECREF(empty_list); - Py_XDECREF(py_import); - Py_XDECREF(empty_dict); - return module; } -static CYTHON_INLINE PyObject *__Pyx_PyInt_to_py_Py_intptr_t(Py_intptr_t val) { - const Py_intptr_t neg_one = (Py_intptr_t)-1, const_zero = (Py_intptr_t)0; - const int is_unsigned = const_zero < neg_one; - if ((sizeof(Py_intptr_t) == sizeof(char)) || - (sizeof(Py_intptr_t) == sizeof(short))) { - return PyInt_FromLong((long)val); - } else if ((sizeof(Py_intptr_t) == sizeof(int)) || - (sizeof(Py_intptr_t) == sizeof(long))) { - if (is_unsigned) - return PyLong_FromUnsignedLong((unsigned long)val); - else - return PyInt_FromLong((long)val); - } else if (sizeof(Py_intptr_t) == sizeof(PY_LONG_LONG)) { - if (is_unsigned) - return PyLong_FromUnsignedLongLong((unsigned PY_LONG_LONG)val); - else - return PyLong_FromLongLong((PY_LONG_LONG)val); +static CYTHON_INLINE PyObject* __Pyx_PyInt_From_Py_intptr_t(Py_intptr_t value) { + const Py_intptr_t neg_one = (Py_intptr_t) -1, const_zero = 0; + const int is_unsigned = neg_one > const_zero; + if (is_unsigned) { + if (sizeof(Py_intptr_t) < sizeof(long)) { + return PyInt_FromLong((long) value); + } else if (sizeof(Py_intptr_t) <= sizeof(unsigned long)) { + return PyLong_FromUnsignedLong((unsigned long) value); + } else if (sizeof(Py_intptr_t) <= sizeof(unsigned long long)) { + return PyLong_FromUnsignedLongLong((unsigned long long) value); + } } else { + if (sizeof(Py_intptr_t) <= sizeof(long)) { + return PyInt_FromLong((long) value); + } else if (sizeof(Py_intptr_t) <= sizeof(long long)) { + return PyLong_FromLongLong((long long) value); + } + } + { int one = 1; int little = (int)*(unsigned char *)&one; - unsigned char *bytes = (unsigned char *)&val; + unsigned char *bytes = (unsigned char *)&value; return _PyLong_FromByteArray(bytes, sizeof(Py_intptr_t), little, !is_unsigned); } } +static CYTHON_INLINE PyObject* __Pyx_PyInt_From_unsigned_long(unsigned long value) { + const unsigned long neg_one = (unsigned long) -1, const_zero = 0; + const int is_unsigned = neg_one > const_zero; + if (is_unsigned) { + if (sizeof(unsigned long) < sizeof(long)) { + return PyInt_FromLong((long) value); + } else if (sizeof(unsigned long) <= sizeof(unsigned long)) { + return PyLong_FromUnsignedLong((unsigned long) value); + } else if (sizeof(unsigned long) <= sizeof(unsigned long long)) { + return PyLong_FromUnsignedLongLong((unsigned long long) value); + } + } else { + if (sizeof(unsigned long) <= sizeof(long)) { + return PyInt_FromLong((long) value); + } else if (sizeof(unsigned long) <= sizeof(long long)) { + return PyLong_FromLongLong((long long) value); + } + } + { + int one = 1; int little = (int)*(unsigned char *)&one; + unsigned char *bytes = (unsigned char *)&value; + return _PyLong_FromByteArray(bytes, sizeof(unsigned long), + little, !is_unsigned); + } +} + #if CYTHON_CCOMPLEX #ifdef __cplusplus static CYTHON_INLINE __pyx_t_float_complex __pyx_t_float_complex_from_parts(float x, float y) { @@ -5814,401 +6913,127 @@ static CYTHON_INLINE PyObject *__Pyx_PyInt_to_py_Py_intptr_t(Py_intptr_t val) { #endif #endif -static CYTHON_INLINE unsigned char __Pyx_PyInt_AsUnsignedChar(PyObject* x) { - const unsigned char neg_one = (unsigned char)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(unsigned char) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(unsigned char)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to unsigned char" : - "value too large to convert to unsigned char"); - } - return (unsigned char)-1; - } - return (unsigned char)val; - } - return (unsigned char)__Pyx_PyInt_AsUnsignedLong(x); -} - -static CYTHON_INLINE unsigned short __Pyx_PyInt_AsUnsignedShort(PyObject* x) { - const unsigned short neg_one = (unsigned short)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(unsigned short) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(unsigned short)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to unsigned short" : - "value too large to convert to unsigned short"); - } - return (unsigned short)-1; - } - return (unsigned short)val; - } - return (unsigned short)__Pyx_PyInt_AsUnsignedLong(x); -} - -static CYTHON_INLINE unsigned int __Pyx_PyInt_AsUnsignedInt(PyObject* x) { - const unsigned int neg_one = (unsigned int)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(unsigned int) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(unsigned int)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to unsigned int" : - "value too large to convert to unsigned int"); - } - return (unsigned int)-1; - } - return (unsigned int)val; - } - return (unsigned int)__Pyx_PyInt_AsUnsignedLong(x); -} - -static CYTHON_INLINE char __Pyx_PyInt_AsChar(PyObject* x) { - const char neg_one = (char)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(char) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(char)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to char" : - "value too large to convert to char"); - } - return (char)-1; - } - return (char)val; - } - return (char)__Pyx_PyInt_AsLong(x); -} - -static CYTHON_INLINE short __Pyx_PyInt_AsShort(PyObject* x) { - const short neg_one = (short)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(short) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(short)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to short" : - "value too large to convert to short"); - } - return (short)-1; - } - return (short)val; - } - return (short)__Pyx_PyInt_AsLong(x); -} - -static CYTHON_INLINE int __Pyx_PyInt_AsInt(PyObject* x) { - const int neg_one = (int)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(int) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(int)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to int" : - "value too large to convert to int"); - } - return (int)-1; - } - return (int)val; - } - return (int)__Pyx_PyInt_AsLong(x); -} - -static CYTHON_INLINE signed char __Pyx_PyInt_AsSignedChar(PyObject* x) { - const signed char neg_one = (signed char)-1, const_zero = 0; +static CYTHON_INLINE PyObject* __Pyx_PyInt_From_long(long value) { + const long neg_one = (long) -1, const_zero = 0; const int is_unsigned = neg_one > const_zero; - if (sizeof(signed char) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(signed char)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to signed char" : - "value too large to convert to signed char"); - } - return (signed char)-1; - } - return (signed char)val; - } - return (signed char)__Pyx_PyInt_AsSignedLong(x); -} - -static CYTHON_INLINE signed short __Pyx_PyInt_AsSignedShort(PyObject* x) { - const signed short neg_one = (signed short)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(signed short) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(signed short)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to signed short" : - "value too large to convert to signed short"); - } - return (signed short)-1; + if (is_unsigned) { + if (sizeof(long) < sizeof(long)) { + return PyInt_FromLong((long) value); + } else if (sizeof(long) <= sizeof(unsigned long)) { + return PyLong_FromUnsignedLong((unsigned long) value); + } else if (sizeof(long) <= sizeof(unsigned long long)) { + return PyLong_FromUnsignedLongLong((unsigned long long) value); } - return (signed short)val; - } - return (signed short)__Pyx_PyInt_AsSignedLong(x); -} - -static CYTHON_INLINE signed int __Pyx_PyInt_AsSignedInt(PyObject* x) { - const signed int neg_one = (signed int)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(signed int) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(signed int)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to signed int" : - "value too large to convert to signed int"); - } - return (signed int)-1; + } else { + if (sizeof(long) <= sizeof(long)) { + return PyInt_FromLong((long) value); + } else if (sizeof(long) <= sizeof(long long)) { + return PyLong_FromLongLong((long long) value); } - return (signed int)val; } - return (signed int)__Pyx_PyInt_AsSignedLong(x); -} - -static CYTHON_INLINE int __Pyx_PyInt_AsLongDouble(PyObject* x) { - const int neg_one = (int)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(int) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(int)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to int" : - "value too large to convert to int"); - } - return (int)-1; - } - return (int)val; + { + int one = 1; int little = (int)*(unsigned char *)&one; + unsigned char *bytes = (unsigned char *)&value; + return _PyLong_FromByteArray(bytes, sizeof(long), + little, !is_unsigned); } - return (int)__Pyx_PyInt_AsLong(x); } -static CYTHON_INLINE unsigned long __Pyx_PyInt_AsUnsignedLong(PyObject* x) { - const unsigned long neg_one = (unsigned long)-1, const_zero = 0; +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + #include "longintrepr.h" + #endif +#endif +static CYTHON_INLINE long __Pyx_PyInt_As_long(PyObject *x) { + const long neg_one = (long) -1, const_zero = 0; const int is_unsigned = neg_one > const_zero; -#if PY_VERSION_HEX < 0x03000000 +#if PY_MAJOR_VERSION < 3 if (likely(PyInt_Check(x))) { - long val = PyInt_AS_LONG(x); - if (is_unsigned && unlikely(val < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to unsigned long"); - return (unsigned long)-1; - } - return (unsigned long)val; - } else -#endif - if (likely(PyLong_Check(x))) { - if (is_unsigned) { - if (unlikely(Py_SIZE(x) < 0)) { + if (sizeof(long) < sizeof(long)) { + __PYX_VERIFY_RETURN_INT(long, long, PyInt_AS_LONG) + } else { + long val = PyInt_AS_LONG(x); + if (is_unsigned && unlikely(val < 0)) { PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to unsigned long"); - return (unsigned long)-1; + "can't convert negative value to long"); + return (long) -1; } - return (unsigned long)PyLong_AsUnsignedLong(x); - } else { - return (unsigned long)PyLong_AsLong(x); - } - } else { - unsigned long val; - PyObject *tmp = __Pyx_PyNumber_Int(x); - if (!tmp) return (unsigned long)-1; - val = __Pyx_PyInt_AsUnsignedLong(tmp); - Py_DECREF(tmp); - return val; - } -} - -static CYTHON_INLINE unsigned PY_LONG_LONG __Pyx_PyInt_AsUnsignedLongLong(PyObject* x) { - const unsigned PY_LONG_LONG neg_one = (unsigned PY_LONG_LONG)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; -#if PY_VERSION_HEX < 0x03000000 - if (likely(PyInt_Check(x))) { - long val = PyInt_AS_LONG(x); - if (is_unsigned && unlikely(val < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to unsigned PY_LONG_LONG"); - return (unsigned PY_LONG_LONG)-1; + return (long) val; } - return (unsigned PY_LONG_LONG)val; } else #endif if (likely(PyLong_Check(x))) { if (is_unsigned) { - if (unlikely(Py_SIZE(x) < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to unsigned PY_LONG_LONG"); - return (unsigned PY_LONG_LONG)-1; +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + if (sizeof(digit) <= sizeof(long)) { + switch (Py_SIZE(x)) { + case 0: return 0; + case 1: return (long) ((PyLongObject*)x)->ob_digit[0]; + } } - return (unsigned PY_LONG_LONG)PyLong_AsUnsignedLongLong(x); - } else { - return (unsigned PY_LONG_LONG)PyLong_AsLongLong(x); - } - } else { - unsigned PY_LONG_LONG val; - PyObject *tmp = __Pyx_PyNumber_Int(x); - if (!tmp) return (unsigned PY_LONG_LONG)-1; - val = __Pyx_PyInt_AsUnsignedLongLong(tmp); - Py_DECREF(tmp); - return val; - } -} - -static CYTHON_INLINE long __Pyx_PyInt_AsLong(PyObject* x) { - const long neg_one = (long)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; -#if PY_VERSION_HEX < 0x03000000 - if (likely(PyInt_Check(x))) { - long val = PyInt_AS_LONG(x); - if (is_unsigned && unlikely(val < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to long"); - return (long)-1; - } - return (long)val; - } else + #endif #endif - if (likely(PyLong_Check(x))) { - if (is_unsigned) { if (unlikely(Py_SIZE(x) < 0)) { PyErr_SetString(PyExc_OverflowError, "can't convert negative value to long"); - return (long)-1; + return (long) -1; } - return (long)PyLong_AsUnsignedLong(x); - } else { - return (long)PyLong_AsLong(x); - } - } else { - long val; - PyObject *tmp = __Pyx_PyNumber_Int(x); - if (!tmp) return (long)-1; - val = __Pyx_PyInt_AsLong(tmp); - Py_DECREF(tmp); - return val; - } -} - -static CYTHON_INLINE PY_LONG_LONG __Pyx_PyInt_AsLongLong(PyObject* x) { - const PY_LONG_LONG neg_one = (PY_LONG_LONG)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; -#if PY_VERSION_HEX < 0x03000000 - if (likely(PyInt_Check(x))) { - long val = PyInt_AS_LONG(x); - if (is_unsigned && unlikely(val < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to PY_LONG_LONG"); - return (PY_LONG_LONG)-1; - } - return (PY_LONG_LONG)val; - } else -#endif - if (likely(PyLong_Check(x))) { - if (is_unsigned) { - if (unlikely(Py_SIZE(x) < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to PY_LONG_LONG"); - return (PY_LONG_LONG)-1; + if (sizeof(long) <= sizeof(unsigned long)) { + __PYX_VERIFY_RETURN_INT(long, unsigned long, PyLong_AsUnsignedLong) + } else if (sizeof(long) <= sizeof(unsigned long long)) { + __PYX_VERIFY_RETURN_INT(long, unsigned long long, PyLong_AsUnsignedLongLong) } - return (PY_LONG_LONG)PyLong_AsUnsignedLongLong(x); } else { - return (PY_LONG_LONG)PyLong_AsLongLong(x); - } - } else { - PY_LONG_LONG val; - PyObject *tmp = __Pyx_PyNumber_Int(x); - if (!tmp) return (PY_LONG_LONG)-1; - val = __Pyx_PyInt_AsLongLong(tmp); - Py_DECREF(tmp); - return val; - } -} - -static CYTHON_INLINE signed long __Pyx_PyInt_AsSignedLong(PyObject* x) { - const signed long neg_one = (signed long)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; -#if PY_VERSION_HEX < 0x03000000 - if (likely(PyInt_Check(x))) { - long val = PyInt_AS_LONG(x); - if (is_unsigned && unlikely(val < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to signed long"); - return (signed long)-1; - } - return (signed long)val; - } else +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + if (sizeof(digit) <= sizeof(long)) { + switch (Py_SIZE(x)) { + case 0: return 0; + case 1: return +(long) ((PyLongObject*)x)->ob_digit[0]; + case -1: return -(long) ((PyLongObject*)x)->ob_digit[0]; + } + } + #endif #endif - if (likely(PyLong_Check(x))) { - if (is_unsigned) { - if (unlikely(Py_SIZE(x) < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to signed long"); - return (signed long)-1; + if (sizeof(long) <= sizeof(long)) { + __PYX_VERIFY_RETURN_INT(long, long, PyLong_AsLong) + } else if (sizeof(long) <= sizeof(long long)) { + __PYX_VERIFY_RETURN_INT(long, long long, PyLong_AsLongLong) } - return (signed long)PyLong_AsUnsignedLong(x); - } else { - return (signed long)PyLong_AsLong(x); - } - } else { - signed long val; - PyObject *tmp = __Pyx_PyNumber_Int(x); - if (!tmp) return (signed long)-1; - val = __Pyx_PyInt_AsSignedLong(tmp); - Py_DECREF(tmp); - return val; - } -} - -static CYTHON_INLINE signed PY_LONG_LONG __Pyx_PyInt_AsSignedLongLong(PyObject* x) { - const signed PY_LONG_LONG neg_one = (signed PY_LONG_LONG)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; -#if PY_VERSION_HEX < 0x03000000 - if (likely(PyInt_Check(x))) { - long val = PyInt_AS_LONG(x); - if (is_unsigned && unlikely(val < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to signed PY_LONG_LONG"); - return (signed PY_LONG_LONG)-1; } - return (signed PY_LONG_LONG)val; - } else -#endif - if (likely(PyLong_Check(x))) { - if (is_unsigned) { - if (unlikely(Py_SIZE(x) < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to signed PY_LONG_LONG"); - return (signed PY_LONG_LONG)-1; + { +#if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) + PyErr_SetString(PyExc_RuntimeError, + "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); +#else + long val; + PyObject *v = __Pyx_PyNumber_Int(x); + #if PY_MAJOR_VERSION < 3 + if (likely(v) && !PyLong_Check(v)) { + PyObject *tmp = v; + v = PyNumber_Long(tmp); + Py_DECREF(tmp); } - return (signed PY_LONG_LONG)PyLong_AsUnsignedLongLong(x); - } else { - return (signed PY_LONG_LONG)PyLong_AsLongLong(x); + #endif + if (likely(v)) { + int one = 1; int is_little = (int)*(unsigned char *)&one; + unsigned char *bytes = (unsigned char *)&val; + int ret = _PyLong_AsByteArray((PyLongObject *)v, + bytes, sizeof(val), + is_little, !is_unsigned); + Py_DECREF(v); + if (likely(!ret)) + return val; + } +#endif + return (long) -1; } } else { - signed PY_LONG_LONG val; + long val; PyObject *tmp = __Pyx_PyNumber_Int(x); - if (!tmp) return (signed PY_LONG_LONG)-1; - val = __Pyx_PyInt_AsSignedLongLong(tmp); + if (!tmp) return (long) -1; + val = __Pyx_PyInt_As_long(tmp); Py_DECREF(tmp); return val; } @@ -6259,6 +7084,10 @@ static PyTypeObject *__Pyx_ImportType(const char *module_name, const char *class PyObject *result = 0; PyObject *py_name = 0; char warning[200]; + Py_ssize_t basicsize; +#ifdef Py_LIMITED_API + PyObject *py_basicsize; +#endif py_module = __Pyx_ImportModule(module_name); if (!py_module) goto bad; @@ -6274,11 +7103,23 @@ static PyTypeObject *__Pyx_ImportType(const char *module_name, const char *class goto bad; if (!PyType_Check(result)) { PyErr_Format(PyExc_TypeError, - "%s.%s is not a type object", + "%.200s.%.200s is not a type object", module_name, class_name); goto bad; } - if (!strict && (size_t)((PyTypeObject *)result)->tp_basicsize > size) { +#ifndef Py_LIMITED_API + basicsize = ((PyTypeObject *)result)->tp_basicsize; +#else + py_basicsize = PyObject_GetAttrString(result, "__basicsize__"); + if (!py_basicsize) + goto bad; + basicsize = PyLong_AsSsize_t(py_basicsize); + Py_DECREF(py_basicsize); + py_basicsize = 0; + if (basicsize == (Py_ssize_t)-1 && PyErr_Occurred()) + goto bad; +#endif + if (!strict && (size_t)basicsize > size) { PyOS_snprintf(warning, sizeof(warning), "%s.%s size changed, may indicate binary incompatibility", module_name, class_name); @@ -6288,9 +7129,9 @@ static PyTypeObject *__Pyx_ImportType(const char *module_name, const char *class if (PyErr_WarnEx(NULL, warning, 0) < 0) goto bad; #endif } - else if ((size_t)((PyTypeObject *)result)->tp_basicsize != size) { + else if ((size_t)basicsize != size) { PyErr_Format(PyExc_ValueError, - "%s.%s has the wrong size, try recompiling", + "%.200s.%.200s has the wrong size, try recompiling", module_name, class_name); goto bad; } @@ -6494,27 +7335,90 @@ static int __Pyx_InitStrings(__Pyx_StringTabEntry *t) { return 0; } - -/* Type Conversion Functions */ - +static CYTHON_INLINE PyObject* __Pyx_PyUnicode_FromString(const char* c_str) { + return __Pyx_PyUnicode_FromStringAndSize(c_str, strlen(c_str)); +} +static CYTHON_INLINE char* __Pyx_PyObject_AsString(PyObject* o) { + Py_ssize_t ignore; + return __Pyx_PyObject_AsStringAndSize(o, &ignore); +} +static CYTHON_INLINE char* __Pyx_PyObject_AsStringAndSize(PyObject* o, Py_ssize_t *length) { +#if __PYX_DEFAULT_STRING_ENCODING_IS_ASCII || __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT + if ( +#if PY_MAJOR_VERSION < 3 && __PYX_DEFAULT_STRING_ENCODING_IS_ASCII + __Pyx_sys_getdefaultencoding_not_ascii && +#endif + PyUnicode_Check(o)) { +#if PY_VERSION_HEX < 0x03030000 + char* defenc_c; + PyObject* defenc = _PyUnicode_AsDefaultEncodedString(o, NULL); + if (!defenc) return NULL; + defenc_c = PyBytes_AS_STRING(defenc); +#if __PYX_DEFAULT_STRING_ENCODING_IS_ASCII + { + char* end = defenc_c + PyBytes_GET_SIZE(defenc); + char* c; + for (c = defenc_c; c < end; c++) { + if ((unsigned char) (*c) >= 128) { + PyUnicode_AsASCIIString(o); + return NULL; + } + } + } +#endif /*__PYX_DEFAULT_STRING_ENCODING_IS_ASCII*/ + *length = PyBytes_GET_SIZE(defenc); + return defenc_c; +#else /* PY_VERSION_HEX < 0x03030000 */ + if (PyUnicode_READY(o) == -1) return NULL; +#if __PYX_DEFAULT_STRING_ENCODING_IS_ASCII + if (PyUnicode_IS_ASCII(o)) { + *length = PyUnicode_GET_LENGTH(o); + return PyUnicode_AsUTF8(o); + } else { + PyUnicode_AsASCIIString(o); + return NULL; + } +#else /* __PYX_DEFAULT_STRING_ENCODING_IS_ASCII */ + return PyUnicode_AsUTF8AndSize(o, length); +#endif /* __PYX_DEFAULT_STRING_ENCODING_IS_ASCII */ +#endif /* PY_VERSION_HEX < 0x03030000 */ + } else +#endif /* __PYX_DEFAULT_STRING_ENCODING_IS_ASCII || __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT */ +#if !CYTHON_COMPILING_IN_PYPY +#if PY_VERSION_HEX >= 0x02060000 + if (PyByteArray_Check(o)) { + *length = PyByteArray_GET_SIZE(o); + return PyByteArray_AS_STRING(o); + } else +#endif +#endif + { + char* result; + int r = PyBytes_AsStringAndSize(o, &result, length); + if (unlikely(r < 0)) { + return NULL; + } else { + return result; + } + } +} static CYTHON_INLINE int __Pyx_PyObject_IsTrue(PyObject* x) { int is_true = x == Py_True; if (is_true | (x == Py_False) | (x == Py_None)) return is_true; else return PyObject_IsTrue(x); } - static CYTHON_INLINE PyObject* __Pyx_PyNumber_Int(PyObject* x) { PyNumberMethods *m; const char *name = NULL; PyObject *res = NULL; -#if PY_VERSION_HEX < 0x03000000 +#if PY_MAJOR_VERSION < 3 if (PyInt_Check(x) || PyLong_Check(x)) #else if (PyLong_Check(x)) #endif return Py_INCREF(x), x; m = Py_TYPE(x)->tp_as_number; -#if PY_VERSION_HEX < 0x03000000 +#if PY_MAJOR_VERSION < 3 if (m && m->nb_int) { name = "int"; res = PyNumber_Int(x); @@ -6530,13 +7434,13 @@ static CYTHON_INLINE PyObject* __Pyx_PyNumber_Int(PyObject* x) { } #endif if (res) { -#if PY_VERSION_HEX < 0x03000000 +#if PY_MAJOR_VERSION < 3 if (!PyInt_Check(res) && !PyLong_Check(res)) { #else if (!PyLong_Check(res)) { #endif PyErr_Format(PyExc_TypeError, - "__%s__ returned non-%s (type %.200s)", + "__%.4s__ returned non-%.4s (type %.200s)", name, name, Py_TYPE(res)->tp_name); Py_DECREF(res); return NULL; @@ -6548,16 +7452,40 @@ static CYTHON_INLINE PyObject* __Pyx_PyNumber_Int(PyObject* x) { } return res; } - +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + #include "longintrepr.h" + #endif +#endif static CYTHON_INLINE Py_ssize_t __Pyx_PyIndex_AsSsize_t(PyObject* b) { Py_ssize_t ival; - PyObject* x = PyNumber_Index(b); + PyObject *x; +#if PY_MAJOR_VERSION < 3 + if (likely(PyInt_CheckExact(b))) + return PyInt_AS_LONG(b); +#endif + if (likely(PyLong_CheckExact(b))) { + #if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + switch (Py_SIZE(b)) { + case -1: return -(sdigit)((PyLongObject*)b)->ob_digit[0]; + case 0: return 0; + case 1: return ((PyLongObject*)b)->ob_digit[0]; + } + #endif + #endif + #if PY_VERSION_HEX < 0x02060000 + return PyInt_AsSsize_t(b); + #else + return PyLong_AsSsize_t(b); + #endif + } + x = PyNumber_Index(b); if (!x) return -1; ival = PyInt_AsSsize_t(x); Py_DECREF(x); return ival; } - static CYTHON_INLINE PyObject * __Pyx_PyInt_FromSize_t(size_t ival) { #if PY_VERSION_HEX < 0x02050000 if (ival <= LONG_MAX) @@ -6572,17 +7500,5 @@ static CYTHON_INLINE PyObject * __Pyx_PyInt_FromSize_t(size_t ival) { #endif } -static CYTHON_INLINE size_t __Pyx_PyInt_AsSize_t(PyObject* x) { - unsigned PY_LONG_LONG val = __Pyx_PyInt_AsUnsignedLongLong(x); - if (unlikely(val == (unsigned PY_LONG_LONG)-1 && PyErr_Occurred())) { - return (size_t)-1; - } else if (unlikely(val != (unsigned PY_LONG_LONG)(size_t)val)) { - PyErr_SetString(PyExc_OverflowError, - "value too large to convert to size_t"); - return (size_t)-1; - } - return (size_t)val; -} - #endif /* Py_PYTHON_H */ diff --git a/nipy/labs/group/twosample.pyx b/nipy/labs/group/twosample.pyx index bf186df11c..21932fe351 100644 --- a/nipy/labs/group/twosample.pyx +++ b/nipy/labs/group/twosample.pyx @@ -11,6 +11,7 @@ __version__ = '0.1' # Includes from fff cimport * +include "fffpy_import_lapack.pxi" # Exports from fff_twosample_stat.h cdef extern from "fff_twosample_stat.h": @@ -49,7 +50,7 @@ cdef extern from "fff_twosample_stat.h": fffpy_import_array() import_array() import numpy as np - +fffpy_import_lapack() # Stat dictionary stats = {'student': FFF_TWOSAMPLE_STUDENT, diff --git a/nipy/labs/setup.py b/nipy/labs/setup.py index 108116d8a9..84fdeafdb6 100644 --- a/nipy/labs/setup.py +++ b/nipy/labs/setup.py @@ -6,11 +6,6 @@ # Global variables LIBS = os.path.realpath('lib') -# The following variable disables linking with Lapack by default. So -# far, the only way to attempt at linking with Lapack is to edit this -# file and set WANT_LAPACK_LINKING=True. We might later want to pass -# in this variable as an optional argument of `python setup.py build`. -WANT_LAPACK_LINKING = False def configuration(parent_package='',top_path=None): from numpy.distutils.misc_util import Configuration, get_numpy_include_dirs @@ -26,57 +21,7 @@ def configuration(parent_package='',top_path=None): sources = [os.path.join(LIBS,'fff','*.c')] sources.append(os.path.join(LIBS,'fff_python_wrapper','*.c')) - # Link with lapack if found on the system - - # XXX: We need to better sort out the use of get_info() for Lapack, because - # using 'lapack' and 'lapack_opt' returns different things even comparing - # Ubuntu 8.10 machines on 32 vs 64 bit setups. On OSX - # get_info('lapack_opt') does not return the keys: 'libraries' and - # 'library_dirs', but get_info('lapack') does. - # - # For now this code should do the right thing on OSX and linux, but we - # should ask on the numpy list for clarification on the proper approach. - - # XXX: If you modify these lines, remember to pass the information - # along to the different .so in the neurospin build system. - # First, try 'lapack_info', as that seems to provide more details on Linux - # (both 32 and 64 bits): - lapack_info = get_info('lapack_opt', 0) - if 'libraries' not in lapack_info: - # But on OSX that may not give us what we need, so try with 'lapack' - # instead. NOTE: scipy.linalg uses lapack_opt, not 'lapack'... - lapack_info = get_info('lapack', 0) - - # If lapack linking not required or no lapack install is found, we - # use the rescue lapack lite distribution included in the package - # (sources have been translated to C using f2c) - if not WANT_LAPACK_LINKING or not lapack_info: - if WANT_LAPACK_LINKING: - log.warn('Lapack not found') - log.warn('Building Lapack lite distribution') - sources.append(os.path.join(LIBS,'lapack_lite','*.c')) - library_dirs = [] - libraries = [] - - # Best-case scenario: lapack found - else: - log.warn('Linking with system Lapack') - library_dirs = lapack_info['library_dirs'] - libraries = lapack_info['libraries'] - if 'include_dirs' in lapack_info: - config.add_include_dirs(lapack_info['include_dirs']) - - # Information message - print('LAPACK build options:') - print('library_dirs: %s ' % library_dirs) - print('libraries: %s ' % libraries) - print('lapack_info: %s ' % lapack_info) - - config.add_library('cstat', - sources=sources, - library_dirs=library_dirs, - libraries=libraries, - extra_info=lapack_info) + config.add_library('cstat', sources=sources) # Subpackages config.add_subpackage('bindings') diff --git a/nipy/labs/utils/routines.c b/nipy/labs/utils/routines.c index c5bda003d9..06f2230dd7 100644 --- a/nipy/labs/utils/routines.c +++ b/nipy/labs/utils/routines.c @@ -1,6675 +1 @@ -/* Generated by Cython 0.15.1 on Thu Dec 12 09:03:03 2013 */ - -#define PY_SSIZE_T_CLEAN -#include "Python.h" -#ifndef Py_PYTHON_H - #error Python headers needed to compile C extensions, please install development version of Python. -#else - -#include /* For offsetof */ -#ifndef offsetof -#define offsetof(type, member) ( (size_t) & ((type*)0) -> member ) -#endif - -#if !defined(WIN32) && !defined(MS_WINDOWS) - #ifndef __stdcall - #define __stdcall - #endif - #ifndef __cdecl - #define __cdecl - #endif - #ifndef __fastcall - #define __fastcall - #endif -#endif - -#ifndef DL_IMPORT - #define DL_IMPORT(t) t -#endif -#ifndef DL_EXPORT - #define DL_EXPORT(t) t -#endif - -#ifndef PY_LONG_LONG - #define PY_LONG_LONG LONG_LONG -#endif - -#if PY_VERSION_HEX < 0x02040000 - #define METH_COEXIST 0 - #define PyDict_CheckExact(op) (Py_TYPE(op) == &PyDict_Type) - #define PyDict_Contains(d,o) PySequence_Contains(d,o) -#endif - -#if PY_VERSION_HEX < 0x02050000 - typedef int Py_ssize_t; 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"" : "s", num_found); -} - -static void __Pyx_RaiseDoubleKeywordsError( - const char* func_name, - PyObject* kw_name) -{ - PyErr_Format(PyExc_TypeError, - #if PY_MAJOR_VERSION >= 3 - "%s() got multiple values for keyword argument '%U'", func_name, kw_name); - #else - "%s() got multiple values for keyword argument '%s'", func_name, - PyString_AS_STRING(kw_name)); - #endif -} - -static int __Pyx_ParseOptionalKeywords( - PyObject *kwds, - PyObject **argnames[], - PyObject *kwds2, - PyObject *values[], - Py_ssize_t num_pos_args, - const char* function_name) -{ - PyObject *key = 0, *value = 0; - Py_ssize_t pos = 0; - PyObject*** name; - PyObject*** first_kw_arg = argnames + num_pos_args; - - while (PyDict_Next(kwds, &pos, &key, &value)) { - name = first_kw_arg; - while (*name && (**name != key)) name++; - if (*name) { - values[name-argnames] = value; - } else { - #if PY_MAJOR_VERSION < 3 - if (unlikely(!PyString_CheckExact(key)) && unlikely(!PyString_Check(key))) { - #else - if (unlikely(!PyUnicode_CheckExact(key)) && unlikely(!PyUnicode_Check(key))) { - #endif - goto invalid_keyword_type; - } else { - for (name = first_kw_arg; *name; name++) { - #if PY_MAJOR_VERSION >= 3 - if (PyUnicode_GET_SIZE(**name) == PyUnicode_GET_SIZE(key) && - PyUnicode_Compare(**name, key) == 0) break; - #else - if (PyString_GET_SIZE(**name) == PyString_GET_SIZE(key) && - _PyString_Eq(**name, key)) break; - #endif - } - if (*name) { - values[name-argnames] = value; - } else { - /* unexpected keyword found */ - for (name=argnames; name != first_kw_arg; name++) { - if (**name == key) goto arg_passed_twice; - #if PY_MAJOR_VERSION >= 3 - if (PyUnicode_GET_SIZE(**name) == PyUnicode_GET_SIZE(key) && - PyUnicode_Compare(**name, key) == 0) goto arg_passed_twice; - #else - if (PyString_GET_SIZE(**name) == PyString_GET_SIZE(key) && - _PyString_Eq(**name, key)) goto arg_passed_twice; - #endif - } - if (kwds2) { - if (unlikely(PyDict_SetItem(kwds2, key, value))) goto bad; - } else { - goto invalid_keyword; - } - } - } - } - } - return 0; -arg_passed_twice: - __Pyx_RaiseDoubleKeywordsError(function_name, **name); - goto bad; -invalid_keyword_type: - PyErr_Format(PyExc_TypeError, - "%s() keywords must be strings", function_name); - goto bad; -invalid_keyword: - PyErr_Format(PyExc_TypeError, - #if PY_MAJOR_VERSION < 3 - "%s() got an unexpected keyword argument '%s'", - function_name, PyString_AsString(key)); - #else - "%s() got an unexpected keyword argument '%U'", - function_name, key); - #endif -bad: - return -1; -} - - - -static CYTHON_INLINE void __Pyx_ErrRestore(PyObject *type, PyObject *value, PyObject *tb) { - PyObject *tmp_type, *tmp_value, *tmp_tb; - PyThreadState *tstate = PyThreadState_GET(); - - tmp_type = tstate->curexc_type; - tmp_value = tstate->curexc_value; - tmp_tb = tstate->curexc_traceback; - tstate->curexc_type = type; - tstate->curexc_value = value; - tstate->curexc_traceback = tb; - Py_XDECREF(tmp_type); - Py_XDECREF(tmp_value); - Py_XDECREF(tmp_tb); -} - -static CYTHON_INLINE void __Pyx_ErrFetch(PyObject **type, PyObject **value, PyObject **tb) { - PyThreadState *tstate = PyThreadState_GET(); - *type = tstate->curexc_type; - *value = tstate->curexc_value; - *tb = tstate->curexc_traceback; - - tstate->curexc_type = 0; - tstate->curexc_value = 0; - tstate->curexc_traceback = 0; -} - - -#if PY_MAJOR_VERSION < 3 -static void __Pyx_Raise(PyObject *type, PyObject *value, PyObject *tb, PyObject *cause) { - /* cause is unused */ - Py_XINCREF(type); - Py_XINCREF(value); - Py_XINCREF(tb); - /* First, check the traceback argument, replacing None with NULL. */ - if (tb == Py_None) { - Py_DECREF(tb); - tb = 0; - } - else if (tb != NULL && !PyTraceBack_Check(tb)) { - PyErr_SetString(PyExc_TypeError, - "raise: arg 3 must be a traceback or None"); - goto raise_error; - } - /* Next, replace a missing value with None */ - if (value == NULL) { - value = Py_None; - Py_INCREF(value); - } - #if PY_VERSION_HEX < 0x02050000 - if (!PyClass_Check(type)) - #else - if (!PyType_Check(type)) - #endif - { - /* Raising an instance. 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"" : "s"); -} - -static CYTHON_INLINE void __Pyx_RaiseTooManyValuesError(Py_ssize_t expected) { - PyErr_Format(PyExc_ValueError, - "too many values to unpack (expected %"PY_FORMAT_SIZE_T"d)", expected); -} - -static CYTHON_INLINE void __Pyx_RaiseNoneNotIterableError(void) { - PyErr_SetString(PyExc_TypeError, "'NoneType' object is not iterable"); -} - -static void __Pyx_UnpackTupleError(PyObject *t, Py_ssize_t index) { - if (t == Py_None) { - __Pyx_RaiseNoneNotIterableError(); - } else if (PyTuple_GET_SIZE(t) < index) { - __Pyx_RaiseNeedMoreValuesError(PyTuple_GET_SIZE(t)); - } else { - __Pyx_RaiseTooManyValuesError(index); - } -} - -static CYTHON_INLINE int __Pyx_TypeTest(PyObject *obj, PyTypeObject *type) { - if (unlikely(!type)) { - PyErr_Format(PyExc_SystemError, "Missing type object"); - return 0; - } - if (likely(PyObject_TypeCheck(obj, type))) - return 1; - PyErr_Format(PyExc_TypeError, "Cannot convert %.200s to %.200s", - Py_TYPE(obj)->tp_name, type->tp_name); - return 0; -} - -static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, long level) { - PyObject *py_import = 0; - PyObject *empty_list = 0; - PyObject *module = 0; - PyObject *global_dict = 0; - PyObject *empty_dict = 0; - PyObject *list; - py_import = __Pyx_GetAttrString(__pyx_b, "__import__"); - if (!py_import) - goto bad; - if (from_list) - list = from_list; - else { - empty_list = PyList_New(0); - if (!empty_list) - goto bad; - list = empty_list; - } - global_dict = PyModule_GetDict(__pyx_m); - if (!global_dict) - goto bad; - empty_dict = PyDict_New(); - if (!empty_dict) - goto bad; - #if PY_VERSION_HEX >= 0x02050000 - { - PyObject *py_level = PyInt_FromLong(level); - if (!py_level) - goto bad; - module = PyObject_CallFunctionObjArgs(py_import, - name, global_dict, empty_dict, list, py_level, NULL); - Py_DECREF(py_level); - } - #else - if (level>0) { - PyErr_SetString(PyExc_RuntimeError, "Relative import is not supported for Python <=2.4."); - goto bad; - } - module = PyObject_CallFunctionObjArgs(py_import, - name, global_dict, empty_dict, list, NULL); - #endif -bad: - Py_XDECREF(empty_list); - Py_XDECREF(py_import); - Py_XDECREF(empty_dict); - return module; -} - -#if CYTHON_CCOMPLEX - #ifdef __cplusplus - static CYTHON_INLINE __pyx_t_float_complex __pyx_t_float_complex_from_parts(float x, float y) { - return ::std::complex< float >(x, y); - } - #else - static CYTHON_INLINE __pyx_t_float_complex __pyx_t_float_complex_from_parts(float x, float y) { - return x + y*(__pyx_t_float_complex)_Complex_I; - } - #endif -#else - static CYTHON_INLINE __pyx_t_float_complex __pyx_t_float_complex_from_parts(float x, float y) { - __pyx_t_float_complex z; - z.real = x; - z.imag = y; - return z; - } -#endif - -#if CYTHON_CCOMPLEX -#else - static CYTHON_INLINE int __Pyx_c_eqf(__pyx_t_float_complex a, __pyx_t_float_complex b) { - return (a.real == b.real) && (a.imag == b.imag); - } - static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_sumf(__pyx_t_float_complex a, __pyx_t_float_complex b) { - __pyx_t_float_complex z; - z.real = a.real + b.real; - z.imag = a.imag + b.imag; - return z; - } - static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_difff(__pyx_t_float_complex a, __pyx_t_float_complex b) { - __pyx_t_float_complex z; - z.real = a.real - b.real; - z.imag = a.imag - b.imag; - return z; - } - static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_prodf(__pyx_t_float_complex a, __pyx_t_float_complex b) { - __pyx_t_float_complex z; - z.real = a.real * b.real - a.imag * b.imag; - z.imag = a.real * b.imag + a.imag * b.real; - return z; - } - static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_quotf(__pyx_t_float_complex a, __pyx_t_float_complex b) { - __pyx_t_float_complex z; - float denom = b.real * b.real + b.imag * b.imag; - z.real = (a.real * b.real + a.imag * b.imag) / denom; - z.imag = (a.imag * b.real - a.real * b.imag) / denom; - return z; - } - static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_negf(__pyx_t_float_complex a) { - __pyx_t_float_complex z; - z.real = -a.real; - z.imag = -a.imag; - return z; - } - static CYTHON_INLINE int __Pyx_c_is_zerof(__pyx_t_float_complex a) { - return (a.real == 0) && (a.imag == 0); - } - static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_conjf(__pyx_t_float_complex a) { - __pyx_t_float_complex z; - z.real = a.real; - z.imag = -a.imag; - return z; - } - #if 1 - static CYTHON_INLINE float __Pyx_c_absf(__pyx_t_float_complex z) { - #if !defined(HAVE_HYPOT) || defined(_MSC_VER) - return sqrtf(z.real*z.real + z.imag*z.imag); - #else - return hypotf(z.real, z.imag); - #endif - } - static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_powf(__pyx_t_float_complex a, __pyx_t_float_complex b) { - __pyx_t_float_complex z; - float r, lnr, theta, z_r, z_theta; - if (b.imag == 0 && b.real == (int)b.real) { - if (b.real < 0) { - float denom = a.real * a.real + a.imag * a.imag; - a.real = a.real / denom; - a.imag = -a.imag / denom; - b.real = -b.real; - } - switch ((int)b.real) { - case 0: - z.real = 1; - z.imag = 0; - return z; - case 1: - return a; - case 2: - z = __Pyx_c_prodf(a, a); - return __Pyx_c_prodf(a, a); - case 3: - z = __Pyx_c_prodf(a, a); - return __Pyx_c_prodf(z, a); - case 4: - z = __Pyx_c_prodf(a, a); - return __Pyx_c_prodf(z, z); - } - } - if (a.imag == 0) { - if (a.real == 0) { - return a; - } - r = a.real; - theta = 0; - } else { - r = __Pyx_c_absf(a); - theta = atan2f(a.imag, a.real); - } - lnr = logf(r); - z_r = expf(lnr * b.real - theta * b.imag); - z_theta = theta * b.real + lnr * b.imag; - z.real = z_r * cosf(z_theta); - z.imag = z_r * sinf(z_theta); - return z; - } - #endif -#endif - -#if CYTHON_CCOMPLEX - #ifdef __cplusplus - static CYTHON_INLINE __pyx_t_double_complex __pyx_t_double_complex_from_parts(double x, double y) { - return ::std::complex< double >(x, y); - } - #else - static CYTHON_INLINE __pyx_t_double_complex __pyx_t_double_complex_from_parts(double x, double y) { - return x + y*(__pyx_t_double_complex)_Complex_I; - } - #endif -#else - static CYTHON_INLINE __pyx_t_double_complex __pyx_t_double_complex_from_parts(double x, double y) { - __pyx_t_double_complex z; - z.real = x; - z.imag = y; - return z; - } -#endif - -#if CYTHON_CCOMPLEX -#else - static CYTHON_INLINE int __Pyx_c_eq(__pyx_t_double_complex a, __pyx_t_double_complex b) { - return (a.real == b.real) && (a.imag == b.imag); - } - static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_sum(__pyx_t_double_complex a, __pyx_t_double_complex b) { - __pyx_t_double_complex z; - z.real = a.real + b.real; - z.imag = a.imag + b.imag; - return z; - } - static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_diff(__pyx_t_double_complex a, __pyx_t_double_complex b) { - __pyx_t_double_complex z; - z.real = a.real - b.real; - z.imag = a.imag - b.imag; - return z; - } - static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_prod(__pyx_t_double_complex a, __pyx_t_double_complex b) { - __pyx_t_double_complex z; - z.real = a.real * b.real - a.imag * b.imag; - z.imag = a.real * b.imag + a.imag * b.real; - return z; - } - static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_quot(__pyx_t_double_complex a, __pyx_t_double_complex b) { - __pyx_t_double_complex z; - double denom = b.real * b.real + b.imag * b.imag; - z.real = (a.real * b.real + a.imag * b.imag) / denom; - z.imag = (a.imag * b.real - a.real * b.imag) / denom; - return z; - } - static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_neg(__pyx_t_double_complex a) { - __pyx_t_double_complex z; - z.real = -a.real; - z.imag = -a.imag; - return z; - } - static CYTHON_INLINE int __Pyx_c_is_zero(__pyx_t_double_complex a) { - return (a.real == 0) && (a.imag == 0); - } - static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_conj(__pyx_t_double_complex a) { - __pyx_t_double_complex z; - z.real = a.real; - z.imag = -a.imag; - return z; - } - #if 1 - static CYTHON_INLINE double __Pyx_c_abs(__pyx_t_double_complex z) { - #if !defined(HAVE_HYPOT) || defined(_MSC_VER) - return sqrt(z.real*z.real + z.imag*z.imag); - #else - return hypot(z.real, z.imag); - #endif - } - static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_pow(__pyx_t_double_complex a, __pyx_t_double_complex b) { - __pyx_t_double_complex z; - double r, lnr, theta, z_r, z_theta; - if (b.imag == 0 && b.real == (int)b.real) { - if (b.real < 0) { - double denom = a.real * a.real + a.imag * a.imag; - a.real = a.real / denom; - a.imag = -a.imag / denom; - b.real = -b.real; - } - switch ((int)b.real) { - case 0: - z.real = 1; - z.imag = 0; - return z; - case 1: - return a; - case 2: - z = __Pyx_c_prod(a, a); - return __Pyx_c_prod(a, a); - case 3: - z = __Pyx_c_prod(a, a); - return __Pyx_c_prod(z, a); - case 4: - z = __Pyx_c_prod(a, a); - return __Pyx_c_prod(z, z); - } - } - if (a.imag == 0) { - if (a.real == 0) { - return a; - } - r = a.real; - theta = 0; - } else { - r = __Pyx_c_abs(a); - theta = atan2(a.imag, a.real); - } - lnr = log(r); - z_r = exp(lnr * b.real - theta * b.imag); - z_theta = theta * b.real + lnr * b.imag; - z.real = z_r * cos(z_theta); - z.imag = z_r * sin(z_theta); - return z; - } - #endif -#endif - -static CYTHON_INLINE unsigned char __Pyx_PyInt_AsUnsignedChar(PyObject* x) { - const unsigned char neg_one = (unsigned char)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(unsigned char) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(unsigned char)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to unsigned char" : - "value too large to convert to unsigned char"); - } - return (unsigned char)-1; - } - return (unsigned char)val; - } - return (unsigned char)__Pyx_PyInt_AsUnsignedLong(x); -} - -static CYTHON_INLINE unsigned short __Pyx_PyInt_AsUnsignedShort(PyObject* x) { - const unsigned short neg_one = (unsigned short)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(unsigned short) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(unsigned short)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to unsigned short" : - "value too large to convert to unsigned short"); - } - return (unsigned short)-1; - } - return (unsigned short)val; - } - return (unsigned short)__Pyx_PyInt_AsUnsignedLong(x); -} - -static CYTHON_INLINE unsigned int __Pyx_PyInt_AsUnsignedInt(PyObject* x) { - const unsigned int neg_one = (unsigned int)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(unsigned int) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(unsigned int)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to unsigned int" : - "value too large to convert to unsigned int"); - } - return (unsigned int)-1; - } - return (unsigned int)val; - } - return (unsigned int)__Pyx_PyInt_AsUnsignedLong(x); -} - -static CYTHON_INLINE char __Pyx_PyInt_AsChar(PyObject* x) { - const char neg_one = (char)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(char) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(char)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to char" : - "value too large to convert to char"); - } - return (char)-1; - } - return (char)val; - } - return (char)__Pyx_PyInt_AsLong(x); -} - -static CYTHON_INLINE short __Pyx_PyInt_AsShort(PyObject* x) { - const short neg_one = (short)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(short) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(short)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to short" : - "value too large to convert to short"); - } - return (short)-1; - } - return (short)val; - } - return (short)__Pyx_PyInt_AsLong(x); -} - -static CYTHON_INLINE int __Pyx_PyInt_AsInt(PyObject* x) { - const int neg_one = (int)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(int) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(int)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to int" : - "value too large to convert to int"); - } - return (int)-1; - } - return (int)val; - } - return (int)__Pyx_PyInt_AsLong(x); -} - -static CYTHON_INLINE signed char __Pyx_PyInt_AsSignedChar(PyObject* x) { - const signed char neg_one = (signed char)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(signed char) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(signed char)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to signed char" : - "value too large to convert to signed char"); - } - return (signed char)-1; - } - return (signed char)val; - } - return (signed char)__Pyx_PyInt_AsSignedLong(x); -} - -static CYTHON_INLINE signed short __Pyx_PyInt_AsSignedShort(PyObject* x) { - const signed short neg_one = (signed short)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(signed short) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(signed short)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to signed short" : - "value too large to convert to signed short"); - } - return (signed short)-1; - } - return (signed short)val; - } - return (signed short)__Pyx_PyInt_AsSignedLong(x); -} - -static CYTHON_INLINE signed int __Pyx_PyInt_AsSignedInt(PyObject* x) { - const signed int neg_one = (signed int)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(signed int) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(signed int)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to signed int" : - "value too large to convert to signed int"); - } - return (signed int)-1; - } - return (signed int)val; - } - return (signed int)__Pyx_PyInt_AsSignedLong(x); -} - -static CYTHON_INLINE int __Pyx_PyInt_AsLongDouble(PyObject* x) { - const int neg_one = (int)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; - if (sizeof(int) < sizeof(long)) { - long val = __Pyx_PyInt_AsLong(x); - if (unlikely(val != (long)(int)val)) { - if (!unlikely(val == -1 && PyErr_Occurred())) { - PyErr_SetString(PyExc_OverflowError, - (is_unsigned && unlikely(val < 0)) ? - "can't convert negative value to int" : - "value too large to convert to int"); - } - return (int)-1; - } - return (int)val; - } - return (int)__Pyx_PyInt_AsLong(x); -} - -static CYTHON_INLINE unsigned long __Pyx_PyInt_AsUnsignedLong(PyObject* x) { - const unsigned long neg_one = (unsigned long)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; -#if PY_VERSION_HEX < 0x03000000 - if (likely(PyInt_Check(x))) { - long val = PyInt_AS_LONG(x); - if (is_unsigned && unlikely(val < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to unsigned long"); - return (unsigned long)-1; - } - return (unsigned long)val; - } else -#endif - if (likely(PyLong_Check(x))) { - if (is_unsigned) { - if (unlikely(Py_SIZE(x) < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to unsigned long"); - return (unsigned long)-1; - } - return (unsigned long)PyLong_AsUnsignedLong(x); - } else { - return (unsigned long)PyLong_AsLong(x); - } - } else { - unsigned long val; - PyObject *tmp = __Pyx_PyNumber_Int(x); - if (!tmp) return (unsigned long)-1; - val = __Pyx_PyInt_AsUnsignedLong(tmp); - Py_DECREF(tmp); - return val; - } -} - -static CYTHON_INLINE unsigned PY_LONG_LONG __Pyx_PyInt_AsUnsignedLongLong(PyObject* x) { - const unsigned PY_LONG_LONG neg_one = (unsigned PY_LONG_LONG)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; -#if PY_VERSION_HEX < 0x03000000 - if (likely(PyInt_Check(x))) { - long val = PyInt_AS_LONG(x); - if (is_unsigned && unlikely(val < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to unsigned PY_LONG_LONG"); - return (unsigned PY_LONG_LONG)-1; - } - return (unsigned PY_LONG_LONG)val; - } else -#endif - if (likely(PyLong_Check(x))) { - if (is_unsigned) { - if (unlikely(Py_SIZE(x) < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to unsigned PY_LONG_LONG"); - return (unsigned PY_LONG_LONG)-1; - } - return (unsigned PY_LONG_LONG)PyLong_AsUnsignedLongLong(x); - } else { - return (unsigned PY_LONG_LONG)PyLong_AsLongLong(x); - } - } else { - unsigned PY_LONG_LONG val; - PyObject *tmp = __Pyx_PyNumber_Int(x); - if (!tmp) return (unsigned PY_LONG_LONG)-1; - val = __Pyx_PyInt_AsUnsignedLongLong(tmp); - Py_DECREF(tmp); - return val; - } -} - -static CYTHON_INLINE long __Pyx_PyInt_AsLong(PyObject* x) { - const long neg_one = (long)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; -#if PY_VERSION_HEX < 0x03000000 - if (likely(PyInt_Check(x))) { - long val = PyInt_AS_LONG(x); - if (is_unsigned && unlikely(val < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to long"); - return (long)-1; - } - return (long)val; - } else -#endif - if (likely(PyLong_Check(x))) { - if (is_unsigned) { - if (unlikely(Py_SIZE(x) < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to long"); - return (long)-1; - } - return (long)PyLong_AsUnsignedLong(x); - } else { - return (long)PyLong_AsLong(x); - } - } else { - long val; - PyObject *tmp = __Pyx_PyNumber_Int(x); - if (!tmp) return (long)-1; - val = __Pyx_PyInt_AsLong(tmp); - Py_DECREF(tmp); - return val; - } -} - -static CYTHON_INLINE PY_LONG_LONG __Pyx_PyInt_AsLongLong(PyObject* x) { - const PY_LONG_LONG neg_one = (PY_LONG_LONG)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; -#if PY_VERSION_HEX < 0x03000000 - if (likely(PyInt_Check(x))) { - long val = PyInt_AS_LONG(x); - if (is_unsigned && unlikely(val < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to PY_LONG_LONG"); - return (PY_LONG_LONG)-1; - } - return (PY_LONG_LONG)val; - } else -#endif - if (likely(PyLong_Check(x))) { - if (is_unsigned) { - if (unlikely(Py_SIZE(x) < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to PY_LONG_LONG"); - return (PY_LONG_LONG)-1; - } - return (PY_LONG_LONG)PyLong_AsUnsignedLongLong(x); - } else { - return (PY_LONG_LONG)PyLong_AsLongLong(x); - } - } else { - PY_LONG_LONG val; - PyObject *tmp = __Pyx_PyNumber_Int(x); - if (!tmp) return (PY_LONG_LONG)-1; - val = __Pyx_PyInt_AsLongLong(tmp); - Py_DECREF(tmp); - return val; - } -} - -static CYTHON_INLINE signed long __Pyx_PyInt_AsSignedLong(PyObject* x) { - const signed long neg_one = (signed long)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; -#if PY_VERSION_HEX < 0x03000000 - if (likely(PyInt_Check(x))) { - long val = PyInt_AS_LONG(x); - if (is_unsigned && unlikely(val < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to signed long"); - return (signed long)-1; - } - return (signed long)val; - } else -#endif - if (likely(PyLong_Check(x))) { - if (is_unsigned) { - if (unlikely(Py_SIZE(x) < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to signed long"); - return (signed long)-1; - } - return (signed long)PyLong_AsUnsignedLong(x); - } else { - return (signed long)PyLong_AsLong(x); - } - } else { - signed long val; - PyObject *tmp = __Pyx_PyNumber_Int(x); - if (!tmp) return (signed long)-1; - val = __Pyx_PyInt_AsSignedLong(tmp); - Py_DECREF(tmp); - return val; - } -} - -static CYTHON_INLINE signed PY_LONG_LONG __Pyx_PyInt_AsSignedLongLong(PyObject* x) { - const signed PY_LONG_LONG neg_one = (signed PY_LONG_LONG)-1, const_zero = 0; - const int is_unsigned = neg_one > const_zero; -#if PY_VERSION_HEX < 0x03000000 - if (likely(PyInt_Check(x))) { - long val = PyInt_AS_LONG(x); - if (is_unsigned && unlikely(val < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to signed PY_LONG_LONG"); - return (signed PY_LONG_LONG)-1; - } - return (signed PY_LONG_LONG)val; - } else -#endif - if (likely(PyLong_Check(x))) { - if (is_unsigned) { - if (unlikely(Py_SIZE(x) < 0)) { - PyErr_SetString(PyExc_OverflowError, - "can't convert negative value to signed PY_LONG_LONG"); - return (signed PY_LONG_LONG)-1; - } - return (signed PY_LONG_LONG)PyLong_AsUnsignedLongLong(x); - } else { - return (signed PY_LONG_LONG)PyLong_AsLongLong(x); - } - } else { - signed PY_LONG_LONG val; - PyObject *tmp = __Pyx_PyNumber_Int(x); - if (!tmp) return (signed PY_LONG_LONG)-1; - val = __Pyx_PyInt_AsSignedLongLong(tmp); - Py_DECREF(tmp); - return val; - } -} - -static int __Pyx_check_binary_version(void) { - char ctversion[4], rtversion[4]; - PyOS_snprintf(ctversion, 4, "%d.%d", PY_MAJOR_VERSION, PY_MINOR_VERSION); - PyOS_snprintf(rtversion, 4, "%s", Py_GetVersion()); - if (ctversion[0] != rtversion[0] || ctversion[2] != rtversion[2]) { - char message[200]; - PyOS_snprintf(message, sizeof(message), - "compiletime version %s of module '%.100s' " - "does not match runtime version %s", - ctversion, __Pyx_MODULE_NAME, rtversion); - #if PY_VERSION_HEX < 0x02050000 - return PyErr_Warn(NULL, message); - #else - return PyErr_WarnEx(NULL, message, 1); - #endif - } - return 0; -} - -#ifndef __PYX_HAVE_RT_ImportType -#define __PYX_HAVE_RT_ImportType -static PyTypeObject *__Pyx_ImportType(const char *module_name, const char *class_name, - size_t size, int strict) -{ - PyObject *py_module = 0; - PyObject *result = 0; - PyObject *py_name = 0; - char warning[200]; - - py_module = __Pyx_ImportModule(module_name); - if (!py_module) - goto bad; - #if PY_MAJOR_VERSION < 3 - py_name = PyString_FromString(class_name); - #else - py_name = PyUnicode_FromString(class_name); - #endif - if (!py_name) - goto bad; - result = PyObject_GetAttr(py_module, py_name); - Py_DECREF(py_name); - py_name = 0; - Py_DECREF(py_module); - py_module = 0; - if (!result) - goto bad; - if (!PyType_Check(result)) { - PyErr_Format(PyExc_TypeError, - "%s.%s is not a type object", - module_name, class_name); - goto bad; - } - if (!strict && ((PyTypeObject *)result)->tp_basicsize > (Py_ssize_t)size) { - PyOS_snprintf(warning, sizeof(warning), - "%s.%s size changed, may indicate binary incompatibility", - module_name, class_name); - #if PY_VERSION_HEX < 0x02050000 - if (PyErr_Warn(NULL, warning) < 0) goto bad; - #else - if (PyErr_WarnEx(NULL, warning, 0) < 0) goto bad; - #endif - } - else if (((PyTypeObject *)result)->tp_basicsize != (Py_ssize_t)size) { - PyErr_Format(PyExc_ValueError, - "%s.%s has the wrong size, try recompiling", - module_name, class_name); - goto bad; - } - return (PyTypeObject *)result; -bad: - Py_XDECREF(py_module); - Py_XDECREF(result); - return NULL; -} -#endif - -#ifndef __PYX_HAVE_RT_ImportModule -#define __PYX_HAVE_RT_ImportModule -static PyObject *__Pyx_ImportModule(const char *name) { - PyObject *py_name = 0; - PyObject *py_module = 0; - - #if PY_MAJOR_VERSION < 3 - py_name = PyString_FromString(name); - #else - py_name = PyUnicode_FromString(name); - #endif - if (!py_name) - goto bad; - py_module = PyImport_Import(py_name); - Py_DECREF(py_name); - return py_module; -bad: - Py_XDECREF(py_name); - return 0; -} -#endif - -#include "compile.h" -#include "frameobject.h" -#include "traceback.h" - -static void __Pyx_AddTraceback(const char *funcname, int __pyx_clineno, - int __pyx_lineno, const char *__pyx_filename) { - PyObject *py_srcfile = 0; - PyObject *py_funcname = 0; - PyObject *py_globals = 0; - PyCodeObject *py_code = 0; - PyFrameObject *py_frame = 0; - - #if PY_MAJOR_VERSION < 3 - py_srcfile = PyString_FromString(__pyx_filename); - #else - py_srcfile = PyUnicode_FromString(__pyx_filename); - #endif - if (!py_srcfile) goto bad; - if (__pyx_clineno) { - #if PY_MAJOR_VERSION < 3 - py_funcname = PyString_FromFormat( "%s (%s:%d)", funcname, __pyx_cfilenm, __pyx_clineno); - #else - py_funcname = PyUnicode_FromFormat( "%s (%s:%d)", funcname, __pyx_cfilenm, __pyx_clineno); - #endif - } - else { - #if PY_MAJOR_VERSION < 3 - py_funcname = PyString_FromString(funcname); - #else - py_funcname = PyUnicode_FromString(funcname); - #endif - } - if (!py_funcname) goto bad; - py_globals = PyModule_GetDict(__pyx_m); - if (!py_globals) goto bad; - py_code = PyCode_New( - 0, /*int argcount,*/ - #if PY_MAJOR_VERSION >= 3 - 0, /*int kwonlyargcount,*/ - #endif - 0, /*int nlocals,*/ - 0, /*int stacksize,*/ - 0, /*int flags,*/ - __pyx_empty_bytes, /*PyObject *code,*/ - __pyx_empty_tuple, /*PyObject *consts,*/ - __pyx_empty_tuple, /*PyObject *names,*/ - __pyx_empty_tuple, /*PyObject *varnames,*/ - __pyx_empty_tuple, /*PyObject *freevars,*/ - __pyx_empty_tuple, /*PyObject *cellvars,*/ - py_srcfile, /*PyObject *filename,*/ - py_funcname, /*PyObject *name,*/ - __pyx_lineno, /*int firstlineno,*/ - __pyx_empty_bytes /*PyObject *lnotab*/ - ); - if (!py_code) goto bad; - py_frame = PyFrame_New( - PyThreadState_GET(), /*PyThreadState *tstate,*/ - py_code, /*PyCodeObject *code,*/ - py_globals, /*PyObject *globals,*/ - 0 /*PyObject *locals*/ - ); - if (!py_frame) goto bad; - py_frame->f_lineno = __pyx_lineno; - PyTraceBack_Here(py_frame); -bad: - Py_XDECREF(py_srcfile); - Py_XDECREF(py_funcname); - Py_XDECREF(py_code); - Py_XDECREF(py_frame); -} - -static int __Pyx_InitStrings(__Pyx_StringTabEntry *t) { - while (t->p) { - #if PY_MAJOR_VERSION < 3 - if (t->is_unicode) { - *t->p = PyUnicode_DecodeUTF8(t->s, t->n - 1, NULL); - } else if (t->intern) { - *t->p = PyString_InternFromString(t->s); - } else { - *t->p = PyString_FromStringAndSize(t->s, t->n - 1); - } - #else /* Python 3+ has unicode identifiers */ - if (t->is_unicode | t->is_str) { - if (t->intern) { - *t->p = PyUnicode_InternFromString(t->s); - } else if (t->encoding) { - *t->p = PyUnicode_Decode(t->s, t->n - 1, t->encoding, NULL); - } else { - *t->p = PyUnicode_FromStringAndSize(t->s, t->n - 1); - } - } else { - *t->p = PyBytes_FromStringAndSize(t->s, t->n - 1); - } - #endif - if (!*t->p) - return -1; - ++t; - } - return 0; -} - -/* Type Conversion Functions */ - -static CYTHON_INLINE int __Pyx_PyObject_IsTrue(PyObject* x) { - int is_true = x == Py_True; - if (is_true | (x == Py_False) | (x == Py_None)) return is_true; - else return PyObject_IsTrue(x); -} - -static CYTHON_INLINE PyObject* __Pyx_PyNumber_Int(PyObject* x) { - PyNumberMethods *m; - const char *name = NULL; - PyObject *res = NULL; -#if PY_VERSION_HEX < 0x03000000 - if (PyInt_Check(x) || PyLong_Check(x)) -#else - if (PyLong_Check(x)) -#endif - return Py_INCREF(x), x; - m = Py_TYPE(x)->tp_as_number; -#if PY_VERSION_HEX < 0x03000000 - if (m && m->nb_int) { - name = "int"; - res = PyNumber_Int(x); - } - else if (m && m->nb_long) { - name = "long"; - res = PyNumber_Long(x); - } -#else - if (m && m->nb_int) { - name = "int"; - res = PyNumber_Long(x); - } -#endif - if (res) { -#if PY_VERSION_HEX < 0x03000000 - if (!PyInt_Check(res) && !PyLong_Check(res)) { -#else - if (!PyLong_Check(res)) { -#endif - PyErr_Format(PyExc_TypeError, - "__%s__ returned non-%s (type %.200s)", - name, name, Py_TYPE(res)->tp_name); - Py_DECREF(res); - return NULL; - } - } - else if (!PyErr_Occurred()) { - PyErr_SetString(PyExc_TypeError, - "an integer is required"); - } - return res; -} - -static CYTHON_INLINE Py_ssize_t __Pyx_PyIndex_AsSsize_t(PyObject* b) { - Py_ssize_t ival; - PyObject* x = PyNumber_Index(b); - if (!x) return -1; - ival = PyInt_AsSsize_t(x); - Py_DECREF(x); - return ival; -} - -static CYTHON_INLINE PyObject * __Pyx_PyInt_FromSize_t(size_t ival) { -#if PY_VERSION_HEX < 0x02050000 - if (ival <= LONG_MAX) - return PyInt_FromLong((long)ival); - else { - unsigned char *bytes = (unsigned char *) &ival; - int one = 1; int little = (int)*(unsigned char*)&one; - return _PyLong_FromByteArray(bytes, sizeof(size_t), little, 0); - } -#else - return PyInt_FromSize_t(ival); -#endif -} - -static CYTHON_INLINE size_t __Pyx_PyInt_AsSize_t(PyObject* x) { - unsigned PY_LONG_LONG val = __Pyx_PyInt_AsUnsignedLongLong(x); - if (unlikely(val == (unsigned PY_LONG_LONG)-1 && PyErr_Occurred())) { - return (size_t)-1; - } else if (unlikely(val != (unsigned PY_LONG_LONG)(size_t)val)) { - PyErr_SetString(PyExc_OverflowError, - "value too large to convert to size_t"); - return (size_t)-1; - } - return (size_t)val; -} - - -#endif /* Py_PYTHON_H */ +#error Do not use this file, it is the result of a failed Cython compilation. diff --git a/nipy/labs/utils/routines.pyx b/nipy/labs/utils/routines.pyx index aaef5f40e3..6569d7c6ce 100644 --- a/nipy/labs/utils/routines.pyx +++ b/nipy/labs/utils/routines.pyx @@ -12,6 +12,7 @@ __version__ = '0.1' from fff cimport * cimport numpy as cnp from warnings import warn +include "fffpy_import_lapack.pxi" warn('Module nipy.labs.utils.routines deprecated, will be removed', FutureWarning, @@ -20,7 +21,7 @@ warn('Module nipy.labs.utils.routines deprecated, will be removed', # Exports from fff_gen_stats.h cdef extern from "fff_gen_stats.h": - double fff_mahalanobis(fff_vector* x, fff_matrix* S, fff_matrix* Saux) + double fff_mahalanobis(fff_vector* x, fff_matrix* S, fff_vector* xaux, fff_vector* Saux) void fff_permutation(unsigned int* x, unsigned int n, unsigned long int magic) void fff_combination(unsigned int* x, unsigned int k, unsigned int n, @@ -44,6 +45,7 @@ cdef extern from "fff_lapack.h": fffpy_import_array() cnp.import_array() import numpy as np +fffpy_import_lapack() # This is faster than scipy.stats.scoreatpercentile due to partial # sorting @@ -98,7 +100,11 @@ def mahalanobis(X, VX): axis == 0 assumed. If X is shaped (d,K), VX must be shaped (d,d,K). """ - cdef fff_vector *x, *vx, *x_tmp, *vx_tmp, *d2 + cdef fff_vector *x + cdef fff_vector *vx + cdef fff_vector *x_tmp + cdef fff_vector *vx_tmp + cdef fff_vector *d2 cdef fff_matrix Sx cdef fff_matrix *Sx_tmp cdef fffpy_multi_iterator* multi @@ -129,10 +135,9 @@ def mahalanobis(X, VX): # Loop while(multi.index < multi.size): - fff_vector_memcpy(x_tmp, x) fff_vector_memcpy(vx_tmp, vx) Sx = fff_matrix_view(vx_tmp.data, n, n, n) # OK because vx_tmp is contiguous - d2.data[0] = fff_mahalanobis(x_tmp, &Sx, Sx_tmp) + d2.data[0] = fff_mahalanobis(x, &Sx, x_tmp, Sx_tmp) fffpy_multi_iterator_update(multi) # Delete local structs and views @@ -248,7 +253,7 @@ def permutations(unsigned int n, unsigned int m=1, unsigned long magic=0): P = fff_array_toPyArray(p) return P - + def combinations(unsigned int k, unsigned int n, unsigned int m=1, unsigned long magic=0): """ diff --git a/nipy/labs/utils/setup.py b/nipy/labs/utils/setup.py index 93bd0ad617..a4bd45eba9 100644 --- a/nipy/labs/utils/setup.py +++ b/nipy/labs/utils/setup.py @@ -3,23 +3,11 @@ def configuration(parent_package='', top_path=None): from numpy.distutils.misc_util import Configuration - # We need this because libcstat.a is linked to lapack, which can - # be a fortran library, and the linker needs this information. - from numpy.distutils.system_info import get_info - lapack_info = get_info('lapack_opt', 0) - if 'libraries' not in lapack_info: - # But on OSX that may not give us what we need, so try with 'lapack' - # instead. NOTE: scipy.linalg uses lapack_opt, not 'lapack'... - lapack_info = get_info('lapack', 0) - config = Configuration('utils', parent_package, top_path) config.add_subpackage('tests') - config.add_extension( - 'routines', - sources=['routines.pyx'], - libraries=['cstat'], - extra_info=lapack_info, - ) + config.add_extension('routines', + sources=['routines.pyx'], + libraries=['cstat']) return config diff --git a/nipy/labs/utils/tests/test_misc.py b/nipy/labs/utils/tests/test_misc.py index 4d912f0e02..9b76e946fc 100644 --- a/nipy/labs/utils/tests/test_misc.py +++ b/nipy/labs/utils/tests/test_misc.py @@ -23,12 +23,20 @@ def test_median3(self): x = np.random.rand(10, 30, 11) assert_almost_equal(np.squeeze(median(x,axis=1)), np.median(x,axis=1)) - def test_mahalanobis(self): - x = np.random.rand(100) / 100 - A = np.random.rand(100, 100) / 100 + def test_mahalanobis0(self): + x = np.ones(100) + A = np.eye(100) + mah = 100. + f_mah = mahalanobis(x, A) + assert_almost_equal(mah, f_mah, decimal=1) + + def test_mahalanobis1(self): + x = np.random.rand(100) + A = np.random.rand(100, 100) A = np.dot(A.transpose(), A) + np.eye(100) mah = np.dot(x, np.dot(np.linalg.inv(A), x)) - assert_almost_equal(mah, mahalanobis(x, A), decimal=1) + f_mah = mahalanobis(x, A) + assert_almost_equal(mah, f_mah, decimal=1) def test_mahalanobis2(self): x = np.random.rand(100,3,4) @@ -43,7 +51,7 @@ def test_mahalanobis2(self): mah = np.dot(x[:,i,j], np.dot(np.linalg.inv(Aa[:,:,i,j]), x[:,i,j])) f_mah = (mahalanobis(x, Aa))[i,j] assert_true(np.allclose(mah, f_mah)) - + def test_gamln(self): for x in (0.01+100*np.random.random(50)): scipy_gamln = special.gammaln(x) From cbb35e593f4b2294014e3bbc4b500820217b1917 Mon Sep 17 00:00:00 2001 From: Alexis Roche Date: Mon, 30 Mar 2015 11:07:48 +0200 Subject: [PATCH 2/3] fix wrong declaration in cython file --- lib/fff/fff_gen_stats.c | 2 +- lib/fff/fff_gen_stats.h | 2 +- nipy/labs/utils/routines.c | 8694 +++++++++++++++++++++++++++++++++- nipy/labs/utils/routines.pyx | 21 +- 4 files changed, 8710 insertions(+), 9 deletions(-) diff --git a/lib/fff/fff_gen_stats.c b/lib/fff/fff_gen_stats.c index 6a258b473c..d24acd42e7 100644 --- a/lib/fff/fff_gen_stats.c +++ b/lib/fff/fff_gen_stats.c @@ -103,7 +103,7 @@ extern void fff_combination(unsigned int* x, unsigned int k, unsigned int n, uns Squared mahalanobis distance: d2 = x' S^-1 x Beware: x is not const */ -extern double fff_mahalanobis(fff_vector* x, fff_matrix* S, fff_vector* xaux, fff_vector* Saux) +extern double fff_mahalanobis(fff_vector* x, fff_matrix* S, fff_vector* xaux, fff_matrix* Saux) { double d2; diff --git a/lib/fff/fff_gen_stats.h b/lib/fff/fff_gen_stats.h index d9dbb2535f..d1e3e44f52 100644 --- a/lib/fff/fff_gen_stats.h +++ b/lib/fff/fff_gen_stats.h @@ -31,7 +31,7 @@ extern "C" { \f$ where \a L is lower triangular, and then exploits the fact that \f$ d^2 = \| L^{-1}x \|^2 \f$. */ - extern double fff_mahalanobis(fff_vector* x, fff_matrix* S, fff_vector* xaux, fff_vector* Saux); + extern double fff_mahalanobis(fff_vector* x, fff_matrix* S, fff_vector* xaux, fff_matrix* Saux); /* \brief Generate a permutation from \a [0..n-1] diff --git a/nipy/labs/utils/routines.c b/nipy/labs/utils/routines.c index 06f2230dd7..95b8cd3284 100644 --- a/nipy/labs/utils/routines.c +++ b/nipy/labs/utils/routines.c @@ -1 +1,8693 @@ -#error Do not use this file, it is the result of a failed Cython compilation. +/* Generated by Cython 0.20.1post0 (Debian 0.20.1+git90-g0e6e38e-1ubuntu2) on Mon Mar 30 10:46:35 2015 */ + +#define PY_SSIZE_T_CLEAN +#ifndef CYTHON_USE_PYLONG_INTERNALS +#ifdef PYLONG_BITS_IN_DIGIT +#define CYTHON_USE_PYLONG_INTERNALS 0 +#else +#include "pyconfig.h" +#ifdef PYLONG_BITS_IN_DIGIT +#define CYTHON_USE_PYLONG_INTERNALS 1 +#else +#define CYTHON_USE_PYLONG_INTERNALS 0 +#endif +#endif +#endif +#include "Python.h" +#ifndef Py_PYTHON_H + #error Python headers needed to compile C extensions, please install development version of Python. +#elif PY_VERSION_HEX < 0x02040000 + #error Cython requires Python 2.4+. +#else +#define CYTHON_ABI "0_20_1post0" +#include /* For offsetof */ +#ifndef offsetof +#define offsetof(type, member) ( (size_t) & ((type*)0) -> member ) +#endif +#if !defined(WIN32) && !defined(MS_WINDOWS) + #ifndef __stdcall + #define __stdcall + #endif + #ifndef __cdecl + #define __cdecl + #endif + #ifndef __fastcall + #define __fastcall + #endif +#endif +#ifndef DL_IMPORT + #define DL_IMPORT(t) t +#endif +#ifndef DL_EXPORT + #define DL_EXPORT(t) t +#endif +#ifndef PY_LONG_LONG + #define PY_LONG_LONG LONG_LONG +#endif +#ifndef Py_HUGE_VAL + #define Py_HUGE_VAL HUGE_VAL +#endif +#ifdef PYPY_VERSION +#define CYTHON_COMPILING_IN_PYPY 1 +#define CYTHON_COMPILING_IN_CPYTHON 0 +#else +#define CYTHON_COMPILING_IN_PYPY 0 +#define CYTHON_COMPILING_IN_CPYTHON 1 +#endif +#if CYTHON_COMPILING_IN_PYPY +#define Py_OptimizeFlag 0 +#endif +#if PY_VERSION_HEX < 0x02050000 + typedef int Py_ssize_t; + #define PY_SSIZE_T_MAX INT_MAX + #define PY_SSIZE_T_MIN INT_MIN + #define PY_FORMAT_SIZE_T "" + #define CYTHON_FORMAT_SSIZE_T "" + #define PyInt_FromSsize_t(z) PyInt_FromLong(z) + #define PyInt_AsSsize_t(o) __Pyx_PyInt_As_int(o) + #define PyNumber_Index(o) ((PyNumber_Check(o) && !PyFloat_Check(o)) ? PyNumber_Int(o) : \ + (PyErr_Format(PyExc_TypeError, \ + "expected index value, got %.200s", Py_TYPE(o)->tp_name), \ + (PyObject*)0)) + #define __Pyx_PyIndex_Check(o) (PyNumber_Check(o) && !PyFloat_Check(o) && \ + !PyComplex_Check(o)) + #define PyIndex_Check __Pyx_PyIndex_Check + #define PyErr_WarnEx(category, message, stacklevel) PyErr_Warn(category, message) + #define __PYX_BUILD_PY_SSIZE_T "i" +#else + #define __PYX_BUILD_PY_SSIZE_T "n" + #define CYTHON_FORMAT_SSIZE_T "z" + #define __Pyx_PyIndex_Check PyIndex_Check +#endif +#if PY_VERSION_HEX < 0x02060000 + #define Py_REFCNT(ob) (((PyObject*)(ob))->ob_refcnt) + #define Py_TYPE(ob) (((PyObject*)(ob))->ob_type) + #define Py_SIZE(ob) (((PyVarObject*)(ob))->ob_size) + #define PyVarObject_HEAD_INIT(type, size) \ + PyObject_HEAD_INIT(type) size, + #define PyType_Modified(t) + typedef struct { + void *buf; + PyObject *obj; + Py_ssize_t len; + Py_ssize_t itemsize; + int readonly; + int ndim; + char *format; + Py_ssize_t *shape; + Py_ssize_t *strides; + Py_ssize_t *suboffsets; + void *internal; + } Py_buffer; + #define PyBUF_SIMPLE 0 + #define PyBUF_WRITABLE 0x0001 + #define PyBUF_FORMAT 0x0004 + #define PyBUF_ND 0x0008 + #define PyBUF_STRIDES (0x0010 | PyBUF_ND) + #define PyBUF_C_CONTIGUOUS (0x0020 | PyBUF_STRIDES) + #define PyBUF_F_CONTIGUOUS (0x0040 | PyBUF_STRIDES) + #define PyBUF_ANY_CONTIGUOUS (0x0080 | PyBUF_STRIDES) + #define PyBUF_INDIRECT (0x0100 | PyBUF_STRIDES) + #define PyBUF_RECORDS (PyBUF_STRIDES | PyBUF_FORMAT | PyBUF_WRITABLE) + #define PyBUF_FULL (PyBUF_INDIRECT | PyBUF_FORMAT | PyBUF_WRITABLE) + typedef int (*getbufferproc)(PyObject *, Py_buffer *, int); + typedef void (*releasebufferproc)(PyObject *, Py_buffer *); +#endif +#if PY_MAJOR_VERSION < 3 + #define __Pyx_BUILTIN_MODULE_NAME "__builtin__" + #define __Pyx_PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) \ + PyCode_New(a+k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) + #define __Pyx_DefaultClassType PyClass_Type +#else + #define __Pyx_BUILTIN_MODULE_NAME "builtins" + #define __Pyx_PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) \ + PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) + #define __Pyx_DefaultClassType PyType_Type +#endif +#if PY_VERSION_HEX < 0x02060000 + #define PyUnicode_FromString(s) PyUnicode_Decode(s, strlen(s), "UTF-8", "strict") +#endif +#if PY_MAJOR_VERSION >= 3 + #define Py_TPFLAGS_CHECKTYPES 0 + #define Py_TPFLAGS_HAVE_INDEX 0 +#endif +#if (PY_VERSION_HEX < 0x02060000) || (PY_MAJOR_VERSION >= 3) + #define Py_TPFLAGS_HAVE_NEWBUFFER 0 +#endif +#if PY_VERSION_HEX < 0x02060000 + #define Py_TPFLAGS_HAVE_VERSION_TAG 0 +#endif +#if PY_VERSION_HEX < 0x02060000 && !defined(Py_TPFLAGS_IS_ABSTRACT) + #define Py_TPFLAGS_IS_ABSTRACT 0 +#endif +#if PY_VERSION_HEX < 0x030400a1 && !defined(Py_TPFLAGS_HAVE_FINALIZE) + #define Py_TPFLAGS_HAVE_FINALIZE 0 +#endif +#if PY_VERSION_HEX > 0x03030000 && defined(PyUnicode_KIND) + #define CYTHON_PEP393_ENABLED 1 + #define __Pyx_PyUnicode_READY(op) (likely(PyUnicode_IS_READY(op)) ? \ + 0 : _PyUnicode_Ready((PyObject *)(op))) + #define __Pyx_PyUnicode_GET_LENGTH(u) PyUnicode_GET_LENGTH(u) + #define __Pyx_PyUnicode_READ_CHAR(u, i) PyUnicode_READ_CHAR(u, i) + #define __Pyx_PyUnicode_KIND(u) PyUnicode_KIND(u) + #define __Pyx_PyUnicode_DATA(u) PyUnicode_DATA(u) + #define __Pyx_PyUnicode_READ(k, d, i) PyUnicode_READ(k, d, i) +#else + #define CYTHON_PEP393_ENABLED 0 + #define __Pyx_PyUnicode_READY(op) (0) + #define __Pyx_PyUnicode_GET_LENGTH(u) PyUnicode_GET_SIZE(u) + #define __Pyx_PyUnicode_READ_CHAR(u, i) ((Py_UCS4)(PyUnicode_AS_UNICODE(u)[i])) + #define __Pyx_PyUnicode_KIND(u) (sizeof(Py_UNICODE)) + #define __Pyx_PyUnicode_DATA(u) ((void*)PyUnicode_AS_UNICODE(u)) + #define __Pyx_PyUnicode_READ(k, d, i) ((void)(k), (Py_UCS4)(((Py_UNICODE*)d)[i])) +#endif +#if CYTHON_COMPILING_IN_PYPY + #define __Pyx_PyUnicode_Concat(a, b) PyNumber_Add(a, b) + #define __Pyx_PyUnicode_ConcatSafe(a, b) PyNumber_Add(a, b) +#else + #define __Pyx_PyUnicode_Concat(a, b) PyUnicode_Concat(a, b) + #define __Pyx_PyUnicode_ConcatSafe(a, b) ((unlikely((a) == Py_None) || unlikely((b) == Py_None)) ? \ + PyNumber_Add(a, b) : __Pyx_PyUnicode_Concat(a, b)) +#endif +#define __Pyx_PyString_FormatSafe(a, b) ((unlikely((a) == Py_None)) ? PyNumber_Remainder(a, b) : __Pyx_PyString_Format(a, b)) +#define __Pyx_PyUnicode_FormatSafe(a, b) ((unlikely((a) == Py_None)) ? PyNumber_Remainder(a, b) : PyUnicode_Format(a, b)) +#if PY_MAJOR_VERSION >= 3 + #define __Pyx_PyString_Format(a, b) PyUnicode_Format(a, b) +#else + #define __Pyx_PyString_Format(a, b) PyString_Format(a, b) +#endif +#if PY_MAJOR_VERSION >= 3 + #define PyBaseString_Type PyUnicode_Type + #define PyStringObject PyUnicodeObject + #define PyString_Type PyUnicode_Type + #define PyString_Check PyUnicode_Check + #define PyString_CheckExact PyUnicode_CheckExact +#endif +#if PY_VERSION_HEX < 0x02060000 + #define PyBytesObject PyStringObject + #define PyBytes_Type PyString_Type + #define PyBytes_Check PyString_Check + #define PyBytes_CheckExact PyString_CheckExact + #define PyBytes_FromString PyString_FromString + #define PyBytes_FromStringAndSize PyString_FromStringAndSize + #define PyBytes_FromFormat PyString_FromFormat + #define PyBytes_DecodeEscape PyString_DecodeEscape + #define PyBytes_AsString PyString_AsString + #define PyBytes_AsStringAndSize PyString_AsStringAndSize + #define PyBytes_Size PyString_Size + #define PyBytes_AS_STRING PyString_AS_STRING + #define PyBytes_GET_SIZE PyString_GET_SIZE + #define PyBytes_Repr PyString_Repr + #define PyBytes_Concat PyString_Concat + #define PyBytes_ConcatAndDel PyString_ConcatAndDel +#endif +#if PY_MAJOR_VERSION >= 3 + #define __Pyx_PyBaseString_Check(obj) PyUnicode_Check(obj) + #define __Pyx_PyBaseString_CheckExact(obj) PyUnicode_CheckExact(obj) +#else + #define __Pyx_PyBaseString_Check(obj) (PyString_CheckExact(obj) || PyUnicode_CheckExact(obj) || \ + PyString_Check(obj) || PyUnicode_Check(obj)) + #define __Pyx_PyBaseString_CheckExact(obj) (PyString_CheckExact(obj) || PyUnicode_CheckExact(obj)) +#endif +#if PY_VERSION_HEX < 0x02060000 + #define PySet_Check(obj) PyObject_TypeCheck(obj, &PySet_Type) + #define PyFrozenSet_Check(obj) PyObject_TypeCheck(obj, &PyFrozenSet_Type) +#endif +#ifndef PySet_CheckExact + #define PySet_CheckExact(obj) (Py_TYPE(obj) == &PySet_Type) +#endif +#define __Pyx_TypeCheck(obj, type) PyObject_TypeCheck(obj, (PyTypeObject *)type) +#if PY_MAJOR_VERSION >= 3 + #define PyIntObject PyLongObject + #define PyInt_Type PyLong_Type + #define PyInt_Check(op) PyLong_Check(op) + #define PyInt_CheckExact(op) PyLong_CheckExact(op) + #define PyInt_FromString PyLong_FromString + #define PyInt_FromUnicode PyLong_FromUnicode + #define PyInt_FromLong PyLong_FromLong + #define PyInt_FromSize_t PyLong_FromSize_t + #define PyInt_FromSsize_t PyLong_FromSsize_t + #define PyInt_AsLong PyLong_AsLong + #define PyInt_AS_LONG PyLong_AS_LONG + #define PyInt_AsSsize_t PyLong_AsSsize_t + #define PyInt_AsUnsignedLongMask PyLong_AsUnsignedLongMask + #define PyInt_AsUnsignedLongLongMask PyLong_AsUnsignedLongLongMask + #define PyNumber_Int PyNumber_Long +#endif +#if PY_MAJOR_VERSION >= 3 + #define PyBoolObject PyLongObject +#endif +#if PY_VERSION_HEX < 0x030200A4 + typedef long Py_hash_t; + #define __Pyx_PyInt_FromHash_t PyInt_FromLong + #define __Pyx_PyInt_AsHash_t PyInt_AsLong +#else + #define __Pyx_PyInt_FromHash_t PyInt_FromSsize_t + #define __Pyx_PyInt_AsHash_t PyInt_AsSsize_t +#endif +#if (PY_MAJOR_VERSION < 3) || (PY_VERSION_HEX >= 0x03010300) + #define __Pyx_PySequence_GetSlice(obj, a, b) PySequence_GetSlice(obj, a, b) + #define __Pyx_PySequence_SetSlice(obj, a, b, value) PySequence_SetSlice(obj, a, b, value) + #define __Pyx_PySequence_DelSlice(obj, a, b) PySequence_DelSlice(obj, a, b) +#else + #define __Pyx_PySequence_GetSlice(obj, a, b) (unlikely(!(obj)) ? \ + (PyErr_SetString(PyExc_SystemError, "null argument to internal routine"), (PyObject*)0) : \ + (likely((obj)->ob_type->tp_as_mapping) ? (PySequence_GetSlice(obj, a, b)) : \ + (PyErr_Format(PyExc_TypeError, "'%.200s' object is unsliceable", (obj)->ob_type->tp_name), (PyObject*)0))) + #define __Pyx_PySequence_SetSlice(obj, a, b, value) (unlikely(!(obj)) ? \ + (PyErr_SetString(PyExc_SystemError, "null argument to internal routine"), -1) : \ + (likely((obj)->ob_type->tp_as_mapping) ? (PySequence_SetSlice(obj, a, b, value)) : \ + (PyErr_Format(PyExc_TypeError, "'%.200s' object doesn't support slice assignment", (obj)->ob_type->tp_name), -1))) + #define __Pyx_PySequence_DelSlice(obj, a, b) (unlikely(!(obj)) ? \ + (PyErr_SetString(PyExc_SystemError, "null argument to internal routine"), -1) : \ + (likely((obj)->ob_type->tp_as_mapping) ? (PySequence_DelSlice(obj, a, b)) : \ + (PyErr_Format(PyExc_TypeError, "'%.200s' object doesn't support slice deletion", (obj)->ob_type->tp_name), -1))) +#endif +#if PY_MAJOR_VERSION >= 3 + #define PyMethod_New(func, self, klass) ((self) ? PyMethod_New(func, self) : PyInstanceMethod_New(func)) +#endif +#if PY_VERSION_HEX < 0x02050000 + #define __Pyx_GetAttrString(o,n) PyObject_GetAttrString((o),((char *)(n))) + #define __Pyx_SetAttrString(o,n,a) PyObject_SetAttrString((o),((char *)(n)),(a)) + #define __Pyx_DelAttrString(o,n) PyObject_DelAttrString((o),((char *)(n))) +#else + #define __Pyx_GetAttrString(o,n) PyObject_GetAttrString((o),(n)) + #define __Pyx_SetAttrString(o,n,a) PyObject_SetAttrString((o),(n),(a)) + #define __Pyx_DelAttrString(o,n) PyObject_DelAttrString((o),(n)) +#endif +#if PY_VERSION_HEX < 0x02050000 + #define __Pyx_NAMESTR(n) ((char *)(n)) + #define __Pyx_DOCSTR(n) ((char *)(n)) +#else + #define __Pyx_NAMESTR(n) (n) + #define __Pyx_DOCSTR(n) (n) +#endif +#ifndef CYTHON_INLINE + #if defined(__GNUC__) + #define CYTHON_INLINE __inline__ + #elif defined(_MSC_VER) + #define CYTHON_INLINE __inline + #elif defined (__STDC_VERSION__) && __STDC_VERSION__ >= 199901L + #define CYTHON_INLINE inline + #else + #define CYTHON_INLINE + #endif +#endif +#ifndef CYTHON_RESTRICT + #if defined(__GNUC__) + #define CYTHON_RESTRICT __restrict__ + #elif defined(_MSC_VER) && _MSC_VER >= 1400 + #define CYTHON_RESTRICT __restrict + #elif defined (__STDC_VERSION__) && __STDC_VERSION__ >= 199901L + #define CYTHON_RESTRICT restrict + #else + #define CYTHON_RESTRICT + #endif +#endif +#ifdef NAN +#define __PYX_NAN() ((float) NAN) +#else +static CYTHON_INLINE float __PYX_NAN() { + /* Initialize NaN. The sign is irrelevant, an exponent with all bits 1 and + a nonzero mantissa means NaN. If the first bit in the mantissa is 1, it is + a quiet NaN. */ + float value; + memset(&value, 0xFF, sizeof(value)); + return value; +} +#endif +#ifdef __cplusplus +template +void __Pyx_call_destructor(T* x) { + x->~T(); +} +#endif + + +#if PY_MAJOR_VERSION >= 3 + #define __Pyx_PyNumber_Divide(x,y) PyNumber_TrueDivide(x,y) + #define __Pyx_PyNumber_InPlaceDivide(x,y) PyNumber_InPlaceTrueDivide(x,y) +#else + #define __Pyx_PyNumber_Divide(x,y) PyNumber_Divide(x,y) + #define __Pyx_PyNumber_InPlaceDivide(x,y) PyNumber_InPlaceDivide(x,y) +#endif + +#ifndef __PYX_EXTERN_C + #ifdef __cplusplus + #define __PYX_EXTERN_C extern "C" + #else + #define __PYX_EXTERN_C extern + #endif +#endif + +#if defined(WIN32) || defined(MS_WINDOWS) +#define _USE_MATH_DEFINES +#endif +#include +#define __PYX_HAVE__nipy__labs__utils__routines +#define __PYX_HAVE_API__nipy__labs__utils__routines +#include "string.h" +#include "stdio.h" +#include "stdlib.h" +#include "numpy/arrayobject.h" +#include "numpy/ufuncobject.h" +#include "fff_base.h" +#include "fff_vector.h" +#include "fff_matrix.h" +#include "fff_array.h" +#include "fffpy.h" +#include "fff_gen_stats.h" +#include "fff_specfun.h" +#include "fff_lapack.h" +#ifdef _OPENMP +#include +#endif /* _OPENMP */ + +#ifdef PYREX_WITHOUT_ASSERTIONS +#define CYTHON_WITHOUT_ASSERTIONS +#endif + +#ifndef CYTHON_UNUSED +# if defined(__GNUC__) +# if !(defined(__cplusplus)) || (__GNUC__ > 3 || (__GNUC__ == 3 && __GNUC_MINOR__ >= 4)) +# define CYTHON_UNUSED __attribute__ ((__unused__)) +# else +# define CYTHON_UNUSED +# endif +# elif defined(__ICC) || (defined(__INTEL_COMPILER) && !defined(_MSC_VER)) +# define CYTHON_UNUSED __attribute__ ((__unused__)) +# else +# define CYTHON_UNUSED +# endif +#endif +typedef struct {PyObject **p; char *s; const Py_ssize_t n; const char* encoding; + const char is_unicode; const char is_str; const char intern; } __Pyx_StringTabEntry; /*proto*/ + +#define __PYX_DEFAULT_STRING_ENCODING_IS_ASCII 0 +#define __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT 0 +#define __PYX_DEFAULT_STRING_ENCODING "" +#define __Pyx_PyObject_FromString __Pyx_PyBytes_FromString +#define __Pyx_PyObject_FromStringAndSize __Pyx_PyBytes_FromStringAndSize +#define __Pyx_fits_Py_ssize_t(v, type, is_signed) ( \ + (sizeof(type) < sizeof(Py_ssize_t)) || \ + (sizeof(type) > sizeof(Py_ssize_t) && \ + likely(v < (type)PY_SSIZE_T_MAX || \ + v == (type)PY_SSIZE_T_MAX) && \ + (!is_signed || likely(v > (type)PY_SSIZE_T_MIN || \ + v == (type)PY_SSIZE_T_MIN))) || \ + (sizeof(type) == sizeof(Py_ssize_t) && \ + (is_signed || likely(v < (type)PY_SSIZE_T_MAX || \ + v == (type)PY_SSIZE_T_MAX))) ) +static CYTHON_INLINE char* __Pyx_PyObject_AsString(PyObject*); +static CYTHON_INLINE char* __Pyx_PyObject_AsStringAndSize(PyObject*, Py_ssize_t* length); +#define __Pyx_PyByteArray_FromString(s) PyByteArray_FromStringAndSize((const char*)s, strlen((const char*)s)) +#define __Pyx_PyByteArray_FromStringAndSize(s, l) PyByteArray_FromStringAndSize((const char*)s, l) +#define __Pyx_PyBytes_FromString PyBytes_FromString +#define __Pyx_PyBytes_FromStringAndSize PyBytes_FromStringAndSize +static CYTHON_INLINE PyObject* __Pyx_PyUnicode_FromString(const char*); +#if PY_MAJOR_VERSION < 3 + #define __Pyx_PyStr_FromString __Pyx_PyBytes_FromString + #define __Pyx_PyStr_FromStringAndSize __Pyx_PyBytes_FromStringAndSize +#else + #define __Pyx_PyStr_FromString __Pyx_PyUnicode_FromString + #define __Pyx_PyStr_FromStringAndSize __Pyx_PyUnicode_FromStringAndSize +#endif +#define __Pyx_PyObject_AsSString(s) ((signed char*) __Pyx_PyObject_AsString(s)) +#define __Pyx_PyObject_AsUString(s) ((unsigned char*) __Pyx_PyObject_AsString(s)) +#define __Pyx_PyObject_FromUString(s) __Pyx_PyObject_FromString((const char*)s) +#define __Pyx_PyBytes_FromUString(s) __Pyx_PyBytes_FromString((const char*)s) +#define __Pyx_PyByteArray_FromUString(s) __Pyx_PyByteArray_FromString((const char*)s) +#define __Pyx_PyStr_FromUString(s) __Pyx_PyStr_FromString((const char*)s) +#define __Pyx_PyUnicode_FromUString(s) __Pyx_PyUnicode_FromString((const char*)s) +#if PY_MAJOR_VERSION < 3 +static CYTHON_INLINE size_t __Pyx_Py_UNICODE_strlen(const Py_UNICODE *u) +{ + const Py_UNICODE *u_end = u; + while (*u_end++) ; + return u_end - u - 1; +} +#else +#define __Pyx_Py_UNICODE_strlen Py_UNICODE_strlen +#endif +#define __Pyx_PyUnicode_FromUnicode(u) PyUnicode_FromUnicode(u, __Pyx_Py_UNICODE_strlen(u)) +#define __Pyx_PyUnicode_FromUnicodeAndLength PyUnicode_FromUnicode +#define __Pyx_PyUnicode_AsUnicode PyUnicode_AsUnicode +#define __Pyx_Owned_Py_None(b) (Py_INCREF(Py_None), Py_None) +#define __Pyx_PyBool_FromLong(b) ((b) ? (Py_INCREF(Py_True), Py_True) : (Py_INCREF(Py_False), Py_False)) +static CYTHON_INLINE int __Pyx_PyObject_IsTrue(PyObject*); +static CYTHON_INLINE PyObject* __Pyx_PyNumber_Int(PyObject* x); +static CYTHON_INLINE Py_ssize_t __Pyx_PyIndex_AsSsize_t(PyObject*); +static CYTHON_INLINE PyObject * __Pyx_PyInt_FromSize_t(size_t); +#if CYTHON_COMPILING_IN_CPYTHON +#define __pyx_PyFloat_AsDouble(x) (PyFloat_CheckExact(x) ? PyFloat_AS_DOUBLE(x) : PyFloat_AsDouble(x)) +#else +#define __pyx_PyFloat_AsDouble(x) PyFloat_AsDouble(x) +#endif +#define __pyx_PyFloat_AsFloat(x) ((float) __pyx_PyFloat_AsDouble(x)) +#if PY_MAJOR_VERSION < 3 && __PYX_DEFAULT_STRING_ENCODING_IS_ASCII +static int __Pyx_sys_getdefaultencoding_not_ascii; +static int __Pyx_init_sys_getdefaultencoding_params(void) { + PyObject* sys = NULL; + PyObject* default_encoding = NULL; + PyObject* ascii_chars_u = NULL; + PyObject* ascii_chars_b = NULL; + sys = PyImport_ImportModule("sys"); + if (sys == NULL) goto bad; + default_encoding = PyObject_CallMethod(sys, (char*) (const char*) "getdefaultencoding", NULL); + if (default_encoding == NULL) goto bad; + if (strcmp(PyBytes_AsString(default_encoding), "ascii") == 0) { + __Pyx_sys_getdefaultencoding_not_ascii = 0; + } else { + const char* default_encoding_c = PyBytes_AS_STRING(default_encoding); + char ascii_chars[128]; + int c; + for (c = 0; c < 128; c++) { + ascii_chars[c] = c; + } + __Pyx_sys_getdefaultencoding_not_ascii = 1; + ascii_chars_u = PyUnicode_DecodeASCII(ascii_chars, 128, NULL); + if (ascii_chars_u == NULL) goto bad; + ascii_chars_b = PyUnicode_AsEncodedString(ascii_chars_u, default_encoding_c, NULL); + if (ascii_chars_b == NULL || strncmp(ascii_chars, PyBytes_AS_STRING(ascii_chars_b), 128) != 0) { + PyErr_Format( + PyExc_ValueError, + "This module compiled with c_string_encoding=ascii, but default encoding '%.200s' is not a superset of ascii.", + default_encoding_c); + goto bad; + } + } + Py_XDECREF(sys); + Py_XDECREF(default_encoding); + Py_XDECREF(ascii_chars_u); + Py_XDECREF(ascii_chars_b); + return 0; +bad: + Py_XDECREF(sys); + Py_XDECREF(default_encoding); + Py_XDECREF(ascii_chars_u); + Py_XDECREF(ascii_chars_b); + return -1; +} +#endif +#if __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT && PY_MAJOR_VERSION >= 3 +#define __Pyx_PyUnicode_FromStringAndSize(c_str, size) PyUnicode_DecodeUTF8(c_str, size, NULL) +#else +#define __Pyx_PyUnicode_FromStringAndSize(c_str, size) PyUnicode_Decode(c_str, size, __PYX_DEFAULT_STRING_ENCODING, NULL) +#if __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT +static char* __PYX_DEFAULT_STRING_ENCODING; +static int __Pyx_init_sys_getdefaultencoding_params(void) { + PyObject* sys = NULL; + PyObject* default_encoding = NULL; + char* default_encoding_c; + sys = PyImport_ImportModule("sys"); + if (sys == NULL) goto bad; + default_encoding = PyObject_CallMethod(sys, (char*) (const char*) "getdefaultencoding", NULL); + if (default_encoding == NULL) goto bad; + default_encoding_c = PyBytes_AS_STRING(default_encoding); + __PYX_DEFAULT_STRING_ENCODING = (char*) malloc(strlen(default_encoding_c)); + strcpy(__PYX_DEFAULT_STRING_ENCODING, default_encoding_c); + Py_DECREF(sys); + Py_DECREF(default_encoding); + return 0; +bad: + Py_XDECREF(sys); + Py_XDECREF(default_encoding); + return -1; +} +#endif +#endif + + +/* Test for GCC > 2.95 */ +#if defined(__GNUC__) && (__GNUC__ > 2 || (__GNUC__ == 2 && (__GNUC_MINOR__ > 95))) + #define likely(x) __builtin_expect(!!(x), 1) + #define unlikely(x) __builtin_expect(!!(x), 0) +#else /* !__GNUC__ or GCC < 2.95 */ + #define likely(x) (x) + #define unlikely(x) (x) +#endif /* __GNUC__ */ + +static PyObject *__pyx_m; +static PyObject *__pyx_d; +static PyObject *__pyx_b; +static PyObject *__pyx_empty_tuple; +static PyObject *__pyx_empty_bytes; +static int __pyx_lineno; +static int __pyx_clineno = 0; +static const char * __pyx_cfilenm= __FILE__; +static const char *__pyx_filename; + +#if !defined(CYTHON_CCOMPLEX) + #if defined(__cplusplus) + #define CYTHON_CCOMPLEX 1 + #elif defined(_Complex_I) + #define CYTHON_CCOMPLEX 1 + #else + #define CYTHON_CCOMPLEX 0 + #endif +#endif +#if CYTHON_CCOMPLEX + #ifdef __cplusplus + #include + #else + #include + #endif +#endif +#if CYTHON_CCOMPLEX && !defined(__cplusplus) && defined(__sun__) && defined(__GNUC__) + #undef _Complex_I + #define _Complex_I 1.0fj +#endif + + +static const char *__pyx_f[] = { + "routines.pyx", + "fffpy_import_lapack.pxi", + "__init__.pxd", + "type.pxd", +}; + +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":723 + * # in Cython to enable them only on the right systems. + * + * ctypedef npy_int8 int8_t # <<<<<<<<<<<<<< + * ctypedef npy_int16 int16_t + * ctypedef npy_int32 int32_t + */ +typedef npy_int8 __pyx_t_5numpy_int8_t; + +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":724 + * + * ctypedef npy_int8 int8_t + * ctypedef npy_int16 int16_t # <<<<<<<<<<<<<< + * ctypedef npy_int32 int32_t + * ctypedef npy_int64 int64_t + */ +typedef npy_int16 __pyx_t_5numpy_int16_t; + +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":725 + * ctypedef npy_int8 int8_t + * ctypedef npy_int16 int16_t + * ctypedef npy_int32 int32_t # <<<<<<<<<<<<<< + * ctypedef npy_int64 int64_t + * #ctypedef npy_int96 int96_t + */ +typedef npy_int32 __pyx_t_5numpy_int32_t; + +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":726 + * ctypedef npy_int16 int16_t + * ctypedef npy_int32 int32_t + * ctypedef npy_int64 int64_t # <<<<<<<<<<<<<< + * #ctypedef npy_int96 int96_t + * #ctypedef npy_int128 int128_t + */ +typedef npy_int64 __pyx_t_5numpy_int64_t; + +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":730 + * #ctypedef npy_int128 int128_t + * + * ctypedef npy_uint8 uint8_t # <<<<<<<<<<<<<< + * ctypedef npy_uint16 uint16_t + * ctypedef npy_uint32 uint32_t + */ +typedef npy_uint8 __pyx_t_5numpy_uint8_t; + +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":731 + * + * ctypedef npy_uint8 uint8_t + * ctypedef npy_uint16 uint16_t # <<<<<<<<<<<<<< + * ctypedef npy_uint32 uint32_t + * ctypedef npy_uint64 uint64_t + */ +typedef npy_uint16 __pyx_t_5numpy_uint16_t; + +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":732 + * ctypedef npy_uint8 uint8_t + * ctypedef npy_uint16 uint16_t + * ctypedef npy_uint32 uint32_t # <<<<<<<<<<<<<< + * ctypedef npy_uint64 uint64_t + * #ctypedef npy_uint96 uint96_t + */ +typedef npy_uint32 __pyx_t_5numpy_uint32_t; + +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":733 + * ctypedef npy_uint16 uint16_t + * ctypedef npy_uint32 uint32_t + * ctypedef npy_uint64 uint64_t # <<<<<<<<<<<<<< + * #ctypedef npy_uint96 uint96_t + * #ctypedef npy_uint128 uint128_t + */ +typedef npy_uint64 __pyx_t_5numpy_uint64_t; + +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":737 + * #ctypedef npy_uint128 uint128_t + * + * ctypedef npy_float32 float32_t # <<<<<<<<<<<<<< + * ctypedef npy_float64 float64_t + * #ctypedef npy_float80 float80_t + */ +typedef npy_float32 __pyx_t_5numpy_float32_t; + +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":738 + * + * ctypedef npy_float32 float32_t + * ctypedef npy_float64 float64_t # <<<<<<<<<<<<<< + * #ctypedef npy_float80 float80_t + * #ctypedef npy_float128 float128_t + */ +typedef npy_float64 __pyx_t_5numpy_float64_t; + +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":747 + * # The int types are mapped a bit surprising -- + * # numpy.int corresponds to 'l' and numpy.long to 'q' + * ctypedef npy_long int_t # <<<<<<<<<<<<<< + * ctypedef npy_longlong long_t + * ctypedef npy_longlong longlong_t + */ +typedef npy_long __pyx_t_5numpy_int_t; + +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":748 + * # numpy.int corresponds to 'l' and numpy.long to 'q' + * ctypedef npy_long int_t + * ctypedef npy_longlong long_t # <<<<<<<<<<<<<< + * ctypedef npy_longlong longlong_t + * + */ +typedef npy_longlong __pyx_t_5numpy_long_t; + +/* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":749 + * ctypedef npy_long int_t + * ctypedef npy_longlong long_t + * ctypedef npy_longlong longlong_t # <<<<<<<<<<<<<< + * + * ctypedef npy_ulong uint_t + */ +typedef npy_longlong __pyx_t_5numpy_longlong_t; 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}} while(0) + #define __Pyx_XDECREF(r) do { if((r) != NULL) {__Pyx_DECREF(r); }} while(0) + #define __Pyx_XGOTREF(r) do { if((r) != NULL) {__Pyx_GOTREF(r); }} while(0) + #define __Pyx_XGIVEREF(r) do { if((r) != NULL) {__Pyx_GIVEREF(r);}} while(0) +#else + #define __Pyx_RefNannyDeclarations + #define __Pyx_RefNannySetupContext(name, acquire_gil) + #define __Pyx_RefNannyFinishContext() + #define __Pyx_INCREF(r) Py_INCREF(r) + #define __Pyx_DECREF(r) Py_DECREF(r) + #define __Pyx_GOTREF(r) + #define __Pyx_GIVEREF(r) + #define __Pyx_XINCREF(r) Py_XINCREF(r) + #define __Pyx_XDECREF(r) Py_XDECREF(r) + #define __Pyx_XGOTREF(r) + #define __Pyx_XGIVEREF(r) +#endif /* CYTHON_REFNANNY */ +#define __Pyx_XDECREF_SET(r, v) do { \ + PyObject *tmp = (PyObject *) r; \ + r = v; __Pyx_XDECREF(tmp); \ + } while (0) +#define __Pyx_DECREF_SET(r, v) do { \ + PyObject *tmp = (PyObject *) r; \ + r = v; __Pyx_DECREF(tmp); \ + } while (0) +#define __Pyx_CLEAR(r) do { PyObject* tmp = ((PyObject*)(r)); r = NULL; __Pyx_DECREF(tmp);} while(0) +#define __Pyx_XCLEAR(r) do { if((r) != NULL) {PyObject* tmp = ((PyObject*)(r)); r = NULL; __Pyx_DECREF(tmp);}} while(0) + +#if CYTHON_COMPILING_IN_CPYTHON +static CYTHON_INLINE PyObject* __Pyx_PyObject_GetAttrStr(PyObject* obj, PyObject* attr_name) { + PyTypeObject* tp = Py_TYPE(obj); + if (likely(tp->tp_getattro)) + return tp->tp_getattro(obj, attr_name); +#if PY_MAJOR_VERSION < 3 + if (likely(tp->tp_getattr)) + return tp->tp_getattr(obj, PyString_AS_STRING(attr_name)); +#endif + return PyObject_GetAttr(obj, attr_name); +} +#else +#define __Pyx_PyObject_GetAttrStr(o,n) PyObject_GetAttr(o,n) +#endif + +static PyObject *__Pyx_GetBuiltinName(PyObject *name); /*proto*/ + +static CYTHON_INLINE PyObject *__Pyx_GetModuleGlobalName(PyObject *name); /*proto*/ + +static void __Pyx_RaiseArgtupleInvalid(const char* func_name, int exact, + Py_ssize_t num_min, Py_ssize_t num_max, Py_ssize_t num_found); /*proto*/ + +static void __Pyx_RaiseDoubleKeywordsError(const char* func_name, PyObject* kw_name); /*proto*/ + +static int __Pyx_ParseOptionalKeywords(PyObject *kwds, PyObject **argnames[], \ + PyObject *kwds2, PyObject *values[], Py_ssize_t num_pos_args, \ + const char* function_name); /*proto*/ + +#if CYTHON_COMPILING_IN_CPYTHON +static CYTHON_INLINE PyObject* __Pyx_PyObject_Call(PyObject *func, PyObject *arg, PyObject *kw); /*proto*/ +#else +#define __Pyx_PyObject_Call(func, arg, kw) PyObject_Call(func, arg, kw) +#endif + +#define __Pyx_SetItemInt(o, i, v, type, is_signed, to_py_func, is_list, wraparound, boundscheck) \ + (__Pyx_fits_Py_ssize_t(i, type, is_signed) ? \ + __Pyx_SetItemInt_Fast(o, (Py_ssize_t)i, v, is_list, wraparound, boundscheck) : \ + (is_list ? (PyErr_SetString(PyExc_IndexError, "list assignment index out of range"), -1) : \ + __Pyx_SetItemInt_Generic(o, to_py_func(i), v))) +static CYTHON_INLINE int __Pyx_SetItemInt_Generic(PyObject *o, PyObject *j, PyObject *v); +static CYTHON_INLINE int __Pyx_SetItemInt_Fast(PyObject *o, Py_ssize_t i, PyObject *v, + int is_list, int wraparound, int boundscheck); + +#define __Pyx_GetItemInt(o, i, type, is_signed, to_py_func, is_list, wraparound, boundscheck) \ + (__Pyx_fits_Py_ssize_t(i, type, is_signed) ? \ + __Pyx_GetItemInt_Fast(o, (Py_ssize_t)i, is_list, wraparound, boundscheck) : \ + (is_list ? (PyErr_SetString(PyExc_IndexError, "list index out of range"), (PyObject*)NULL) : \ + __Pyx_GetItemInt_Generic(o, to_py_func(i)))) +#define __Pyx_GetItemInt_List(o, i, type, is_signed, to_py_func, is_list, wraparound, boundscheck) \ + (__Pyx_fits_Py_ssize_t(i, type, is_signed) ? \ + __Pyx_GetItemInt_List_Fast(o, (Py_ssize_t)i, wraparound, boundscheck) : \ + (PyErr_SetString(PyExc_IndexError, "list index out of range"), (PyObject*)NULL)) +static CYTHON_INLINE PyObject *__Pyx_GetItemInt_List_Fast(PyObject *o, Py_ssize_t i, + int wraparound, int boundscheck); +#define __Pyx_GetItemInt_Tuple(o, i, type, is_signed, to_py_func, is_list, wraparound, boundscheck) \ + (__Pyx_fits_Py_ssize_t(i, type, is_signed) ? \ + __Pyx_GetItemInt_Tuple_Fast(o, (Py_ssize_t)i, wraparound, boundscheck) : \ + (PyErr_SetString(PyExc_IndexError, "tuple index out of range"), (PyObject*)NULL)) +static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Tuple_Fast(PyObject *o, Py_ssize_t i, + int wraparound, int boundscheck); +static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Generic(PyObject *o, PyObject* j); +static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Fast(PyObject *o, Py_ssize_t i, + int is_list, int wraparound, int boundscheck); + +static CYTHON_INLINE PyObject* __Pyx_PyObject_GetSlice( + PyObject* obj, Py_ssize_t cstart, Py_ssize_t cstop, + PyObject** py_start, PyObject** py_stop, PyObject** py_slice, + int has_cstart, int has_cstop, int wraparound); + +static CYTHON_INLINE void __Pyx_ErrRestore(PyObject *type, PyObject *value, PyObject *tb); /*proto*/ +static CYTHON_INLINE void __Pyx_ErrFetch(PyObject **type, PyObject **value, PyObject **tb); /*proto*/ + +static void __Pyx_Raise(PyObject *type, PyObject *value, PyObject *tb, PyObject *cause); /*proto*/ + +static CYTHON_INLINE void __Pyx_RaiseTooManyValuesError(Py_ssize_t expected); + +static CYTHON_INLINE void __Pyx_RaiseNeedMoreValuesError(Py_ssize_t index); + +static CYTHON_INLINE void __Pyx_RaiseNoneNotIterableError(void); + +static CYTHON_INLINE int __Pyx_TypeTest(PyObject *obj, PyTypeObject *type); /*proto*/ + +static PyObject* __Pyx_ImportFrom(PyObject* module, PyObject* name); /*proto*/ + +static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, int level); /*proto*/ + +static CYTHON_INLINE int __Pyx_PyInt_As_int(PyObject *); + +static CYTHON_INLINE unsigned int __Pyx_PyInt_As_unsigned_int(PyObject *); + +static CYTHON_INLINE unsigned long __Pyx_PyInt_As_unsigned_long(PyObject *); + +static CYTHON_INLINE PyObject* __Pyx_PyInt_From_int(int value); + +static CYTHON_INLINE PyObject* __Pyx_PyInt_From_long(long value); + +#if CYTHON_CCOMPLEX + #ifdef __cplusplus + #define __Pyx_CREAL(z) ((z).real()) + #define __Pyx_CIMAG(z) ((z).imag()) + #else + #define __Pyx_CREAL(z) (__real__(z)) + #define __Pyx_CIMAG(z) (__imag__(z)) + #endif +#else + #define __Pyx_CREAL(z) ((z).real) + #define __Pyx_CIMAG(z) ((z).imag) +#endif +#if (defined(_WIN32) || defined(__clang__)) && defined(__cplusplus) && CYTHON_CCOMPLEX + #define __Pyx_SET_CREAL(z,x) ((z).real(x)) + #define __Pyx_SET_CIMAG(z,y) ((z).imag(y)) +#else + #define __Pyx_SET_CREAL(z,x) __Pyx_CREAL(z) = (x) + #define __Pyx_SET_CIMAG(z,y) __Pyx_CIMAG(z) = (y) +#endif + +static CYTHON_INLINE __pyx_t_float_complex __pyx_t_float_complex_from_parts(float, float); + +#if CYTHON_CCOMPLEX + #define __Pyx_c_eqf(a, b) ((a)==(b)) + #define __Pyx_c_sumf(a, b) ((a)+(b)) + #define __Pyx_c_difff(a, b) ((a)-(b)) + #define __Pyx_c_prodf(a, b) ((a)*(b)) + #define __Pyx_c_quotf(a, b) ((a)/(b)) + #define __Pyx_c_negf(a) (-(a)) + #ifdef __cplusplus + #define __Pyx_c_is_zerof(z) ((z)==(float)0) + #define __Pyx_c_conjf(z) (::std::conj(z)) + #if 1 + #define __Pyx_c_absf(z) (::std::abs(z)) + #define __Pyx_c_powf(a, b) (::std::pow(a, b)) + #endif + #else + #define __Pyx_c_is_zerof(z) ((z)==0) + #define __Pyx_c_conjf(z) (conjf(z)) + #if 1 + #define __Pyx_c_absf(z) (cabsf(z)) + #define __Pyx_c_powf(a, b) (cpowf(a, b)) + #endif + #endif +#else + static CYTHON_INLINE int __Pyx_c_eqf(__pyx_t_float_complex, __pyx_t_float_complex); + static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_sumf(__pyx_t_float_complex, __pyx_t_float_complex); + static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_difff(__pyx_t_float_complex, __pyx_t_float_complex); + static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_prodf(__pyx_t_float_complex, __pyx_t_float_complex); + static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_quotf(__pyx_t_float_complex, __pyx_t_float_complex); + static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_negf(__pyx_t_float_complex); + static CYTHON_INLINE int __Pyx_c_is_zerof(__pyx_t_float_complex); + static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_conjf(__pyx_t_float_complex); + #if 1 + static CYTHON_INLINE float __Pyx_c_absf(__pyx_t_float_complex); + static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_powf(__pyx_t_float_complex, __pyx_t_float_complex); + #endif +#endif + +static CYTHON_INLINE __pyx_t_double_complex __pyx_t_double_complex_from_parts(double, double); + +#if CYTHON_CCOMPLEX + #define __Pyx_c_eq(a, b) ((a)==(b)) + #define __Pyx_c_sum(a, b) ((a)+(b)) + #define __Pyx_c_diff(a, b) ((a)-(b)) + #define __Pyx_c_prod(a, b) ((a)*(b)) + #define __Pyx_c_quot(a, b) ((a)/(b)) + #define __Pyx_c_neg(a) (-(a)) + #ifdef __cplusplus + #define __Pyx_c_is_zero(z) ((z)==(double)0) + #define __Pyx_c_conj(z) (::std::conj(z)) + #if 1 + #define __Pyx_c_abs(z) (::std::abs(z)) + #define __Pyx_c_pow(a, b) (::std::pow(a, b)) + #endif + #else + #define __Pyx_c_is_zero(z) ((z)==0) + #define __Pyx_c_conj(z) (conj(z)) + #if 1 + #define __Pyx_c_abs(z) (cabs(z)) + #define __Pyx_c_pow(a, b) (cpow(a, b)) + #endif + #endif +#else + static CYTHON_INLINE int __Pyx_c_eq(__pyx_t_double_complex, __pyx_t_double_complex); + static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_sum(__pyx_t_double_complex, __pyx_t_double_complex); + static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_diff(__pyx_t_double_complex, __pyx_t_double_complex); + static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_prod(__pyx_t_double_complex, __pyx_t_double_complex); + static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_quot(__pyx_t_double_complex, __pyx_t_double_complex); + static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_neg(__pyx_t_double_complex); + static CYTHON_INLINE int __Pyx_c_is_zero(__pyx_t_double_complex); + static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_conj(__pyx_t_double_complex); + #if 1 + static CYTHON_INLINE double __Pyx_c_abs(__pyx_t_double_complex); + static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_pow(__pyx_t_double_complex, __pyx_t_double_complex); + #endif +#endif + +static CYTHON_INLINE long __Pyx_PyInt_As_long(PyObject *); + +static int __Pyx_check_binary_version(void); + +#if !defined(__Pyx_PyIdentifier_FromString) +#if PY_MAJOR_VERSION < 3 + #define __Pyx_PyIdentifier_FromString(s) PyString_FromString(s) +#else + #define __Pyx_PyIdentifier_FromString(s) PyUnicode_FromString(s) +#endif +#endif + +static PyObject *__Pyx_ImportModule(const char *name); /*proto*/ + +static PyTypeObject *__Pyx_ImportType(const char *module_name, const char *class_name, size_t size, int strict); /*proto*/ + +typedef struct { + int code_line; + PyCodeObject* code_object; +} __Pyx_CodeObjectCacheEntry; +struct __Pyx_CodeObjectCache { + int count; + int max_count; + __Pyx_CodeObjectCacheEntry* entries; +}; +static struct __Pyx_CodeObjectCache __pyx_code_cache = {0,0,NULL}; +static int __pyx_bisect_code_objects(__Pyx_CodeObjectCacheEntry* entries, int count, int code_line); +static PyCodeObject *__pyx_find_code_object(int code_line); +static void __pyx_insert_code_object(int code_line, PyCodeObject* code_object); + +static void __Pyx_AddTraceback(const char *funcname, int c_line, + int py_line, const char *filename); /*proto*/ + +static int __Pyx_InitStrings(__Pyx_StringTabEntry *t); /*proto*/ + + +/* Module declarations from 'cpython.buffer' */ + +/* Module declarations from 'cpython.ref' */ + +/* Module declarations from 'libc.string' */ + +/* Module declarations from 'libc.stdio' */ + +/* Module declarations from 'cpython.object' */ + +/* Module declarations from '__builtin__' */ + +/* Module declarations from 'cpython.type' */ +static PyTypeObject *__pyx_ptype_7cpython_4type_type = 0; + +/* Module declarations from 'libc.stdlib' */ + +/* Module declarations from 'numpy' */ + +/* Module declarations from 'numpy' */ +static PyTypeObject *__pyx_ptype_5numpy_dtype = 0; +static PyTypeObject *__pyx_ptype_5numpy_flatiter = 0; +static PyTypeObject *__pyx_ptype_5numpy_broadcast = 0; +static PyTypeObject *__pyx_ptype_5numpy_ndarray = 0; +static PyTypeObject *__pyx_ptype_5numpy_ufunc = 0; +static CYTHON_INLINE char *__pyx_f_5numpy__util_dtypestring(PyArray_Descr *, char *, char *, int *); /*proto*/ + +/* Module declarations from 'fff' */ + +/* Module declarations from 'nipy.labs.utils.routines' */ +#define __Pyx_MODULE_NAME "nipy.labs.utils.routines" +int __pyx_module_is_main_nipy__labs__utils__routines = 0; + +/* Implementation of 'nipy.labs.utils.routines' */ +static PyObject *__pyx_builtin_FutureWarning; +static PyObject *__pyx_builtin_ValueError; +static PyObject *__pyx_builtin_range; +static PyObject *__pyx_builtin_RuntimeError; +static PyObject *__pyx_pf_4nipy_4labs_5utils_8routines_fffpy_import_lapack(CYTHON_UNUSED PyObject *__pyx_self); /* proto */ +static PyObject *__pyx_pf_4nipy_4labs_5utils_8routines_2quantile(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_X, double __pyx_v_ratio, int __pyx_v_interp, int __pyx_v_axis); /* proto */ +static PyObject *__pyx_pf_4nipy_4labs_5utils_8routines_4median(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_x, PyObject *__pyx_v_axis); /* proto */ +static PyObject *__pyx_pf_4nipy_4labs_5utils_8routines_6mahalanobis(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_X, PyObject *__pyx_v_VX); /* proto */ +static PyObject *__pyx_pf_4nipy_4labs_5utils_8routines_8svd(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_X); /* proto */ +static PyObject *__pyx_pf_4nipy_4labs_5utils_8routines_10permutations(CYTHON_UNUSED PyObject *__pyx_self, unsigned int __pyx_v_n, unsigned int __pyx_v_m, unsigned long __pyx_v_magic); /* proto */ +static PyObject *__pyx_pf_4nipy_4labs_5utils_8routines_12combinations(CYTHON_UNUSED PyObject *__pyx_self, unsigned int __pyx_v_k, unsigned int __pyx_v_n, unsigned int __pyx_v_m, unsigned long __pyx_v_magic); /* proto */ +static PyObject *__pyx_pf_4nipy_4labs_5utils_8routines_14gamln(CYTHON_UNUSED PyObject *__pyx_self, double __pyx_v_x); /* proto */ +static PyObject *__pyx_pf_4nipy_4labs_5utils_8routines_16psi(CYTHON_UNUSED PyObject *__pyx_self, double __pyx_v_x); /* proto */ +static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, Py_buffer *__pyx_v_info, int __pyx_v_flags); /* proto */ +static void __pyx_pf_5numpy_7ndarray_2__releasebuffer__(PyArrayObject *__pyx_v_self, Py_buffer *__pyx_v_info); /* proto */ +static char __pyx_k_B[] = "B"; +static char __pyx_k_C[] = "C"; +static char __pyx_k_H[] = "H"; +static char __pyx_k_I[] = "I"; +static char __pyx_k_L[] = "L"; +static char __pyx_k_O[] = "O"; +static char __pyx_k_P[] = "P"; +static char __pyx_k_Q[] = "Q"; +static char __pyx_k_S[] = "S"; +static char __pyx_k_U[] = "U"; +static char __pyx_k_X[] = "X"; +static char __pyx_k_Y[] = "Y"; +static char __pyx_k_b[] = "b"; +static char __pyx_k_d[] = "d"; +static char __pyx_k_f[] = "f"; 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Do not use, this is there only for + * testing. Use scipy.special.gammaln. + */ + __pyx_t_3 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_5utils_8routines_15gamln, NULL, __pyx_n_s_nipy_labs_utils_routines); if (unlikely(!__pyx_t_3)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 287; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_GOTREF(__pyx_t_3); + if (PyDict_SetItem(__pyx_d, __pyx_n_s_gamln, __pyx_t_3) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 287; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0; + + /* "nipy/labs/utils/routines.pyx":296 + * + * + * def psi(double x): # <<<<<<<<<<<<<< + * """ Python bindings to psi (d gamln(x)/dx. Do not use, this is there only + * for testing. 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"" : "s", num_found); +} + +static void __Pyx_RaiseDoubleKeywordsError( + const char* func_name, + PyObject* kw_name) +{ + PyErr_Format(PyExc_TypeError, + #if PY_MAJOR_VERSION >= 3 + "%s() got multiple values for keyword argument '%U'", func_name, kw_name); + #else + "%s() got multiple values for keyword argument '%s'", func_name, + PyString_AsString(kw_name)); + #endif +} + +static int __Pyx_ParseOptionalKeywords( + PyObject *kwds, + PyObject **argnames[], + PyObject *kwds2, + PyObject *values[], + Py_ssize_t num_pos_args, + const char* function_name) +{ + PyObject *key = 0, *value = 0; + Py_ssize_t pos = 0; + PyObject*** name; + PyObject*** first_kw_arg = argnames + num_pos_args; + while (PyDict_Next(kwds, &pos, &key, &value)) { + name = first_kw_arg; + while (*name && (**name != key)) name++; + if (*name) { + values[name-argnames] = value; + continue; + } + name = first_kw_arg; + #if PY_MAJOR_VERSION < 3 + if (likely(PyString_CheckExact(key)) || likely(PyString_Check(key))) { + while (*name) { + if ((CYTHON_COMPILING_IN_PYPY || PyString_GET_SIZE(**name) == PyString_GET_SIZE(key)) + && _PyString_Eq(**name, key)) { + values[name-argnames] = value; + break; + } + name++; + } + if (*name) continue; + else { + PyObject*** argname = argnames; + while (argname != first_kw_arg) { + if ((**argname == key) || ( + (CYTHON_COMPILING_IN_PYPY || PyString_GET_SIZE(**argname) == PyString_GET_SIZE(key)) + && _PyString_Eq(**argname, key))) { + goto arg_passed_twice; + } + argname++; + } + } + } else + #endif + if (likely(PyUnicode_Check(key))) { + while (*name) { + int cmp = (**name == key) ? 0 : + #if !CYTHON_COMPILING_IN_PYPY && PY_MAJOR_VERSION >= 3 + (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : + #endif + PyUnicode_Compare(**name, key); + if (cmp < 0 && unlikely(PyErr_Occurred())) goto bad; + if (cmp == 0) { + values[name-argnames] = value; + break; + } + name++; + } + if (*name) continue; + else { + PyObject*** argname = argnames; + while (argname != first_kw_arg) { + int cmp = (**argname == key) ? 0 : + #if !CYTHON_COMPILING_IN_PYPY && PY_MAJOR_VERSION >= 3 + (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : + #endif + PyUnicode_Compare(**argname, key); + if (cmp < 0 && unlikely(PyErr_Occurred())) goto bad; + if (cmp == 0) goto arg_passed_twice; + argname++; + } + } + } else + goto invalid_keyword_type; + if (kwds2) { + if (unlikely(PyDict_SetItem(kwds2, key, value))) goto bad; + } else { + goto invalid_keyword; + } + } + return 0; +arg_passed_twice: + __Pyx_RaiseDoubleKeywordsError(function_name, key); + goto bad; +invalid_keyword_type: + PyErr_Format(PyExc_TypeError, + "%.200s() keywords must be strings", function_name); + goto bad; +invalid_keyword: + PyErr_Format(PyExc_TypeError, + #if PY_MAJOR_VERSION < 3 + "%.200s() got an unexpected keyword argument '%.200s'", + function_name, PyString_AsString(key)); + #else + "%s() got an unexpected keyword argument '%U'", + function_name, key); + #endif +bad: + return -1; +} + +#if CYTHON_COMPILING_IN_CPYTHON +static CYTHON_INLINE PyObject* __Pyx_PyObject_Call(PyObject *func, PyObject *arg, PyObject *kw) { + PyObject *result; + ternaryfunc call = func->ob_type->tp_call; + if (unlikely(!call)) + return PyObject_Call(func, arg, kw); +#if PY_VERSION_HEX >= 0x02060000 + if (unlikely(Py_EnterRecursiveCall((char*)" while calling a Python object"))) + return NULL; +#endif + result = (*call)(func, arg, kw); +#if PY_VERSION_HEX >= 0x02060000 + Py_LeaveRecursiveCall(); +#endif + if (unlikely(!result) && unlikely(!PyErr_Occurred())) { + PyErr_SetString( + PyExc_SystemError, + "NULL result without error in PyObject_Call"); + } + return result; +} +#endif + +static CYTHON_INLINE int __Pyx_SetItemInt_Generic(PyObject *o, PyObject *j, PyObject *v) { + int r; + if (!j) return -1; + r = PyObject_SetItem(o, j, v); + Py_DECREF(j); + return r; +} +static CYTHON_INLINE int __Pyx_SetItemInt_Fast(PyObject *o, Py_ssize_t i, PyObject *v, + int is_list, int wraparound, int boundscheck) { +#if CYTHON_COMPILING_IN_CPYTHON + if (is_list || PyList_CheckExact(o)) { + Py_ssize_t n = (!wraparound) ? i : ((likely(i >= 0)) ? i : i + PyList_GET_SIZE(o)); + if ((!boundscheck) || likely((n >= 0) & (n < PyList_GET_SIZE(o)))) { + PyObject* old = PyList_GET_ITEM(o, n); + Py_INCREF(v); + PyList_SET_ITEM(o, n, v); + Py_DECREF(old); + return 1; + } + } else { + PySequenceMethods *m = Py_TYPE(o)->tp_as_sequence; + if (likely(m && m->sq_ass_item)) { + if (wraparound && unlikely(i < 0) && likely(m->sq_length)) { + Py_ssize_t l = m->sq_length(o); + if (likely(l >= 0)) { + i += l; + } else { + if (PyErr_ExceptionMatches(PyExc_OverflowError)) + PyErr_Clear(); + else + return -1; + } + } + return m->sq_ass_item(o, i, v); + } + } +#else +#if CYTHON_COMPILING_IN_PYPY + if (is_list || (PySequence_Check(o) && !PyDict_Check(o))) { +#else + if (is_list || PySequence_Check(o)) { +#endif + return PySequence_SetItem(o, i, v); + } +#endif + return __Pyx_SetItemInt_Generic(o, PyInt_FromSsize_t(i), v); +} + +static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Generic(PyObject *o, PyObject* j) { + PyObject *r; + if (!j) return NULL; + r = PyObject_GetItem(o, j); + Py_DECREF(j); + return r; +} +static CYTHON_INLINE PyObject *__Pyx_GetItemInt_List_Fast(PyObject *o, Py_ssize_t i, + int wraparound, int boundscheck) { +#if CYTHON_COMPILING_IN_CPYTHON + if (wraparound & unlikely(i < 0)) i += PyList_GET_SIZE(o); + if ((!boundscheck) || likely((0 <= i) & (i < PyList_GET_SIZE(o)))) { + PyObject *r = PyList_GET_ITEM(o, i); + Py_INCREF(r); + return r; + } + return __Pyx_GetItemInt_Generic(o, PyInt_FromSsize_t(i)); +#else + return PySequence_GetItem(o, i); +#endif +} +static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Tuple_Fast(PyObject *o, Py_ssize_t i, + int wraparound, int boundscheck) { +#if CYTHON_COMPILING_IN_CPYTHON + if (wraparound & unlikely(i < 0)) i += PyTuple_GET_SIZE(o); + if ((!boundscheck) || likely((0 <= i) & (i < PyTuple_GET_SIZE(o)))) { + PyObject *r = PyTuple_GET_ITEM(o, i); + Py_INCREF(r); + return r; + } + return __Pyx_GetItemInt_Generic(o, PyInt_FromSsize_t(i)); +#else + return PySequence_GetItem(o, i); +#endif +} +static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Fast(PyObject *o, Py_ssize_t i, + int is_list, int wraparound, int boundscheck) { +#if CYTHON_COMPILING_IN_CPYTHON + if (is_list || PyList_CheckExact(o)) { + Py_ssize_t n = ((!wraparound) | likely(i >= 0)) ? i : i + PyList_GET_SIZE(o); + if ((!boundscheck) || (likely((n >= 0) & (n < PyList_GET_SIZE(o))))) { + PyObject *r = PyList_GET_ITEM(o, n); + Py_INCREF(r); + return r; + } + } + else if (PyTuple_CheckExact(o)) { + Py_ssize_t n = ((!wraparound) | likely(i >= 0)) ? i : i + PyTuple_GET_SIZE(o); + if ((!boundscheck) || likely((n >= 0) & (n < PyTuple_GET_SIZE(o)))) { + PyObject *r = PyTuple_GET_ITEM(o, n); + Py_INCREF(r); + return r; + } + } else { + PySequenceMethods *m = Py_TYPE(o)->tp_as_sequence; + if (likely(m && m->sq_item)) { + if (wraparound && unlikely(i < 0) && likely(m->sq_length)) { + Py_ssize_t l = m->sq_length(o); + if (likely(l >= 0)) { + i += l; + } else { + if (PyErr_ExceptionMatches(PyExc_OverflowError)) + PyErr_Clear(); + else + return NULL; + } + } + return m->sq_item(o, i); + } + } +#else + if (is_list || PySequence_Check(o)) { + return PySequence_GetItem(o, i); + } +#endif + return __Pyx_GetItemInt_Generic(o, PyInt_FromSsize_t(i)); +} + +static CYTHON_INLINE PyObject* __Pyx_PyObject_GetSlice( + PyObject* obj, Py_ssize_t cstart, Py_ssize_t cstop, + PyObject** _py_start, PyObject** _py_stop, PyObject** _py_slice, + int has_cstart, int has_cstop, CYTHON_UNUSED int wraparound) { +#if CYTHON_COMPILING_IN_CPYTHON + PyMappingMethods* mp; +#if PY_MAJOR_VERSION < 3 + PySequenceMethods* ms = Py_TYPE(obj)->tp_as_sequence; + if (likely(ms && ms->sq_slice)) { + if (!has_cstart) { + if (_py_start && (*_py_start != Py_None)) { + cstart = __Pyx_PyIndex_AsSsize_t(*_py_start); + if ((cstart == (Py_ssize_t)-1) && PyErr_Occurred()) goto bad; + } else + cstart = 0; + } + if (!has_cstop) { + if (_py_stop && (*_py_stop != Py_None)) { + cstop = __Pyx_PyIndex_AsSsize_t(*_py_stop); + if ((cstop == (Py_ssize_t)-1) && PyErr_Occurred()) goto bad; + } else + cstop = PY_SSIZE_T_MAX; + } + if (wraparound && unlikely((cstart < 0) | (cstop < 0)) && likely(ms->sq_length)) { + Py_ssize_t l = ms->sq_length(obj); + if (likely(l >= 0)) { + if (cstop < 0) { + cstop += l; + if (cstop < 0) cstop = 0; + } + if (cstart < 0) { + cstart += l; + if (cstart < 0) cstart = 0; + } + } else { + if (PyErr_ExceptionMatches(PyExc_OverflowError)) + PyErr_Clear(); + else + goto bad; + } + } + return ms->sq_slice(obj, cstart, cstop); + } +#endif + mp = Py_TYPE(obj)->tp_as_mapping; + if (likely(mp && mp->mp_subscript)) +#endif + { + PyObject* result; + PyObject *py_slice, *py_start, *py_stop; + if (_py_slice) { + py_slice = *_py_slice; + } else { + PyObject* owned_start = NULL; + PyObject* owned_stop = NULL; + if (_py_start) { + py_start = *_py_start; + } else { + if (has_cstart) { + owned_start = py_start = PyInt_FromSsize_t(cstart); + if (unlikely(!py_start)) goto bad; + } else + py_start = Py_None; + } + if (_py_stop) { + py_stop = *_py_stop; + } else { + if (has_cstop) { + owned_stop = py_stop = PyInt_FromSsize_t(cstop); + if (unlikely(!py_stop)) { + Py_XDECREF(owned_start); + goto bad; + } + } else + py_stop = Py_None; + } + py_slice = PySlice_New(py_start, py_stop, Py_None); + Py_XDECREF(owned_start); + Py_XDECREF(owned_stop); + if (unlikely(!py_slice)) goto bad; + } +#if CYTHON_COMPILING_IN_CPYTHON + result = mp->mp_subscript(obj, py_slice); +#else + result = PyObject_GetItem(obj, py_slice); +#endif + if (!_py_slice) { + Py_DECREF(py_slice); + } + return result; + } + PyErr_Format(PyExc_TypeError, + "'%.200s' object is unsliceable", Py_TYPE(obj)->tp_name); +bad: + return NULL; +} + +static CYTHON_INLINE void __Pyx_ErrRestore(PyObject *type, PyObject *value, PyObject *tb) { +#if CYTHON_COMPILING_IN_CPYTHON + PyObject *tmp_type, *tmp_value, *tmp_tb; + PyThreadState *tstate = PyThreadState_GET(); + tmp_type = tstate->curexc_type; + tmp_value = tstate->curexc_value; + tmp_tb = tstate->curexc_traceback; + tstate->curexc_type = type; + tstate->curexc_value = value; + tstate->curexc_traceback = tb; + Py_XDECREF(tmp_type); + Py_XDECREF(tmp_value); + Py_XDECREF(tmp_tb); +#else + PyErr_Restore(type, value, tb); +#endif +} +static CYTHON_INLINE void __Pyx_ErrFetch(PyObject **type, PyObject **value, PyObject **tb) { +#if CYTHON_COMPILING_IN_CPYTHON + PyThreadState *tstate = PyThreadState_GET(); + *type = tstate->curexc_type; + *value = tstate->curexc_value; + *tb = tstate->curexc_traceback; + tstate->curexc_type = 0; + tstate->curexc_value = 0; + tstate->curexc_traceback = 0; +#else + PyErr_Fetch(type, value, tb); +#endif +} + +#if PY_MAJOR_VERSION < 3 +static void __Pyx_Raise(PyObject *type, PyObject *value, PyObject *tb, + CYTHON_UNUSED PyObject *cause) { + Py_XINCREF(type); + if (!value || value == Py_None) + value = NULL; + else + Py_INCREF(value); + if (!tb || tb == Py_None) + tb = NULL; + else { + Py_INCREF(tb); + if (!PyTraceBack_Check(tb)) { + PyErr_SetString(PyExc_TypeError, + "raise: arg 3 must be a traceback or None"); + goto raise_error; + } + } + #if PY_VERSION_HEX < 0x02050000 + if (PyClass_Check(type)) { + #else + if (PyType_Check(type)) { + #endif +#if CYTHON_COMPILING_IN_PYPY + if (!value) { + Py_INCREF(Py_None); + value = Py_None; + } +#endif + PyErr_NormalizeException(&type, &value, &tb); + } else { + if (value) { + PyErr_SetString(PyExc_TypeError, + "instance exception may not have a separate value"); + goto raise_error; + } + value = type; + #if PY_VERSION_HEX < 0x02050000 + if (PyInstance_Check(type)) { + type = (PyObject*) ((PyInstanceObject*)type)->in_class; + Py_INCREF(type); + } else { + type = 0; + PyErr_SetString(PyExc_TypeError, + "raise: exception must be an old-style class or instance"); + goto raise_error; + } + #else + type = (PyObject*) Py_TYPE(type); + Py_INCREF(type); + if (!PyType_IsSubtype((PyTypeObject *)type, (PyTypeObject *)PyExc_BaseException)) { + PyErr_SetString(PyExc_TypeError, + "raise: exception class must be a subclass of BaseException"); + goto raise_error; + } + #endif + } + __Pyx_ErrRestore(type, value, tb); + return; +raise_error: + Py_XDECREF(value); + Py_XDECREF(type); + Py_XDECREF(tb); + return; +} +#else /* Python 3+ */ +static void __Pyx_Raise(PyObject *type, PyObject *value, PyObject *tb, PyObject *cause) { + PyObject* owned_instance = NULL; + if (tb == Py_None) { + tb = 0; + } else if (tb && !PyTraceBack_Check(tb)) { + PyErr_SetString(PyExc_TypeError, + "raise: arg 3 must be a traceback or None"); + goto bad; + } + if (value == Py_None) + value = 0; + if (PyExceptionInstance_Check(type)) { + if (value) { + PyErr_SetString(PyExc_TypeError, + "instance exception may not have a separate value"); + goto bad; + } + value = type; + type = (PyObject*) Py_TYPE(value); + } else if (PyExceptionClass_Check(type)) { + PyObject *instance_class = NULL; + if (value && PyExceptionInstance_Check(value)) { + instance_class = (PyObject*) Py_TYPE(value); + if (instance_class != type) { + if (PyObject_IsSubclass(instance_class, type)) { + type = instance_class; + } else { + instance_class = NULL; + } + } + } + if (!instance_class) { + PyObject *args; + if (!value) + args = PyTuple_New(0); + else if (PyTuple_Check(value)) { + Py_INCREF(value); + args = value; + } else + args = PyTuple_Pack(1, value); + if (!args) + goto bad; + owned_instance = PyObject_Call(type, args, NULL); + Py_DECREF(args); + if (!owned_instance) + goto bad; + value = owned_instance; + if (!PyExceptionInstance_Check(value)) { + PyErr_Format(PyExc_TypeError, + "calling %R should have returned an instance of " + "BaseException, not %R", + type, Py_TYPE(value)); + goto bad; + } + } + } else { + PyErr_SetString(PyExc_TypeError, + "raise: exception class must be a subclass of BaseException"); + goto bad; + } +#if PY_VERSION_HEX >= 0x03030000 + if (cause) { +#else + if (cause && cause != Py_None) { +#endif + PyObject *fixed_cause; + if (cause == Py_None) { + fixed_cause = NULL; + } else if (PyExceptionClass_Check(cause)) { + fixed_cause = PyObject_CallObject(cause, NULL); + if (fixed_cause == NULL) + goto bad; + } else if (PyExceptionInstance_Check(cause)) { + fixed_cause = cause; + Py_INCREF(fixed_cause); + } else { + PyErr_SetString(PyExc_TypeError, + "exception causes must derive from " + "BaseException"); + goto bad; + } + PyException_SetCause(value, fixed_cause); + } + PyErr_SetObject(type, value); + if (tb) { + PyThreadState *tstate = PyThreadState_GET(); + PyObject* tmp_tb = tstate->curexc_traceback; + if (tb != tmp_tb) { + Py_INCREF(tb); + tstate->curexc_traceback = tb; + Py_XDECREF(tmp_tb); + } + } +bad: + Py_XDECREF(owned_instance); + return; +} +#endif + +static CYTHON_INLINE void __Pyx_RaiseTooManyValuesError(Py_ssize_t expected) { + PyErr_Format(PyExc_ValueError, + "too many values to unpack (expected %" CYTHON_FORMAT_SSIZE_T "d)", expected); +} + +static CYTHON_INLINE void __Pyx_RaiseNeedMoreValuesError(Py_ssize_t index) { + PyErr_Format(PyExc_ValueError, + "need more than %" CYTHON_FORMAT_SSIZE_T "d value%.1s to unpack", + index, (index == 1) ? "" : "s"); +} + +static CYTHON_INLINE void __Pyx_RaiseNoneNotIterableError(void) { + PyErr_SetString(PyExc_TypeError, "'NoneType' object is not iterable"); +} + +static CYTHON_INLINE int __Pyx_TypeTest(PyObject *obj, PyTypeObject *type) { + if (unlikely(!type)) { + PyErr_SetString(PyExc_SystemError, "Missing type object"); + return 0; + } + if (likely(PyObject_TypeCheck(obj, type))) + return 1; + PyErr_Format(PyExc_TypeError, "Cannot convert %.200s to %.200s", + Py_TYPE(obj)->tp_name, type->tp_name); + return 0; +} + +static PyObject* __Pyx_ImportFrom(PyObject* module, PyObject* name) { + PyObject* value = __Pyx_PyObject_GetAttrStr(module, name); + if (unlikely(!value) && PyErr_ExceptionMatches(PyExc_AttributeError)) { + PyErr_Format(PyExc_ImportError, + #if PY_MAJOR_VERSION < 3 + "cannot import name %.230s", PyString_AS_STRING(name)); + #else + "cannot import name %S", name); + #endif + } + return value; +} + +static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, int level) { + PyObject *empty_list = 0; + PyObject *module = 0; + PyObject *global_dict = 0; + PyObject *empty_dict = 0; + PyObject *list; + #if PY_VERSION_HEX < 0x03030000 + PyObject *py_import; + py_import = __Pyx_PyObject_GetAttrStr(__pyx_b, __pyx_n_s_import); + if (!py_import) + goto bad; + #endif + if (from_list) + list = from_list; + else { + empty_list = PyList_New(0); + if (!empty_list) + goto bad; + list = empty_list; + } + global_dict = PyModule_GetDict(__pyx_m); + if (!global_dict) + goto bad; + empty_dict = PyDict_New(); + if (!empty_dict) + goto bad; + #if PY_VERSION_HEX >= 0x02050000 + { + #if PY_MAJOR_VERSION >= 3 + if (level == -1) { + if (strchr(__Pyx_MODULE_NAME, '.')) { + #if PY_VERSION_HEX < 0x03030000 + PyObject *py_level = PyInt_FromLong(1); + if (!py_level) + goto bad; + module = PyObject_CallFunctionObjArgs(py_import, + name, global_dict, empty_dict, list, py_level, NULL); + Py_DECREF(py_level); + #else + module = PyImport_ImportModuleLevelObject( + name, global_dict, empty_dict, list, 1); + #endif + if (!module) { + if (!PyErr_ExceptionMatches(PyExc_ImportError)) + goto bad; + PyErr_Clear(); + } + } + level = 0; /* try absolute import on failure */ + } + #endif + if (!module) { + #if PY_VERSION_HEX < 0x03030000 + PyObject *py_level = PyInt_FromLong(level); + if (!py_level) + goto bad; + module = PyObject_CallFunctionObjArgs(py_import, + name, global_dict, empty_dict, list, py_level, NULL); + Py_DECREF(py_level); + #else + module = PyImport_ImportModuleLevelObject( + name, global_dict, empty_dict, list, level); + #endif + } + } + #else + if (level>0) { + PyErr_SetString(PyExc_RuntimeError, "Relative import is not supported for Python <=2.4."); + goto bad; + } + module = PyObject_CallFunctionObjArgs(py_import, + name, global_dict, empty_dict, list, NULL); + #endif +bad: + #if PY_VERSION_HEX < 0x03030000 + Py_XDECREF(py_import); + #endif + Py_XDECREF(empty_list); + Py_XDECREF(empty_dict); + return module; +} + +#define __PYX_VERIFY_RETURN_INT(target_type, func_type, func) \ + { \ + func_type value = func(x); \ + if (sizeof(target_type) < sizeof(func_type)) { \ + if (unlikely(value != (func_type) (target_type) value)) { \ + func_type zero = 0; \ + PyErr_SetString(PyExc_OverflowError, \ + (is_unsigned && unlikely(value < zero)) ? \ + "can't convert negative value to " #target_type : \ + "value too large to convert to " #target_type); \ + return (target_type) -1; \ + } \ + } \ + return (target_type) value; \ + } + +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + #include "longintrepr.h" + #endif +#endif +static CYTHON_INLINE int __Pyx_PyInt_As_int(PyObject *x) { + const int neg_one = (int) -1, const_zero = 0; + const int is_unsigned = neg_one > const_zero; +#if PY_MAJOR_VERSION < 3 + if (likely(PyInt_Check(x))) { + if (sizeof(int) < sizeof(long)) { + __PYX_VERIFY_RETURN_INT(int, long, PyInt_AS_LONG) + } else { + long val = PyInt_AS_LONG(x); + if (is_unsigned && unlikely(val < 0)) { + PyErr_SetString(PyExc_OverflowError, + "can't convert negative value to int"); + return (int) -1; + } + return (int) val; + } + } else +#endif + if (likely(PyLong_Check(x))) { + if (is_unsigned) { +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + if (sizeof(digit) <= sizeof(int)) { + switch (Py_SIZE(x)) { + case 0: return 0; + case 1: return (int) ((PyLongObject*)x)->ob_digit[0]; + } + } + #endif +#endif + if (unlikely(Py_SIZE(x) < 0)) { + PyErr_SetString(PyExc_OverflowError, + "can't convert negative value to int"); + return (int) -1; + } + if (sizeof(int) <= sizeof(unsigned long)) { + __PYX_VERIFY_RETURN_INT(int, unsigned long, PyLong_AsUnsignedLong) + } else if (sizeof(int) <= sizeof(unsigned long long)) { + __PYX_VERIFY_RETURN_INT(int, unsigned long long, PyLong_AsUnsignedLongLong) + } + } else { +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + if (sizeof(digit) <= sizeof(int)) { + switch (Py_SIZE(x)) { + case 0: return 0; + case 1: return +(int) ((PyLongObject*)x)->ob_digit[0]; + case -1: return -(int) ((PyLongObject*)x)->ob_digit[0]; + } + } + #endif +#endif + if (sizeof(int) <= sizeof(long)) { + __PYX_VERIFY_RETURN_INT(int, long, PyLong_AsLong) + } else if (sizeof(int) <= sizeof(long long)) { + __PYX_VERIFY_RETURN_INT(int, long long, PyLong_AsLongLong) + } + } + { +#if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) + PyErr_SetString(PyExc_RuntimeError, + "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); +#else + int val; + PyObject *v = __Pyx_PyNumber_Int(x); + #if PY_MAJOR_VERSION < 3 + if (likely(v) && !PyLong_Check(v)) { + PyObject *tmp = v; + v = PyNumber_Long(tmp); + Py_DECREF(tmp); + } + #endif + if (likely(v)) { + int one = 1; int is_little = (int)*(unsigned char *)&one; + unsigned char *bytes = (unsigned char *)&val; + int ret = _PyLong_AsByteArray((PyLongObject *)v, + bytes, sizeof(val), + is_little, !is_unsigned); + Py_DECREF(v); + if (likely(!ret)) + return val; + } +#endif + return (int) -1; + } + } else { + int val; + PyObject *tmp = __Pyx_PyNumber_Int(x); + if (!tmp) return (int) -1; + val = __Pyx_PyInt_As_int(tmp); + Py_DECREF(tmp); + return val; + } +} + +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + #include "longintrepr.h" + #endif +#endif +static CYTHON_INLINE unsigned int __Pyx_PyInt_As_unsigned_int(PyObject *x) { + const unsigned int neg_one = (unsigned int) -1, const_zero = 0; + const int is_unsigned = neg_one > const_zero; +#if PY_MAJOR_VERSION < 3 + if (likely(PyInt_Check(x))) { + if (sizeof(unsigned int) < sizeof(long)) { + __PYX_VERIFY_RETURN_INT(unsigned int, long, PyInt_AS_LONG) + } else { + long val = PyInt_AS_LONG(x); + if (is_unsigned && unlikely(val < 0)) { + PyErr_SetString(PyExc_OverflowError, + "can't convert negative value to unsigned int"); + return (unsigned int) -1; + } + return (unsigned int) val; + } + } else +#endif + if (likely(PyLong_Check(x))) { + if (is_unsigned) { +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + if (sizeof(digit) <= sizeof(unsigned int)) { + switch (Py_SIZE(x)) { + case 0: return 0; + case 1: return (unsigned int) ((PyLongObject*)x)->ob_digit[0]; + } + } + #endif +#endif + if (unlikely(Py_SIZE(x) < 0)) { + PyErr_SetString(PyExc_OverflowError, + "can't convert negative value to unsigned int"); + return (unsigned int) -1; + } + if (sizeof(unsigned int) <= sizeof(unsigned long)) { + __PYX_VERIFY_RETURN_INT(unsigned int, unsigned long, PyLong_AsUnsignedLong) + } else if (sizeof(unsigned int) <= sizeof(unsigned long long)) { + __PYX_VERIFY_RETURN_INT(unsigned int, unsigned long long, PyLong_AsUnsignedLongLong) + } + } else { +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + if (sizeof(digit) <= sizeof(unsigned int)) { + switch (Py_SIZE(x)) { + case 0: return 0; + case 1: return +(unsigned int) ((PyLongObject*)x)->ob_digit[0]; + case -1: return -(unsigned int) ((PyLongObject*)x)->ob_digit[0]; + } + } + #endif +#endif + if (sizeof(unsigned int) <= sizeof(long)) { + __PYX_VERIFY_RETURN_INT(unsigned int, long, PyLong_AsLong) + } else if (sizeof(unsigned int) <= sizeof(long long)) { + __PYX_VERIFY_RETURN_INT(unsigned int, long long, PyLong_AsLongLong) + } + } + { +#if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) + PyErr_SetString(PyExc_RuntimeError, + "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); +#else + unsigned int val; + PyObject *v = __Pyx_PyNumber_Int(x); + #if PY_MAJOR_VERSION < 3 + if (likely(v) && !PyLong_Check(v)) { + PyObject *tmp = v; + v = PyNumber_Long(tmp); + Py_DECREF(tmp); + } + #endif + if (likely(v)) { + int one = 1; int is_little = (int)*(unsigned char *)&one; + unsigned char *bytes = (unsigned char *)&val; + int ret = _PyLong_AsByteArray((PyLongObject *)v, + bytes, sizeof(val), + is_little, !is_unsigned); + Py_DECREF(v); + if (likely(!ret)) + return val; + } +#endif + return (unsigned int) -1; + } + } else { + unsigned int val; + PyObject *tmp = __Pyx_PyNumber_Int(x); + if (!tmp) return (unsigned int) -1; + val = __Pyx_PyInt_As_unsigned_int(tmp); + Py_DECREF(tmp); + return val; + } +} + +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + #include "longintrepr.h" + #endif +#endif +static CYTHON_INLINE unsigned long __Pyx_PyInt_As_unsigned_long(PyObject *x) { + const unsigned long neg_one = (unsigned long) -1, const_zero = 0; + const int is_unsigned = neg_one > const_zero; +#if PY_MAJOR_VERSION < 3 + if (likely(PyInt_Check(x))) { + if (sizeof(unsigned long) < sizeof(long)) { + __PYX_VERIFY_RETURN_INT(unsigned long, long, PyInt_AS_LONG) + } else { + long val = PyInt_AS_LONG(x); + if (is_unsigned && unlikely(val < 0)) { + PyErr_SetString(PyExc_OverflowError, + "can't convert negative value to unsigned long"); + return (unsigned long) -1; + } + return (unsigned long) val; + } + } else +#endif + if (likely(PyLong_Check(x))) { + if (is_unsigned) { +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + if (sizeof(digit) <= sizeof(unsigned long)) { + switch (Py_SIZE(x)) { + case 0: return 0; + case 1: return (unsigned long) ((PyLongObject*)x)->ob_digit[0]; + } + } + #endif +#endif + if (unlikely(Py_SIZE(x) < 0)) { + PyErr_SetString(PyExc_OverflowError, + "can't convert negative value to unsigned long"); + return (unsigned long) -1; + } + if (sizeof(unsigned long) <= sizeof(unsigned long)) { + __PYX_VERIFY_RETURN_INT(unsigned long, unsigned long, PyLong_AsUnsignedLong) + } else if (sizeof(unsigned long) <= sizeof(unsigned long long)) { + __PYX_VERIFY_RETURN_INT(unsigned long, unsigned long long, PyLong_AsUnsignedLongLong) + } + } else { +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + if (sizeof(digit) <= sizeof(unsigned long)) { + switch (Py_SIZE(x)) { + case 0: return 0; + case 1: return +(unsigned long) ((PyLongObject*)x)->ob_digit[0]; + case -1: return -(unsigned long) ((PyLongObject*)x)->ob_digit[0]; + } + } + #endif +#endif + if (sizeof(unsigned long) <= sizeof(long)) { + __PYX_VERIFY_RETURN_INT(unsigned long, long, PyLong_AsLong) + } else if (sizeof(unsigned long) <= sizeof(long long)) { + __PYX_VERIFY_RETURN_INT(unsigned long, long long, PyLong_AsLongLong) + } + } + { +#if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) + PyErr_SetString(PyExc_RuntimeError, + "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); +#else + unsigned long val; + PyObject *v = __Pyx_PyNumber_Int(x); + #if PY_MAJOR_VERSION < 3 + if (likely(v) && !PyLong_Check(v)) { + PyObject *tmp = v; + v = PyNumber_Long(tmp); + Py_DECREF(tmp); + } + #endif + if (likely(v)) { + int one = 1; int is_little = (int)*(unsigned char *)&one; + unsigned char *bytes = (unsigned char *)&val; + int ret = _PyLong_AsByteArray((PyLongObject *)v, + bytes, sizeof(val), + is_little, !is_unsigned); + Py_DECREF(v); + if (likely(!ret)) + return val; + } +#endif + return (unsigned long) -1; + } + } else { + unsigned long val; + PyObject *tmp = __Pyx_PyNumber_Int(x); + if (!tmp) return (unsigned long) -1; + val = __Pyx_PyInt_As_unsigned_long(tmp); + Py_DECREF(tmp); + return val; + } +} + +static CYTHON_INLINE PyObject* __Pyx_PyInt_From_int(int value) { + const int neg_one = (int) -1, const_zero = 0; + const int is_unsigned = neg_one > const_zero; + if (is_unsigned) { + if (sizeof(int) < sizeof(long)) { + return PyInt_FromLong((long) value); + } else if (sizeof(int) <= sizeof(unsigned long)) { + return PyLong_FromUnsignedLong((unsigned long) value); + } else if (sizeof(int) <= sizeof(unsigned long long)) { + return PyLong_FromUnsignedLongLong((unsigned long long) value); + } + } else { + if (sizeof(int) <= sizeof(long)) { + return PyInt_FromLong((long) value); + } else if (sizeof(int) <= sizeof(long long)) { + return PyLong_FromLongLong((long long) value); + } + } + { + int one = 1; int little = (int)*(unsigned char *)&one; + unsigned char *bytes = (unsigned char *)&value; + return _PyLong_FromByteArray(bytes, sizeof(int), + little, !is_unsigned); + } +} + +static CYTHON_INLINE PyObject* __Pyx_PyInt_From_long(long value) { + const long neg_one = (long) -1, const_zero = 0; + const int is_unsigned = neg_one > const_zero; + if (is_unsigned) { + if (sizeof(long) < sizeof(long)) { + return PyInt_FromLong((long) value); + } else if (sizeof(long) <= sizeof(unsigned long)) { + return PyLong_FromUnsignedLong((unsigned long) value); + } else if (sizeof(long) <= sizeof(unsigned long long)) { + return PyLong_FromUnsignedLongLong((unsigned long long) value); + } + } else { + if (sizeof(long) <= sizeof(long)) { + return PyInt_FromLong((long) value); + } else if (sizeof(long) <= sizeof(long long)) { + return PyLong_FromLongLong((long long) value); + } + } + { + int one = 1; int little = (int)*(unsigned char *)&one; + unsigned char *bytes = (unsigned char *)&value; + return _PyLong_FromByteArray(bytes, sizeof(long), + little, !is_unsigned); + } +} + +#if CYTHON_CCOMPLEX + #ifdef __cplusplus + static CYTHON_INLINE __pyx_t_float_complex __pyx_t_float_complex_from_parts(float x, float y) { + return ::std::complex< float >(x, y); + } + #else + static CYTHON_INLINE __pyx_t_float_complex __pyx_t_float_complex_from_parts(float x, float y) { + return x + y*(__pyx_t_float_complex)_Complex_I; + } + #endif +#else + static CYTHON_INLINE __pyx_t_float_complex __pyx_t_float_complex_from_parts(float x, float y) { + __pyx_t_float_complex z; + z.real = x; + z.imag = y; + return z; + } +#endif + +#if CYTHON_CCOMPLEX +#else + static CYTHON_INLINE int __Pyx_c_eqf(__pyx_t_float_complex a, __pyx_t_float_complex b) { + return (a.real == b.real) && (a.imag == b.imag); + } + static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_sumf(__pyx_t_float_complex a, __pyx_t_float_complex b) { + __pyx_t_float_complex z; + z.real = a.real + b.real; + z.imag = a.imag + b.imag; + return z; + } + static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_difff(__pyx_t_float_complex a, __pyx_t_float_complex b) { + __pyx_t_float_complex z; + z.real = a.real - b.real; + z.imag = a.imag - b.imag; + return z; + } + static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_prodf(__pyx_t_float_complex a, __pyx_t_float_complex b) { + __pyx_t_float_complex z; + z.real = a.real * b.real - a.imag * b.imag; + z.imag = a.real * b.imag + a.imag * b.real; + return z; + } + static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_quotf(__pyx_t_float_complex a, __pyx_t_float_complex b) { + __pyx_t_float_complex z; + float denom = b.real * b.real + b.imag * b.imag; + z.real = (a.real * b.real + a.imag * b.imag) / denom; + z.imag = (a.imag * b.real - a.real * b.imag) / denom; + return z; + } + static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_negf(__pyx_t_float_complex a) { + __pyx_t_float_complex z; + z.real = -a.real; + z.imag = -a.imag; + return z; + } + static CYTHON_INLINE int __Pyx_c_is_zerof(__pyx_t_float_complex a) { + return (a.real == 0) && (a.imag == 0); + } + static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_conjf(__pyx_t_float_complex a) { + __pyx_t_float_complex z; + z.real = a.real; + z.imag = -a.imag; + return z; + } + #if 1 + static CYTHON_INLINE float __Pyx_c_absf(__pyx_t_float_complex z) { + #if !defined(HAVE_HYPOT) || defined(_MSC_VER) + return sqrtf(z.real*z.real + z.imag*z.imag); + #else + return hypotf(z.real, z.imag); + #endif + } + static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_powf(__pyx_t_float_complex a, __pyx_t_float_complex b) { + __pyx_t_float_complex z; + float r, lnr, theta, z_r, z_theta; + if (b.imag == 0 && b.real == (int)b.real) { + if (b.real < 0) { + float denom = a.real * a.real + a.imag * a.imag; + a.real = a.real / denom; + a.imag = -a.imag / denom; + b.real = -b.real; + } + switch ((int)b.real) { + case 0: + z.real = 1; + z.imag = 0; + return z; + case 1: + return a; + case 2: + z = __Pyx_c_prodf(a, a); + return __Pyx_c_prodf(a, a); + case 3: + z = __Pyx_c_prodf(a, a); + return __Pyx_c_prodf(z, a); + case 4: + z = __Pyx_c_prodf(a, a); + return __Pyx_c_prodf(z, z); + } + } + if (a.imag == 0) { + if (a.real == 0) { + return a; + } + r = a.real; + theta = 0; + } else { + r = __Pyx_c_absf(a); + theta = atan2f(a.imag, a.real); + } + lnr = logf(r); + z_r = expf(lnr * b.real - theta * b.imag); + z_theta = theta * b.real + lnr * b.imag; + z.real = z_r * cosf(z_theta); + z.imag = z_r * sinf(z_theta); + return z; + } + #endif +#endif + +#if CYTHON_CCOMPLEX + #ifdef __cplusplus + static CYTHON_INLINE __pyx_t_double_complex __pyx_t_double_complex_from_parts(double x, double y) { + return ::std::complex< double >(x, y); + } + #else + static CYTHON_INLINE __pyx_t_double_complex __pyx_t_double_complex_from_parts(double x, double y) { + return x + y*(__pyx_t_double_complex)_Complex_I; + } + #endif +#else + static CYTHON_INLINE __pyx_t_double_complex __pyx_t_double_complex_from_parts(double x, double y) { + __pyx_t_double_complex z; + z.real = x; + z.imag = y; + return z; + } +#endif + +#if CYTHON_CCOMPLEX +#else + static CYTHON_INLINE int __Pyx_c_eq(__pyx_t_double_complex a, __pyx_t_double_complex b) { + return (a.real == b.real) && (a.imag == b.imag); + } + static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_sum(__pyx_t_double_complex a, __pyx_t_double_complex b) { + __pyx_t_double_complex z; + z.real = a.real + b.real; + z.imag = a.imag + b.imag; + return z; + } + static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_diff(__pyx_t_double_complex a, __pyx_t_double_complex b) { + __pyx_t_double_complex z; + z.real = a.real - b.real; + z.imag = a.imag - b.imag; + return z; + } + static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_prod(__pyx_t_double_complex a, __pyx_t_double_complex b) { + __pyx_t_double_complex z; + z.real = a.real * b.real - a.imag * b.imag; + z.imag = a.real * b.imag + a.imag * b.real; + return z; + } + static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_quot(__pyx_t_double_complex a, __pyx_t_double_complex b) { + __pyx_t_double_complex z; + double denom = b.real * b.real + b.imag * b.imag; + z.real = (a.real * b.real + a.imag * b.imag) / denom; + z.imag = (a.imag * b.real - a.real * b.imag) / denom; + return z; + } + static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_neg(__pyx_t_double_complex a) { + __pyx_t_double_complex z; + z.real = -a.real; + z.imag = -a.imag; + return z; + } + static CYTHON_INLINE int __Pyx_c_is_zero(__pyx_t_double_complex a) { + return (a.real == 0) && (a.imag == 0); + } + static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_conj(__pyx_t_double_complex a) { + __pyx_t_double_complex z; + z.real = a.real; + z.imag = -a.imag; + return z; + } + #if 1 + static CYTHON_INLINE double __Pyx_c_abs(__pyx_t_double_complex z) { + #if !defined(HAVE_HYPOT) || defined(_MSC_VER) + return sqrt(z.real*z.real + z.imag*z.imag); + #else + return hypot(z.real, z.imag); + #endif + } + static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_pow(__pyx_t_double_complex a, __pyx_t_double_complex b) { + __pyx_t_double_complex z; + double r, lnr, theta, z_r, z_theta; + if (b.imag == 0 && b.real == (int)b.real) { + if (b.real < 0) { + double denom = a.real * a.real + a.imag * a.imag; + a.real = a.real / denom; + a.imag = -a.imag / denom; + b.real = -b.real; + } + switch ((int)b.real) { + case 0: + z.real = 1; + z.imag = 0; + return z; + case 1: + return a; + case 2: + z = __Pyx_c_prod(a, a); + return __Pyx_c_prod(a, a); + case 3: + z = __Pyx_c_prod(a, a); + return __Pyx_c_prod(z, a); + case 4: + z = __Pyx_c_prod(a, a); + return __Pyx_c_prod(z, z); + } + } + if (a.imag == 0) { + if (a.real == 0) { + return a; + } + r = a.real; + theta = 0; + } else { + r = __Pyx_c_abs(a); + theta = atan2(a.imag, a.real); + } + lnr = log(r); + z_r = exp(lnr * b.real - theta * b.imag); + z_theta = theta * b.real + lnr * b.imag; + z.real = z_r * cos(z_theta); + z.imag = z_r * sin(z_theta); + return z; + } + #endif +#endif + +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + #include "longintrepr.h" + #endif +#endif +static CYTHON_INLINE long __Pyx_PyInt_As_long(PyObject *x) { + const long neg_one = (long) -1, const_zero = 0; + const int is_unsigned = neg_one > const_zero; +#if PY_MAJOR_VERSION < 3 + if (likely(PyInt_Check(x))) { + if (sizeof(long) < sizeof(long)) { + __PYX_VERIFY_RETURN_INT(long, long, PyInt_AS_LONG) + } else { + long val = PyInt_AS_LONG(x); + if (is_unsigned && unlikely(val < 0)) { + PyErr_SetString(PyExc_OverflowError, + "can't convert negative value to long"); + return (long) -1; + } + return (long) val; + } + } else +#endif + if (likely(PyLong_Check(x))) { + if (is_unsigned) { +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + if (sizeof(digit) <= sizeof(long)) { + switch (Py_SIZE(x)) { + case 0: return 0; + case 1: return (long) ((PyLongObject*)x)->ob_digit[0]; + } + } + #endif +#endif + if (unlikely(Py_SIZE(x) < 0)) { + PyErr_SetString(PyExc_OverflowError, + "can't convert negative value to long"); + return (long) -1; + } + if (sizeof(long) <= sizeof(unsigned long)) { + __PYX_VERIFY_RETURN_INT(long, unsigned long, PyLong_AsUnsignedLong) + } else if (sizeof(long) <= sizeof(unsigned long long)) { + __PYX_VERIFY_RETURN_INT(long, unsigned long long, PyLong_AsUnsignedLongLong) + } + } else { +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + if (sizeof(digit) <= sizeof(long)) { + switch (Py_SIZE(x)) { + case 0: return 0; + case 1: return +(long) ((PyLongObject*)x)->ob_digit[0]; + case -1: return -(long) ((PyLongObject*)x)->ob_digit[0]; + } + } + #endif +#endif + if (sizeof(long) <= sizeof(long)) { + __PYX_VERIFY_RETURN_INT(long, long, PyLong_AsLong) + } else if (sizeof(long) <= sizeof(long long)) { + __PYX_VERIFY_RETURN_INT(long, long long, PyLong_AsLongLong) + } + } + { +#if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) + PyErr_SetString(PyExc_RuntimeError, + "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); +#else + long val; + PyObject *v = __Pyx_PyNumber_Int(x); + #if PY_MAJOR_VERSION < 3 + if (likely(v) && !PyLong_Check(v)) { + PyObject *tmp = v; + v = PyNumber_Long(tmp); + Py_DECREF(tmp); + } + #endif + if (likely(v)) { + int one = 1; int is_little = (int)*(unsigned char *)&one; + unsigned char *bytes = (unsigned char *)&val; + int ret = _PyLong_AsByteArray((PyLongObject *)v, + bytes, sizeof(val), + is_little, !is_unsigned); + Py_DECREF(v); + if (likely(!ret)) + return val; + } +#endif + return (long) -1; + } + } else { + long val; + PyObject *tmp = __Pyx_PyNumber_Int(x); + if (!tmp) return (long) -1; + val = __Pyx_PyInt_As_long(tmp); + Py_DECREF(tmp); + return val; + } +} + +static int __Pyx_check_binary_version(void) { + char ctversion[4], rtversion[4]; + PyOS_snprintf(ctversion, 4, "%d.%d", PY_MAJOR_VERSION, PY_MINOR_VERSION); + PyOS_snprintf(rtversion, 4, "%s", Py_GetVersion()); + if (ctversion[0] != rtversion[0] || ctversion[2] != rtversion[2]) { + char message[200]; + PyOS_snprintf(message, sizeof(message), + "compiletime version %s of module '%.100s' " + "does not match runtime version %s", + ctversion, __Pyx_MODULE_NAME, rtversion); + #if PY_VERSION_HEX < 0x02050000 + return PyErr_Warn(NULL, message); + #else + return PyErr_WarnEx(NULL, message, 1); + #endif + } + return 0; +} + +#ifndef __PYX_HAVE_RT_ImportModule +#define __PYX_HAVE_RT_ImportModule +static PyObject *__Pyx_ImportModule(const char *name) { + PyObject *py_name = 0; + PyObject *py_module = 0; + py_name = __Pyx_PyIdentifier_FromString(name); + if (!py_name) + goto bad; + py_module = PyImport_Import(py_name); + Py_DECREF(py_name); + return py_module; +bad: + Py_XDECREF(py_name); + return 0; +} +#endif + +#ifndef __PYX_HAVE_RT_ImportType +#define __PYX_HAVE_RT_ImportType +static PyTypeObject *__Pyx_ImportType(const char *module_name, const char *class_name, + size_t size, int strict) +{ + PyObject *py_module = 0; + PyObject *result = 0; + PyObject *py_name = 0; + char warning[200]; + Py_ssize_t basicsize; +#ifdef Py_LIMITED_API + PyObject *py_basicsize; +#endif + py_module = __Pyx_ImportModule(module_name); + if (!py_module) + goto bad; + py_name = __Pyx_PyIdentifier_FromString(class_name); + if (!py_name) + goto bad; + result = PyObject_GetAttr(py_module, py_name); + Py_DECREF(py_name); + py_name = 0; + Py_DECREF(py_module); + py_module = 0; + if (!result) + goto bad; + if (!PyType_Check(result)) { + PyErr_Format(PyExc_TypeError, + "%.200s.%.200s is not a type object", + module_name, class_name); + goto bad; + } +#ifndef Py_LIMITED_API + basicsize = ((PyTypeObject *)result)->tp_basicsize; +#else + py_basicsize = PyObject_GetAttrString(result, "__basicsize__"); + if (!py_basicsize) + goto bad; + basicsize = PyLong_AsSsize_t(py_basicsize); + Py_DECREF(py_basicsize); + py_basicsize = 0; + if (basicsize == (Py_ssize_t)-1 && PyErr_Occurred()) + goto bad; +#endif + if (!strict && (size_t)basicsize > size) { + PyOS_snprintf(warning, sizeof(warning), + "%s.%s size changed, may indicate binary incompatibility", + module_name, class_name); + #if PY_VERSION_HEX < 0x02050000 + if (PyErr_Warn(NULL, warning) < 0) goto bad; + #else + if (PyErr_WarnEx(NULL, warning, 0) < 0) goto bad; + #endif + } + else if ((size_t)basicsize != size) { + PyErr_Format(PyExc_ValueError, + "%.200s.%.200s has the wrong size, try recompiling", + module_name, class_name); + goto bad; + } + return (PyTypeObject *)result; +bad: + Py_XDECREF(py_module); + Py_XDECREF(result); + return NULL; +} +#endif + +static int __pyx_bisect_code_objects(__Pyx_CodeObjectCacheEntry* entries, int count, int code_line) { + int start = 0, mid = 0, end = count - 1; + if (end >= 0 && code_line > entries[end].code_line) { + return count; + } + while (start < end) { + mid = (start + end) / 2; + if (code_line < entries[mid].code_line) { + end = mid; + } else if (code_line > entries[mid].code_line) { + start = mid + 1; + } else { + return mid; + } + } + if (code_line <= entries[mid].code_line) { + return mid; + } else { + return mid + 1; + } +} +static PyCodeObject *__pyx_find_code_object(int code_line) { + PyCodeObject* code_object; + int pos; + if (unlikely(!code_line) || unlikely(!__pyx_code_cache.entries)) { + return NULL; + } + pos = __pyx_bisect_code_objects(__pyx_code_cache.entries, __pyx_code_cache.count, code_line); + if (unlikely(pos >= __pyx_code_cache.count) || unlikely(__pyx_code_cache.entries[pos].code_line != code_line)) { + return NULL; + } + code_object = __pyx_code_cache.entries[pos].code_object; + Py_INCREF(code_object); + return code_object; +} +static void __pyx_insert_code_object(int code_line, PyCodeObject* code_object) { + int pos, i; + __Pyx_CodeObjectCacheEntry* entries = __pyx_code_cache.entries; + if (unlikely(!code_line)) { + return; + } + if (unlikely(!entries)) { + entries = (__Pyx_CodeObjectCacheEntry*)PyMem_Malloc(64*sizeof(__Pyx_CodeObjectCacheEntry)); + if (likely(entries)) { + __pyx_code_cache.entries = entries; + __pyx_code_cache.max_count = 64; + __pyx_code_cache.count = 1; + entries[0].code_line = code_line; + entries[0].code_object = code_object; + Py_INCREF(code_object); + } + return; + } + pos = __pyx_bisect_code_objects(__pyx_code_cache.entries, __pyx_code_cache.count, code_line); + if ((pos < __pyx_code_cache.count) && unlikely(__pyx_code_cache.entries[pos].code_line == code_line)) { + PyCodeObject* tmp = entries[pos].code_object; + entries[pos].code_object = code_object; + Py_DECREF(tmp); + return; + } + if (__pyx_code_cache.count == __pyx_code_cache.max_count) { + int new_max = __pyx_code_cache.max_count + 64; + entries = (__Pyx_CodeObjectCacheEntry*)PyMem_Realloc( + __pyx_code_cache.entries, new_max*sizeof(__Pyx_CodeObjectCacheEntry)); + if (unlikely(!entries)) { + return; + } + __pyx_code_cache.entries = entries; + __pyx_code_cache.max_count = new_max; + } + for (i=__pyx_code_cache.count; i>pos; i--) { + entries[i] = entries[i-1]; + } + entries[pos].code_line = code_line; + entries[pos].code_object = code_object; + __pyx_code_cache.count++; + Py_INCREF(code_object); +} + +#include "compile.h" +#include "frameobject.h" +#include "traceback.h" +static PyCodeObject* __Pyx_CreateCodeObjectForTraceback( + const char *funcname, int c_line, + int py_line, const char *filename) { + PyCodeObject *py_code = 0; + PyObject *py_srcfile = 0; + PyObject *py_funcname = 0; + #if PY_MAJOR_VERSION < 3 + py_srcfile = PyString_FromString(filename); + #else + py_srcfile = PyUnicode_FromString(filename); + #endif + if (!py_srcfile) goto bad; + if (c_line) { + #if PY_MAJOR_VERSION < 3 + py_funcname = PyString_FromFormat( "%s (%s:%d)", funcname, __pyx_cfilenm, c_line); + #else + py_funcname = PyUnicode_FromFormat( "%s (%s:%d)", funcname, __pyx_cfilenm, c_line); + #endif + } + else { + #if PY_MAJOR_VERSION < 3 + py_funcname = PyString_FromString(funcname); + #else + py_funcname = PyUnicode_FromString(funcname); + #endif + } + if (!py_funcname) goto bad; + py_code = __Pyx_PyCode_New( + 0, /*int argcount,*/ + 0, /*int kwonlyargcount,*/ + 0, /*int nlocals,*/ + 0, /*int stacksize,*/ + 0, /*int flags,*/ + __pyx_empty_bytes, /*PyObject *code,*/ + __pyx_empty_tuple, /*PyObject *consts,*/ + __pyx_empty_tuple, /*PyObject *names,*/ + __pyx_empty_tuple, /*PyObject *varnames,*/ + __pyx_empty_tuple, /*PyObject *freevars,*/ + __pyx_empty_tuple, /*PyObject *cellvars,*/ + py_srcfile, /*PyObject *filename,*/ + py_funcname, /*PyObject *name,*/ + py_line, /*int firstlineno,*/ + __pyx_empty_bytes /*PyObject *lnotab*/ + ); + Py_DECREF(py_srcfile); + Py_DECREF(py_funcname); + return py_code; +bad: + Py_XDECREF(py_srcfile); + Py_XDECREF(py_funcname); + return NULL; +} +static void __Pyx_AddTraceback(const char *funcname, int c_line, + int py_line, const char *filename) { + PyCodeObject *py_code = 0; + PyObject *py_globals = 0; + PyFrameObject *py_frame = 0; + py_code = __pyx_find_code_object(c_line ? c_line : py_line); + if (!py_code) { + py_code = __Pyx_CreateCodeObjectForTraceback( + funcname, c_line, py_line, filename); + if (!py_code) goto bad; + __pyx_insert_code_object(c_line ? c_line : py_line, py_code); + } + py_globals = PyModule_GetDict(__pyx_m); + if (!py_globals) goto bad; + py_frame = PyFrame_New( + PyThreadState_GET(), /*PyThreadState *tstate,*/ + py_code, /*PyCodeObject *code,*/ + py_globals, /*PyObject *globals,*/ + 0 /*PyObject *locals*/ + ); + if (!py_frame) goto bad; + py_frame->f_lineno = py_line; + PyTraceBack_Here(py_frame); +bad: + Py_XDECREF(py_code); + Py_XDECREF(py_frame); +} + +static int __Pyx_InitStrings(__Pyx_StringTabEntry *t) { + while (t->p) { + #if PY_MAJOR_VERSION < 3 + if (t->is_unicode) { + *t->p = PyUnicode_DecodeUTF8(t->s, t->n - 1, NULL); + } else if (t->intern) { + *t->p = PyString_InternFromString(t->s); + } else { + *t->p = PyString_FromStringAndSize(t->s, t->n - 1); + } + #else /* Python 3+ has unicode identifiers */ + if (t->is_unicode | t->is_str) { + if (t->intern) { + *t->p = PyUnicode_InternFromString(t->s); + } else if (t->encoding) { + *t->p = PyUnicode_Decode(t->s, t->n - 1, t->encoding, NULL); + } else { + *t->p = PyUnicode_FromStringAndSize(t->s, t->n - 1); + } + } else { + *t->p = PyBytes_FromStringAndSize(t->s, t->n - 1); + } + #endif + if (!*t->p) + return -1; + ++t; + } + return 0; +} + +static CYTHON_INLINE PyObject* __Pyx_PyUnicode_FromString(const char* c_str) { + return __Pyx_PyUnicode_FromStringAndSize(c_str, strlen(c_str)); +} +static CYTHON_INLINE char* __Pyx_PyObject_AsString(PyObject* o) { + Py_ssize_t ignore; + return __Pyx_PyObject_AsStringAndSize(o, &ignore); +} +static CYTHON_INLINE char* __Pyx_PyObject_AsStringAndSize(PyObject* o, Py_ssize_t *length) { +#if __PYX_DEFAULT_STRING_ENCODING_IS_ASCII || __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT + if ( +#if PY_MAJOR_VERSION < 3 && __PYX_DEFAULT_STRING_ENCODING_IS_ASCII + __Pyx_sys_getdefaultencoding_not_ascii && +#endif + PyUnicode_Check(o)) { +#if PY_VERSION_HEX < 0x03030000 + char* defenc_c; + PyObject* defenc = _PyUnicode_AsDefaultEncodedString(o, NULL); + if (!defenc) return NULL; + defenc_c = PyBytes_AS_STRING(defenc); +#if __PYX_DEFAULT_STRING_ENCODING_IS_ASCII + { + char* end = defenc_c + PyBytes_GET_SIZE(defenc); + char* c; + for (c = defenc_c; c < end; c++) { + if ((unsigned char) (*c) >= 128) { + PyUnicode_AsASCIIString(o); + return NULL; + } + } + } +#endif /*__PYX_DEFAULT_STRING_ENCODING_IS_ASCII*/ + *length = PyBytes_GET_SIZE(defenc); + return defenc_c; +#else /* PY_VERSION_HEX < 0x03030000 */ + if (PyUnicode_READY(o) == -1) return NULL; +#if __PYX_DEFAULT_STRING_ENCODING_IS_ASCII + if (PyUnicode_IS_ASCII(o)) { + *length = PyUnicode_GET_LENGTH(o); + return PyUnicode_AsUTF8(o); + } else { + PyUnicode_AsASCIIString(o); + return NULL; + } +#else /* __PYX_DEFAULT_STRING_ENCODING_IS_ASCII */ + return PyUnicode_AsUTF8AndSize(o, length); +#endif /* __PYX_DEFAULT_STRING_ENCODING_IS_ASCII */ +#endif /* PY_VERSION_HEX < 0x03030000 */ + } else +#endif /* __PYX_DEFAULT_STRING_ENCODING_IS_ASCII || __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT */ +#if !CYTHON_COMPILING_IN_PYPY +#if PY_VERSION_HEX >= 0x02060000 + if (PyByteArray_Check(o)) { + *length = PyByteArray_GET_SIZE(o); + return PyByteArray_AS_STRING(o); + } else +#endif +#endif + { + char* result; + int r = PyBytes_AsStringAndSize(o, &result, length); + if (unlikely(r < 0)) { + return NULL; + } else { + return result; + } + } +} +static CYTHON_INLINE int __Pyx_PyObject_IsTrue(PyObject* x) { + int is_true = x == Py_True; + if (is_true | (x == Py_False) | (x == Py_None)) return is_true; + else return PyObject_IsTrue(x); +} +static CYTHON_INLINE PyObject* __Pyx_PyNumber_Int(PyObject* x) { + PyNumberMethods *m; + const char *name = NULL; + PyObject *res = NULL; +#if PY_MAJOR_VERSION < 3 + if (PyInt_Check(x) || PyLong_Check(x)) +#else + if (PyLong_Check(x)) +#endif + return Py_INCREF(x), x; + m = Py_TYPE(x)->tp_as_number; +#if PY_MAJOR_VERSION < 3 + if (m && m->nb_int) { + name = "int"; + res = PyNumber_Int(x); + } + else if (m && m->nb_long) { + name = "long"; + res = PyNumber_Long(x); + } +#else + if (m && m->nb_int) { + name = "int"; + res = PyNumber_Long(x); + } +#endif + if (res) { +#if PY_MAJOR_VERSION < 3 + if (!PyInt_Check(res) && !PyLong_Check(res)) { +#else + if (!PyLong_Check(res)) { +#endif + PyErr_Format(PyExc_TypeError, + "__%.4s__ returned non-%.4s (type %.200s)", + name, name, Py_TYPE(res)->tp_name); + Py_DECREF(res); + return NULL; + } + } + else if (!PyErr_Occurred()) { + PyErr_SetString(PyExc_TypeError, + "an integer is required"); + } + return res; +} +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + #include "longintrepr.h" + #endif +#endif +static CYTHON_INLINE Py_ssize_t __Pyx_PyIndex_AsSsize_t(PyObject* b) { + Py_ssize_t ival; + PyObject *x; +#if PY_MAJOR_VERSION < 3 + if (likely(PyInt_CheckExact(b))) + return PyInt_AS_LONG(b); +#endif + if (likely(PyLong_CheckExact(b))) { + #if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + switch (Py_SIZE(b)) { + case -1: return -(sdigit)((PyLongObject*)b)->ob_digit[0]; + case 0: return 0; + case 1: return ((PyLongObject*)b)->ob_digit[0]; + } + #endif + #endif + #if PY_VERSION_HEX < 0x02060000 + return PyInt_AsSsize_t(b); + #else + return PyLong_AsSsize_t(b); + #endif + } + x = PyNumber_Index(b); + if (!x) return -1; + ival = PyInt_AsSsize_t(x); + Py_DECREF(x); + return ival; +} +static CYTHON_INLINE PyObject * __Pyx_PyInt_FromSize_t(size_t ival) { +#if PY_VERSION_HEX < 0x02050000 + if (ival <= LONG_MAX) + return PyInt_FromLong((long)ival); + else { + unsigned char *bytes = (unsigned char *) &ival; + int one = 1; int little = (int)*(unsigned char*)&one; + return _PyLong_FromByteArray(bytes, sizeof(size_t), little, 0); + } +#else + return PyInt_FromSize_t(ival); +#endif +} + + +#endif /* Py_PYTHON_H */ diff --git a/nipy/labs/utils/routines.pyx b/nipy/labs/utils/routines.pyx index 6569d7c6ce..4b41f45a38 100644 --- a/nipy/labs/utils/routines.pyx +++ b/nipy/labs/utils/routines.pyx @@ -21,7 +21,7 @@ warn('Module nipy.labs.utils.routines deprecated, will be removed', # Exports from fff_gen_stats.h cdef extern from "fff_gen_stats.h": - double fff_mahalanobis(fff_vector* x, fff_matrix* S, fff_vector* xaux, fff_vector* Saux) + double fff_mahalanobis(fff_vector* x, fff_matrix* S, fff_vector* xaux, fff_matrix* Saux) void fff_permutation(unsigned int* x, unsigned int n, unsigned long int magic) void fff_combination(unsigned int* x, unsigned int k, unsigned int n, @@ -55,7 +55,8 @@ def quantile(X, double ratio, int interp=False, int axis=0): Partial sorting algorithm, very fast!!! """ - cdef fff_vector *x, *y + cdef fff_vector *x + cdef fff_vector *y cdef fffpy_multi_iterator* multi # Allocate output array Y @@ -168,10 +169,16 @@ def svd(X): """ cdef int axis=0 cdef int m, n, dmin, dmax, lwork, liwork, info - cdef fff_vector *work, *x_flat, *x_flat_tmp, *s, *s_tmp + cdef fff_vector *work + cdef fff_vector *x_flat + cdef fff_vector *x_flat_tmp + cdef fff_vector *s + cdef fff_vector *s_tmp cdef fff_matrix x cdef fff_array *iwork - cdef fff_matrix *Aux, *U, *Vt + cdef fff_matrix *Aux + cdef fff_matrix *U + cdef fff_matrix *Vt cdef fffpy_multi_iterator* multi # Shape of matrices @@ -240,7 +247,8 @@ def permutations(unsigned int n, unsigned int m=1, unsigned long magic=0): P = permutations(n, m=1, magic=0). Generate m permutations from [0..n[. """ - cdef fff_array *p, *pi + cdef fff_array *p + cdef fff_array *pi cdef fff_array pi_view cdef unsigned int i p = fff_array_new2d(FFF_UINT, n, m) @@ -260,7 +268,8 @@ def combinations(unsigned int k, unsigned int n, unsigned int m=1, unsigned long P = combinations(k, n, m=1, magic=0). Generate m combinations of k elements from [0..n[. """ - cdef fff_array *p, *pi + cdef fff_array *p + cdef fff_array *pi cdef fff_array pi_view cdef unsigned int i p = fff_array_new2d(FFF_UINT, k, m) From 02cf23b7af07440021ae6459cd0d104f4e7eca6e Mon Sep 17 00:00:00 2001 From: Alexis Roche Date: Mon, 30 Mar 2015 12:40:05 +0200 Subject: [PATCH 3/3] attempt to fix OSX compilation error --- lib/fff/fff_base.c | 6 - lib/fff/fff_base.h | 47 - lib/fff/fff_blas.c | 63 +- lib/fff/fff_blas.h | 29 + lib/fff/fff_lapack.c | 20 +- lib/fff/fff_lapack.h | 15 + lib/fff_python_wrapper/fffpy.c | 12 +- lib/fff_python_wrapper/fffpy.h | 10 +- .../fffpy_import_lapack.pxi | 74 +- nipy/labs/bindings/array.c | 214 +- nipy/labs/bindings/array.pyx | 19 +- nipy/labs/bindings/linalg.c | 2602 +++++++++-------- nipy/labs/bindings/linalg.pyx | 64 +- nipy/labs/bindings/wrapper.c | 328 +-- nipy/labs/bindings/wrapper.pyx | 19 +- nipy/labs/glm/kalman.c | 1021 +++---- nipy/labs/glm/kalman.pyx | 10 +- nipy/labs/group/glm_twolevel.c | 1211 ++++---- nipy/labs/group/glm_twolevel.pyx | 15 +- nipy/labs/group/onesample.c | 1319 +++++---- nipy/labs/group/onesample.pyx | 21 +- nipy/labs/group/twosample.c | 1053 +++---- nipy/labs/group/twosample.pyx | 21 +- nipy/labs/utils/routines.c | 451 +-- 24 files changed, 4480 insertions(+), 4164 deletions(-) diff --git a/lib/fff/fff_base.c b/lib/fff/fff_base.c index e4d6441a39..cb7dcc6b0e 100644 --- a/lib/fff/fff_base.c +++ b/lib/fff/fff_base.c @@ -44,12 +44,6 @@ unsigned int fff_nbytes(fff_datatype type) } -void fff_import_external_func(void* func_ptr, int k) -{ - FFF_EXTERNAL_FUNC[k] = func_ptr; - return; -} - int fff_is_integer(fff_datatype type) { int ok = 0; diff --git a/lib/fff/fff_base.h b/lib/fff/fff_base.h index 204acb0c4b..0a2c9ebdc2 100644 --- a/lib/fff/fff_base.h +++ b/lib/fff/fff_base.h @@ -153,53 +153,6 @@ extern "C" { } fff_datatype; - /* Global array of external function pointers */ - void* FFF_EXTERNAL_FUNC[29]; - typedef enum { - FFF_BLAS_DDOT=0, - FFF_BLAS_DNRM2=1, - FFF_BLAS_DASUM=2, - FFF_BLAS_IDAMAX=3, - FFF_BLAS_DSWAP=4, - FFF_BLAS_DCOPY=5, - FFF_BLAS_DAXPY=6, - FFF_BLAS_DSCAL=7, - FFF_BLAS_DROT=8, - FFF_BLAS_DROTG=9, - FFF_BLAS_DROTMG=10, - FFF_BLAS_DROTM=11, - FFF_BLAS_DGEMV=12, - FFF_BLAS_DTRMV=13, - FFF_BLAS_DTRSV=14, - FFF_BLAS_DSYMV=15, - FFF_BLAS_DGER=16, - FFF_BLAS_DSYR=17, - FFF_BLAS_DSYR2=18, - FFF_BLAS_DGEMM=19, - FFF_BLAS_DSYMM=20, - FFF_BLAS_DTRMM=21, - FFF_BLAS_DTRSM=22, - FFF_BLAS_DSYRK=23, - FFF_BLAS_DSYR2K=24, - FFF_LAPACK_DGETRF=25, - FFF_LAPACK_DPOTRF=26, - FFF_LAPACK_DPOTRS=27, - FFF_LAPACK_DGESDD=28, - FFF_LAPACK_DGEQRF=29 - } fff_external_func_key; - - /* - Lapack functions: - dgetrf : LU decomp - dpotrf: Cholesky decomp - dpotrs: solve linear system using Cholesky decomp - dgesdd: SVD decomp - dgeqrf: QR decomp - */ - - /* Import function */ - extern void fff_import_external_func(void* func_ptr, int k); - /*! \brief Return the byte length of a given data type \param type input data type diff --git a/lib/fff/fff_blas.c b/lib/fff/fff_blas.c index 8db8d1b3ff..a186cf0fda 100644 --- a/lib/fff/fff_blas.c +++ b/lib/fff/fff_blas.c @@ -3,7 +3,6 @@ #include -#define FNAME FFF_FNAME /* TODO : add tests for dimension compatibility */ @@ -19,6 +18,16 @@ #define SWAP_SIDE(Side) ( (Side)==(CblasRight) ? "L" : "R" ) +/* Global array of external function pointers */ +void* fff_blas_func[25]; + +/* Import function */ +void fff_import_blas_func(void* func_ptr, int k) +{ + fff_blas_func[k] = func_ptr; + return; +} + /****** BLAS 1 ******/ @@ -30,7 +39,7 @@ double fff_blas_ddot (const fff_vector * x, const fff_vector * y) int incy = (int) y->stride; double (*ddot)(int* n, double* dx, int* incx, double* dy, int* incy); - ddot = FFF_EXTERNAL_FUNC[FFF_BLAS_DDOT]; + ddot = fff_blas_func[FFF_BLAS_DDOT]; if ( n != y->size ) return 1; @@ -45,7 +54,7 @@ double fff_blas_dnrm2 (const fff_vector * x) int incx = (int) x->stride; double (*dnrm2)(int* n, double* x, int* incx); - dnrm2 = FFF_EXTERNAL_FUNC[FFF_BLAS_DNRM2]; + dnrm2 = fff_blas_func[FFF_BLAS_DNRM2]; return( (*dnrm2)(&n, x->data, &incx) ); } @@ -57,7 +66,7 @@ double fff_blas_dasum (const fff_vector * x) int incx = (int) x->stride; double (*dasum)(int* n, double* dx, int* incx); - dasum = FFF_EXTERNAL_FUNC[FFF_BLAS_DASUM]; + dasum = fff_blas_func[FFF_BLAS_DASUM]; return( (*dasum)(&n, x->data, &incx) ); } @@ -74,7 +83,7 @@ CBLAS_INDEX_t fff_blas_idamax (const fff_vector * x) int incx = (int) x->stride; int (*idamax)(int* n, double* dx, int* incx); - idamax = FFF_EXTERNAL_FUNC[FFF_BLAS_IDAMAX]; + idamax = fff_blas_func[FFF_BLAS_IDAMAX]; return( (CBLAS_INDEX_t)((*idamax)(&n, x->data, &incx) - 1) ); } @@ -88,7 +97,7 @@ int fff_blas_dswap (fff_vector * x, fff_vector * y) int (*dswap)(int* n, double* dx, int* incx, double* dy, int* incy); - dswap = FFF_EXTERNAL_FUNC[FFF_BLAS_DSWAP]; + dswap = fff_blas_func[FFF_BLAS_DSWAP]; if ( n != y->size ) return 1; @@ -105,7 +114,7 @@ int fff_blas_dcopy (const fff_vector * x, fff_vector * y) int (*dcopy)(int* n, double* dx, int* incx, double* dy, int* incy); - dcopy = FFF_EXTERNAL_FUNC[FFF_BLAS_DCOPY]; + dcopy = fff_blas_func[FFF_BLAS_DCOPY]; if ( n != y->size ) return 1; @@ -125,7 +134,7 @@ int fff_blas_daxpy (double alpha, const fff_vector * x, fff_vector * y) if ( n != y->size ) return 1; - daxpy = FFF_EXTERNAL_FUNC[FFF_BLAS_DAXPY]; + daxpy = fff_blas_func[FFF_BLAS_DAXPY]; return( (*daxpy)(&n, &alpha, x->data, &incx, y->data, &incy) ); } @@ -138,7 +147,7 @@ int fff_blas_dscal (double alpha, fff_vector * x) int (*dscal)(int* n, double* da, double* dx, int* incx); - dscal = FFF_EXTERNAL_FUNC[FFF_BLAS_DSCAL]; + dscal = fff_blas_func[FFF_BLAS_DSCAL]; return( (*dscal)(&n, &alpha, x->data, &incx) ); } @@ -156,7 +165,7 @@ int fff_blas_drotg (double a[], double b[], double c[], double s[]) int (*drotg)(double* da, double* db, double* c__, double* s); - drotg = FFF_EXTERNAL_FUNC[FFF_BLAS_DROTG]; + drotg = fff_blas_func[FFF_BLAS_DROTG]; return( (*drotg)(a, b, c, s) ); } @@ -170,7 +179,7 @@ int fff_blas_drot (fff_vector * x, fff_vector * y, double c, double s) int (*drot)(int* n, double* dx, int* incx, double* dy, int* incy, double* c__, double* s); - drot = FFF_EXTERNAL_FUNC[FFF_BLAS_DROT]; + drot = fff_blas_func[FFF_BLAS_DROT]; if ( n != y->size ) return 1; @@ -186,7 +195,7 @@ int fff_blas_drotmg (double d1[], double d2[], double b1[], double b2, double P[ int (*drotmg)(double* dd1, double* dd2, double* dx1, double* dy1, double* dparam); - drotmg = FFF_EXTERNAL_FUNC[FFF_BLAS_DROTMG]; + drotmg = fff_blas_func[FFF_BLAS_DROTMG]; return( (*drotmg)(d1, d2, b1, &b2, P) ); } @@ -201,7 +210,7 @@ int fff_blas_drotm (fff_vector * x, fff_vector * y, const double P[]) int (*drotm)(int* n, double* dx, int* incx, double* dy, int* incy, double* dparam); - drotm = FFF_EXTERNAL_FUNC[FFF_BLAS_DROTM]; + drotm = fff_blas_func[FFF_BLAS_DROTM]; if ( n != y->size ) return 1; @@ -230,7 +239,7 @@ int fff_blas_dgemv (CBLAS_TRANSPOSE_t TransA, double alpha, alpha, double* a, int* lda, double* x, int* incx, double* beta, double* y, int* incy); - dgemv = FFF_EXTERNAL_FUNC[FFF_BLAS_DGEMV]; + dgemv = fff_blas_func[FFF_BLAS_DGEMV]; return( (*dgemv)(trans, &m, &n, &alpha, @@ -261,7 +270,7 @@ int fff_blas_dtrmv (CBLAS_UPLO_t Uplo, CBLAS_TRANSPOSE_t TransA, CBLAS_DIAG_t Di int (*dtrmv)(char *uplo, char *trans, char *diag, int* n, double* a, int* lda, double* x, int* incx); - dtrmv = FFF_EXTERNAL_FUNC[FFF_BLAS_DTRMV]; + dtrmv = fff_blas_func[FFF_BLAS_DTRMV]; return( (*dtrmv)(uplo, trans, diag, &n, A->data, &lda, @@ -289,7 +298,7 @@ int fff_blas_dtrsv (CBLAS_UPLO_t Uplo, CBLAS_TRANSPOSE_t TransA, CBLAS_DIAG_t Di int (*dtrsv)(char *uplo, char *trans, char *diag, int* n, double* a, int* lda, double* x, int* incx); - dtrsv = FFF_EXTERNAL_FUNC[FFF_BLAS_DTRSV]; + dtrsv = fff_blas_func[FFF_BLAS_DTRSV]; return( (*dtrsv)(uplo, trans, diag, &n, A->data, &lda, @@ -316,7 +325,7 @@ int fff_blas_dsymv (CBLAS_UPLO_t Uplo, double* a, int* lda, double* x, int* incx, double *beta, double* y, int* incy); - dsymv = FFF_EXTERNAL_FUNC[FFF_BLAS_DSYMV]; + dsymv = fff_blas_func[FFF_BLAS_DSYMV]; return( (*dsymv)(uplo, &n, &alpha, @@ -339,7 +348,7 @@ int fff_blas_dger (double alpha, const fff_vector * x, const fff_vector * y, fff double* x, int* incx, double* y, int* incy, double* a, int* lda); - dger = FFF_EXTERNAL_FUNC[FFF_BLAS_DGER]; + dger = fff_blas_func[FFF_BLAS_DGER]; return( (*dger)(&m, &n, &alpha, @@ -364,7 +373,7 @@ int fff_blas_dsyr (CBLAS_UPLO_t Uplo, double alpha, const fff_vector * x, fff_ma int (*dsyr)(char *uplo, int* n, double* alpha, double* x, int* incx, double* a, int* lda); - dsyr = FFF_EXTERNAL_FUNC[FFF_BLAS_DSYR]; + dsyr = fff_blas_func[FFF_BLAS_DSYR]; return( (*dsyr)(uplo, &n, &alpha, @@ -392,7 +401,7 @@ int fff_blas_dsyr2 (CBLAS_UPLO_t Uplo, double alpha, double* x, int* incx, double* y, int* incy, double* a, int* lda); - dsyr2 = FFF_EXTERNAL_FUNC[FFF_BLAS_DSYR2]; + dsyr2 = fff_blas_func[FFF_BLAS_DSYR2]; return( (*dsyr2)(uplo, &n, &alpha, @@ -435,7 +444,7 @@ int fff_blas_dgemm (CBLAS_TRANSPOSE_t TransA, CBLAS_TRANSPOSE_t TransB, double* b, int* ldb, double* beta, double* c__, int* ldc); - dgemm = FFF_EXTERNAL_FUNC[FFF_BLAS_DGEMM]; + dgemm = fff_blas_func[FFF_BLAS_DGEMM]; return( (*dgemm)(transb, transa, &m, &n, &k, &alpha, B->data, &ldb, @@ -465,7 +474,7 @@ int fff_blas_dsymm (CBLAS_SIDE_t Side, CBLAS_UPLO_t Uplo, double* alpha, double* a, int* lda, double* b, int* ldb, double* beta, double* c__, int* ldc); - dsymm = FFF_EXTERNAL_FUNC[FFF_BLAS_DSYMM]; + dsymm = fff_blas_func[FFF_BLAS_DSYMM]; return ( (*dsymm)(side, uplo, &m, &n, &alpha, @@ -500,7 +509,7 @@ int fff_blas_dtrmm (CBLAS_SIDE_t Side, CBLAS_UPLO_t Uplo, CBLAS_TRANSPOSE_t Tran int* m, int* n, double* alpha, double* a, int* lda, double* b, int* ldb); - dtrmm = FFF_EXTERNAL_FUNC[FFF_BLAS_DTRMM]; + dtrmm = fff_blas_func[FFF_BLAS_DTRMM]; return( (*dtrmm)(side, uplo, transa, diag, &m, &n, &alpha, @@ -535,7 +544,7 @@ int fff_blas_dtrsm (CBLAS_SIDE_t Side, CBLAS_UPLO_t Uplo, CBLAS_TRANSPOSE_t Tran int* m, int* n, double* alpha, double* a, int* lda, double* b, int* ldb); - dtrsm = FFF_EXTERNAL_FUNC[FFF_BLAS_DTRSM]; + dtrsm = fff_blas_func[FFF_BLAS_DTRSM]; return( (*dtrsm)(side, uplo, transa, diag, &m, &n, &alpha, @@ -565,7 +574,7 @@ int fff_blas_dsyrk (CBLAS_UPLO_t Uplo, CBLAS_TRANSPOSE_t Trans, double* alpha, double* a, int* lda, double* beta, double* c__, int* ldc); - dsyrk = FFF_EXTERNAL_FUNC[FFF_BLAS_DSYRK]; + dsyrk = fff_blas_func[FFF_BLAS_DSYRK]; return( (*dsyrk)(uplo, trans, &n, &k, &alpha, @@ -597,7 +606,7 @@ int fff_blas_dsyr2k (CBLAS_UPLO_t Uplo, CBLAS_TRANSPOSE_t Trans, double* alpha, double* a, int* lda, double* b, int* ldb, double* beta, double* c__, int* ldc); - dsyr2k = FFF_EXTERNAL_FUNC[FFF_BLAS_DSYR2K]; + dsyr2k = fff_blas_func[FFF_BLAS_DSYR2K]; return( (*dsyr2k)(uplo, trans, &n, &k, &alpha, @@ -606,3 +615,5 @@ int fff_blas_dsyr2k (CBLAS_UPLO_t Uplo, CBLAS_TRANSPOSE_t Trans, &beta, C->data, &ldc) ); } + + diff --git a/lib/fff/fff_blas.h b/lib/fff/fff_blas.h index f4923beb93..799b0e4aa8 100644 --- a/lib/fff/fff_blas.h +++ b/lib/fff/fff_blas.h @@ -26,6 +26,35 @@ extern "C" { typedef enum {CblasNonUnit=131, CblasUnit=132} CBLAS_DIAG_t; typedef enum {CblasLeft=141, CblasRight=142} CBLAS_SIDE_t; + typedef enum { + FFF_BLAS_DDOT=0, + FFF_BLAS_DNRM2=1, + FFF_BLAS_DASUM=2, + FFF_BLAS_IDAMAX=3, + FFF_BLAS_DSWAP=4, + FFF_BLAS_DCOPY=5, + FFF_BLAS_DAXPY=6, + FFF_BLAS_DSCAL=7, + FFF_BLAS_DROT=8, + FFF_BLAS_DROTG=9, + FFF_BLAS_DROTMG=10, + FFF_BLAS_DROTM=11, + FFF_BLAS_DGEMV=12, + FFF_BLAS_DTRMV=13, + FFF_BLAS_DTRSV=14, + FFF_BLAS_DSYMV=15, + FFF_BLAS_DGER=16, + FFF_BLAS_DSYR=17, + FFF_BLAS_DSYR2=18, + FFF_BLAS_DGEMM=19, + FFF_BLAS_DSYMM=20, + FFF_BLAS_DTRMM=21, + FFF_BLAS_DTRSM=22, + FFF_BLAS_DSYRK=23, + FFF_BLAS_DSYR2K=24 + } fff_blas_func_key; + + /* Import function */ extern void fff_blas_import_func(void* func_ptr, int k); diff --git a/lib/fff/fff_lapack.c b/lib/fff/fff_lapack.c index ee32bb6a34..4d75ac17fa 100644 --- a/lib/fff/fff_lapack.c +++ b/lib/fff/fff_lapack.c @@ -11,6 +11,16 @@ #define LAPACK_UPLO(Uplo) ( (Uplo)==(CblasUpper) ? "U" : "L" ) +/* Global array of external function pointers */ +void* fff_lapack_func[5]; + +/* Import function */ +void fff_import_lapack_func(void* func_ptr, int k) +{ + fff_lapack_func[k] = func_ptr; + return; +} + /* Cholesky decomposition */ /*** Aux needs be square with the same size as A ***/ @@ -42,7 +52,7 @@ int fff_lapack_dgetrf( fff_matrix* A, fff_array* ipiv, fff_matrix* Aux ) int lda = (int)Aux->tda; int (*dgetrf)(int* m, int* n, double* a, int* lda, int* ipiv, int* info); - dgetrf = FFF_EXTERNAL_FUNC[FFF_LAPACK_DGETRF]; + dgetrf = fff_lapack_func[FFF_LAPACK_DGETRF]; if ( (ipiv->ndims != 1) || (ipiv->datatype != FFF_INT) || @@ -71,7 +81,7 @@ int fff_lapack_dgeqrf( fff_matrix* A, fff_vector* tau, fff_vector* work, fff_mat int lwork = (int)work->size; int (*dgeqrf)(int* m, int* n, double* a, int* lda, double* tau, double* work, int* lwork, int* info); - dgeqrf = FFF_EXTERNAL_FUNC[FFF_LAPACK_DGEQRF]; + dgeqrf = fff_lapack_func[FFF_LAPACK_DGEQRF]; if ( (tau->size != FFF_MIN(m,n)) || (tau->stride != 1) ) @@ -124,7 +134,7 @@ int fff_lapack_dgesdd( fff_matrix* A, fff_vector* s, fff_matrix* U, fff_matrix* int (*dgesdd)(char *jobz, int* m, int* n, double* a, int* lda, double* s, double* u, int* ldu, double* vt, int* ldvt, double* work, int* lwork, int* iwork, int* info); - dgesdd = FFF_EXTERNAL_FUNC[FFF_LAPACK_DGESDD]; + dgesdd = fff_lapack_func[FFF_LAPACK_DGESDD]; fff_matrix Aux_mm, Aux_nn; @@ -265,8 +275,8 @@ int fff_lapack_solve_chol( const fff_matrix* A, fff_vector* y, fff_matrix* Aux ) int (*dpotrf)(char *uplo, int* n, double* a, int* lda, int* info); int (*dpotrs)(char *uplo, int* n, int* nrhs, double* a, int* lda, double* b, int* ldb, int* info); - dpotrf = FFF_EXTERNAL_FUNC[FFF_LAPACK_DPOTRF]; - dpotrs = FFF_EXTERNAL_FUNC[FFF_LAPACK_DPOTRS]; + dpotrf = fff_lapack_func[FFF_LAPACK_DPOTRF]; + dpotrs = fff_lapack_func[FFF_LAPACK_DPOTRS]; CHECK_SQUARE(A); diff --git a/lib/fff/fff_lapack.h b/lib/fff/fff_lapack.h index cbb7b2323a..5d019d3870 100644 --- a/lib/fff/fff_lapack.h +++ b/lib/fff/fff_lapack.h @@ -32,6 +32,21 @@ extern "C" { #include "fff_blas.h" #include "fff_array.h" + typedef enum { + FFF_LAPACK_DGETRF=0, + FFF_LAPACK_DPOTRF=1, + FFF_LAPACK_DPOTRS=2, + FFF_LAPACK_DGESDD=3, + FFF_LAPACK_DGEQRF=4 + } fff_lapack_func_key; + + /* + dgetrf : LU decomp + dpotrf: Cholesky decomp + dpotrs: solve linear system using Cholesky decomp + dgesdd: SVD decomp + dgeqrf: QR decomp + */ /* Import function */ extern void fff_lapack_import_func(void* func_ptr, int k); diff --git a/lib/fff_python_wrapper/fffpy.c b/lib/fff_python_wrapper/fffpy.c index fb25d0c505..8f0596bc6e 100644 --- a/lib/fff_python_wrapper/fffpy.c +++ b/lib/fff_python_wrapper/fffpy.c @@ -16,11 +16,17 @@ void fffpy_import_array(void) { /* - Function to import required blas/lapack functions on the fly. + Functions to import required blas/lapack functions on the fly. */ -void fffpy_import_external_func(const PyObject* ptr, int key) +void fffpy_import_blas_func(const PyObject* ptr, int key) { - fff_import_external_func((void*)PyCObject_AsVoidPtr((PyObject*)ptr), key); + fff_import_blas_func((void*)PyCObject_AsVoidPtr((PyObject*)ptr), key); + return; +} + +void fffpy_import_lapack_func(const PyObject* ptr, int key) +{ + fff_import_lapack_func((void*)PyCObject_AsVoidPtr((PyObject*)ptr), key); return; } diff --git a/lib/fff_python_wrapper/fffpy.h b/lib/fff_python_wrapper/fffpy.h index fd047e6f3f..c428e4bdbc 100644 --- a/lib/fff_python_wrapper/fffpy.h +++ b/lib/fff_python_wrapper/fffpy.h @@ -4,6 +4,8 @@ #include #include #include +#include +#include /*! @@ -35,10 +37,11 @@ extern void fffpy_import_array(void); /* - Function to import a C-function on the fly from a Python C-object - representing the function pointer. + Functions to import blas and lapack C-functions on the fly from a + Python C-object representing the function pointer. */ -extern void fffpy_import_external_func(const PyObject* ptr, int key); +extern void fffpy_import_blas_func(const PyObject* ptr, int key); +extern void fffpy_import_lapack_func(const PyObject* ptr, int key); /*! \brief Convert \c PyArrayObject to \c fff_vector @@ -120,7 +123,6 @@ extern PyArrayObject* fff_matrix_toPyArray(fff_matrix* y); extern PyArrayObject* fff_matrix_const_toPyArray(const fff_matrix* y); - /*! \brief Maps a numpy array to an fff_array \param x input array diff --git a/lib/fff_python_wrapper/fffpy_import_lapack.pxi b/lib/fff_python_wrapper/fffpy_import_lapack.pxi index 6b47de0784..9975e90219 100644 --- a/lib/fff_python_wrapper/fffpy_import_lapack.pxi +++ b/lib/fff_python_wrapper/fffpy_import_lapack.pxi @@ -5,9 +5,8 @@ from scipy.linalg._fblas import (ddot, dnrm2, dasum, idamax, dswap, dger, dgemm, dsymm, dsyrk, dsyr2k) from scipy.linalg._flapack import (dgetrf, dpotrf, dpotrs, dgesdd, dgeqrf) -cdef extern from "fff_base.h": - - ctypedef enum fff_external_func_key: +cdef extern from "fff_blas.h": + ctypedef enum fff_blas_func_key: FFF_BLAS_DDOT = 0, FFF_BLAS_DNRM2 = 1, FFF_BLAS_DASUM = 2, @@ -32,40 +31,45 @@ cdef extern from "fff_base.h": FFF_BLAS_DTRMM = 21, FFF_BLAS_DTRSM = 22, FFF_BLAS_DSYRK = 23, - FFF_BLAS_DSYR2K = 24, - FFF_LAPACK_DGETRF = 25, - FFF_LAPACK_DPOTRF = 26, - FFF_LAPACK_DPOTRS = 27, - FFF_LAPACK_DGESDD = 28, - FFF_LAPACK_DGEQRF = 29 + FFF_BLAS_DSYR2K = 24 + + +cdef extern from "fff_lapack.h": + ctypedef enum fff_lapack_func_key: + FFF_LAPACK_DGETRF = 0, + FFF_LAPACK_DPOTRF = 1, + FFF_LAPACK_DPOTRS = 2, + FFF_LAPACK_DGESDD = 3, + FFF_LAPACK_DGEQRF = 4 cdef extern from "fffpy.h": - void fffpy_import_external_func(object ptr, int key) + void fffpy_import_blas_func(object ptr, int key) + void fffpy_import_lapack_func(object ptr, int key) def fffpy_import_lapack(): - fffpy_import_external_func(ddot._cpointer, FFF_BLAS_DDOT) - fffpy_import_external_func(dnrm2._cpointer, FFF_BLAS_DNRM2) - fffpy_import_external_func(dasum._cpointer, FFF_BLAS_DASUM) - fffpy_import_external_func(idamax._cpointer, FFF_BLAS_IDAMAX) - fffpy_import_external_func(dswap._cpointer, FFF_BLAS_DSWAP) - fffpy_import_external_func(dcopy._cpointer, FFF_BLAS_DCOPY) - fffpy_import_external_func(daxpy._cpointer, FFF_BLAS_DAXPY) - fffpy_import_external_func(dscal._cpointer, FFF_BLAS_DSCAL) - fffpy_import_external_func(drot._cpointer, FFF_BLAS_DROT) - fffpy_import_external_func(drotg._cpointer, FFF_BLAS_DROTG) - fffpy_import_external_func(drotmg._cpointer, FFF_BLAS_DROTMG) - fffpy_import_external_func(drotm._cpointer, FFF_BLAS_DROTM) - fffpy_import_external_func(dgemv._cpointer, FFF_BLAS_DGEMV) - fffpy_import_external_func(dtrmv._cpointer, FFF_BLAS_DTRMV) - fffpy_import_external_func(dsymv._cpointer, FFF_BLAS_DSYMV) - fffpy_import_external_func(dger._cpointer, FFF_BLAS_DGER) - fffpy_import_external_func(dgemm._cpointer, FFF_BLAS_DGEMM) - fffpy_import_external_func(dsymm._cpointer, FFF_BLAS_DSYMM) - fffpy_import_external_func(dsyrk._cpointer, FFF_BLAS_DSYRK) - fffpy_import_external_func(dsyr2k._cpointer, FFF_BLAS_DSYR2K) - fffpy_import_external_func(dgetrf._cpointer, FFF_LAPACK_DGETRF) - fffpy_import_external_func(dpotrf._cpointer, FFF_LAPACK_DPOTRF) - fffpy_import_external_func(dpotrs._cpointer, FFF_LAPACK_DPOTRS) - fffpy_import_external_func(dgesdd._cpointer, FFF_LAPACK_DGESDD) - fffpy_import_external_func(dgeqrf._cpointer, FFF_LAPACK_DGEQRF) + fffpy_import_blas_func(ddot._cpointer, FFF_BLAS_DDOT) + fffpy_import_blas_func(dnrm2._cpointer, FFF_BLAS_DNRM2) + fffpy_import_blas_func(dasum._cpointer, FFF_BLAS_DASUM) + fffpy_import_blas_func(idamax._cpointer, FFF_BLAS_IDAMAX) + fffpy_import_blas_func(dswap._cpointer, FFF_BLAS_DSWAP) + fffpy_import_blas_func(dcopy._cpointer, FFF_BLAS_DCOPY) + fffpy_import_blas_func(daxpy._cpointer, FFF_BLAS_DAXPY) + fffpy_import_blas_func(dscal._cpointer, FFF_BLAS_DSCAL) + fffpy_import_blas_func(drot._cpointer, FFF_BLAS_DROT) + fffpy_import_blas_func(drotg._cpointer, FFF_BLAS_DROTG) + fffpy_import_blas_func(drotmg._cpointer, FFF_BLAS_DROTMG) + fffpy_import_blas_func(drotm._cpointer, FFF_BLAS_DROTM) + fffpy_import_blas_func(dgemv._cpointer, FFF_BLAS_DGEMV) + fffpy_import_blas_func(dtrmv._cpointer, FFF_BLAS_DTRMV) + fffpy_import_blas_func(dsymv._cpointer, FFF_BLAS_DSYMV) + fffpy_import_blas_func(dger._cpointer, FFF_BLAS_DGER) + fffpy_import_blas_func(dgemm._cpointer, FFF_BLAS_DGEMM) + fffpy_import_blas_func(dsymm._cpointer, FFF_BLAS_DSYMM) + fffpy_import_blas_func(dsyrk._cpointer, FFF_BLAS_DSYRK) + fffpy_import_blas_func(dsyr2k._cpointer, FFF_BLAS_DSYR2K) + fffpy_import_lapack_func(dgetrf._cpointer, FFF_LAPACK_DGETRF) + fffpy_import_lapack_func(dpotrf._cpointer, FFF_LAPACK_DPOTRF) + fffpy_import_lapack_func(dpotrs._cpointer, FFF_LAPACK_DPOTRS) + fffpy_import_lapack_func(dgesdd._cpointer, FFF_LAPACK_DGESDD) + fffpy_import_lapack_func(dgeqrf._cpointer, FFF_LAPACK_DGEQRF) diff --git a/nipy/labs/bindings/array.c b/nipy/labs/bindings/array.c index ca4a5251c2..90a3b9bbcc 100644 --- a/nipy/labs/bindings/array.c +++ b/nipy/labs/bindings/array.c @@ -1,4 +1,4 @@ -/* Generated by Cython 0.20.1post0 (Debian 0.20.1+git90-g0e6e38e-1ubuntu2) on Mon Nov 10 15:43:41 2014 */ +/* Generated by Cython 0.20.1post0 (Debian 0.20.1+git90-g0e6e38e-1ubuntu2) on Mon Mar 30 13:58:46 2015 */ #define PY_SSIZE_T_CLEAN #ifndef CYTHON_USE_PYLONG_INTERNALS @@ -1653,17 +1653,17 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_5array_2array_get_block(CYTHON_U int __pyx_clineno = 0; __Pyx_RefNannySetupContext("array_get_block", 0); - /* "nipy/labs/bindings/array.pyx":47 - * cdef fff_array *a, *b + /* "nipy/labs/bindings/array.pyx":48 + * cdef fff_array *b * cdef fff_array asub * a = fff_array_fromPyArray(A) # <<<<<<<<<<<<<< * asub = fff_array_get_block(a, x0, x1, fX, y0, y1, fY, z0, z1, fZ, t0, t1, fT) * b = fff_array_new(asub.datatype, asub.dimX, asub.dimY, asub.dimZ, asub.dimT) */ - if (!(likely(((__pyx_v_A) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_A, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 47; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (!(likely(((__pyx_v_A) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_A, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 48; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __pyx_v_a = fff_array_fromPyArray(((PyArrayObject *)__pyx_v_A)); - /* "nipy/labs/bindings/array.pyx":48 + /* "nipy/labs/bindings/array.pyx":49 * cdef fff_array asub * a = fff_array_fromPyArray(A) * asub = fff_array_get_block(a, x0, x1, fX, y0, y1, fY, z0, z1, fZ, t0, t1, fT) # <<<<<<<<<<<<<< @@ -1672,7 +1672,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_5array_2array_get_block(CYTHON_U */ __pyx_v_asub = fff_array_get_block(__pyx_v_a, __pyx_v_x0, __pyx_v_x1, __pyx_v_fX, __pyx_v_y0, __pyx_v_y1, __pyx_v_fY, __pyx_v_z0, __pyx_v_z1, __pyx_v_fZ, __pyx_v_t0, __pyx_v_t1, __pyx_v_fT); - /* "nipy/labs/bindings/array.pyx":49 + /* "nipy/labs/bindings/array.pyx":50 * a = fff_array_fromPyArray(A) * asub = fff_array_get_block(a, x0, x1, fX, y0, y1, fY, z0, z1, fZ, t0, t1, fT) * b = fff_array_new(asub.datatype, asub.dimX, asub.dimY, asub.dimZ, asub.dimT) # <<<<<<<<<<<<<< @@ -1681,7 +1681,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_5array_2array_get_block(CYTHON_U */ __pyx_v_b = fff_array_new(__pyx_v_asub.datatype, __pyx_v_asub.dimX, __pyx_v_asub.dimY, __pyx_v_asub.dimZ, __pyx_v_asub.dimT); - /* "nipy/labs/bindings/array.pyx":50 + /* "nipy/labs/bindings/array.pyx":51 * asub = fff_array_get_block(a, x0, x1, fX, y0, y1, fY, z0, z1, fZ, t0, t1, fT) * b = fff_array_new(asub.datatype, asub.dimX, asub.dimY, asub.dimZ, asub.dimT) * fff_array_copy(b, &asub) # <<<<<<<<<<<<<< @@ -1690,19 +1690,19 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_5array_2array_get_block(CYTHON_U */ fff_array_copy(__pyx_v_b, (&__pyx_v_asub)); - /* "nipy/labs/bindings/array.pyx":51 + /* "nipy/labs/bindings/array.pyx":52 * b = fff_array_new(asub.datatype, asub.dimX, asub.dimY, asub.dimZ, asub.dimT) * fff_array_copy(b, &asub) * B = fff_array_toPyArray(b) # <<<<<<<<<<<<<< * fff_array_delete(a) * return B */ - __pyx_t_1 = ((PyObject *)fff_array_toPyArray(__pyx_v_b)); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 51; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = ((PyObject *)fff_array_toPyArray(__pyx_v_b)); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 52; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); __pyx_v_B = ((PyArrayObject *)__pyx_t_1); __pyx_t_1 = 0; - /* "nipy/labs/bindings/array.pyx":52 + /* "nipy/labs/bindings/array.pyx":53 * fff_array_copy(b, &asub) * B = fff_array_toPyArray(b) * fff_array_delete(a) # <<<<<<<<<<<<<< @@ -1711,7 +1711,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_5array_2array_get_block(CYTHON_U */ fff_array_delete(__pyx_v_a); - /* "nipy/labs/bindings/array.pyx":53 + /* "nipy/labs/bindings/array.pyx":54 * B = fff_array_toPyArray(b) * fff_array_delete(a) * return B # <<<<<<<<<<<<<< @@ -1743,7 +1743,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_5array_2array_get_block(CYTHON_U return __pyx_r; } -/* "nipy/labs/bindings/array.pyx":56 +/* "nipy/labs/bindings/array.pyx":57 * * * def array_add(A, B): # <<<<<<<<<<<<<< @@ -1784,11 +1784,11 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_5array_5array_add(PyObject *__py case 1: if (likely((values[1] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_B)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("array_add", 1, 2, 2, 1); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 56; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("array_add", 1, 2, 2, 1); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 57; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } if (unlikely(kw_args > 0)) { - if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "array_add") < 0)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 56; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "array_add") < 0)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 57; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } else if (PyTuple_GET_SIZE(__pyx_args) != 2) { goto __pyx_L5_argtuple_error; @@ -1801,7 +1801,7 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_5array_5array_add(PyObject *__py } goto __pyx_L4_argument_unpacking_done; __pyx_L5_argtuple_error:; - __Pyx_RaiseArgtupleInvalid("array_add", 1, 2, 2, PyTuple_GET_SIZE(__pyx_args)); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 56; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("array_add", 1, 2, 2, PyTuple_GET_SIZE(__pyx_args)); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 57; __pyx_clineno = __LINE__; goto __pyx_L3_error;} __pyx_L3_error:; __Pyx_AddTraceback("nipy.labs.bindings.array.array_add", __pyx_clineno, __pyx_lineno, __pyx_filename); __Pyx_RefNannyFinishContext(); @@ -1827,27 +1827,27 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_5array_4array_add(CYTHON_UNUSED int __pyx_clineno = 0; __Pyx_RefNannySetupContext("array_add", 0); - /* "nipy/labs/bindings/array.pyx":62 - * cdef fff_array *a, *b, *c + /* "nipy/labs/bindings/array.pyx":65 + * cdef fff_array *c * * a = fff_array_fromPyArray(A) # <<<<<<<<<<<<<< * b = fff_array_fromPyArray(B) * c = fff_array_new(a.datatype, a.dimX, a.dimY, a.dimZ, a.dimT) */ - if (!(likely(((__pyx_v_A) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_A, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 62; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (!(likely(((__pyx_v_A) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_A, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 65; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __pyx_v_a = fff_array_fromPyArray(((PyArrayObject *)__pyx_v_A)); - /* "nipy/labs/bindings/array.pyx":63 + /* "nipy/labs/bindings/array.pyx":66 * * a = fff_array_fromPyArray(A) * b = fff_array_fromPyArray(B) # <<<<<<<<<<<<<< * c = fff_array_new(a.datatype, a.dimX, a.dimY, a.dimZ, a.dimT) * fff_array_copy(c, a) */ - if (!(likely(((__pyx_v_B) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_B, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 63; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (!(likely(((__pyx_v_B) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_B, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 66; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __pyx_v_b = fff_array_fromPyArray(((PyArrayObject *)__pyx_v_B)); - /* "nipy/labs/bindings/array.pyx":64 + /* "nipy/labs/bindings/array.pyx":67 * a = fff_array_fromPyArray(A) * b = fff_array_fromPyArray(B) * c = fff_array_new(a.datatype, a.dimX, a.dimY, a.dimZ, a.dimT) # <<<<<<<<<<<<<< @@ -1856,7 +1856,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_5array_4array_add(CYTHON_UNUSED */ __pyx_v_c = fff_array_new(__pyx_v_a->datatype, __pyx_v_a->dimX, __pyx_v_a->dimY, __pyx_v_a->dimZ, __pyx_v_a->dimT); - /* "nipy/labs/bindings/array.pyx":65 + /* "nipy/labs/bindings/array.pyx":68 * b = fff_array_fromPyArray(B) * c = fff_array_new(a.datatype, a.dimX, a.dimY, a.dimZ, a.dimT) * fff_array_copy(c, a) # <<<<<<<<<<<<<< @@ -1865,7 +1865,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_5array_4array_add(CYTHON_UNUSED */ fff_array_copy(__pyx_v_c, __pyx_v_a); - /* "nipy/labs/bindings/array.pyx":66 + /* "nipy/labs/bindings/array.pyx":69 * c = fff_array_new(a.datatype, a.dimX, a.dimY, a.dimZ, a.dimT) * fff_array_copy(c, a) * fff_array_add(c, b) # <<<<<<<<<<<<<< @@ -1874,19 +1874,19 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_5array_4array_add(CYTHON_UNUSED */ fff_array_add(__pyx_v_c, __pyx_v_b); - /* "nipy/labs/bindings/array.pyx":67 + /* "nipy/labs/bindings/array.pyx":70 * fff_array_copy(c, a) * fff_array_add(c, b) * C = fff_array_toPyArray(c) # <<<<<<<<<<<<<< * fff_array_delete(a) * fff_array_delete(b) */ - __pyx_t_1 = ((PyObject *)fff_array_toPyArray(__pyx_v_c)); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 67; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = ((PyObject *)fff_array_toPyArray(__pyx_v_c)); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 70; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); __pyx_v_C = ((PyArrayObject *)__pyx_t_1); __pyx_t_1 = 0; - /* "nipy/labs/bindings/array.pyx":68 + /* "nipy/labs/bindings/array.pyx":71 * fff_array_add(c, b) * C = fff_array_toPyArray(c) * fff_array_delete(a) # <<<<<<<<<<<<<< @@ -1895,7 +1895,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_5array_4array_add(CYTHON_UNUSED */ fff_array_delete(__pyx_v_a); - /* "nipy/labs/bindings/array.pyx":69 + /* "nipy/labs/bindings/array.pyx":72 * C = fff_array_toPyArray(c) * fff_array_delete(a) * fff_array_delete(b) # <<<<<<<<<<<<<< @@ -1904,7 +1904,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_5array_4array_add(CYTHON_UNUSED */ fff_array_delete(__pyx_v_b); - /* "nipy/labs/bindings/array.pyx":70 + /* "nipy/labs/bindings/array.pyx":73 * fff_array_delete(a) * fff_array_delete(b) * return C # <<<<<<<<<<<<<< @@ -1916,7 +1916,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_5array_4array_add(CYTHON_UNUSED __pyx_r = ((PyObject *)__pyx_v_C); goto __pyx_L0; - /* "nipy/labs/bindings/array.pyx":56 + /* "nipy/labs/bindings/array.pyx":57 * * * def array_add(A, B): # <<<<<<<<<<<<<< @@ -1936,7 +1936,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_5array_4array_add(CYTHON_UNUSED return __pyx_r; } -/* "nipy/labs/bindings/array.pyx":73 +/* "nipy/labs/bindings/array.pyx":76 * * * def array_mul(A, B): # <<<<<<<<<<<<<< @@ -1977,11 +1977,11 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_5array_7array_mul(PyObject *__py case 1: if (likely((values[1] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_B)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("array_mul", 1, 2, 2, 1); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 73; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("array_mul", 1, 2, 2, 1); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 76; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } if (unlikely(kw_args > 0)) { - if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "array_mul") < 0)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 73; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "array_mul") < 0)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 76; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } else if (PyTuple_GET_SIZE(__pyx_args) != 2) { goto __pyx_L5_argtuple_error; @@ -1994,7 +1994,7 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_5array_7array_mul(PyObject *__py } goto __pyx_L4_argument_unpacking_done; __pyx_L5_argtuple_error:; - __Pyx_RaiseArgtupleInvalid("array_mul", 1, 2, 2, PyTuple_GET_SIZE(__pyx_args)); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 73; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("array_mul", 1, 2, 2, PyTuple_GET_SIZE(__pyx_args)); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 76; __pyx_clineno = __LINE__; goto __pyx_L3_error;} __pyx_L3_error:; __Pyx_AddTraceback("nipy.labs.bindings.array.array_mul", __pyx_clineno, __pyx_lineno, __pyx_filename); __Pyx_RefNannyFinishContext(); @@ -2020,27 +2020,27 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_5array_6array_mul(CYTHON_UNUSED int __pyx_clineno = 0; __Pyx_RefNannySetupContext("array_mul", 0); - /* "nipy/labs/bindings/array.pyx":79 - * cdef fff_array *a, *b, *c + /* "nipy/labs/bindings/array.pyx":84 + * cdef fff_array *c * * a = fff_array_fromPyArray(A) # <<<<<<<<<<<<<< * b = fff_array_fromPyArray(B) * c = fff_array_new(a.datatype, a.dimX, a.dimY, a.dimZ, a.dimT) */ - if (!(likely(((__pyx_v_A) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_A, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 79; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (!(likely(((__pyx_v_A) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_A, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 84; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __pyx_v_a = fff_array_fromPyArray(((PyArrayObject *)__pyx_v_A)); - /* "nipy/labs/bindings/array.pyx":80 + /* "nipy/labs/bindings/array.pyx":85 * * a = fff_array_fromPyArray(A) * b = fff_array_fromPyArray(B) # <<<<<<<<<<<<<< * c = fff_array_new(a.datatype, a.dimX, a.dimY, a.dimZ, a.dimT) * fff_array_copy(c, a) */ - if (!(likely(((__pyx_v_B) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_B, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 80; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (!(likely(((__pyx_v_B) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_B, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 85; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __pyx_v_b = fff_array_fromPyArray(((PyArrayObject *)__pyx_v_B)); - /* "nipy/labs/bindings/array.pyx":81 + /* "nipy/labs/bindings/array.pyx":86 * a = fff_array_fromPyArray(A) * b = fff_array_fromPyArray(B) * c = fff_array_new(a.datatype, a.dimX, a.dimY, a.dimZ, a.dimT) # <<<<<<<<<<<<<< @@ -2049,7 +2049,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_5array_6array_mul(CYTHON_UNUSED */ __pyx_v_c = fff_array_new(__pyx_v_a->datatype, __pyx_v_a->dimX, __pyx_v_a->dimY, __pyx_v_a->dimZ, __pyx_v_a->dimT); - /* "nipy/labs/bindings/array.pyx":82 + /* "nipy/labs/bindings/array.pyx":87 * b = fff_array_fromPyArray(B) * c = fff_array_new(a.datatype, a.dimX, a.dimY, a.dimZ, a.dimT) * fff_array_copy(c, a) # <<<<<<<<<<<<<< @@ -2058,7 +2058,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_5array_6array_mul(CYTHON_UNUSED */ fff_array_copy(__pyx_v_c, __pyx_v_a); - /* "nipy/labs/bindings/array.pyx":83 + /* "nipy/labs/bindings/array.pyx":88 * c = fff_array_new(a.datatype, a.dimX, a.dimY, a.dimZ, a.dimT) * fff_array_copy(c, a) * fff_array_mul(c, b) # <<<<<<<<<<<<<< @@ -2067,19 +2067,19 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_5array_6array_mul(CYTHON_UNUSED */ fff_array_mul(__pyx_v_c, __pyx_v_b); - /* "nipy/labs/bindings/array.pyx":84 + /* "nipy/labs/bindings/array.pyx":89 * fff_array_copy(c, a) * fff_array_mul(c, b) * C = fff_array_toPyArray(c) # <<<<<<<<<<<<<< * fff_array_delete(a) * fff_array_delete(b) */ - __pyx_t_1 = ((PyObject *)fff_array_toPyArray(__pyx_v_c)); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 84; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = ((PyObject *)fff_array_toPyArray(__pyx_v_c)); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 89; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); __pyx_v_C = ((PyArrayObject *)__pyx_t_1); __pyx_t_1 = 0; - /* "nipy/labs/bindings/array.pyx":85 + /* "nipy/labs/bindings/array.pyx":90 * fff_array_mul(c, b) * C = fff_array_toPyArray(c) * fff_array_delete(a) # <<<<<<<<<<<<<< @@ -2088,7 +2088,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_5array_6array_mul(CYTHON_UNUSED */ fff_array_delete(__pyx_v_a); - /* "nipy/labs/bindings/array.pyx":86 + /* "nipy/labs/bindings/array.pyx":91 * C = fff_array_toPyArray(c) * fff_array_delete(a) * fff_array_delete(b) # <<<<<<<<<<<<<< @@ -2097,7 +2097,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_5array_6array_mul(CYTHON_UNUSED */ fff_array_delete(__pyx_v_b); - /* "nipy/labs/bindings/array.pyx":87 + /* "nipy/labs/bindings/array.pyx":92 * fff_array_delete(a) * fff_array_delete(b) * return C # <<<<<<<<<<<<<< @@ -2109,7 +2109,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_5array_6array_mul(CYTHON_UNUSED __pyx_r = ((PyObject *)__pyx_v_C); goto __pyx_L0; - /* "nipy/labs/bindings/array.pyx":73 + /* "nipy/labs/bindings/array.pyx":76 * * * def array_mul(A, B): # <<<<<<<<<<<<<< @@ -2129,7 +2129,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_5array_6array_mul(CYTHON_UNUSED return __pyx_r; } -/* "nipy/labs/bindings/array.pyx":90 +/* "nipy/labs/bindings/array.pyx":95 * * * def array_sub(A, B): # <<<<<<<<<<<<<< @@ -2170,11 +2170,11 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_5array_9array_sub(PyObject *__py case 1: if (likely((values[1] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_B)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("array_sub", 1, 2, 2, 1); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 90; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("array_sub", 1, 2, 2, 1); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 95; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } if (unlikely(kw_args > 0)) { - if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "array_sub") < 0)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 90; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "array_sub") < 0)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 95; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } else if (PyTuple_GET_SIZE(__pyx_args) != 2) { goto __pyx_L5_argtuple_error; @@ -2187,7 +2187,7 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_5array_9array_sub(PyObject *__py } goto __pyx_L4_argument_unpacking_done; __pyx_L5_argtuple_error:; - __Pyx_RaiseArgtupleInvalid("array_sub", 1, 2, 2, PyTuple_GET_SIZE(__pyx_args)); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 90; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("array_sub", 1, 2, 2, PyTuple_GET_SIZE(__pyx_args)); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 95; __pyx_clineno = __LINE__; goto __pyx_L3_error;} __pyx_L3_error:; __Pyx_AddTraceback("nipy.labs.bindings.array.array_sub", __pyx_clineno, __pyx_lineno, __pyx_filename); __Pyx_RefNannyFinishContext(); 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*__pyx_pf_4nipy_4labs_8bindings_5array_8array_sub(CYTHON_UNUSED */ __pyx_v_c = fff_array_new(__pyx_v_a->datatype, __pyx_v_a->dimX, __pyx_v_a->dimY, __pyx_v_a->dimZ, __pyx_v_a->dimT); - /* "nipy/labs/bindings/array.pyx":99 + /* "nipy/labs/bindings/array.pyx":106 * b = fff_array_fromPyArray(B) * c = fff_array_new(a.datatype, a.dimX, a.dimY, a.dimZ, a.dimT) * fff_array_copy(c, a) # <<<<<<<<<<<<<< @@ -2251,7 +2251,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_5array_8array_sub(CYTHON_UNUSED */ fff_array_copy(__pyx_v_c, __pyx_v_a); - /* "nipy/labs/bindings/array.pyx":100 + /* "nipy/labs/bindings/array.pyx":107 * c = fff_array_new(a.datatype, a.dimX, a.dimY, a.dimZ, a.dimT) * fff_array_copy(c, a) * fff_array_sub(c, b) # <<<<<<<<<<<<<< @@ -2260,19 +2260,19 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_5array_8array_sub(CYTHON_UNUSED */ fff_array_sub(__pyx_v_c, __pyx_v_b); - /* "nipy/labs/bindings/array.pyx":101 + /* "nipy/labs/bindings/array.pyx":108 * fff_array_copy(c, a) * fff_array_sub(c, b) * C = fff_array_toPyArray(c) # <<<<<<<<<<<<<< * fff_array_delete(a) * fff_array_delete(b) */ - __pyx_t_1 = ((PyObject *)fff_array_toPyArray(__pyx_v_c)); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 101; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = ((PyObject *)fff_array_toPyArray(__pyx_v_c)); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 108; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); __pyx_v_C = ((PyArrayObject *)__pyx_t_1); __pyx_t_1 = 0; - /* "nipy/labs/bindings/array.pyx":102 + /* "nipy/labs/bindings/array.pyx":109 * fff_array_sub(c, b) * C = fff_array_toPyArray(c) * fff_array_delete(a) # <<<<<<<<<<<<<< @@ -2281,7 +2281,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_5array_8array_sub(CYTHON_UNUSED */ fff_array_delete(__pyx_v_a); - /* "nipy/labs/bindings/array.pyx":103 + /* "nipy/labs/bindings/array.pyx":110 * C = fff_array_toPyArray(c) * fff_array_delete(a) * fff_array_delete(b) # <<<<<<<<<<<<<< @@ -2290,7 +2290,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_5array_8array_sub(CYTHON_UNUSED */ fff_array_delete(__pyx_v_b); - /* "nipy/labs/bindings/array.pyx":104 + /* "nipy/labs/bindings/array.pyx":111 * fff_array_delete(a) * fff_array_delete(b) * return C # <<<<<<<<<<<<<< @@ -2302,7 +2302,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_5array_8array_sub(CYTHON_UNUSED __pyx_r = ((PyObject *)__pyx_v_C); goto __pyx_L0; - /* "nipy/labs/bindings/array.pyx":90 + /* "nipy/labs/bindings/array.pyx":95 * * * def array_sub(A, B): # <<<<<<<<<<<<<< @@ -2322,7 +2322,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_5array_8array_sub(CYTHON_UNUSED return __pyx_r; } -/* "nipy/labs/bindings/array.pyx":107 +/* "nipy/labs/bindings/array.pyx":114 * * * def array_div(A, B): # <<<<<<<<<<<<<< @@ -2363,11 +2363,11 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_5array_11array_div(PyObject *__p case 1: if (likely((values[1] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_B)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("array_div", 1, 2, 2, 1); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 107; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("array_div", 1, 2, 2, 1); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 114; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } if (unlikely(kw_args > 0)) { - if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "array_div") < 0)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 107; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "array_div") < 0)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 114; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } else if (PyTuple_GET_SIZE(__pyx_args) != 2) { goto __pyx_L5_argtuple_error; @@ -2380,7 +2380,7 @@ static PyObject 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__LINE__; goto __pyx_L1_error;} + if (!(likely(((__pyx_v_B) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_B, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 123; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __pyx_v_b = fff_array_fromPyArray(((PyArrayObject *)__pyx_v_B)); - /* "nipy/labs/bindings/array.pyx":115 + /* "nipy/labs/bindings/array.pyx":124 * a = fff_array_fromPyArray(A) * b = fff_array_fromPyArray(B) * c = fff_array_new(a.datatype, a.dimX, a.dimY, a.dimZ, a.dimT) # <<<<<<<<<<<<<< @@ -2435,7 +2435,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_5array_10array_div(CYTHON_UNUSED */ __pyx_v_c = fff_array_new(__pyx_v_a->datatype, __pyx_v_a->dimX, __pyx_v_a->dimY, __pyx_v_a->dimZ, __pyx_v_a->dimT); - /* "nipy/labs/bindings/array.pyx":116 + /* "nipy/labs/bindings/array.pyx":125 * b = fff_array_fromPyArray(B) * c = fff_array_new(a.datatype, a.dimX, a.dimY, a.dimZ, a.dimT) * fff_array_copy(c, a) # <<<<<<<<<<<<<< @@ -2444,7 +2444,7 @@ static PyObject 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__Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; - /* "nipy/labs/bindings/array.pyx":73 + /* "nipy/labs/bindings/array.pyx":76 * * * def array_mul(A, B): # <<<<<<<<<<<<<< * """ * C = A * B */ - __pyx_t_1 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_8bindings_5array_7array_mul, NULL, __pyx_n_s_nipy_labs_bindings_array); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 73; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_8bindings_5array_7array_mul, NULL, __pyx_n_s_nipy_labs_bindings_array); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 76; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); - if (PyDict_SetItem(__pyx_d, __pyx_n_s_array_mul, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 73; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (PyDict_SetItem(__pyx_d, __pyx_n_s_array_mul, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 76; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; - /* "nipy/labs/bindings/array.pyx":90 + /* "nipy/labs/bindings/array.pyx":95 * * * def array_sub(A, B): # <<<<<<<<<<<<<< * """ * C = A - B */ - __pyx_t_1 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_8bindings_5array_9array_sub, NULL, __pyx_n_s_nipy_labs_bindings_array); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 90; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_8bindings_5array_9array_sub, NULL, __pyx_n_s_nipy_labs_bindings_array); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 95; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); - if (PyDict_SetItem(__pyx_d, __pyx_n_s_array_sub, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 90; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (PyDict_SetItem(__pyx_d, __pyx_n_s_array_sub, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 95; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; - /* "nipy/labs/bindings/array.pyx":107 + /* "nipy/labs/bindings/array.pyx":114 * * * def array_div(A, B): # <<<<<<<<<<<<<< * """ * C = A / B */ - __pyx_t_1 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_8bindings_5array_11array_div, NULL, __pyx_n_s_nipy_labs_bindings_array); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 107; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_8bindings_5array_11array_div, NULL, __pyx_n_s_nipy_labs_bindings_array); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 114; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); - if (PyDict_SetItem(__pyx_d, __pyx_n_s_array_div, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 107; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (PyDict_SetItem(__pyx_d, __pyx_n_s_array_div, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 114; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; /* "nipy/labs/bindings/array.pyx":1 diff --git a/nipy/labs/bindings/array.pyx b/nipy/labs/bindings/array.pyx index 41b5337468..607cd6d3f9 100644 --- a/nipy/labs/bindings/array.pyx +++ b/nipy/labs/bindings/array.pyx @@ -42,7 +42,8 @@ def array_get_block( A, size_t x0, size_t x1, size_t fX=1, size_t z0=0, size_t z1=0, size_t fZ=1, size_t t0=0, size_t t1=0, size_t fT=1 ) """ - cdef fff_array *a, *b + cdef fff_array *a + cdef fff_array *b cdef fff_array asub a = fff_array_fromPyArray(A) asub = fff_array_get_block(a, x0, x1, fX, y0, y1, fY, z0, z1, fZ, t0, t1, fT) @@ -57,7 +58,9 @@ def array_add(A, B): """ C = A + B """ - cdef fff_array *a, *b, *c + cdef fff_array *a + cdef fff_array *b + cdef fff_array *c a = fff_array_fromPyArray(A) b = fff_array_fromPyArray(B) @@ -74,7 +77,9 @@ def array_mul(A, B): """ C = A * B """ - cdef fff_array *a, *b, *c + cdef fff_array *a + cdef fff_array *b + cdef fff_array *c a = fff_array_fromPyArray(A) b = fff_array_fromPyArray(B) @@ -91,7 +96,9 @@ def array_sub(A, B): """ C = A - B """ - cdef fff_array *a, *b, *c + cdef fff_array *a + cdef fff_array *b + cdef fff_array *c a = fff_array_fromPyArray(A) b = fff_array_fromPyArray(B) @@ -108,7 +115,9 @@ def array_div(A, B): """ C = A / B """ - cdef fff_array *a, *b, *c + cdef fff_array *a + cdef fff_array *b + cdef fff_array *c a = fff_array_fromPyArray(A) b = fff_array_fromPyArray(B) diff --git a/nipy/labs/bindings/linalg.c b/nipy/labs/bindings/linalg.c index f73e38d077..877b350432 100644 --- a/nipy/labs/bindings/linalg.c +++ b/nipy/labs/bindings/linalg.c @@ -1,4 +1,4 @@ -/* Generated by Cython 0.20.1post0 (Debian 0.20.1+git90-g0e6e38e-1ubuntu2) on Mon Nov 10 15:43:53 2014 */ +/* Generated by Cython 0.20.1post0 (Debian 0.20.1+git90-g0e6e38e-1ubuntu2) on Mon Mar 30 13:58:41 2015 */ #define PY_SSIZE_T_CLEAN #ifndef CYTHON_USE_PYLONG_INTERNALS @@ -357,6 +357,7 @@ void __Pyx_call_destructor(T* x) { #include "fff_array.h" #include "fffpy.h" #include "fff_blas.h" +#include "fff_lapack.h" #ifdef _OPENMP #include #endif /* _OPENMP */ @@ -1104,7 +1105,6 @@ static CYTHON_INLINE char *__pyx_f_5numpy__util_dtypestring(PyArray_Descr *, cha /* Module declarations from 'fff' */ /* Module declarations from 'nipy.labs.bindings.linalg' */ -static PyObject *__pyx_f_4nipy_4labs_8bindings_6linalg_fffpy_import_lapack(void); /*proto*/ static CBLAS_TRANSPOSE_t __pyx_f_4nipy_4labs_8bindings_6linalg_flag_transpose(int); /*proto*/ static CBLAS_UPLO_t __pyx_f_4nipy_4labs_8bindings_6linalg_flag_uplo(int); /*proto*/ static CBLAS_SIDE_t __pyx_f_4nipy_4labs_8bindings_6linalg_flag_side(int); /*proto*/ @@ -1115,32 +1115,33 @@ int __pyx_module_is_main_nipy__labs__bindings__linalg = 0; static PyObject *__pyx_builtin_ValueError; static PyObject *__pyx_builtin_range; static PyObject *__pyx_builtin_RuntimeError; -static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_vector_get(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_X, size_t __pyx_v_i); /* proto */ -static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_2vector_set(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_X, size_t __pyx_v_i, double __pyx_v_a); /* proto */ -static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_4vector_set_all(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_X, double __pyx_v_a); /* proto */ -static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_6vector_scale(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_X, double __pyx_v_a); /* proto */ -static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_8vector_add_constant(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_X, double __pyx_v_a); /* proto */ -static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_10vector_add(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_X, PyObject *__pyx_v_Y); /* proto */ -static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_12vector_sub(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_X, PyObject *__pyx_v_Y); /* proto */ -static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_14vector_mul(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_X, PyObject *__pyx_v_Y); /* proto */ -static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_16vector_div(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_X, PyObject *__pyx_v_Y); /* proto */ -static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_18vector_sum(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_X); /* proto */ -static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_20vector_ssd(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_X, double __pyx_v_m, int __pyx_v_fixed); /* proto */ -static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_22vector_sad(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_X, double __pyx_v_m); /* proto */ -static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_24vector_median(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_X); /* proto */ -static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_26vector_quantile(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_X, double __pyx_v_r, int __pyx_v_interp); /* proto */ -static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_28matrix_get(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_A, size_t __pyx_v_i, size_t __pyx_v_j); /* proto */ -static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_30matrix_transpose(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_A); /* proto */ -static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_32matrix_add(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_A, PyObject *__pyx_v_B); /* proto */ -static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_34blas_dnrm2(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_X); /* proto */ -static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_36blas_dasum(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_X); /* proto */ -static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_38blas_ddot(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_X, PyObject *__pyx_v_Y); /* proto */ -static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_40blas_daxpy(CYTHON_UNUSED PyObject *__pyx_self, double __pyx_v_alpha, PyObject *__pyx_v_X, PyObject *__pyx_v_Y); /* proto */ -static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_42blas_dscal(CYTHON_UNUSED PyObject *__pyx_self, double __pyx_v_alpha, PyObject *__pyx_v_X); /* proto */ -static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_44blas_dgemm(CYTHON_UNUSED PyObject *__pyx_self, int __pyx_v_TransA, int __pyx_v_TransB, double __pyx_v_alpha, PyObject *__pyx_v_A, PyObject *__pyx_v_B, double __pyx_v_beta, PyObject *__pyx_v_C); /* proto */ -static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_46blas_dsymm(CYTHON_UNUSED PyObject *__pyx_self, int __pyx_v_Side, int __pyx_v_Uplo, double __pyx_v_alpha, PyObject *__pyx_v_A, PyObject *__pyx_v_B, PyObject *__pyx_v_beta, PyObject *__pyx_v_C); /* proto */ -static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_48blas_dsyrk(CYTHON_UNUSED PyObject *__pyx_self, int __pyx_v_Uplo, int __pyx_v_Trans, double __pyx_v_alpha, PyObject *__pyx_v_A, double __pyx_v_beta, PyObject *__pyx_v_C); /* proto */ -static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_50blas_dsyr2k(CYTHON_UNUSED PyObject *__pyx_self, int __pyx_v_Uplo, int __pyx_v_Trans, double __pyx_v_alpha, PyObject *__pyx_v_A, PyObject *__pyx_v_B, double __pyx_v_beta, PyObject *__pyx_v_C); /* proto */ +static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_fffpy_import_lapack(CYTHON_UNUSED PyObject *__pyx_self); /* proto */ +static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_2vector_get(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_X, size_t __pyx_v_i); /* proto */ +static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_4vector_set(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_X, size_t __pyx_v_i, double __pyx_v_a); /* proto */ +static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_6vector_set_all(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_X, double __pyx_v_a); /* proto */ +static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_8vector_scale(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_X, double __pyx_v_a); /* proto */ +static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_10vector_add_constant(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_X, double __pyx_v_a); /* proto */ +static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_12vector_add(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_X, PyObject *__pyx_v_Y); /* proto */ +static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_14vector_sub(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_X, PyObject *__pyx_v_Y); /* proto */ +static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_16vector_mul(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_X, PyObject *__pyx_v_Y); /* proto */ +static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_18vector_div(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_X, PyObject *__pyx_v_Y); /* proto */ +static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_20vector_sum(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_X); /* proto */ +static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_22vector_ssd(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_X, double __pyx_v_m, int __pyx_v_fixed); /* proto */ +static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_24vector_sad(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_X, double __pyx_v_m); /* proto */ +static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_26vector_median(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_X); /* proto */ +static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_28vector_quantile(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_X, double __pyx_v_r, int __pyx_v_interp); /* proto */ +static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_30matrix_get(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_A, size_t __pyx_v_i, size_t __pyx_v_j); /* proto */ +static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_32matrix_transpose(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_A); /* proto */ +static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_34matrix_add(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_A, PyObject *__pyx_v_B); /* proto */ +static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_36blas_dnrm2(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_X); /* proto */ +static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_38blas_dasum(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_X); /* proto */ +static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_40blas_ddot(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_X, PyObject *__pyx_v_Y); /* proto */ +static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_42blas_daxpy(CYTHON_UNUSED PyObject *__pyx_self, double __pyx_v_alpha, PyObject *__pyx_v_X, PyObject *__pyx_v_Y); /* proto */ +static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_44blas_dscal(CYTHON_UNUSED PyObject *__pyx_self, double __pyx_v_alpha, PyObject *__pyx_v_X); /* proto */ +static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_46blas_dgemm(CYTHON_UNUSED PyObject *__pyx_self, int __pyx_v_TransA, int __pyx_v_TransB, double __pyx_v_alpha, PyObject *__pyx_v_A, PyObject *__pyx_v_B, double __pyx_v_beta, PyObject *__pyx_v_C); /* proto */ +static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_48blas_dsymm(CYTHON_UNUSED PyObject *__pyx_self, int __pyx_v_Side, int __pyx_v_Uplo, double __pyx_v_alpha, PyObject *__pyx_v_A, PyObject *__pyx_v_B, PyObject *__pyx_v_beta, PyObject *__pyx_v_C); /* proto */ +static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_50blas_dsyrk(CYTHON_UNUSED PyObject *__pyx_self, int __pyx_v_Uplo, int __pyx_v_Trans, double __pyx_v_alpha, PyObject *__pyx_v_A, double __pyx_v_beta, PyObject *__pyx_v_C); /* proto */ +static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_52blas_dsyr2k(CYTHON_UNUSED PyObject *__pyx_self, int __pyx_v_Uplo, int __pyx_v_Trans, double __pyx_v_alpha, PyObject *__pyx_v_A, PyObject *__pyx_v_B, double __pyx_v_beta, PyObject *__pyx_v_C); /* proto */ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, Py_buffer *__pyx_v_info, int __pyx_v_flags); /* proto */ static void __pyx_pf_5numpy_7ndarray_2__releasebuffer__(PyArrayObject *__pyx_v_self, Py_buffer *__pyx_v_info); /* proto */ static char __pyx_k_A[] = "A"; @@ -1212,6 +1213,7 @@ static char __pyx_k_dgeqrf[] = "dgeqrf"; static char __pyx_k_dgesdd[] = "dgesdd"; static char __pyx_k_dgetrf[] = "dgetrf"; static char __pyx_k_dpotrf[] = "dpotrf"; +static char __pyx_k_dpotrs[] = "dpotrs"; static char __pyx_k_drotmg[] = "drotmg"; static char __pyx_k_dsyr2k[] = "dsyr2k"; static char __pyx_k_idamax[] = "idamax"; @@ -1246,6 +1248,7 @@ static char __pyx_k_vector_median[] = "vector_median"; static char __pyx_k_vector_set_all[] = "vector_set_all"; static char __pyx_k_vector_quantile[] = "vector_quantile"; static char __pyx_k_matrix_transpose[] = "matrix_transpose"; +static char __pyx_k_fffpy_import_lapack[] = "fffpy_import_lapack"; static char __pyx_k_scipy_linalg__fblas[] = "scipy.linalg._fblas"; static char __pyx_k_vector_add_constant[] = "vector_add_constant"; static char __pyx_k_scipy_linalg__flapack[] = "scipy.linalg._flapack"; @@ -1253,6 +1256,7 @@ static char __pyx_k_nipy_labs_bindings_linalg[] = "nipy.labs.bindings.linalg"; static char __pyx_k_ndarray_is_not_C_contiguous[] = "ndarray is not C contiguous"; static char __pyx_k_Python_access_to_core_fff_funct[] = "\nPython access to core fff functions written in C. This module is\nmainly used for unitary tests.\n\nAuthor: Alexis Roche, 2008.\n"; static char __pyx_k_home_roche_git_nipy_nipy_labs_b[] = "/home/roche/git/nipy/nipy/labs/bindings/linalg.pyx"; +static char __pyx_k_lib_fff_python_wrapper_fffpy_im[] = "../../../lib/fff_python_wrapper/fffpy_import_lapack.pxi"; static char __pyx_k_unknown_dtype_code_in_numpy_pxd[] = "unknown dtype code in numpy.pxd (%d)"; static char __pyx_k_Format_string_allocated_too_shor[] = "Format string allocated too short, see comment in numpy.pxd"; static char __pyx_k_Non_native_byte_order_not_suppor[] = "Non-native byte order not supported"; @@ -1305,6 +1309,7 @@ static PyObject *__pyx_n_s_dgesdd; static PyObject *__pyx_n_s_dgetrf; static PyObject *__pyx_n_s_dnrm2; static PyObject *__pyx_n_s_dpotrf; +static PyObject *__pyx_n_s_dpotrs; static PyObject *__pyx_n_s_drot; static PyObject *__pyx_n_s_drotg; static PyObject *__pyx_n_s_drotm; @@ -1316,6 +1321,7 @@ static PyObject *__pyx_n_s_dsymv; static PyObject *__pyx_n_s_dsyr2k; 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fff_vector *__pyx_v_y; PyArrayObject *__pyx_v_Y = NULL; @@ -2082,18 +2088,18 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_2vector_set(CYTHON_UNUSE int __pyx_clineno = 0; __Pyx_RefNannySetupContext("vector_set", 0); - /* "nipy/labs/bindings/linalg.pyx":102 - * """ - * cdef fff_vector *x, *y + /* "nipy/labs/bindings/linalg.pyx":103 + * cdef fff_vector *x + * cdef fff_vector *y * x = fff_vector_fromPyArray(X) # <<<<<<<<<<<<<< * y = fff_vector_new(x.size) * fff_vector_memcpy(y, x) */ - if (!(likely(((__pyx_v_X) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_X, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 102; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (!(likely(((__pyx_v_X) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_X, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 103; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __pyx_v_x = fff_vector_fromPyArray(((PyArrayObject *)__pyx_v_X)); - /* "nipy/labs/bindings/linalg.pyx":103 - * cdef fff_vector *x, *y + /* "nipy/labs/bindings/linalg.pyx":104 + * cdef fff_vector *y * x = fff_vector_fromPyArray(X) * y = fff_vector_new(x.size) # <<<<<<<<<<<<<< * fff_vector_memcpy(y, x) @@ -2101,7 +2107,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_2vector_set(CYTHON_UNUSE */ __pyx_v_y = fff_vector_new(__pyx_v_x->size); - /* "nipy/labs/bindings/linalg.pyx":104 + /* "nipy/labs/bindings/linalg.pyx":105 * x = fff_vector_fromPyArray(X) * y = fff_vector_new(x.size) * fff_vector_memcpy(y, x) # <<<<<<<<<<<<<< @@ -2110,7 +2116,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_2vector_set(CYTHON_UNUSE */ fff_vector_memcpy(__pyx_v_y, __pyx_v_x); - /* "nipy/labs/bindings/linalg.pyx":105 + /* "nipy/labs/bindings/linalg.pyx":106 * y = fff_vector_new(x.size) * fff_vector_memcpy(y, x) * fff_vector_set(y, i, a) # <<<<<<<<<<<<<< @@ -2119,7 +2125,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_2vector_set(CYTHON_UNUSE */ fff_vector_set(__pyx_v_y, __pyx_v_i, __pyx_v_a); - /* "nipy/labs/bindings/linalg.pyx":106 + /* "nipy/labs/bindings/linalg.pyx":107 * fff_vector_memcpy(y, x) * fff_vector_set(y, i, a) * fff_vector_delete(x) # <<<<<<<<<<<<<< @@ -2128,19 +2134,19 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_2vector_set(CYTHON_UNUSE */ fff_vector_delete(__pyx_v_x); - /* "nipy/labs/bindings/linalg.pyx":107 + /* "nipy/labs/bindings/linalg.pyx":108 * fff_vector_set(y, i, a) * fff_vector_delete(x) * Y = fff_vector_toPyArray(y) # <<<<<<<<<<<<<< * return Y * */ - __pyx_t_1 = ((PyObject *)fff_vector_toPyArray(__pyx_v_y)); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 107; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = ((PyObject *)fff_vector_toPyArray(__pyx_v_y)); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 108; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); __pyx_v_Y = ((PyArrayObject *)__pyx_t_1); __pyx_t_1 = 0; - /* "nipy/labs/bindings/linalg.pyx":108 + /* "nipy/labs/bindings/linalg.pyx":109 * fff_vector_delete(x) * Y = fff_vector_toPyArray(y) * return Y # <<<<<<<<<<<<<< @@ -2172,7 +2178,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_2vector_set(CYTHON_UNUSE return __pyx_r; } -/* "nipy/labs/bindings/linalg.pyx":110 +/* "nipy/labs/bindings/linalg.pyx":111 * return Y * * def vector_set_all(X, double a): # <<<<<<<<<<<<<< @@ -2181,10 +2187,10 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_2vector_set(CYTHON_UNUSE */ /* Python wrapper */ -static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_5vector_set_all(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/ -static char __pyx_doc_4nipy_4labs_8bindings_6linalg_4vector_set_all[] = "\n Set to a constant value.\n vector_set_all(x, a)\n "; -static PyMethodDef __pyx_mdef_4nipy_4labs_8bindings_6linalg_5vector_set_all = {__Pyx_NAMESTR("vector_set_all"), (PyCFunction)__pyx_pw_4nipy_4labs_8bindings_6linalg_5vector_set_all, METH_VARARGS|METH_KEYWORDS, __Pyx_DOCSTR(__pyx_doc_4nipy_4labs_8bindings_6linalg_4vector_set_all)}; -static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_5vector_set_all(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds) { +static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_7vector_set_all(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/ +static char __pyx_doc_4nipy_4labs_8bindings_6linalg_6vector_set_all[] = "\n Set to a constant value.\n vector_set_all(x, a)\n "; +static PyMethodDef __pyx_mdef_4nipy_4labs_8bindings_6linalg_7vector_set_all = {__Pyx_NAMESTR("vector_set_all"), (PyCFunction)__pyx_pw_4nipy_4labs_8bindings_6linalg_7vector_set_all, METH_VARARGS|METH_KEYWORDS, __Pyx_DOCSTR(__pyx_doc_4nipy_4labs_8bindings_6linalg_6vector_set_all)}; +static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_7vector_set_all(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds) { PyObject *__pyx_v_X = 0; double __pyx_v_a; int __pyx_lineno = 0; @@ -2213,11 +2219,11 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_5vector_set_all(PyObject case 1: if (likely((values[1] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_a)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("vector_set_all", 1, 2, 2, 1); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 110; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("vector_set_all", 1, 2, 2, 1); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 111; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } if (unlikely(kw_args > 0)) { - if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "vector_set_all") < 0)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 110; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "vector_set_all") < 0)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 111; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } else if (PyTuple_GET_SIZE(__pyx_args) != 2) { goto __pyx_L5_argtuple_error; @@ -2226,24 +2232,24 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_5vector_set_all(PyObject values[1] = PyTuple_GET_ITEM(__pyx_args, 1); } __pyx_v_X = values[0]; - __pyx_v_a = __pyx_PyFloat_AsDouble(values[1]); if (unlikely((__pyx_v_a == (double)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 110; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_a = __pyx_PyFloat_AsDouble(values[1]); if (unlikely((__pyx_v_a == (double)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 111; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } goto __pyx_L4_argument_unpacking_done; __pyx_L5_argtuple_error:; - __Pyx_RaiseArgtupleInvalid("vector_set_all", 1, 2, 2, PyTuple_GET_SIZE(__pyx_args)); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 110; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("vector_set_all", 1, 2, 2, PyTuple_GET_SIZE(__pyx_args)); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 111; __pyx_clineno = __LINE__; goto __pyx_L3_error;} __pyx_L3_error:; __Pyx_AddTraceback("nipy.labs.bindings.linalg.vector_set_all", __pyx_clineno, __pyx_lineno, __pyx_filename); __Pyx_RefNannyFinishContext(); return NULL; __pyx_L4_argument_unpacking_done:; - __pyx_r = __pyx_pf_4nipy_4labs_8bindings_6linalg_4vector_set_all(__pyx_self, __pyx_v_X, __pyx_v_a); + __pyx_r = __pyx_pf_4nipy_4labs_8bindings_6linalg_6vector_set_all(__pyx_self, __pyx_v_X, __pyx_v_a); /* function exit code */ __Pyx_RefNannyFinishContext(); return __pyx_r; } -static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_4vector_set_all(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_X, double __pyx_v_a) { +static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_6vector_set_all(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_X, double __pyx_v_a) { fff_vector *__pyx_v_x; fff_vector *__pyx_v_y; PyArrayObject *__pyx_v_Y = NULL; @@ -2255,18 +2261,18 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_4vector_set_all(CYTHON_U int __pyx_clineno = 0; __Pyx_RefNannySetupContext("vector_set_all", 0); - /* "nipy/labs/bindings/linalg.pyx":116 - * """ - * cdef fff_vector *x, *y + /* "nipy/labs/bindings/linalg.pyx":118 + * cdef fff_vector *x + * cdef fff_vector *y * x = fff_vector_fromPyArray(X) # <<<<<<<<<<<<<< * y = fff_vector_new(x.size) * fff_vector_memcpy(y, x) */ - if (!(likely(((__pyx_v_X) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_X, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 116; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (!(likely(((__pyx_v_X) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_X, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 118; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __pyx_v_x = fff_vector_fromPyArray(((PyArrayObject *)__pyx_v_X)); - /* "nipy/labs/bindings/linalg.pyx":117 - * cdef fff_vector *x, *y + /* "nipy/labs/bindings/linalg.pyx":119 + * cdef fff_vector *y * x = fff_vector_fromPyArray(X) * y = fff_vector_new(x.size) # <<<<<<<<<<<<<< * fff_vector_memcpy(y, x) @@ -2274,7 +2280,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_4vector_set_all(CYTHON_U */ __pyx_v_y = fff_vector_new(__pyx_v_x->size); - /* "nipy/labs/bindings/linalg.pyx":118 + /* "nipy/labs/bindings/linalg.pyx":120 * x = fff_vector_fromPyArray(X) * y = fff_vector_new(x.size) * fff_vector_memcpy(y, x) # <<<<<<<<<<<<<< @@ -2283,7 +2289,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_4vector_set_all(CYTHON_U */ fff_vector_memcpy(__pyx_v_y, __pyx_v_x); - /* "nipy/labs/bindings/linalg.pyx":119 + /* "nipy/labs/bindings/linalg.pyx":121 * y = fff_vector_new(x.size) * fff_vector_memcpy(y, x) * fff_vector_set_all(y, a) # <<<<<<<<<<<<<< @@ -2292,7 +2298,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_4vector_set_all(CYTHON_U */ fff_vector_set_all(__pyx_v_y, __pyx_v_a); - /* "nipy/labs/bindings/linalg.pyx":120 + /* "nipy/labs/bindings/linalg.pyx":122 * fff_vector_memcpy(y, x) * fff_vector_set_all(y, a) * fff_vector_delete(x) # <<<<<<<<<<<<<< @@ -2301,19 +2307,19 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_4vector_set_all(CYTHON_U */ fff_vector_delete(__pyx_v_x); - /* "nipy/labs/bindings/linalg.pyx":121 + /* "nipy/labs/bindings/linalg.pyx":123 * fff_vector_set_all(y, a) * fff_vector_delete(x) * Y = fff_vector_toPyArray(y) # <<<<<<<<<<<<<< * return Y * */ - __pyx_t_1 = ((PyObject *)fff_vector_toPyArray(__pyx_v_y)); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 121; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = ((PyObject *)fff_vector_toPyArray(__pyx_v_y)); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 123; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); __pyx_v_Y = ((PyArrayObject *)__pyx_t_1); __pyx_t_1 = 0; - /* "nipy/labs/bindings/linalg.pyx":122 + /* "nipy/labs/bindings/linalg.pyx":124 * fff_vector_delete(x) * Y = fff_vector_toPyArray(y) * return Y # <<<<<<<<<<<<<< @@ -2325,7 +2331,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_4vector_set_all(CYTHON_U __pyx_r = ((PyObject *)__pyx_v_Y); goto __pyx_L0; - /* "nipy/labs/bindings/linalg.pyx":110 + /* "nipy/labs/bindings/linalg.pyx":111 * return Y * * def vector_set_all(X, double a): # <<<<<<<<<<<<<< @@ -2345,7 +2351,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_4vector_set_all(CYTHON_U return __pyx_r; } -/* "nipy/labs/bindings/linalg.pyx":124 +/* "nipy/labs/bindings/linalg.pyx":126 * return Y * * def vector_scale(X, double a): # <<<<<<<<<<<<<< @@ -2354,10 +2360,10 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_4vector_set_all(CYTHON_U */ /* Python wrapper */ -static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_7vector_scale(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/ -static char __pyx_doc_4nipy_4labs_8bindings_6linalg_6vector_scale[] = "\n Multiply by a constant value.\n y = vector_scale(x, a)\n "; -static PyMethodDef __pyx_mdef_4nipy_4labs_8bindings_6linalg_7vector_scale = {__Pyx_NAMESTR("vector_scale"), (PyCFunction)__pyx_pw_4nipy_4labs_8bindings_6linalg_7vector_scale, METH_VARARGS|METH_KEYWORDS, __Pyx_DOCSTR(__pyx_doc_4nipy_4labs_8bindings_6linalg_6vector_scale)}; -static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_7vector_scale(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds) { +static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_9vector_scale(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/ +static char __pyx_doc_4nipy_4labs_8bindings_6linalg_8vector_scale[] = "\n Multiply by a constant value.\n y = vector_scale(x, a)\n "; +static PyMethodDef __pyx_mdef_4nipy_4labs_8bindings_6linalg_9vector_scale = {__Pyx_NAMESTR("vector_scale"), (PyCFunction)__pyx_pw_4nipy_4labs_8bindings_6linalg_9vector_scale, METH_VARARGS|METH_KEYWORDS, __Pyx_DOCSTR(__pyx_doc_4nipy_4labs_8bindings_6linalg_8vector_scale)}; +static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_9vector_scale(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds) { PyObject *__pyx_v_X = 0; double __pyx_v_a; int __pyx_lineno = 0; @@ -2386,11 +2392,11 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_7vector_scale(PyObject * case 1: if (likely((values[1] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_a)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("vector_scale", 1, 2, 2, 1); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 124; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("vector_scale", 1, 2, 2, 1); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 126; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } if (unlikely(kw_args > 0)) { - if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "vector_scale") < 0)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 124; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "vector_scale") < 0)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 126; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } else if (PyTuple_GET_SIZE(__pyx_args) != 2) { goto __pyx_L5_argtuple_error; @@ -2399,24 +2405,24 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_7vector_scale(PyObject * values[1] = PyTuple_GET_ITEM(__pyx_args, 1); } __pyx_v_X = values[0]; - __pyx_v_a = __pyx_PyFloat_AsDouble(values[1]); if (unlikely((__pyx_v_a == (double)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 124; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_a = __pyx_PyFloat_AsDouble(values[1]); if (unlikely((__pyx_v_a == (double)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 126; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } goto __pyx_L4_argument_unpacking_done; __pyx_L5_argtuple_error:; - __Pyx_RaiseArgtupleInvalid("vector_scale", 1, 2, 2, PyTuple_GET_SIZE(__pyx_args)); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 124; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("vector_scale", 1, 2, 2, PyTuple_GET_SIZE(__pyx_args)); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 126; __pyx_clineno = __LINE__; goto __pyx_L3_error;} __pyx_L3_error:; __Pyx_AddTraceback("nipy.labs.bindings.linalg.vector_scale", __pyx_clineno, __pyx_lineno, __pyx_filename); __Pyx_RefNannyFinishContext(); return NULL; __pyx_L4_argument_unpacking_done:; - __pyx_r = __pyx_pf_4nipy_4labs_8bindings_6linalg_6vector_scale(__pyx_self, __pyx_v_X, __pyx_v_a); + __pyx_r = __pyx_pf_4nipy_4labs_8bindings_6linalg_8vector_scale(__pyx_self, __pyx_v_X, __pyx_v_a); /* function exit code */ __Pyx_RefNannyFinishContext(); return __pyx_r; } -static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_6vector_scale(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_X, double __pyx_v_a) { +static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_8vector_scale(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_X, double __pyx_v_a) { fff_vector *__pyx_v_x; fff_vector *__pyx_v_y; PyArrayObject *__pyx_v_Y = NULL; @@ -2428,18 +2434,18 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_6vector_scale(CYTHON_UNU int __pyx_clineno = 0; __Pyx_RefNannySetupContext("vector_scale", 0); - /* "nipy/labs/bindings/linalg.pyx":130 - * """ - * cdef fff_vector *x, *y + /* "nipy/labs/bindings/linalg.pyx":133 + * cdef fff_vector *x + * cdef fff_vector *y * x = fff_vector_fromPyArray(X) # <<<<<<<<<<<<<< * y = fff_vector_new(x.size) * fff_vector_memcpy(y, x) */ - if (!(likely(((__pyx_v_X) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_X, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 130; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (!(likely(((__pyx_v_X) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_X, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 133; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __pyx_v_x = fff_vector_fromPyArray(((PyArrayObject *)__pyx_v_X)); - /* "nipy/labs/bindings/linalg.pyx":131 - * cdef fff_vector *x, *y + /* "nipy/labs/bindings/linalg.pyx":134 + * cdef fff_vector *y * x = fff_vector_fromPyArray(X) * y = fff_vector_new(x.size) # <<<<<<<<<<<<<< * fff_vector_memcpy(y, x) @@ -2447,7 +2453,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_6vector_scale(CYTHON_UNU */ __pyx_v_y = fff_vector_new(__pyx_v_x->size); - /* "nipy/labs/bindings/linalg.pyx":132 + /* "nipy/labs/bindings/linalg.pyx":135 * x = fff_vector_fromPyArray(X) * y = fff_vector_new(x.size) * fff_vector_memcpy(y, x) # <<<<<<<<<<<<<< @@ -2456,7 +2462,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_6vector_scale(CYTHON_UNU */ fff_vector_memcpy(__pyx_v_y, __pyx_v_x); - /* "nipy/labs/bindings/linalg.pyx":133 + /* "nipy/labs/bindings/linalg.pyx":136 * y = fff_vector_new(x.size) * fff_vector_memcpy(y, x) * fff_vector_scale(y, a) # <<<<<<<<<<<<<< @@ -2465,7 +2471,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_6vector_scale(CYTHON_UNU */ fff_vector_scale(__pyx_v_y, __pyx_v_a); - /* "nipy/labs/bindings/linalg.pyx":134 + /* "nipy/labs/bindings/linalg.pyx":137 * fff_vector_memcpy(y, x) * fff_vector_scale(y, a) * fff_vector_delete(x) # <<<<<<<<<<<<<< @@ -2474,19 +2480,19 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_6vector_scale(CYTHON_UNU */ fff_vector_delete(__pyx_v_x); - /* "nipy/labs/bindings/linalg.pyx":135 + /* "nipy/labs/bindings/linalg.pyx":138 * fff_vector_scale(y, a) * fff_vector_delete(x) * Y = fff_vector_toPyArray(y) # <<<<<<<<<<<<<< * return Y * */ - __pyx_t_1 = ((PyObject *)fff_vector_toPyArray(__pyx_v_y)); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 135; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = ((PyObject *)fff_vector_toPyArray(__pyx_v_y)); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 138; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); __pyx_v_Y = ((PyArrayObject *)__pyx_t_1); __pyx_t_1 = 0; - /* "nipy/labs/bindings/linalg.pyx":136 + /* "nipy/labs/bindings/linalg.pyx":139 * fff_vector_delete(x) * Y = fff_vector_toPyArray(y) * return Y # <<<<<<<<<<<<<< @@ -2498,7 +2504,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_6vector_scale(CYTHON_UNU __pyx_r = ((PyObject *)__pyx_v_Y); goto __pyx_L0; - /* "nipy/labs/bindings/linalg.pyx":124 + /* "nipy/labs/bindings/linalg.pyx":126 * return Y * * def vector_scale(X, double a): # <<<<<<<<<<<<<< @@ -2518,7 +2524,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_6vector_scale(CYTHON_UNU return __pyx_r; } -/* "nipy/labs/bindings/linalg.pyx":138 +/* "nipy/labs/bindings/linalg.pyx":141 * return Y * * def vector_add_constant(X, double a): # <<<<<<<<<<<<<< @@ -2527,10 +2533,10 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_6vector_scale(CYTHON_UNU */ /* Python wrapper */ -static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_9vector_add_constant(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/ -static char __pyx_doc_4nipy_4labs_8bindings_6linalg_8vector_add_constant[] = "\n Add a constant value.\n y = vector_add_constant(x, a)\n "; -static PyMethodDef __pyx_mdef_4nipy_4labs_8bindings_6linalg_9vector_add_constant = {__Pyx_NAMESTR("vector_add_constant"), (PyCFunction)__pyx_pw_4nipy_4labs_8bindings_6linalg_9vector_add_constant, METH_VARARGS|METH_KEYWORDS, __Pyx_DOCSTR(__pyx_doc_4nipy_4labs_8bindings_6linalg_8vector_add_constant)}; -static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_9vector_add_constant(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds) { +static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_11vector_add_constant(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/ +static char __pyx_doc_4nipy_4labs_8bindings_6linalg_10vector_add_constant[] = "\n Add a constant value.\n y = vector_add_constant(x, a)\n "; +static PyMethodDef __pyx_mdef_4nipy_4labs_8bindings_6linalg_11vector_add_constant = {__Pyx_NAMESTR("vector_add_constant"), (PyCFunction)__pyx_pw_4nipy_4labs_8bindings_6linalg_11vector_add_constant, METH_VARARGS|METH_KEYWORDS, __Pyx_DOCSTR(__pyx_doc_4nipy_4labs_8bindings_6linalg_10vector_add_constant)}; +static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_11vector_add_constant(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds) { PyObject *__pyx_v_X = 0; double __pyx_v_a; int __pyx_lineno = 0; @@ -2559,11 +2565,11 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_9vector_add_constant(PyO case 1: if (likely((values[1] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_a)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("vector_add_constant", 1, 2, 2, 1); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 138; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("vector_add_constant", 1, 2, 2, 1); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 141; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } if (unlikely(kw_args > 0)) { - if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "vector_add_constant") < 0)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 138; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "vector_add_constant") < 0)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 141; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } else if (PyTuple_GET_SIZE(__pyx_args) != 2) { goto __pyx_L5_argtuple_error; @@ -2572,24 +2578,24 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_9vector_add_constant(PyO values[1] = PyTuple_GET_ITEM(__pyx_args, 1); } __pyx_v_X = values[0]; - __pyx_v_a = __pyx_PyFloat_AsDouble(values[1]); if (unlikely((__pyx_v_a == (double)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 138; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_a = __pyx_PyFloat_AsDouble(values[1]); if (unlikely((__pyx_v_a == (double)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 141; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } goto __pyx_L4_argument_unpacking_done; __pyx_L5_argtuple_error:; - __Pyx_RaiseArgtupleInvalid("vector_add_constant", 1, 2, 2, PyTuple_GET_SIZE(__pyx_args)); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 138; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("vector_add_constant", 1, 2, 2, PyTuple_GET_SIZE(__pyx_args)); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 141; __pyx_clineno = __LINE__; goto __pyx_L3_error;} __pyx_L3_error:; __Pyx_AddTraceback("nipy.labs.bindings.linalg.vector_add_constant", __pyx_clineno, __pyx_lineno, __pyx_filename); __Pyx_RefNannyFinishContext(); return NULL; __pyx_L4_argument_unpacking_done:; - __pyx_r = __pyx_pf_4nipy_4labs_8bindings_6linalg_8vector_add_constant(__pyx_self, __pyx_v_X, __pyx_v_a); + __pyx_r = __pyx_pf_4nipy_4labs_8bindings_6linalg_10vector_add_constant(__pyx_self, __pyx_v_X, __pyx_v_a); /* function exit code */ __Pyx_RefNannyFinishContext(); return __pyx_r; } -static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_8vector_add_constant(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_X, double __pyx_v_a) { +static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_10vector_add_constant(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_X, double __pyx_v_a) { fff_vector *__pyx_v_x; fff_vector *__pyx_v_y; PyArrayObject *__pyx_v_Y = NULL; @@ -2601,18 +2607,18 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_8vector_add_constant(CYT int __pyx_clineno = 0; __Pyx_RefNannySetupContext("vector_add_constant", 0); - /* "nipy/labs/bindings/linalg.pyx":144 - * """ - * cdef fff_vector *x, *y + /* "nipy/labs/bindings/linalg.pyx":148 + * cdef fff_vector *x + * cdef fff_vector *y * x = fff_vector_fromPyArray(X) # <<<<<<<<<<<<<< * y = fff_vector_new(x.size) * fff_vector_memcpy(y, x) */ - if (!(likely(((__pyx_v_X) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_X, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 144; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (!(likely(((__pyx_v_X) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_X, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 148; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __pyx_v_x = fff_vector_fromPyArray(((PyArrayObject *)__pyx_v_X)); - /* "nipy/labs/bindings/linalg.pyx":145 - * cdef fff_vector *x, *y + /* "nipy/labs/bindings/linalg.pyx":149 + * cdef fff_vector *y * x = fff_vector_fromPyArray(X) * y = fff_vector_new(x.size) # <<<<<<<<<<<<<< * fff_vector_memcpy(y, x) @@ -2620,7 +2626,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_8vector_add_constant(CYT */ __pyx_v_y = fff_vector_new(__pyx_v_x->size); - /* "nipy/labs/bindings/linalg.pyx":146 + /* "nipy/labs/bindings/linalg.pyx":150 * x = fff_vector_fromPyArray(X) * y = fff_vector_new(x.size) * fff_vector_memcpy(y, x) # <<<<<<<<<<<<<< @@ -2629,7 +2635,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_8vector_add_constant(CYT */ fff_vector_memcpy(__pyx_v_y, __pyx_v_x); - /* "nipy/labs/bindings/linalg.pyx":147 + /* "nipy/labs/bindings/linalg.pyx":151 * y = fff_vector_new(x.size) * fff_vector_memcpy(y, x) * fff_vector_add_constant(y, a) # <<<<<<<<<<<<<< @@ -2638,7 +2644,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_8vector_add_constant(CYT */ fff_vector_add_constant(__pyx_v_y, __pyx_v_a); - /* "nipy/labs/bindings/linalg.pyx":148 + /* "nipy/labs/bindings/linalg.pyx":152 * fff_vector_memcpy(y, x) * fff_vector_add_constant(y, a) * fff_vector_delete(x) # <<<<<<<<<<<<<< @@ -2647,19 +2653,19 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_8vector_add_constant(CYT */ fff_vector_delete(__pyx_v_x); - /* "nipy/labs/bindings/linalg.pyx":149 + /* "nipy/labs/bindings/linalg.pyx":153 * fff_vector_add_constant(y, a) * fff_vector_delete(x) * Y = fff_vector_toPyArray(y) # <<<<<<<<<<<<<< * return Y * */ - __pyx_t_1 = ((PyObject *)fff_vector_toPyArray(__pyx_v_y)); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 149; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = ((PyObject *)fff_vector_toPyArray(__pyx_v_y)); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 153; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); __pyx_v_Y = ((PyArrayObject *)__pyx_t_1); __pyx_t_1 = 0; - /* "nipy/labs/bindings/linalg.pyx":150 + /* "nipy/labs/bindings/linalg.pyx":154 * fff_vector_delete(x) * Y = fff_vector_toPyArray(y) * return Y # <<<<<<<<<<<<<< @@ -2671,7 +2677,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_8vector_add_constant(CYT __pyx_r = ((PyObject *)__pyx_v_Y); goto __pyx_L0; - /* "nipy/labs/bindings/linalg.pyx":138 + /* "nipy/labs/bindings/linalg.pyx":141 * return Y * * def vector_add_constant(X, double a): # <<<<<<<<<<<<<< @@ -2691,7 +2697,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_8vector_add_constant(CYT return __pyx_r; } -/* "nipy/labs/bindings/linalg.pyx":152 +/* "nipy/labs/bindings/linalg.pyx":156 * return Y * * def vector_add(X, Y): # <<<<<<<<<<<<<< @@ -2700,10 +2706,10 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_8vector_add_constant(CYT */ /* Python wrapper */ -static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_11vector_add(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/ -static char __pyx_doc_4nipy_4labs_8bindings_6linalg_10vector_add[] = "\n Add two vectors.\n z = vector_add(x, y)\n "; -static PyMethodDef __pyx_mdef_4nipy_4labs_8bindings_6linalg_11vector_add = {__Pyx_NAMESTR("vector_add"), (PyCFunction)__pyx_pw_4nipy_4labs_8bindings_6linalg_11vector_add, METH_VARARGS|METH_KEYWORDS, __Pyx_DOCSTR(__pyx_doc_4nipy_4labs_8bindings_6linalg_10vector_add)}; -static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_11vector_add(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds) { +static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_13vector_add(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/ +static char __pyx_doc_4nipy_4labs_8bindings_6linalg_12vector_add[] = "\n Add two vectors.\n z = vector_add(x, y)\n "; +static PyMethodDef __pyx_mdef_4nipy_4labs_8bindings_6linalg_13vector_add = {__Pyx_NAMESTR("vector_add"), (PyCFunction)__pyx_pw_4nipy_4labs_8bindings_6linalg_13vector_add, METH_VARARGS|METH_KEYWORDS, __Pyx_DOCSTR(__pyx_doc_4nipy_4labs_8bindings_6linalg_12vector_add)}; +static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_13vector_add(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds) { PyObject *__pyx_v_X = 0; PyObject *__pyx_v_Y = 0; int __pyx_lineno = 0; @@ -2732,11 +2738,11 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_11vector_add(PyObject *_ case 1: if (likely((values[1] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_Y)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("vector_add", 1, 2, 2, 1); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 152; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("vector_add", 1, 2, 2, 1); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 156; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } if (unlikely(kw_args > 0)) { - if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "vector_add") < 0)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 152; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "vector_add") < 0)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 156; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } else if (PyTuple_GET_SIZE(__pyx_args) != 2) { goto __pyx_L5_argtuple_error; @@ -2749,20 +2755,20 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_11vector_add(PyObject *_ } goto __pyx_L4_argument_unpacking_done; __pyx_L5_argtuple_error:; - __Pyx_RaiseArgtupleInvalid("vector_add", 1, 2, 2, PyTuple_GET_SIZE(__pyx_args)); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 152; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("vector_add", 1, 2, 2, PyTuple_GET_SIZE(__pyx_args)); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 156; __pyx_clineno = __LINE__; goto __pyx_L3_error;} __pyx_L3_error:; __Pyx_AddTraceback("nipy.labs.bindings.linalg.vector_add", __pyx_clineno, __pyx_lineno, __pyx_filename); __Pyx_RefNannyFinishContext(); return NULL; __pyx_L4_argument_unpacking_done:; - __pyx_r = __pyx_pf_4nipy_4labs_8bindings_6linalg_10vector_add(__pyx_self, __pyx_v_X, __pyx_v_Y); + __pyx_r = __pyx_pf_4nipy_4labs_8bindings_6linalg_12vector_add(__pyx_self, __pyx_v_X, __pyx_v_Y); /* function exit code */ __Pyx_RefNannyFinishContext(); return __pyx_r; } -static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_10vector_add(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_X, PyObject *__pyx_v_Y) { +static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_12vector_add(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_X, PyObject *__pyx_v_Y) { fff_vector *__pyx_v_x; fff_vector *__pyx_v_y; fff_vector *__pyx_v_z; @@ -2775,27 +2781,27 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_10vector_add(CYTHON_UNUS int __pyx_clineno = 0; __Pyx_RefNannySetupContext("vector_add", 0); - /* "nipy/labs/bindings/linalg.pyx":158 - * """ - * cdef fff_vector *x, *y, *z + /* "nipy/labs/bindings/linalg.pyx":164 + * cdef fff_vector *y + * cdef fff_vector *z * x = fff_vector_fromPyArray(X) # <<<<<<<<<<<<<< * y = fff_vector_fromPyArray(Y) * z = fff_vector_new(x.size) */ - if (!(likely(((__pyx_v_X) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_X, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 158; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (!(likely(((__pyx_v_X) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_X, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 164; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __pyx_v_x = fff_vector_fromPyArray(((PyArrayObject *)__pyx_v_X)); - /* "nipy/labs/bindings/linalg.pyx":159 - * cdef fff_vector *x, *y, *z + /* "nipy/labs/bindings/linalg.pyx":165 + * cdef fff_vector *z * x = fff_vector_fromPyArray(X) * y = fff_vector_fromPyArray(Y) # <<<<<<<<<<<<<< * z = fff_vector_new(x.size) * fff_vector_memcpy(z, x) */ - if (!(likely(((__pyx_v_Y) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_Y, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 159; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (!(likely(((__pyx_v_Y) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_Y, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 165; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __pyx_v_y = fff_vector_fromPyArray(((PyArrayObject *)__pyx_v_Y)); - /* "nipy/labs/bindings/linalg.pyx":160 + /* "nipy/labs/bindings/linalg.pyx":166 * x = fff_vector_fromPyArray(X) * y = fff_vector_fromPyArray(Y) * z = fff_vector_new(x.size) # <<<<<<<<<<<<<< @@ -2804,7 +2810,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_10vector_add(CYTHON_UNUS */ __pyx_v_z = fff_vector_new(__pyx_v_x->size); - /* "nipy/labs/bindings/linalg.pyx":161 + /* "nipy/labs/bindings/linalg.pyx":167 * y = fff_vector_fromPyArray(Y) * z = fff_vector_new(x.size) * fff_vector_memcpy(z, x) # <<<<<<<<<<<<<< @@ -2813,7 +2819,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_10vector_add(CYTHON_UNUS */ fff_vector_memcpy(__pyx_v_z, __pyx_v_x); - /* "nipy/labs/bindings/linalg.pyx":162 + /* "nipy/labs/bindings/linalg.pyx":168 * z = fff_vector_new(x.size) * fff_vector_memcpy(z, x) * fff_vector_add(z, y) # <<<<<<<<<<<<<< @@ -2822,7 +2828,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_10vector_add(CYTHON_UNUS */ fff_vector_add(__pyx_v_z, __pyx_v_y); - /* "nipy/labs/bindings/linalg.pyx":163 + /* "nipy/labs/bindings/linalg.pyx":169 * fff_vector_memcpy(z, x) * fff_vector_add(z, y) * fff_vector_delete(x) # <<<<<<<<<<<<<< @@ -2831,7 +2837,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_10vector_add(CYTHON_UNUS */ fff_vector_delete(__pyx_v_x); - /* "nipy/labs/bindings/linalg.pyx":164 + /* "nipy/labs/bindings/linalg.pyx":170 * fff_vector_add(z, y) * fff_vector_delete(x) * fff_vector_delete(y) # <<<<<<<<<<<<<< @@ -2840,19 +2846,19 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_10vector_add(CYTHON_UNUS */ fff_vector_delete(__pyx_v_y); - /* "nipy/labs/bindings/linalg.pyx":165 + /* "nipy/labs/bindings/linalg.pyx":171 * fff_vector_delete(x) * fff_vector_delete(y) * Z = fff_vector_toPyArray(z) # <<<<<<<<<<<<<< * return Z * */ - __pyx_t_1 = ((PyObject *)fff_vector_toPyArray(__pyx_v_z)); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 165; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = ((PyObject *)fff_vector_toPyArray(__pyx_v_z)); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 171; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); __pyx_v_Z = ((PyArrayObject *)__pyx_t_1); __pyx_t_1 = 0; - /* "nipy/labs/bindings/linalg.pyx":166 + /* "nipy/labs/bindings/linalg.pyx":172 * fff_vector_delete(y) * Z = fff_vector_toPyArray(z) * return Z # <<<<<<<<<<<<<< @@ -2864,7 +2870,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_10vector_add(CYTHON_UNUS __pyx_r = ((PyObject *)__pyx_v_Z); goto __pyx_L0; - /* "nipy/labs/bindings/linalg.pyx":152 + /* "nipy/labs/bindings/linalg.pyx":156 * return Y * * def vector_add(X, Y): # <<<<<<<<<<<<<< @@ -2884,7 +2890,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_10vector_add(CYTHON_UNUS return __pyx_r; } -/* "nipy/labs/bindings/linalg.pyx":168 +/* "nipy/labs/bindings/linalg.pyx":174 * return Z * * def vector_sub(X, Y): # <<<<<<<<<<<<<< @@ -2893,10 +2899,10 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_10vector_add(CYTHON_UNUS */ /* Python wrapper */ -static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_13vector_sub(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/ -static char __pyx_doc_4nipy_4labs_8bindings_6linalg_12vector_sub[] = "\n Substract two vectors: x - y\n z = vector_sub(x, y)\n "; -static PyMethodDef __pyx_mdef_4nipy_4labs_8bindings_6linalg_13vector_sub = {__Pyx_NAMESTR("vector_sub"), (PyCFunction)__pyx_pw_4nipy_4labs_8bindings_6linalg_13vector_sub, METH_VARARGS|METH_KEYWORDS, __Pyx_DOCSTR(__pyx_doc_4nipy_4labs_8bindings_6linalg_12vector_sub)}; -static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_13vector_sub(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds) { +static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_15vector_sub(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/ +static char __pyx_doc_4nipy_4labs_8bindings_6linalg_14vector_sub[] = "\n Substract two vectors: x - y\n z = vector_sub(x, y)\n "; +static PyMethodDef __pyx_mdef_4nipy_4labs_8bindings_6linalg_15vector_sub = {__Pyx_NAMESTR("vector_sub"), (PyCFunction)__pyx_pw_4nipy_4labs_8bindings_6linalg_15vector_sub, METH_VARARGS|METH_KEYWORDS, __Pyx_DOCSTR(__pyx_doc_4nipy_4labs_8bindings_6linalg_14vector_sub)}; +static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_15vector_sub(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds) { PyObject *__pyx_v_X = 0; PyObject *__pyx_v_Y = 0; int __pyx_lineno = 0; @@ -2925,11 +2931,11 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_13vector_sub(PyObject *_ case 1: if (likely((values[1] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_Y)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("vector_sub", 1, 2, 2, 1); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 168; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("vector_sub", 1, 2, 2, 1); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 174; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } if (unlikely(kw_args > 0)) { - if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "vector_sub") < 0)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 168; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "vector_sub") < 0)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 174; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } else if (PyTuple_GET_SIZE(__pyx_args) != 2) { goto __pyx_L5_argtuple_error; @@ -2942,20 +2948,20 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_13vector_sub(PyObject *_ } goto __pyx_L4_argument_unpacking_done; __pyx_L5_argtuple_error:; - __Pyx_RaiseArgtupleInvalid("vector_sub", 1, 2, 2, PyTuple_GET_SIZE(__pyx_args)); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 168; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("vector_sub", 1, 2, 2, PyTuple_GET_SIZE(__pyx_args)); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 174; __pyx_clineno = __LINE__; goto __pyx_L3_error;} __pyx_L3_error:; __Pyx_AddTraceback("nipy.labs.bindings.linalg.vector_sub", __pyx_clineno, __pyx_lineno, __pyx_filename); __Pyx_RefNannyFinishContext(); return NULL; __pyx_L4_argument_unpacking_done:; - __pyx_r = __pyx_pf_4nipy_4labs_8bindings_6linalg_12vector_sub(__pyx_self, __pyx_v_X, __pyx_v_Y); + __pyx_r = __pyx_pf_4nipy_4labs_8bindings_6linalg_14vector_sub(__pyx_self, __pyx_v_X, __pyx_v_Y); /* function exit code */ __Pyx_RefNannyFinishContext(); return __pyx_r; } -static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_12vector_sub(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_X, PyObject *__pyx_v_Y) { +static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_14vector_sub(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_X, PyObject *__pyx_v_Y) { fff_vector *__pyx_v_x; fff_vector *__pyx_v_y; fff_vector *__pyx_v_z; @@ -2968,27 +2974,27 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_12vector_sub(CYTHON_UNUS int __pyx_clineno = 0; __Pyx_RefNannySetupContext("vector_sub", 0); - /* "nipy/labs/bindings/linalg.pyx":174 - * """ - * cdef fff_vector *x, *y, *z + /* "nipy/labs/bindings/linalg.pyx":182 + * cdef fff_vector *y + * cdef fff_vector *z * x = fff_vector_fromPyArray(X) # <<<<<<<<<<<<<< * y = fff_vector_fromPyArray(Y) * z = fff_vector_new(x.size) */ - if (!(likely(((__pyx_v_X) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_X, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 174; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (!(likely(((__pyx_v_X) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_X, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 182; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __pyx_v_x = fff_vector_fromPyArray(((PyArrayObject *)__pyx_v_X)); - /* "nipy/labs/bindings/linalg.pyx":175 - * cdef fff_vector *x, *y, *z + /* "nipy/labs/bindings/linalg.pyx":183 + * cdef fff_vector *z * x = fff_vector_fromPyArray(X) * y = fff_vector_fromPyArray(Y) # <<<<<<<<<<<<<< * z = fff_vector_new(x.size) * fff_vector_memcpy(z, x) */ - if (!(likely(((__pyx_v_Y) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_Y, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 175; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (!(likely(((__pyx_v_Y) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_Y, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 183; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __pyx_v_y = fff_vector_fromPyArray(((PyArrayObject *)__pyx_v_Y)); - /* "nipy/labs/bindings/linalg.pyx":176 + /* "nipy/labs/bindings/linalg.pyx":184 * x = fff_vector_fromPyArray(X) * y = fff_vector_fromPyArray(Y) * z = fff_vector_new(x.size) # <<<<<<<<<<<<<< @@ -2997,7 +3003,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_12vector_sub(CYTHON_UNUS */ __pyx_v_z = fff_vector_new(__pyx_v_x->size); - /* "nipy/labs/bindings/linalg.pyx":177 + /* "nipy/labs/bindings/linalg.pyx":185 * y = fff_vector_fromPyArray(Y) * z = fff_vector_new(x.size) * fff_vector_memcpy(z, x) # <<<<<<<<<<<<<< @@ -3006,7 +3012,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_12vector_sub(CYTHON_UNUS */ fff_vector_memcpy(__pyx_v_z, __pyx_v_x); - /* "nipy/labs/bindings/linalg.pyx":178 + /* "nipy/labs/bindings/linalg.pyx":186 * z = fff_vector_new(x.size) * fff_vector_memcpy(z, x) * fff_vector_sub(z, y) # <<<<<<<<<<<<<< @@ -3015,7 +3021,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_12vector_sub(CYTHON_UNUS */ fff_vector_sub(__pyx_v_z, __pyx_v_y); - /* "nipy/labs/bindings/linalg.pyx":179 + /* "nipy/labs/bindings/linalg.pyx":187 * fff_vector_memcpy(z, x) * fff_vector_sub(z, y) * fff_vector_delete(x) # <<<<<<<<<<<<<< @@ -3024,7 +3030,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_12vector_sub(CYTHON_UNUS */ fff_vector_delete(__pyx_v_x); - /* "nipy/labs/bindings/linalg.pyx":180 + /* "nipy/labs/bindings/linalg.pyx":188 * fff_vector_sub(z, y) * fff_vector_delete(x) * fff_vector_delete(y) # <<<<<<<<<<<<<< @@ -3033,19 +3039,19 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_12vector_sub(CYTHON_UNUS */ fff_vector_delete(__pyx_v_y); - /* "nipy/labs/bindings/linalg.pyx":181 + /* "nipy/labs/bindings/linalg.pyx":189 * fff_vector_delete(x) * fff_vector_delete(y) * Z = fff_vector_toPyArray(z) # <<<<<<<<<<<<<< * return Z * */ - __pyx_t_1 = ((PyObject *)fff_vector_toPyArray(__pyx_v_z)); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 181; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = ((PyObject *)fff_vector_toPyArray(__pyx_v_z)); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 189; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); __pyx_v_Z = ((PyArrayObject *)__pyx_t_1); __pyx_t_1 = 0; - /* "nipy/labs/bindings/linalg.pyx":182 + /* "nipy/labs/bindings/linalg.pyx":190 * fff_vector_delete(y) * Z = fff_vector_toPyArray(z) * return Z # <<<<<<<<<<<<<< @@ -3057,7 +3063,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_12vector_sub(CYTHON_UNUS __pyx_r = ((PyObject *)__pyx_v_Z); goto __pyx_L0; - /* "nipy/labs/bindings/linalg.pyx":168 + /* "nipy/labs/bindings/linalg.pyx":174 * return Z * * def vector_sub(X, Y): # <<<<<<<<<<<<<< @@ -3077,7 +3083,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_12vector_sub(CYTHON_UNUS return __pyx_r; } -/* "nipy/labs/bindings/linalg.pyx":184 +/* "nipy/labs/bindings/linalg.pyx":192 * return Z * * def vector_mul(X, Y): # <<<<<<<<<<<<<< @@ -3086,10 +3092,10 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_12vector_sub(CYTHON_UNUS */ /* Python wrapper */ -static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_15vector_mul(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/ -static char __pyx_doc_4nipy_4labs_8bindings_6linalg_14vector_mul[] = "\n Element-wise multiplication.\n z = vector_mul(x, y)\n "; -static PyMethodDef __pyx_mdef_4nipy_4labs_8bindings_6linalg_15vector_mul = {__Pyx_NAMESTR("vector_mul"), (PyCFunction)__pyx_pw_4nipy_4labs_8bindings_6linalg_15vector_mul, METH_VARARGS|METH_KEYWORDS, __Pyx_DOCSTR(__pyx_doc_4nipy_4labs_8bindings_6linalg_14vector_mul)}; -static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_15vector_mul(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds) { +static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_17vector_mul(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/ +static char __pyx_doc_4nipy_4labs_8bindings_6linalg_16vector_mul[] = "\n Element-wise multiplication.\n z = vector_mul(x, y)\n "; +static PyMethodDef __pyx_mdef_4nipy_4labs_8bindings_6linalg_17vector_mul = {__Pyx_NAMESTR("vector_mul"), (PyCFunction)__pyx_pw_4nipy_4labs_8bindings_6linalg_17vector_mul, METH_VARARGS|METH_KEYWORDS, __Pyx_DOCSTR(__pyx_doc_4nipy_4labs_8bindings_6linalg_16vector_mul)}; +static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_17vector_mul(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds) { PyObject *__pyx_v_X = 0; PyObject *__pyx_v_Y = 0; int __pyx_lineno = 0; @@ -3118,11 +3124,11 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_15vector_mul(PyObject *_ case 1: if (likely((values[1] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_Y)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("vector_mul", 1, 2, 2, 1); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 184; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("vector_mul", 1, 2, 2, 1); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 192; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } if (unlikely(kw_args > 0)) { - if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "vector_mul") < 0)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 184; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "vector_mul") < 0)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 192; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } else if (PyTuple_GET_SIZE(__pyx_args) != 2) { goto __pyx_L5_argtuple_error; @@ -3135,20 +3141,20 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_15vector_mul(PyObject *_ } goto __pyx_L4_argument_unpacking_done; __pyx_L5_argtuple_error:; - __Pyx_RaiseArgtupleInvalid("vector_mul", 1, 2, 2, PyTuple_GET_SIZE(__pyx_args)); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 184; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("vector_mul", 1, 2, 2, PyTuple_GET_SIZE(__pyx_args)); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 192; __pyx_clineno = __LINE__; goto __pyx_L3_error;} __pyx_L3_error:; __Pyx_AddTraceback("nipy.labs.bindings.linalg.vector_mul", __pyx_clineno, __pyx_lineno, __pyx_filename); __Pyx_RefNannyFinishContext(); return NULL; __pyx_L4_argument_unpacking_done:; - __pyx_r = __pyx_pf_4nipy_4labs_8bindings_6linalg_14vector_mul(__pyx_self, __pyx_v_X, __pyx_v_Y); + __pyx_r = __pyx_pf_4nipy_4labs_8bindings_6linalg_16vector_mul(__pyx_self, __pyx_v_X, __pyx_v_Y); /* function exit code */ __Pyx_RefNannyFinishContext(); return __pyx_r; } -static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_14vector_mul(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_X, PyObject *__pyx_v_Y) { +static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_16vector_mul(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_X, PyObject *__pyx_v_Y) { fff_vector *__pyx_v_x; fff_vector *__pyx_v_y; fff_vector *__pyx_v_z; @@ -3161,27 +3167,27 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_14vector_mul(CYTHON_UNUS int __pyx_clineno = 0; __Pyx_RefNannySetupContext("vector_mul", 0); - /* "nipy/labs/bindings/linalg.pyx":190 - * """ - * cdef fff_vector *x, *y, *z + /* "nipy/labs/bindings/linalg.pyx":200 + * cdef fff_vector *y + * cdef fff_vector *z * x = fff_vector_fromPyArray(X) # <<<<<<<<<<<<<< * y = fff_vector_fromPyArray(Y) * z = fff_vector_new(x.size) */ - if (!(likely(((__pyx_v_X) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_X, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 190; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (!(likely(((__pyx_v_X) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_X, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 200; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __pyx_v_x = fff_vector_fromPyArray(((PyArrayObject *)__pyx_v_X)); - /* "nipy/labs/bindings/linalg.pyx":191 - * cdef fff_vector *x, *y, *z + /* "nipy/labs/bindings/linalg.pyx":201 + * cdef fff_vector *z * x = fff_vector_fromPyArray(X) * y = fff_vector_fromPyArray(Y) # <<<<<<<<<<<<<< * z = fff_vector_new(x.size) * fff_vector_memcpy(z, x) */ - if (!(likely(((__pyx_v_Y) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_Y, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 191; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (!(likely(((__pyx_v_Y) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_Y, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 201; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __pyx_v_y = fff_vector_fromPyArray(((PyArrayObject *)__pyx_v_Y)); - /* "nipy/labs/bindings/linalg.pyx":192 + /* "nipy/labs/bindings/linalg.pyx":202 * x = fff_vector_fromPyArray(X) * y = fff_vector_fromPyArray(Y) * z = fff_vector_new(x.size) # <<<<<<<<<<<<<< @@ -3190,7 +3196,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_14vector_mul(CYTHON_UNUS */ __pyx_v_z = fff_vector_new(__pyx_v_x->size); - /* "nipy/labs/bindings/linalg.pyx":193 + /* "nipy/labs/bindings/linalg.pyx":203 * y = fff_vector_fromPyArray(Y) * z = fff_vector_new(x.size) * fff_vector_memcpy(z, x) # <<<<<<<<<<<<<< @@ -3199,7 +3205,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_14vector_mul(CYTHON_UNUS */ fff_vector_memcpy(__pyx_v_z, __pyx_v_x); - /* "nipy/labs/bindings/linalg.pyx":194 + /* "nipy/labs/bindings/linalg.pyx":204 * z = fff_vector_new(x.size) * fff_vector_memcpy(z, x) * fff_vector_mul(z, y) # <<<<<<<<<<<<<< @@ -3208,7 +3214,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_14vector_mul(CYTHON_UNUS */ fff_vector_mul(__pyx_v_z, __pyx_v_y); - /* "nipy/labs/bindings/linalg.pyx":195 + /* "nipy/labs/bindings/linalg.pyx":205 * fff_vector_memcpy(z, x) * fff_vector_mul(z, y) * fff_vector_delete(x) # <<<<<<<<<<<<<< @@ -3217,7 +3223,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_14vector_mul(CYTHON_UNUS */ fff_vector_delete(__pyx_v_x); - /* "nipy/labs/bindings/linalg.pyx":196 + /* "nipy/labs/bindings/linalg.pyx":206 * fff_vector_mul(z, y) * fff_vector_delete(x) * fff_vector_delete(y) # <<<<<<<<<<<<<< @@ -3226,19 +3232,19 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_14vector_mul(CYTHON_UNUS */ fff_vector_delete(__pyx_v_y); - /* "nipy/labs/bindings/linalg.pyx":197 + /* "nipy/labs/bindings/linalg.pyx":207 * fff_vector_delete(x) * fff_vector_delete(y) * Z = fff_vector_toPyArray(z) # <<<<<<<<<<<<<< * return Z * */ - __pyx_t_1 = ((PyObject *)fff_vector_toPyArray(__pyx_v_z)); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 197; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = ((PyObject *)fff_vector_toPyArray(__pyx_v_z)); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 207; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); __pyx_v_Z = ((PyArrayObject *)__pyx_t_1); __pyx_t_1 = 0; - /* "nipy/labs/bindings/linalg.pyx":198 + /* "nipy/labs/bindings/linalg.pyx":208 * fff_vector_delete(y) * Z = fff_vector_toPyArray(z) * return Z # <<<<<<<<<<<<<< @@ -3250,7 +3256,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_14vector_mul(CYTHON_UNUS __pyx_r = ((PyObject *)__pyx_v_Z); goto __pyx_L0; - /* "nipy/labs/bindings/linalg.pyx":184 + /* "nipy/labs/bindings/linalg.pyx":192 * return Z * * def vector_mul(X, Y): # <<<<<<<<<<<<<< @@ -3270,7 +3276,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_14vector_mul(CYTHON_UNUS return __pyx_r; } -/* "nipy/labs/bindings/linalg.pyx":200 +/* "nipy/labs/bindings/linalg.pyx":210 * return Z * * def vector_div(X, Y): # <<<<<<<<<<<<<< @@ -3279,10 +3285,10 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_14vector_mul(CYTHON_UNUS */ /* Python wrapper */ -static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_17vector_div(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/ -static char __pyx_doc_4nipy_4labs_8bindings_6linalg_16vector_div[] = "\n Element-wise division.\n z = vector_div(x, y)\n "; -static PyMethodDef __pyx_mdef_4nipy_4labs_8bindings_6linalg_17vector_div = {__Pyx_NAMESTR("vector_div"), (PyCFunction)__pyx_pw_4nipy_4labs_8bindings_6linalg_17vector_div, METH_VARARGS|METH_KEYWORDS, __Pyx_DOCSTR(__pyx_doc_4nipy_4labs_8bindings_6linalg_16vector_div)}; -static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_17vector_div(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds) { +static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_19vector_div(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/ +static char __pyx_doc_4nipy_4labs_8bindings_6linalg_18vector_div[] = "\n Element-wise division.\n z = vector_div(x, y)\n "; +static PyMethodDef __pyx_mdef_4nipy_4labs_8bindings_6linalg_19vector_div = {__Pyx_NAMESTR("vector_div"), (PyCFunction)__pyx_pw_4nipy_4labs_8bindings_6linalg_19vector_div, METH_VARARGS|METH_KEYWORDS, __Pyx_DOCSTR(__pyx_doc_4nipy_4labs_8bindings_6linalg_18vector_div)}; +static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_19vector_div(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds) { PyObject *__pyx_v_X = 0; PyObject *__pyx_v_Y = 0; int __pyx_lineno = 0; @@ -3311,11 +3317,11 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_17vector_div(PyObject *_ case 1: if (likely((values[1] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_Y)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("vector_div", 1, 2, 2, 1); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 200; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("vector_div", 1, 2, 2, 1); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 210; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } if (unlikely(kw_args > 0)) { - if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "vector_div") < 0)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 200; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "vector_div") < 0)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 210; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } else if (PyTuple_GET_SIZE(__pyx_args) != 2) { goto __pyx_L5_argtuple_error; @@ -3328,20 +3334,20 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_17vector_div(PyObject *_ } goto __pyx_L4_argument_unpacking_done; __pyx_L5_argtuple_error:; - __Pyx_RaiseArgtupleInvalid("vector_div", 1, 2, 2, PyTuple_GET_SIZE(__pyx_args)); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 200; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("vector_div", 1, 2, 2, PyTuple_GET_SIZE(__pyx_args)); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 210; __pyx_clineno = __LINE__; goto __pyx_L3_error;} __pyx_L3_error:; __Pyx_AddTraceback("nipy.labs.bindings.linalg.vector_div", __pyx_clineno, __pyx_lineno, __pyx_filename); __Pyx_RefNannyFinishContext(); return NULL; __pyx_L4_argument_unpacking_done:; - __pyx_r = __pyx_pf_4nipy_4labs_8bindings_6linalg_16vector_div(__pyx_self, __pyx_v_X, __pyx_v_Y); + __pyx_r = __pyx_pf_4nipy_4labs_8bindings_6linalg_18vector_div(__pyx_self, __pyx_v_X, __pyx_v_Y); /* function exit code */ __Pyx_RefNannyFinishContext(); return __pyx_r; } -static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_16vector_div(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_X, PyObject *__pyx_v_Y) { +static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_18vector_div(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_X, PyObject *__pyx_v_Y) { fff_vector *__pyx_v_x; fff_vector *__pyx_v_y; fff_vector *__pyx_v_z; @@ -3354,27 +3360,27 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_16vector_div(CYTHON_UNUS int __pyx_clineno = 0; __Pyx_RefNannySetupContext("vector_div", 0); - /* "nipy/labs/bindings/linalg.pyx":206 - * """ - * cdef fff_vector *x, *y, *z + /* "nipy/labs/bindings/linalg.pyx":218 + * cdef fff_vector *y + * cdef fff_vector *z * x = fff_vector_fromPyArray(X) # <<<<<<<<<<<<<< * y = fff_vector_fromPyArray(Y) * z = fff_vector_new(x.size) */ - if (!(likely(((__pyx_v_X) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_X, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 206; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (!(likely(((__pyx_v_X) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_X, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 218; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __pyx_v_x = fff_vector_fromPyArray(((PyArrayObject *)__pyx_v_X)); - /* "nipy/labs/bindings/linalg.pyx":207 - * cdef fff_vector *x, *y, *z + /* "nipy/labs/bindings/linalg.pyx":219 + * cdef fff_vector *z * x = fff_vector_fromPyArray(X) * y = fff_vector_fromPyArray(Y) # <<<<<<<<<<<<<< * z = fff_vector_new(x.size) * fff_vector_memcpy(z, x) */ - if (!(likely(((__pyx_v_Y) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_Y, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 207; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (!(likely(((__pyx_v_Y) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_Y, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 219; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __pyx_v_y = fff_vector_fromPyArray(((PyArrayObject *)__pyx_v_Y)); - /* "nipy/labs/bindings/linalg.pyx":208 + /* "nipy/labs/bindings/linalg.pyx":220 * x = fff_vector_fromPyArray(X) * y = fff_vector_fromPyArray(Y) * z = fff_vector_new(x.size) # <<<<<<<<<<<<<< @@ -3383,7 +3389,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_16vector_div(CYTHON_UNUS */ __pyx_v_z = fff_vector_new(__pyx_v_x->size); - /* "nipy/labs/bindings/linalg.pyx":209 + /* "nipy/labs/bindings/linalg.pyx":221 * y = fff_vector_fromPyArray(Y) * z = fff_vector_new(x.size) * fff_vector_memcpy(z, x) # <<<<<<<<<<<<<< @@ -3392,7 +3398,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_16vector_div(CYTHON_UNUS */ fff_vector_memcpy(__pyx_v_z, __pyx_v_x); - /* "nipy/labs/bindings/linalg.pyx":210 + /* "nipy/labs/bindings/linalg.pyx":222 * z = fff_vector_new(x.size) * fff_vector_memcpy(z, x) * fff_vector_mul(z, y) # <<<<<<<<<<<<<< @@ -3401,7 +3407,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_16vector_div(CYTHON_UNUS */ fff_vector_mul(__pyx_v_z, __pyx_v_y); 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__pyx_lineno = 224; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (!(likely(((__pyx_v_X) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_X, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 236; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __pyx_v_x = fff_vector_fromPyArray(((PyArrayObject *)__pyx_v_X)); - /* "nipy/labs/bindings/linalg.pyx":225 + /* "nipy/labs/bindings/linalg.pyx":237 * cdef long double s * x = fff_vector_fromPyArray(X) * s = fff_vector_sum(x) # <<<<<<<<<<<<<< @@ -3516,7 +3522,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_18vector_sum(CYTHON_UNUS */ __pyx_v_s = fff_vector_sum(__pyx_v_x); - /* "nipy/labs/bindings/linalg.pyx":226 + /* "nipy/labs/bindings/linalg.pyx":238 * x = fff_vector_fromPyArray(X) * s = fff_vector_sum(x) * fff_vector_delete(x) # <<<<<<<<<<<<<< @@ -3525,7 +3531,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_18vector_sum(CYTHON_UNUS */ fff_vector_delete(__pyx_v_x); - /* "nipy/labs/bindings/linalg.pyx":227 + /* "nipy/labs/bindings/linalg.pyx":239 * s = fff_vector_sum(x) * fff_vector_delete(x) * return s # <<<<<<<<<<<<<< @@ -3533,13 +3539,13 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_18vector_sum(CYTHON_UNUS * def vector_ssd(X, double m=0, int fixed=1): */ __Pyx_XDECREF(__pyx_r); 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/*proto*/ -static char __pyx_doc_4nipy_4labs_8bindings_6linalg_20vector_ssd[] = "\n (Minimal) sum of squared differences.\n s = vector_ssd(x, m=0, fixed=1)\n "; -static PyMethodDef __pyx_mdef_4nipy_4labs_8bindings_6linalg_21vector_ssd = {__Pyx_NAMESTR("vector_ssd"), (PyCFunction)__pyx_pw_4nipy_4labs_8bindings_6linalg_21vector_ssd, METH_VARARGS|METH_KEYWORDS, __Pyx_DOCSTR(__pyx_doc_4nipy_4labs_8bindings_6linalg_20vector_ssd)}; -static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_21vector_ssd(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds) { +static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_23vector_ssd(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/ +static char __pyx_doc_4nipy_4labs_8bindings_6linalg_22vector_ssd[] = "\n (Minimal) sum of squared differences.\n s = vector_ssd(x, m=0, fixed=1)\n "; +static PyMethodDef __pyx_mdef_4nipy_4labs_8bindings_6linalg_23vector_ssd = {__Pyx_NAMESTR("vector_ssd"), (PyCFunction)__pyx_pw_4nipy_4labs_8bindings_6linalg_23vector_ssd, METH_VARARGS|METH_KEYWORDS, __Pyx_DOCSTR(__pyx_doc_4nipy_4labs_8bindings_6linalg_22vector_ssd)}; +static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_23vector_ssd(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds) { PyObject *__pyx_v_X = 0; double __pyx_v_m; int __pyx_v_fixed; @@ -3610,7 +3616,7 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_21vector_ssd(PyObject *_ } } if (unlikely(kw_args > 0)) { - if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "vector_ssd") < 0)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 229; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "vector_ssd") < 0)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 241; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } else { switch (PyTuple_GET_SIZE(__pyx_args)) { @@ -3623,32 +3629,32 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_21vector_ssd(PyObject *_ } __pyx_v_X = values[0]; if (values[1]) { - __pyx_v_m = __pyx_PyFloat_AsDouble(values[1]); if (unlikely((__pyx_v_m == (double)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 229; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_m = __pyx_PyFloat_AsDouble(values[1]); if (unlikely((__pyx_v_m == (double)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 241; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } else { __pyx_v_m = ((double)0.0); } if (values[2]) { - __pyx_v_fixed = __Pyx_PyInt_As_int(values[2]); if (unlikely((__pyx_v_fixed == (int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 229; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_fixed = __Pyx_PyInt_As_int(values[2]); if (unlikely((__pyx_v_fixed == (int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 241; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } else { __pyx_v_fixed = ((int)1); } } goto __pyx_L4_argument_unpacking_done; __pyx_L5_argtuple_error:; - __Pyx_RaiseArgtupleInvalid("vector_ssd", 0, 1, 3, PyTuple_GET_SIZE(__pyx_args)); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 229; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("vector_ssd", 0, 1, 3, PyTuple_GET_SIZE(__pyx_args)); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 241; __pyx_clineno = __LINE__; goto __pyx_L3_error;} __pyx_L3_error:; __Pyx_AddTraceback("nipy.labs.bindings.linalg.vector_ssd", __pyx_clineno, __pyx_lineno, __pyx_filename); __Pyx_RefNannyFinishContext(); return NULL; __pyx_L4_argument_unpacking_done:; - __pyx_r = __pyx_pf_4nipy_4labs_8bindings_6linalg_20vector_ssd(__pyx_self, __pyx_v_X, __pyx_v_m, __pyx_v_fixed); + __pyx_r = __pyx_pf_4nipy_4labs_8bindings_6linalg_22vector_ssd(__pyx_self, __pyx_v_X, __pyx_v_m, __pyx_v_fixed); /* function exit code */ __Pyx_RefNannyFinishContext(); return __pyx_r; } -static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_20vector_ssd(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_X, double __pyx_v_m, int __pyx_v_fixed) { +static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_22vector_ssd(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_X, double __pyx_v_m, int __pyx_v_fixed) { fff_vector *__pyx_v_x; long double __pyx_v_s; PyObject *__pyx_r = NULL; @@ -3659,17 +3665,17 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_20vector_ssd(CYTHON_UNUS int __pyx_clineno = 0; __Pyx_RefNannySetupContext("vector_ssd", 0); - /* "nipy/labs/bindings/linalg.pyx":236 + /* "nipy/labs/bindings/linalg.pyx":248 * cdef fff_vector* x * cdef long double s * x = fff_vector_fromPyArray(X) # <<<<<<<<<<<<<< * s = fff_vector_ssd(x, &m, fixed) * fff_vector_delete(x) */ - if (!(likely(((__pyx_v_X) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_X, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 236; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (!(likely(((__pyx_v_X) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_X, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 248; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __pyx_v_x = fff_vector_fromPyArray(((PyArrayObject *)__pyx_v_X)); - /* "nipy/labs/bindings/linalg.pyx":237 + /* "nipy/labs/bindings/linalg.pyx":249 * cdef long double s * x = fff_vector_fromPyArray(X) * s = fff_vector_ssd(x, &m, fixed) # <<<<<<<<<<<<<< @@ -3678,7 +3684,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_20vector_ssd(CYTHON_UNUS */ __pyx_v_s = fff_vector_ssd(__pyx_v_x, (&__pyx_v_m), __pyx_v_fixed); - /* "nipy/labs/bindings/linalg.pyx":238 + /* "nipy/labs/bindings/linalg.pyx":250 * x = fff_vector_fromPyArray(X) * s = fff_vector_ssd(x, &m, fixed) * fff_vector_delete(x) # <<<<<<<<<<<<<< @@ -3687,7 +3693,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_20vector_ssd(CYTHON_UNUS */ fff_vector_delete(__pyx_v_x); - /* "nipy/labs/bindings/linalg.pyx":239 + /* "nipy/labs/bindings/linalg.pyx":251 * s = fff_vector_ssd(x, &m, fixed) * fff_vector_delete(x) * return s # <<<<<<<<<<<<<< @@ -3695,13 +3701,13 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_20vector_ssd(CYTHON_UNUS * def vector_sad(X, double m=0): */ __Pyx_XDECREF(__pyx_r); - __pyx_t_1 = PyFloat_FromDouble(__pyx_v_s); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 239; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = PyFloat_FromDouble(__pyx_v_s); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 251; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); __pyx_r = __pyx_t_1; __pyx_t_1 = 0; goto __pyx_L0; - /* "nipy/labs/bindings/linalg.pyx":229 + /* "nipy/labs/bindings/linalg.pyx":241 * return s * * def vector_ssd(X, double m=0, int fixed=1): # <<<<<<<<<<<<<< @@ -3720,7 +3726,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_20vector_ssd(CYTHON_UNUS return __pyx_r; } -/* "nipy/labs/bindings/linalg.pyx":241 +/* "nipy/labs/bindings/linalg.pyx":253 * return s * * def vector_sad(X, double m=0): # <<<<<<<<<<<<<< @@ -3729,10 +3735,10 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_20vector_ssd(CYTHON_UNUS */ /* Python wrapper */ -static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_23vector_sad(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/ -static char __pyx_doc_4nipy_4labs_8bindings_6linalg_22vector_sad[] = "\n Sum of absolute differences.\n s = vector_sad(x, m=0)\n "; -static PyMethodDef __pyx_mdef_4nipy_4labs_8bindings_6linalg_23vector_sad = {__Pyx_NAMESTR("vector_sad"), (PyCFunction)__pyx_pw_4nipy_4labs_8bindings_6linalg_23vector_sad, METH_VARARGS|METH_KEYWORDS, __Pyx_DOCSTR(__pyx_doc_4nipy_4labs_8bindings_6linalg_22vector_sad)}; -static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_23vector_sad(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds) { +static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_25vector_sad(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/ +static char __pyx_doc_4nipy_4labs_8bindings_6linalg_24vector_sad[] = "\n Sum of absolute differences.\n s = vector_sad(x, m=0)\n "; +static PyMethodDef __pyx_mdef_4nipy_4labs_8bindings_6linalg_25vector_sad = {__Pyx_NAMESTR("vector_sad"), (PyCFunction)__pyx_pw_4nipy_4labs_8bindings_6linalg_25vector_sad, METH_VARARGS|METH_KEYWORDS, __Pyx_DOCSTR(__pyx_doc_4nipy_4labs_8bindings_6linalg_24vector_sad)}; +static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_25vector_sad(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds) { PyObject *__pyx_v_X = 0; double __pyx_v_m; int __pyx_lineno = 0; @@ -3765,7 +3771,7 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_23vector_sad(PyObject *_ } } if (unlikely(kw_args > 0)) { - if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "vector_sad") < 0)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 241; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "vector_sad") < 0)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 253; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } else { switch (PyTuple_GET_SIZE(__pyx_args)) { @@ -3777,27 +3783,27 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_23vector_sad(PyObject *_ } __pyx_v_X = values[0]; if (values[1]) { - __pyx_v_m = __pyx_PyFloat_AsDouble(values[1]); if (unlikely((__pyx_v_m == (double)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 241; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_m = __pyx_PyFloat_AsDouble(values[1]); if (unlikely((__pyx_v_m == (double)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 253; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } else { __pyx_v_m = ((double)0.0); } } goto __pyx_L4_argument_unpacking_done; __pyx_L5_argtuple_error:; - __Pyx_RaiseArgtupleInvalid("vector_sad", 0, 1, 2, PyTuple_GET_SIZE(__pyx_args)); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 241; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("vector_sad", 0, 1, 2, PyTuple_GET_SIZE(__pyx_args)); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 253; __pyx_clineno = __LINE__; goto __pyx_L3_error;} __pyx_L3_error:; __Pyx_AddTraceback("nipy.labs.bindings.linalg.vector_sad", __pyx_clineno, __pyx_lineno, __pyx_filename); __Pyx_RefNannyFinishContext(); return NULL; __pyx_L4_argument_unpacking_done:; - __pyx_r = __pyx_pf_4nipy_4labs_8bindings_6linalg_22vector_sad(__pyx_self, __pyx_v_X, __pyx_v_m); + __pyx_r = __pyx_pf_4nipy_4labs_8bindings_6linalg_24vector_sad(__pyx_self, __pyx_v_X, __pyx_v_m); /* function exit code */ __Pyx_RefNannyFinishContext(); return __pyx_r; } -static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_22vector_sad(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_X, double __pyx_v_m) { +static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_24vector_sad(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_X, double __pyx_v_m) { fff_vector *__pyx_v_x; long double __pyx_v_s; PyObject *__pyx_r = NULL; @@ -3808,17 +3814,17 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_22vector_sad(CYTHON_UNUS int __pyx_clineno = 0; __Pyx_RefNannySetupContext("vector_sad", 0); - /* "nipy/labs/bindings/linalg.pyx":248 + /* "nipy/labs/bindings/linalg.pyx":260 * cdef fff_vector* x * cdef long double s * x = fff_vector_fromPyArray(X) # <<<<<<<<<<<<<< * s = fff_vector_sad(x, m) * fff_vector_delete(x) */ - if (!(likely(((__pyx_v_X) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_X, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 248; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (!(likely(((__pyx_v_X) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_X, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 260; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __pyx_v_x = fff_vector_fromPyArray(((PyArrayObject *)__pyx_v_X)); - /* "nipy/labs/bindings/linalg.pyx":249 + /* "nipy/labs/bindings/linalg.pyx":261 * cdef long double s * x = fff_vector_fromPyArray(X) * s = fff_vector_sad(x, m) # <<<<<<<<<<<<<< @@ -3827,7 +3833,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_22vector_sad(CYTHON_UNUS */ __pyx_v_s = fff_vector_sad(__pyx_v_x, __pyx_v_m); - /* "nipy/labs/bindings/linalg.pyx":250 + /* "nipy/labs/bindings/linalg.pyx":262 * x = fff_vector_fromPyArray(X) * s = fff_vector_sad(x, m) * fff_vector_delete(x) # <<<<<<<<<<<<<< @@ -3836,7 +3842,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_22vector_sad(CYTHON_UNUS */ fff_vector_delete(__pyx_v_x); - /* "nipy/labs/bindings/linalg.pyx":251 + /* "nipy/labs/bindings/linalg.pyx":263 * s = fff_vector_sad(x, m) * fff_vector_delete(x) * return s # <<<<<<<<<<<<<< @@ -3844,13 +3850,13 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_22vector_sad(CYTHON_UNUS * def vector_median(X): */ __Pyx_XDECREF(__pyx_r); - __pyx_t_1 = PyFloat_FromDouble(__pyx_v_s); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 251; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = PyFloat_FromDouble(__pyx_v_s); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 263; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); __pyx_r = __pyx_t_1; __pyx_t_1 = 0; goto __pyx_L0; - /* "nipy/labs/bindings/linalg.pyx":241 + /* "nipy/labs/bindings/linalg.pyx":253 * return s * * def vector_sad(X, double m=0): # <<<<<<<<<<<<<< @@ -3869,7 +3875,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_22vector_sad(CYTHON_UNUS return __pyx_r; } -/* "nipy/labs/bindings/linalg.pyx":253 +/* "nipy/labs/bindings/linalg.pyx":265 * return s * * def vector_median(X): # <<<<<<<<<<<<<< @@ -3878,21 +3884,21 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_22vector_sad(CYTHON_UNUS */ /* Python wrapper */ -static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_25vector_median(PyObject *__pyx_self, PyObject *__pyx_v_X); /*proto*/ -static char __pyx_doc_4nipy_4labs_8bindings_6linalg_24vector_median[] = "\n Median.\n m = vector_median(x)\n "; -static PyMethodDef __pyx_mdef_4nipy_4labs_8bindings_6linalg_25vector_median = {__Pyx_NAMESTR("vector_median"), (PyCFunction)__pyx_pw_4nipy_4labs_8bindings_6linalg_25vector_median, METH_O, __Pyx_DOCSTR(__pyx_doc_4nipy_4labs_8bindings_6linalg_24vector_median)}; -static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_25vector_median(PyObject *__pyx_self, PyObject *__pyx_v_X) { +static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_27vector_median(PyObject *__pyx_self, PyObject *__pyx_v_X); /*proto*/ +static char __pyx_doc_4nipy_4labs_8bindings_6linalg_26vector_median[] = "\n Median.\n m = vector_median(x)\n "; +static PyMethodDef __pyx_mdef_4nipy_4labs_8bindings_6linalg_27vector_median = {__Pyx_NAMESTR("vector_median"), (PyCFunction)__pyx_pw_4nipy_4labs_8bindings_6linalg_27vector_median, METH_O, __Pyx_DOCSTR(__pyx_doc_4nipy_4labs_8bindings_6linalg_26vector_median)}; +static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_27vector_median(PyObject *__pyx_self, PyObject *__pyx_v_X) { PyObject *__pyx_r = 0; __Pyx_RefNannyDeclarations __Pyx_RefNannySetupContext("vector_median (wrapper)", 0); - __pyx_r = __pyx_pf_4nipy_4labs_8bindings_6linalg_24vector_median(__pyx_self, ((PyObject *)__pyx_v_X)); + __pyx_r = __pyx_pf_4nipy_4labs_8bindings_6linalg_26vector_median(__pyx_self, ((PyObject *)__pyx_v_X)); /* function exit code */ __Pyx_RefNannyFinishContext(); return __pyx_r; } -static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_24vector_median(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_X) { +static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_26vector_median(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_X) { fff_vector *__pyx_v_x; double __pyx_v_m; PyObject *__pyx_r = NULL; @@ -3903,17 +3909,17 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_24vector_median(CYTHON_U int __pyx_clineno = 0; __Pyx_RefNannySetupContext("vector_median", 0); - /* "nipy/labs/bindings/linalg.pyx":260 + /* "nipy/labs/bindings/linalg.pyx":272 * cdef fff_vector* x * cdef double m * x = fff_vector_fromPyArray(X) # <<<<<<<<<<<<<< * m = fff_vector_median(x) * fff_vector_delete(x) */ - if (!(likely(((__pyx_v_X) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_X, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 260; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (!(likely(((__pyx_v_X) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_X, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 272; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __pyx_v_x = fff_vector_fromPyArray(((PyArrayObject *)__pyx_v_X)); - /* "nipy/labs/bindings/linalg.pyx":261 + /* "nipy/labs/bindings/linalg.pyx":273 * cdef double m * x = fff_vector_fromPyArray(X) * m = fff_vector_median(x) # <<<<<<<<<<<<<< @@ -3922,7 +3928,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_24vector_median(CYTHON_U */ __pyx_v_m = fff_vector_median(__pyx_v_x); - /* "nipy/labs/bindings/linalg.pyx":262 + /* "nipy/labs/bindings/linalg.pyx":274 * x = fff_vector_fromPyArray(X) * m = fff_vector_median(x) * fff_vector_delete(x) # <<<<<<<<<<<<<< @@ -3931,7 +3937,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_24vector_median(CYTHON_U */ fff_vector_delete(__pyx_v_x); - /* "nipy/labs/bindings/linalg.pyx":263 + /* "nipy/labs/bindings/linalg.pyx":275 * m = fff_vector_median(x) * fff_vector_delete(x) * return m # <<<<<<<<<<<<<< @@ -3939,13 +3945,13 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_24vector_median(CYTHON_U * def vector_quantile(X, double r, int interp): */ __Pyx_XDECREF(__pyx_r); - __pyx_t_1 = PyFloat_FromDouble(__pyx_v_m); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 263; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = PyFloat_FromDouble(__pyx_v_m); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 275; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); __pyx_r = __pyx_t_1; __pyx_t_1 = 0; goto __pyx_L0; - /* "nipy/labs/bindings/linalg.pyx":253 + /* "nipy/labs/bindings/linalg.pyx":265 * return s * * def vector_median(X): # <<<<<<<<<<<<<< @@ -3964,7 +3970,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_24vector_median(CYTHON_U return __pyx_r; } -/* "nipy/labs/bindings/linalg.pyx":265 +/* "nipy/labs/bindings/linalg.pyx":277 * return m * * def vector_quantile(X, double r, int interp): # <<<<<<<<<<<<<< @@ -3973,10 +3979,10 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_24vector_median(CYTHON_U */ /* Python wrapper */ -static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_27vector_quantile(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/ -static char __pyx_doc_4nipy_4labs_8bindings_6linalg_26vector_quantile[] = "\n Quantile.\n q = vector_quantile(x, r=0.5, interp=1)\n "; -static PyMethodDef __pyx_mdef_4nipy_4labs_8bindings_6linalg_27vector_quantile = {__Pyx_NAMESTR("vector_quantile"), (PyCFunction)__pyx_pw_4nipy_4labs_8bindings_6linalg_27vector_quantile, METH_VARARGS|METH_KEYWORDS, __Pyx_DOCSTR(__pyx_doc_4nipy_4labs_8bindings_6linalg_26vector_quantile)}; -static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_27vector_quantile(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds) { +static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_29vector_quantile(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/ +static char __pyx_doc_4nipy_4labs_8bindings_6linalg_28vector_quantile[] = "\n Quantile.\n q = vector_quantile(x, r=0.5, interp=1)\n "; +static PyMethodDef __pyx_mdef_4nipy_4labs_8bindings_6linalg_29vector_quantile = {__Pyx_NAMESTR("vector_quantile"), (PyCFunction)__pyx_pw_4nipy_4labs_8bindings_6linalg_29vector_quantile, METH_VARARGS|METH_KEYWORDS, __Pyx_DOCSTR(__pyx_doc_4nipy_4labs_8bindings_6linalg_28vector_quantile)}; +static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_29vector_quantile(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds) { PyObject *__pyx_v_X = 0; double __pyx_v_r; int __pyx_v_interp; @@ -4007,16 +4013,16 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_27vector_quantile(PyObje case 1: if (likely((values[1] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_r)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("vector_quantile", 1, 3, 3, 1); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 265; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("vector_quantile", 1, 3, 3, 1); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 277; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } case 2: if (likely((values[2] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_interp)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("vector_quantile", 1, 3, 3, 2); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 265; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("vector_quantile", 1, 3, 3, 2); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 277; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } if (unlikely(kw_args > 0)) { - if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "vector_quantile") < 0)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 265; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "vector_quantile") < 0)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 277; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } else if (PyTuple_GET_SIZE(__pyx_args) != 3) { goto __pyx_L5_argtuple_error; @@ -4026,25 +4032,25 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_27vector_quantile(PyObje values[2] = PyTuple_GET_ITEM(__pyx_args, 2); } __pyx_v_X = values[0]; - __pyx_v_r = __pyx_PyFloat_AsDouble(values[1]); if (unlikely((__pyx_v_r == (double)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 265; __pyx_clineno = __LINE__; goto __pyx_L3_error;} - __pyx_v_interp = __Pyx_PyInt_As_int(values[2]); if (unlikely((__pyx_v_interp == (int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 265; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_r = __pyx_PyFloat_AsDouble(values[1]); if (unlikely((__pyx_v_r == (double)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 277; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_interp = __Pyx_PyInt_As_int(values[2]); if (unlikely((__pyx_v_interp == (int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 277; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } goto __pyx_L4_argument_unpacking_done; __pyx_L5_argtuple_error:; - __Pyx_RaiseArgtupleInvalid("vector_quantile", 1, 3, 3, PyTuple_GET_SIZE(__pyx_args)); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 265; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("vector_quantile", 1, 3, 3, PyTuple_GET_SIZE(__pyx_args)); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 277; __pyx_clineno = __LINE__; goto __pyx_L3_error;} __pyx_L3_error:; __Pyx_AddTraceback("nipy.labs.bindings.linalg.vector_quantile", __pyx_clineno, __pyx_lineno, __pyx_filename); __Pyx_RefNannyFinishContext(); return NULL; __pyx_L4_argument_unpacking_done:; - __pyx_r = __pyx_pf_4nipy_4labs_8bindings_6linalg_26vector_quantile(__pyx_self, __pyx_v_X, __pyx_v_r, __pyx_v_interp); + __pyx_r = __pyx_pf_4nipy_4labs_8bindings_6linalg_28vector_quantile(__pyx_self, __pyx_v_X, __pyx_v_r, __pyx_v_interp); /* function exit code */ __Pyx_RefNannyFinishContext(); return __pyx_r; } -static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_26vector_quantile(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_X, double __pyx_v_r, int __pyx_v_interp) { +static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_28vector_quantile(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_X, double __pyx_v_r, int __pyx_v_interp) { fff_vector *__pyx_v_x; double __pyx_v_q; PyObject *__pyx_r = NULL; @@ -4055,17 +4061,17 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_26vector_quantile(CYTHON int __pyx_clineno = 0; __Pyx_RefNannySetupContext("vector_quantile", 0); - /* "nipy/labs/bindings/linalg.pyx":272 + /* "nipy/labs/bindings/linalg.pyx":284 * cdef fff_vector* x * cdef double q * x = fff_vector_fromPyArray(X) # <<<<<<<<<<<<<< * q = fff_vector_quantile(x, r, interp) * fff_vector_delete(x) */ - if (!(likely(((__pyx_v_X) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_X, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 272; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (!(likely(((__pyx_v_X) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_X, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 284; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __pyx_v_x = fff_vector_fromPyArray(((PyArrayObject *)__pyx_v_X)); - /* "nipy/labs/bindings/linalg.pyx":273 + /* "nipy/labs/bindings/linalg.pyx":285 * cdef double q * x = fff_vector_fromPyArray(X) * q = fff_vector_quantile(x, r, interp) # <<<<<<<<<<<<<< @@ -4074,7 +4080,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_26vector_quantile(CYTHON */ __pyx_v_q = fff_vector_quantile(__pyx_v_x, __pyx_v_r, __pyx_v_interp); - /* "nipy/labs/bindings/linalg.pyx":274 + /* "nipy/labs/bindings/linalg.pyx":286 * x = fff_vector_fromPyArray(X) * q = fff_vector_quantile(x, r, interp) * fff_vector_delete(x) # <<<<<<<<<<<<<< @@ -4083,7 +4089,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_26vector_quantile(CYTHON */ fff_vector_delete(__pyx_v_x); - /* "nipy/labs/bindings/linalg.pyx":275 + /* "nipy/labs/bindings/linalg.pyx":287 * q = fff_vector_quantile(x, r, interp) * fff_vector_delete(x) * return q # <<<<<<<<<<<<<< @@ -4091,13 +4097,13 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_26vector_quantile(CYTHON * */ __Pyx_XDECREF(__pyx_r); - __pyx_t_1 = PyFloat_FromDouble(__pyx_v_q); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 275; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = PyFloat_FromDouble(__pyx_v_q); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 287; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); __pyx_r = __pyx_t_1; __pyx_t_1 = 0; goto __pyx_L0; - /* "nipy/labs/bindings/linalg.pyx":265 + /* "nipy/labs/bindings/linalg.pyx":277 * return m * * def vector_quantile(X, double r, int interp): # <<<<<<<<<<<<<< @@ -4116,7 +4122,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_26vector_quantile(CYTHON return __pyx_r; } -/* "nipy/labs/bindings/linalg.pyx":279 +/* "nipy/labs/bindings/linalg.pyx":291 * * ## fff_matrix.h * def matrix_get(A, size_t i, size_t j): # <<<<<<<<<<<<<< @@ -4125,10 +4131,10 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_26vector_quantile(CYTHON */ /* Python wrapper */ -static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_29matrix_get(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/ -static char __pyx_doc_4nipy_4labs_8bindings_6linalg_28matrix_get[] = "\n Get (i,j) element.\n aij = matrix_get(A, i, j)\n "; -static PyMethodDef __pyx_mdef_4nipy_4labs_8bindings_6linalg_29matrix_get = {__Pyx_NAMESTR("matrix_get"), (PyCFunction)__pyx_pw_4nipy_4labs_8bindings_6linalg_29matrix_get, METH_VARARGS|METH_KEYWORDS, __Pyx_DOCSTR(__pyx_doc_4nipy_4labs_8bindings_6linalg_28matrix_get)}; -static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_29matrix_get(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds) { +static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_31matrix_get(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/ +static char __pyx_doc_4nipy_4labs_8bindings_6linalg_30matrix_get[] = "\n Get (i,j) element.\n aij = matrix_get(A, i, j)\n "; +static PyMethodDef __pyx_mdef_4nipy_4labs_8bindings_6linalg_31matrix_get = {__Pyx_NAMESTR("matrix_get"), (PyCFunction)__pyx_pw_4nipy_4labs_8bindings_6linalg_31matrix_get, METH_VARARGS|METH_KEYWORDS, __Pyx_DOCSTR(__pyx_doc_4nipy_4labs_8bindings_6linalg_30matrix_get)}; +static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_31matrix_get(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds) { PyObject *__pyx_v_A = 0; size_t __pyx_v_i; size_t __pyx_v_j; @@ -4159,16 +4165,16 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_29matrix_get(PyObject *_ case 1: if (likely((values[1] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_i)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("matrix_get", 1, 3, 3, 1); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 279; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("matrix_get", 1, 3, 3, 1); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 291; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } case 2: if (likely((values[2] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_j)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("matrix_get", 1, 3, 3, 2); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 279; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("matrix_get", 1, 3, 3, 2); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 291; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } if (unlikely(kw_args > 0)) { - if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "matrix_get") < 0)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 279; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "matrix_get") < 0)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 291; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } else if (PyTuple_GET_SIZE(__pyx_args) != 3) { goto __pyx_L5_argtuple_error; @@ -4178,25 +4184,25 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_29matrix_get(PyObject *_ values[2] = PyTuple_GET_ITEM(__pyx_args, 2); } __pyx_v_A = values[0]; - __pyx_v_i = __Pyx_PyInt_As_size_t(values[1]); if (unlikely((__pyx_v_i == (size_t)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 279; __pyx_clineno = __LINE__; goto __pyx_L3_error;} - __pyx_v_j = __Pyx_PyInt_As_size_t(values[2]); if (unlikely((__pyx_v_j == (size_t)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 279; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_i = __Pyx_PyInt_As_size_t(values[1]); if (unlikely((__pyx_v_i == (size_t)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 291; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_j = __Pyx_PyInt_As_size_t(values[2]); if (unlikely((__pyx_v_j == (size_t)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[1]; 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double __pyx_v_aij; PyObject *__pyx_r = NULL; @@ -4207,17 +4213,17 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_28matrix_get(CYTHON_UNUS int __pyx_clineno = 0; __Pyx_RefNannySetupContext("matrix_get", 0); - /* "nipy/labs/bindings/linalg.pyx":286 + /* "nipy/labs/bindings/linalg.pyx":298 * cdef fff_matrix* a * cdef double aij * a = fff_matrix_fromPyArray(A) # <<<<<<<<<<<<<< * aij = fff_matrix_get(a, i, j) * fff_matrix_delete(a) */ - if (!(likely(((__pyx_v_A) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_A, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 286; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (!(likely(((__pyx_v_A) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_A, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 298; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __pyx_v_a = fff_matrix_fromPyArray(((PyArrayObject *)__pyx_v_A)); - /* "nipy/labs/bindings/linalg.pyx":287 + /* "nipy/labs/bindings/linalg.pyx":299 * cdef double aij * a = fff_matrix_fromPyArray(A) * aij = fff_matrix_get(a, i, j) # <<<<<<<<<<<<<< @@ -4226,7 +4232,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_28matrix_get(CYTHON_UNUS */ __pyx_v_aij = fff_matrix_get(__pyx_v_a, __pyx_v_i, __pyx_v_j); 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__pyx_r = __pyx_t_1; __pyx_t_1 = 0; goto __pyx_L0; - /* "nipy/labs/bindings/linalg.pyx":279 + /* "nipy/labs/bindings/linalg.pyx":291 * * ## fff_matrix.h * def matrix_get(A, size_t i, size_t j): # <<<<<<<<<<<<<< @@ -4268,7 +4274,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_28matrix_get(CYTHON_UNUS return __pyx_r; } -/* "nipy/labs/bindings/linalg.pyx":291 +/* "nipy/labs/bindings/linalg.pyx":303 * return aij * * def matrix_transpose(A): # <<<<<<<<<<<<<< @@ -4277,21 +4283,21 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_28matrix_get(CYTHON_UNUS */ /* Python wrapper */ -static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_31matrix_transpose(PyObject *__pyx_self, PyObject *__pyx_v_A); /*proto*/ -static char __pyx_doc_4nipy_4labs_8bindings_6linalg_30matrix_transpose[] = "\n Transpose a matrix.\n B = matrix_transpose(A)\n "; -static PyMethodDef __pyx_mdef_4nipy_4labs_8bindings_6linalg_31matrix_transpose = {__Pyx_NAMESTR("matrix_transpose"), (PyCFunction)__pyx_pw_4nipy_4labs_8bindings_6linalg_31matrix_transpose, METH_O, __Pyx_DOCSTR(__pyx_doc_4nipy_4labs_8bindings_6linalg_30matrix_transpose)}; 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/* function exit code */ __Pyx_RefNannyFinishContext(); return __pyx_r; } -static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_30matrix_transpose(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_A) { +static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_32matrix_transpose(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_A) { fff_matrix *__pyx_v_a; fff_matrix *__pyx_v_b; PyArrayObject *__pyx_v_B = NULL; @@ -4303,18 +4309,18 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_30matrix_transpose(CYTHO int __pyx_clineno = 0; __Pyx_RefNannySetupContext("matrix_transpose", 0); - /* "nipy/labs/bindings/linalg.pyx":297 - * """ - * cdef fff_matrix *a, *b + /* "nipy/labs/bindings/linalg.pyx":310 + * cdef fff_matrix *a + * cdef fff_matrix *b * a = fff_matrix_fromPyArray(A) # <<<<<<<<<<<<<< * b = fff_matrix_new(a.size2, a.size1) * fff_matrix_transpose(b, a) */ - if (!(likely(((__pyx_v_A) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_A, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 297; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (!(likely(((__pyx_v_A) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_A, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 310; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __pyx_v_a = fff_matrix_fromPyArray(((PyArrayObject *)__pyx_v_A)); - /* "nipy/labs/bindings/linalg.pyx":298 - * cdef fff_matrix *a, *b + /* "nipy/labs/bindings/linalg.pyx":311 + * cdef fff_matrix *b * a = fff_matrix_fromPyArray(A) * b = fff_matrix_new(a.size2, a.size1) # <<<<<<<<<<<<<< * fff_matrix_transpose(b, a) @@ -4322,7 +4328,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_30matrix_transpose(CYTHO */ __pyx_v_b = fff_matrix_new(__pyx_v_a->size2, __pyx_v_a->size1); - /* "nipy/labs/bindings/linalg.pyx":299 + /* "nipy/labs/bindings/linalg.pyx":312 * a = fff_matrix_fromPyArray(A) * b = fff_matrix_new(a.size2, a.size1) * fff_matrix_transpose(b, a) # <<<<<<<<<<<<<< @@ -4331,7 +4337,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_30matrix_transpose(CYTHO */ fff_matrix_transpose(__pyx_v_b, __pyx_v_a); - /* "nipy/labs/bindings/linalg.pyx":300 + /* "nipy/labs/bindings/linalg.pyx":313 * b = fff_matrix_new(a.size2, a.size1) * fff_matrix_transpose(b, a) * fff_matrix_delete(a) # <<<<<<<<<<<<<< @@ -4340,19 +4346,19 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_30matrix_transpose(CYTHO */ fff_matrix_delete(__pyx_v_a); - /* "nipy/labs/bindings/linalg.pyx":301 + /* "nipy/labs/bindings/linalg.pyx":314 * fff_matrix_transpose(b, a) * fff_matrix_delete(a) * B = fff_matrix_toPyArray(b) # <<<<<<<<<<<<<< * return B * */ - __pyx_t_1 = ((PyObject *)fff_matrix_toPyArray(__pyx_v_b)); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 301; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = ((PyObject *)fff_matrix_toPyArray(__pyx_v_b)); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 314; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); __pyx_v_B = ((PyArrayObject *)__pyx_t_1); __pyx_t_1 = 0; - /* "nipy/labs/bindings/linalg.pyx":302 + /* "nipy/labs/bindings/linalg.pyx":315 * fff_matrix_delete(a) * B = fff_matrix_toPyArray(b) * return B # <<<<<<<<<<<<<< @@ -4364,7 +4370,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_30matrix_transpose(CYTHO __pyx_r = ((PyObject *)__pyx_v_B); goto __pyx_L0; - /* "nipy/labs/bindings/linalg.pyx":291 + /* "nipy/labs/bindings/linalg.pyx":303 * return aij * * def matrix_transpose(A): # <<<<<<<<<<<<<< @@ -4384,7 +4390,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_30matrix_transpose(CYTHO return __pyx_r; } -/* "nipy/labs/bindings/linalg.pyx":304 +/* "nipy/labs/bindings/linalg.pyx":317 * return B * * def matrix_add(A, B): # <<<<<<<<<<<<<< @@ -4393,10 +4399,10 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_30matrix_transpose(CYTHO */ /* Python wrapper */ -static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_33matrix_add(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/ -static char __pyx_doc_4nipy_4labs_8bindings_6linalg_32matrix_add[] = "\n C = matrix_add(A, B)\n "; -static PyMethodDef __pyx_mdef_4nipy_4labs_8bindings_6linalg_33matrix_add = {__Pyx_NAMESTR("matrix_add"), (PyCFunction)__pyx_pw_4nipy_4labs_8bindings_6linalg_33matrix_add, METH_VARARGS|METH_KEYWORDS, __Pyx_DOCSTR(__pyx_doc_4nipy_4labs_8bindings_6linalg_32matrix_add)}; -static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_33matrix_add(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds) { +static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_35matrix_add(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/ +static char __pyx_doc_4nipy_4labs_8bindings_6linalg_34matrix_add[] = "\n C = matrix_add(A, B)\n "; +static PyMethodDef __pyx_mdef_4nipy_4labs_8bindings_6linalg_35matrix_add = {__Pyx_NAMESTR("matrix_add"), (PyCFunction)__pyx_pw_4nipy_4labs_8bindings_6linalg_35matrix_add, METH_VARARGS|METH_KEYWORDS, __Pyx_DOCSTR(__pyx_doc_4nipy_4labs_8bindings_6linalg_34matrix_add)}; +static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_35matrix_add(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds) { PyObject *__pyx_v_A = 0; PyObject *__pyx_v_B = 0; int __pyx_lineno = 0; @@ -4425,11 +4431,11 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_33matrix_add(PyObject *_ case 1: if (likely((values[1] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_B)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("matrix_add", 1, 2, 2, 1); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 304; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("matrix_add", 1, 2, 2, 1); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 317; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } if (unlikely(kw_args > 0)) { - if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "matrix_add") < 0)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 304; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "matrix_add") < 0)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 317; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } else if (PyTuple_GET_SIZE(__pyx_args) != 2) { goto __pyx_L5_argtuple_error; @@ -4442,20 +4448,20 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_33matrix_add(PyObject *_ } goto __pyx_L4_argument_unpacking_done; __pyx_L5_argtuple_error:; - __Pyx_RaiseArgtupleInvalid("matrix_add", 1, 2, 2, PyTuple_GET_SIZE(__pyx_args)); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 304; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("matrix_add", 1, 2, 2, PyTuple_GET_SIZE(__pyx_args)); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 317; __pyx_clineno = __LINE__; goto __pyx_L3_error;} __pyx_L3_error:; __Pyx_AddTraceback("nipy.labs.bindings.linalg.matrix_add", __pyx_clineno, __pyx_lineno, __pyx_filename); __Pyx_RefNannyFinishContext(); return NULL; __pyx_L4_argument_unpacking_done:; - __pyx_r = __pyx_pf_4nipy_4labs_8bindings_6linalg_32matrix_add(__pyx_self, __pyx_v_A, __pyx_v_B); + __pyx_r = __pyx_pf_4nipy_4labs_8bindings_6linalg_34matrix_add(__pyx_self, __pyx_v_A, __pyx_v_B); /* function exit code */ __Pyx_RefNannyFinishContext(); return __pyx_r; } -static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_32matrix_add(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_A, PyObject *__pyx_v_B) { +static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_34matrix_add(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_A, PyObject *__pyx_v_B) { fff_matrix *__pyx_v_a; fff_matrix *__pyx_v_b; fff_matrix *__pyx_v_c; @@ -4468,27 +4474,27 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_32matrix_add(CYTHON_UNUS int __pyx_clineno = 0; __Pyx_RefNannySetupContext("matrix_add", 0); - /* "nipy/labs/bindings/linalg.pyx":309 - * """ - * cdef fff_matrix *a, *b, *c + /* "nipy/labs/bindings/linalg.pyx":324 + * cdef fff_matrix *b + * cdef fff_matrix *c * a = fff_matrix_fromPyArray(A) # <<<<<<<<<<<<<< * b = fff_matrix_fromPyArray(B) * c = fff_matrix_new(a.size1, a.size2) */ - if (!(likely(((__pyx_v_A) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_A, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 309; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (!(likely(((__pyx_v_A) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_A, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 324; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __pyx_v_a = fff_matrix_fromPyArray(((PyArrayObject *)__pyx_v_A)); - /* "nipy/labs/bindings/linalg.pyx":310 - * cdef fff_matrix *a, *b, *c + /* "nipy/labs/bindings/linalg.pyx":325 + * cdef fff_matrix *c * a = fff_matrix_fromPyArray(A) * b = fff_matrix_fromPyArray(B) # <<<<<<<<<<<<<< * c = fff_matrix_new(a.size1, a.size2) * fff_matrix_memcpy(c, a) */ - if (!(likely(((__pyx_v_B) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_B, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 310; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (!(likely(((__pyx_v_B) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_B, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 325; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __pyx_v_b = fff_matrix_fromPyArray(((PyArrayObject *)__pyx_v_B)); - /* "nipy/labs/bindings/linalg.pyx":311 + /* "nipy/labs/bindings/linalg.pyx":326 * a = fff_matrix_fromPyArray(A) * b = fff_matrix_fromPyArray(B) * c = fff_matrix_new(a.size1, a.size2) # <<<<<<<<<<<<<< @@ -4497,7 +4503,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_32matrix_add(CYTHON_UNUS */ __pyx_v_c = fff_matrix_new(__pyx_v_a->size1, __pyx_v_a->size2); - /* "nipy/labs/bindings/linalg.pyx":312 + /* "nipy/labs/bindings/linalg.pyx":327 * b = fff_matrix_fromPyArray(B) * c = fff_matrix_new(a.size1, a.size2) * fff_matrix_memcpy(c, a) # <<<<<<<<<<<<<< @@ -4506,7 +4512,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_32matrix_add(CYTHON_UNUS */ fff_matrix_memcpy(__pyx_v_c, __pyx_v_a); - /* "nipy/labs/bindings/linalg.pyx":313 + /* "nipy/labs/bindings/linalg.pyx":328 * c = fff_matrix_new(a.size1, a.size2) * fff_matrix_memcpy(c, a) * fff_matrix_add(c, b) # <<<<<<<<<<<<<< @@ -4515,19 +4521,19 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_32matrix_add(CYTHON_UNUS */ fff_matrix_add(__pyx_v_c, __pyx_v_b); - /* "nipy/labs/bindings/linalg.pyx":314 + /* "nipy/labs/bindings/linalg.pyx":329 * fff_matrix_memcpy(c, a) * fff_matrix_add(c, b) * C = fff_matrix_toPyArray(c) # <<<<<<<<<<<<<< * return C * */ - __pyx_t_1 = ((PyObject *)fff_matrix_toPyArray(__pyx_v_c)); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 314; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = ((PyObject *)fff_matrix_toPyArray(__pyx_v_c)); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 329; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); __pyx_v_C = ((PyArrayObject *)__pyx_t_1); __pyx_t_1 = 0; - /* "nipy/labs/bindings/linalg.pyx":315 + /* "nipy/labs/bindings/linalg.pyx":330 * fff_matrix_add(c, b) * C = fff_matrix_toPyArray(c) * return C # <<<<<<<<<<<<<< @@ -4539,7 +4545,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_32matrix_add(CYTHON_UNUS __pyx_r = ((PyObject *)__pyx_v_C); goto __pyx_L0; - /* "nipy/labs/bindings/linalg.pyx":304 + /* "nipy/labs/bindings/linalg.pyx":317 * return B * * def matrix_add(A, B): # <<<<<<<<<<<<<< @@ -4559,7 +4565,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_32matrix_add(CYTHON_UNUS return __pyx_r; } -/* "nipy/labs/bindings/linalg.pyx":319 +/* "nipy/labs/bindings/linalg.pyx":334 * * ## fff_blas.h * cdef CBLAS_TRANSPOSE_t flag_transpose( int flag ): # <<<<<<<<<<<<<< @@ -4574,7 +4580,7 @@ static CBLAS_TRANSPOSE_t __pyx_f_4nipy_4labs_8bindings_6linalg_flag_transpose(in int __pyx_t_1; __Pyx_RefNannySetupContext("flag_transpose", 0); - /* "nipy/labs/bindings/linalg.pyx":321 + /* "nipy/labs/bindings/linalg.pyx":336 * cdef CBLAS_TRANSPOSE_t flag_transpose( int flag ): * cdef CBLAS_TRANSPOSE_t x * if flag <= 0: # <<<<<<<<<<<<<< @@ -4584,7 +4590,7 @@ static CBLAS_TRANSPOSE_t __pyx_f_4nipy_4labs_8bindings_6linalg_flag_transpose(in __pyx_t_1 = ((__pyx_v_flag <= 0) != 0); if (__pyx_t_1) { - /* "nipy/labs/bindings/linalg.pyx":322 + /* "nipy/labs/bindings/linalg.pyx":337 * cdef CBLAS_TRANSPOSE_t x * if flag <= 0: * x = CblasNoTrans # <<<<<<<<<<<<<< @@ -4596,7 +4602,7 @@ static CBLAS_TRANSPOSE_t __pyx_f_4nipy_4labs_8bindings_6linalg_flag_transpose(in } /*else*/ { - /* "nipy/labs/bindings/linalg.pyx":324 + /* "nipy/labs/bindings/linalg.pyx":339 * x = CblasNoTrans * else: * x = CblasTrans # <<<<<<<<<<<<<< @@ -4607,7 +4613,7 @@ static CBLAS_TRANSPOSE_t __pyx_f_4nipy_4labs_8bindings_6linalg_flag_transpose(in } __pyx_L3:; 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if (__pyx_t_1) { - /* "nipy/labs/bindings/linalg.pyx":330 + /* "nipy/labs/bindings/linalg.pyx":345 * cdef CBLAS_UPLO_t x * if flag <= 0: * x = CblasUpper # <<<<<<<<<<<<<< @@ -4668,7 +4674,7 @@ static CBLAS_UPLO_t __pyx_f_4nipy_4labs_8bindings_6linalg_flag_uplo(int __pyx_v_ } /*else*/ { - /* "nipy/labs/bindings/linalg.pyx":332 + /* "nipy/labs/bindings/linalg.pyx":347 * x = CblasUpper * else: * x = CblasLower # <<<<<<<<<<<<<< @@ -4679,7 +4685,7 @@ static CBLAS_UPLO_t __pyx_f_4nipy_4labs_8bindings_6linalg_flag_uplo(int __pyx_v_ } __pyx_L3:; - /* "nipy/labs/bindings/linalg.pyx":333 + /* "nipy/labs/bindings/linalg.pyx":348 * else: * x = CblasLower * return x # <<<<<<<<<<<<<< @@ -4689,7 +4695,7 @@ static CBLAS_UPLO_t __pyx_f_4nipy_4labs_8bindings_6linalg_flag_uplo(int __pyx_v_ __pyx_r = __pyx_v_x; goto __pyx_L0; - /* "nipy/labs/bindings/linalg.pyx":327 + /* "nipy/labs/bindings/linalg.pyx":342 * return x * * cdef CBLAS_UPLO_t flag_uplo( int flag ): # <<<<<<<<<<<<<< @@ -4703,7 +4709,7 @@ static CBLAS_UPLO_t __pyx_f_4nipy_4labs_8bindings_6linalg_flag_uplo(int __pyx_v_ return __pyx_r; 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__pyx_lineno = 365; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (!(likely(((__pyx_v_X) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_X, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 381; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __pyx_v_x = fff_vector_fromPyArray(((PyArrayObject *)__pyx_v_X)); - /* "nipy/labs/bindings/linalg.pyx":366 - * cdef fff_vector *x, *y + /* "nipy/labs/bindings/linalg.pyx":382 + * cdef fff_vector *y * x = fff_vector_fromPyArray(X) * y = fff_vector_fromPyArray(Y) # <<<<<<<<<<<<<< * return fff_blas_ddot(x, y) * */ - if (!(likely(((__pyx_v_Y) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_Y, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 366; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (!(likely(((__pyx_v_Y) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_Y, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 382; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __pyx_v_y = fff_vector_fromPyArray(((PyArrayObject *)__pyx_v_Y)); - /* "nipy/labs/bindings/linalg.pyx":367 + /* "nipy/labs/bindings/linalg.pyx":383 * x = fff_vector_fromPyArray(X) * y = fff_vector_fromPyArray(Y) * return fff_blas_ddot(x, y) # <<<<<<<<<<<<<< @@ -5106,18 +5112,18 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_38blas_ddot(CYTHON_UNUSE * def blas_daxpy(double alpha, X, Y): */ __Pyx_XDECREF(__pyx_r); - __pyx_t_1 = PyFloat_FromDouble(fff_blas_ddot(__pyx_v_x, __pyx_v_y)); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 367; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = PyFloat_FromDouble(fff_blas_ddot(__pyx_v_x, __pyx_v_y)); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 383; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); __pyx_r = __pyx_t_1; __pyx_t_1 = 0; goto __pyx_L0; - /* "nipy/labs/bindings/linalg.pyx":363 + /* "nipy/labs/bindings/linalg.pyx":378 * return fff_blas_dasum(x) * * def blas_ddot(X, Y): # <<<<<<<<<<<<<< - * cdef fff_vector *x, *y - * x = fff_vector_fromPyArray(X) + * cdef fff_vector *x + * cdef fff_vector *y */ /* function exit code */ @@ -5131,18 +5137,18 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_38blas_ddot(CYTHON_UNUSE return __pyx_r; } -/* "nipy/labs/bindings/linalg.pyx":369 +/* "nipy/labs/bindings/linalg.pyx":385 * return fff_blas_ddot(x, y) * * def blas_daxpy(double alpha, X, Y): # <<<<<<<<<<<<<< - * cdef fff_vector *x, *y, *z - * x = fff_vector_fromPyArray(X) + * cdef fff_vector *x + * cdef fff_vector *y */ /* Python wrapper */ -static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_41blas_daxpy(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/ -static PyMethodDef __pyx_mdef_4nipy_4labs_8bindings_6linalg_41blas_daxpy = {__Pyx_NAMESTR("blas_daxpy"), (PyCFunction)__pyx_pw_4nipy_4labs_8bindings_6linalg_41blas_daxpy, METH_VARARGS|METH_KEYWORDS, __Pyx_DOCSTR(0)}; -static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_41blas_daxpy(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds) { +static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_43blas_daxpy(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/ +static PyMethodDef __pyx_mdef_4nipy_4labs_8bindings_6linalg_43blas_daxpy = {__Pyx_NAMESTR("blas_daxpy"), (PyCFunction)__pyx_pw_4nipy_4labs_8bindings_6linalg_43blas_daxpy, METH_VARARGS|METH_KEYWORDS, __Pyx_DOCSTR(0)}; +static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_43blas_daxpy(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds) { double __pyx_v_alpha; PyObject *__pyx_v_X = 0; PyObject *__pyx_v_Y = 0; @@ -5173,16 +5179,16 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_41blas_daxpy(PyObject *_ case 1: if (likely((values[1] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_X)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("blas_daxpy", 1, 3, 3, 1); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 369; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("blas_daxpy", 1, 3, 3, 1); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 385; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } case 2: if (likely((values[2] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_Y)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("blas_daxpy", 1, 3, 3, 2); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 369; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("blas_daxpy", 1, 3, 3, 2); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 385; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } if (unlikely(kw_args > 0)) { - if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "blas_daxpy") < 0)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 369; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "blas_daxpy") < 0)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 385; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } else if (PyTuple_GET_SIZE(__pyx_args) != 3) { goto __pyx_L5_argtuple_error; @@ -5191,26 +5197,26 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_41blas_daxpy(PyObject *_ values[1] = PyTuple_GET_ITEM(__pyx_args, 1); values[2] = PyTuple_GET_ITEM(__pyx_args, 2); } - __pyx_v_alpha = __pyx_PyFloat_AsDouble(values[0]); if (unlikely((__pyx_v_alpha == (double)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 369; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_alpha = __pyx_PyFloat_AsDouble(values[0]); if (unlikely((__pyx_v_alpha == (double)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 385; __pyx_clineno = __LINE__; goto __pyx_L3_error;} __pyx_v_X = values[1]; __pyx_v_Y = values[2]; } goto __pyx_L4_argument_unpacking_done; __pyx_L5_argtuple_error:; - __Pyx_RaiseArgtupleInvalid("blas_daxpy", 1, 3, 3, PyTuple_GET_SIZE(__pyx_args)); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 369; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("blas_daxpy", 1, 3, 3, PyTuple_GET_SIZE(__pyx_args)); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 385; __pyx_clineno = __LINE__; goto __pyx_L3_error;} __pyx_L3_error:; __Pyx_AddTraceback("nipy.labs.bindings.linalg.blas_daxpy", __pyx_clineno, __pyx_lineno, __pyx_filename); __Pyx_RefNannyFinishContext(); return NULL; __pyx_L4_argument_unpacking_done:; - __pyx_r = __pyx_pf_4nipy_4labs_8bindings_6linalg_40blas_daxpy(__pyx_self, __pyx_v_alpha, __pyx_v_X, __pyx_v_Y); + __pyx_r = __pyx_pf_4nipy_4labs_8bindings_6linalg_42blas_daxpy(__pyx_self, __pyx_v_alpha, __pyx_v_X, __pyx_v_Y); /* function exit code */ __Pyx_RefNannyFinishContext(); return __pyx_r; } -static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_40blas_daxpy(CYTHON_UNUSED PyObject *__pyx_self, double __pyx_v_alpha, PyObject *__pyx_v_X, PyObject *__pyx_v_Y) { +static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_42blas_daxpy(CYTHON_UNUSED PyObject *__pyx_self, double __pyx_v_alpha, PyObject *__pyx_v_X, PyObject *__pyx_v_Y) { fff_vector *__pyx_v_x; fff_vector *__pyx_v_y; fff_vector *__pyx_v_z; @@ -5223,27 +5229,27 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_40blas_daxpy(CYTHON_UNUS int __pyx_clineno = 0; __Pyx_RefNannySetupContext("blas_daxpy", 0); - /* "nipy/labs/bindings/linalg.pyx":371 - * def blas_daxpy(double alpha, X, Y): - * cdef fff_vector *x, *y, *z + /* "nipy/labs/bindings/linalg.pyx":389 + * cdef fff_vector *y + * cdef fff_vector *z * x = fff_vector_fromPyArray(X) # <<<<<<<<<<<<<< * y = fff_vector_fromPyArray(Y) * z = fff_vector_new(y.size) */ - if (!(likely(((__pyx_v_X) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_X, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 371; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (!(likely(((__pyx_v_X) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_X, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 389; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __pyx_v_x = fff_vector_fromPyArray(((PyArrayObject *)__pyx_v_X)); - /* "nipy/labs/bindings/linalg.pyx":372 - * cdef fff_vector *x, *y, *z + /* "nipy/labs/bindings/linalg.pyx":390 + * cdef fff_vector *z * x = fff_vector_fromPyArray(X) * y = fff_vector_fromPyArray(Y) # <<<<<<<<<<<<<< * z = fff_vector_new(y.size) * fff_vector_memcpy(z, y) */ - if (!(likely(((__pyx_v_Y) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_Y, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 372; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (!(likely(((__pyx_v_Y) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_Y, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 390; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __pyx_v_y = fff_vector_fromPyArray(((PyArrayObject *)__pyx_v_Y)); - /* "nipy/labs/bindings/linalg.pyx":373 + /* "nipy/labs/bindings/linalg.pyx":391 * x = fff_vector_fromPyArray(X) * y = fff_vector_fromPyArray(Y) * z = fff_vector_new(y.size) # <<<<<<<<<<<<<< @@ -5252,7 +5258,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_40blas_daxpy(CYTHON_UNUS */ __pyx_v_z = fff_vector_new(__pyx_v_y->size); - /* "nipy/labs/bindings/linalg.pyx":374 + /* "nipy/labs/bindings/linalg.pyx":392 * y = fff_vector_fromPyArray(Y) * z = fff_vector_new(y.size) * fff_vector_memcpy(z, y) # <<<<<<<<<<<<<< @@ -5261,7 +5267,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_40blas_daxpy(CYTHON_UNUS */ fff_vector_memcpy(__pyx_v_z, __pyx_v_y); - /* "nipy/labs/bindings/linalg.pyx":375 + /* "nipy/labs/bindings/linalg.pyx":393 * z = fff_vector_new(y.size) * fff_vector_memcpy(z, y) * fff_blas_daxpy(alpha, x, z) # <<<<<<<<<<<<<< @@ -5270,19 +5276,19 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_40blas_daxpy(CYTHON_UNUS */ fff_blas_daxpy(__pyx_v_alpha, __pyx_v_x, __pyx_v_z); - /* "nipy/labs/bindings/linalg.pyx":376 + /* "nipy/labs/bindings/linalg.pyx":394 * fff_vector_memcpy(z, y) * fff_blas_daxpy(alpha, x, z) * Z = fff_vector_toPyArray(z) # <<<<<<<<<<<<<< * return Z * */ - __pyx_t_1 = ((PyObject *)fff_vector_toPyArray(__pyx_v_z)); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 376; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = ((PyObject *)fff_vector_toPyArray(__pyx_v_z)); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 394; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); __pyx_v_Z = ((PyArrayObject *)__pyx_t_1); __pyx_t_1 = 0; - /* "nipy/labs/bindings/linalg.pyx":377 + /* "nipy/labs/bindings/linalg.pyx":395 * fff_blas_daxpy(alpha, x, z) * Z = fff_vector_toPyArray(z) * return Z # <<<<<<<<<<<<<< @@ -5294,12 +5300,12 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_40blas_daxpy(CYTHON_UNUS __pyx_r = ((PyObject *)__pyx_v_Z); goto __pyx_L0; - /* "nipy/labs/bindings/linalg.pyx":369 + /* "nipy/labs/bindings/linalg.pyx":385 * return fff_blas_ddot(x, y) * * def blas_daxpy(double alpha, X, Y): # <<<<<<<<<<<<<< - * cdef fff_vector *x, *y, *z - * x = fff_vector_fromPyArray(X) + * cdef fff_vector *x + * cdef fff_vector *y */ /* function exit code */ @@ -5314,18 +5320,18 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_40blas_daxpy(CYTHON_UNUS return __pyx_r; } -/* "nipy/labs/bindings/linalg.pyx":379 +/* "nipy/labs/bindings/linalg.pyx":397 * return Z * * def blas_dscal(double alpha, X): # <<<<<<<<<<<<<< - * cdef fff_vector *x, *y - * x = fff_vector_fromPyArray(X) + * cdef fff_vector *x + * cdef fff_vector *y */ /* Python wrapper */ -static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_43blas_dscal(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/ -static PyMethodDef __pyx_mdef_4nipy_4labs_8bindings_6linalg_43blas_dscal = {__Pyx_NAMESTR("blas_dscal"), (PyCFunction)__pyx_pw_4nipy_4labs_8bindings_6linalg_43blas_dscal, METH_VARARGS|METH_KEYWORDS, __Pyx_DOCSTR(0)}; -static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_43blas_dscal(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds) { +static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_45blas_dscal(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/ +static PyMethodDef __pyx_mdef_4nipy_4labs_8bindings_6linalg_45blas_dscal = {__Pyx_NAMESTR("blas_dscal"), (PyCFunction)__pyx_pw_4nipy_4labs_8bindings_6linalg_45blas_dscal, METH_VARARGS|METH_KEYWORDS, __Pyx_DOCSTR(0)}; +static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_45blas_dscal(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds) { double __pyx_v_alpha; PyObject *__pyx_v_X = 0; int __pyx_lineno = 0; @@ -5354,11 +5360,11 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_43blas_dscal(PyObject *_ case 1: if (likely((values[1] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_X)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("blas_dscal", 1, 2, 2, 1); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 379; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("blas_dscal", 1, 2, 2, 1); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 397; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } if (unlikely(kw_args > 0)) { - if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "blas_dscal") < 0)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 379; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "blas_dscal") < 0)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 397; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } else if (PyTuple_GET_SIZE(__pyx_args) != 2) { goto __pyx_L5_argtuple_error; @@ -5366,25 +5372,25 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_43blas_dscal(PyObject *_ values[0] = PyTuple_GET_ITEM(__pyx_args, 0); values[1] = PyTuple_GET_ITEM(__pyx_args, 1); } - __pyx_v_alpha = __pyx_PyFloat_AsDouble(values[0]); if (unlikely((__pyx_v_alpha == (double)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 379; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_alpha = __pyx_PyFloat_AsDouble(values[0]); if (unlikely((__pyx_v_alpha == (double)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 397; __pyx_clineno = __LINE__; goto __pyx_L3_error;} __pyx_v_X = values[1]; } goto __pyx_L4_argument_unpacking_done; __pyx_L5_argtuple_error:; - __Pyx_RaiseArgtupleInvalid("blas_dscal", 1, 2, 2, PyTuple_GET_SIZE(__pyx_args)); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 379; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("blas_dscal", 1, 2, 2, PyTuple_GET_SIZE(__pyx_args)); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 397; __pyx_clineno = __LINE__; goto __pyx_L3_error;} __pyx_L3_error:; __Pyx_AddTraceback("nipy.labs.bindings.linalg.blas_dscal", __pyx_clineno, __pyx_lineno, __pyx_filename); __Pyx_RefNannyFinishContext(); return NULL; __pyx_L4_argument_unpacking_done:; - __pyx_r = __pyx_pf_4nipy_4labs_8bindings_6linalg_42blas_dscal(__pyx_self, __pyx_v_alpha, __pyx_v_X); + __pyx_r = __pyx_pf_4nipy_4labs_8bindings_6linalg_44blas_dscal(__pyx_self, __pyx_v_alpha, __pyx_v_X); /* function exit code */ __Pyx_RefNannyFinishContext(); return __pyx_r; } -static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_42blas_dscal(CYTHON_UNUSED PyObject *__pyx_self, double __pyx_v_alpha, PyObject *__pyx_v_X) { +static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_44blas_dscal(CYTHON_UNUSED PyObject *__pyx_self, double __pyx_v_alpha, PyObject *__pyx_v_X) { fff_vector *__pyx_v_x; fff_vector *__pyx_v_y; PyArrayObject *__pyx_v_Y = NULL; @@ -5396,18 +5402,18 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_42blas_dscal(CYTHON_UNUS int __pyx_clineno = 0; __Pyx_RefNannySetupContext("blas_dscal", 0); - /* "nipy/labs/bindings/linalg.pyx":381 - * def blas_dscal(double alpha, X): - * cdef fff_vector *x, *y + /* "nipy/labs/bindings/linalg.pyx":400 + * cdef fff_vector *x + * cdef fff_vector *y * x = fff_vector_fromPyArray(X) # <<<<<<<<<<<<<< * y = fff_vector_new(x.size) * fff_vector_memcpy(y, x) */ - if (!(likely(((__pyx_v_X) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_X, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 381; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (!(likely(((__pyx_v_X) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_X, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 400; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __pyx_v_x = fff_vector_fromPyArray(((PyArrayObject *)__pyx_v_X)); - /* "nipy/labs/bindings/linalg.pyx":382 - * cdef fff_vector *x, *y + /* "nipy/labs/bindings/linalg.pyx":401 + * cdef fff_vector *y * x = fff_vector_fromPyArray(X) * y = fff_vector_new(x.size) # <<<<<<<<<<<<<< * fff_vector_memcpy(y, x) @@ -5415,7 +5421,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_42blas_dscal(CYTHON_UNUS */ __pyx_v_y = fff_vector_new(__pyx_v_x->size); - /* "nipy/labs/bindings/linalg.pyx":383 + /* "nipy/labs/bindings/linalg.pyx":402 * x = fff_vector_fromPyArray(X) * y = fff_vector_new(x.size) * fff_vector_memcpy(y, x) # <<<<<<<<<<<<<< @@ -5424,7 +5430,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_42blas_dscal(CYTHON_UNUS */ fff_vector_memcpy(__pyx_v_y, __pyx_v_x); - /* "nipy/labs/bindings/linalg.pyx":384 + /* "nipy/labs/bindings/linalg.pyx":403 * y = fff_vector_new(x.size) * fff_vector_memcpy(y, x) * fff_blas_dscal(alpha, y) # <<<<<<<<<<<<<< @@ -5433,19 +5439,19 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_42blas_dscal(CYTHON_UNUS */ fff_blas_dscal(__pyx_v_alpha, __pyx_v_y); - /* "nipy/labs/bindings/linalg.pyx":385 + /* "nipy/labs/bindings/linalg.pyx":404 * fff_vector_memcpy(y, x) * fff_blas_dscal(alpha, y) * Y = fff_vector_toPyArray(y) # <<<<<<<<<<<<<< * return Y * */ - __pyx_t_1 = ((PyObject *)fff_vector_toPyArray(__pyx_v_y)); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 385; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = ((PyObject *)fff_vector_toPyArray(__pyx_v_y)); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 404; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); __pyx_v_Y = ((PyArrayObject *)__pyx_t_1); __pyx_t_1 = 0; - /* "nipy/labs/bindings/linalg.pyx":386 + /* "nipy/labs/bindings/linalg.pyx":405 * fff_blas_dscal(alpha, y) * Y = fff_vector_toPyArray(y) * return Y # <<<<<<<<<<<<<< @@ -5457,12 +5463,12 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_42blas_dscal(CYTHON_UNUS __pyx_r = ((PyObject *)__pyx_v_Y); goto __pyx_L0; - /* "nipy/labs/bindings/linalg.pyx":379 + /* "nipy/labs/bindings/linalg.pyx":397 * return Z * * def blas_dscal(double alpha, X): # <<<<<<<<<<<<<< - * cdef fff_vector *x, *y - * x = fff_vector_fromPyArray(X) + * cdef fff_vector *x + * cdef fff_vector *y */ /* function exit code */ @@ -5477,7 +5483,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_42blas_dscal(CYTHON_UNUS return __pyx_r; } -/* "nipy/labs/bindings/linalg.pyx":391 +/* "nipy/labs/bindings/linalg.pyx":410 * * ### BLAS 3 * def blas_dgemm(int TransA, int TransB, double alpha, A, B, double beta, C): # <<<<<<<<<<<<<< @@ -5486,10 +5492,10 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_42blas_dscal(CYTHON_UNUS */ /* Python wrapper */ -static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_45blas_dgemm(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/ -static char __pyx_doc_4nipy_4labs_8bindings_6linalg_44blas_dgemm[] = "\n D = blas_dgemm(int TransA, int TransB, double alpha, A, B, double beta, C).\n \n Compute the matrix-matrix product and sum D = alpha op(A) op(B) +\n beta C where op(A) = A, A^T, A^H for TransA = CblasNoTrans,\n CblasTrans, CblasConjTrans and similarly for the parameter TransB.\n "; -static PyMethodDef __pyx_mdef_4nipy_4labs_8bindings_6linalg_45blas_dgemm = {__Pyx_NAMESTR("blas_dgemm"), (PyCFunction)__pyx_pw_4nipy_4labs_8bindings_6linalg_45blas_dgemm, METH_VARARGS|METH_KEYWORDS, __Pyx_DOCSTR(__pyx_doc_4nipy_4labs_8bindings_6linalg_44blas_dgemm)}; -static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_45blas_dgemm(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds) { +static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_47blas_dgemm(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/ +static char __pyx_doc_4nipy_4labs_8bindings_6linalg_46blas_dgemm[] = "\n D = blas_dgemm(int TransA, int TransB, double alpha, A, B, double beta, C).\n \n Compute the matrix-matrix product and sum D = alpha op(A) op(B) +\n beta C where op(A) = A, A^T, A^H for TransA = CblasNoTrans,\n CblasTrans, CblasConjTrans and similarly for the parameter TransB.\n "; +static PyMethodDef __pyx_mdef_4nipy_4labs_8bindings_6linalg_47blas_dgemm = {__Pyx_NAMESTR("blas_dgemm"), (PyCFunction)__pyx_pw_4nipy_4labs_8bindings_6linalg_47blas_dgemm, METH_VARARGS|METH_KEYWORDS, __Pyx_DOCSTR(__pyx_doc_4nipy_4labs_8bindings_6linalg_46blas_dgemm)}; +static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_47blas_dgemm(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds) { int __pyx_v_TransA; int __pyx_v_TransB; double __pyx_v_alpha; @@ -5528,36 +5534,36 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_45blas_dgemm(PyObject *_ case 1: if (likely((values[1] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_TransB)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("blas_dgemm", 1, 7, 7, 1); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 391; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("blas_dgemm", 1, 7, 7, 1); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 410; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } case 2: if (likely((values[2] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_alpha)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("blas_dgemm", 1, 7, 7, 2); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 391; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("blas_dgemm", 1, 7, 7, 2); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 410; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } case 3: if (likely((values[3] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_A)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("blas_dgemm", 1, 7, 7, 3); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 391; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("blas_dgemm", 1, 7, 7, 3); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 410; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } case 4: if (likely((values[4] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_B)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("blas_dgemm", 1, 7, 7, 4); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 391; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("blas_dgemm", 1, 7, 7, 4); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 410; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } case 5: if (likely((values[5] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_beta)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("blas_dgemm", 1, 7, 7, 5); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 391; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("blas_dgemm", 1, 7, 7, 5); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 410; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } case 6: if (likely((values[6] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_C)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("blas_dgemm", 1, 7, 7, 6); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 391; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("blas_dgemm", 1, 7, 7, 6); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 410; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } if (unlikely(kw_args > 0)) { - if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "blas_dgemm") < 0)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 391; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "blas_dgemm") < 0)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 410; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } else if (PyTuple_GET_SIZE(__pyx_args) != 7) { goto __pyx_L5_argtuple_error; @@ -5570,30 +5576,30 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_45blas_dgemm(PyObject *_ values[5] = PyTuple_GET_ITEM(__pyx_args, 5); values[6] = PyTuple_GET_ITEM(__pyx_args, 6); } - __pyx_v_TransA = __Pyx_PyInt_As_int(values[0]); if (unlikely((__pyx_v_TransA == (int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 391; __pyx_clineno = __LINE__; goto __pyx_L3_error;} - __pyx_v_TransB = __Pyx_PyInt_As_int(values[1]); if (unlikely((__pyx_v_TransB == (int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 391; __pyx_clineno = __LINE__; goto __pyx_L3_error;} - __pyx_v_alpha = __pyx_PyFloat_AsDouble(values[2]); if (unlikely((__pyx_v_alpha == (double)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 391; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_TransA = __Pyx_PyInt_As_int(values[0]); if (unlikely((__pyx_v_TransA == (int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 410; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_TransB = __Pyx_PyInt_As_int(values[1]); if (unlikely((__pyx_v_TransB == (int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 410; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_alpha = __pyx_PyFloat_AsDouble(values[2]); if (unlikely((__pyx_v_alpha == (double)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 410; __pyx_clineno = __LINE__; goto __pyx_L3_error;} __pyx_v_A = values[3]; __pyx_v_B = values[4]; - __pyx_v_beta = __pyx_PyFloat_AsDouble(values[5]); if (unlikely((__pyx_v_beta == (double)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 391; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_beta = __pyx_PyFloat_AsDouble(values[5]); if (unlikely((__pyx_v_beta == (double)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 410; __pyx_clineno = __LINE__; goto __pyx_L3_error;} __pyx_v_C = values[6]; } goto __pyx_L4_argument_unpacking_done; __pyx_L5_argtuple_error:; - __Pyx_RaiseArgtupleInvalid("blas_dgemm", 1, 7, 7, PyTuple_GET_SIZE(__pyx_args)); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 391; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("blas_dgemm", 1, 7, 7, PyTuple_GET_SIZE(__pyx_args)); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 410; __pyx_clineno = __LINE__; goto __pyx_L3_error;} __pyx_L3_error:; __Pyx_AddTraceback("nipy.labs.bindings.linalg.blas_dgemm", __pyx_clineno, __pyx_lineno, __pyx_filename); __Pyx_RefNannyFinishContext(); return NULL; __pyx_L4_argument_unpacking_done:; - __pyx_r = __pyx_pf_4nipy_4labs_8bindings_6linalg_44blas_dgemm(__pyx_self, __pyx_v_TransA, __pyx_v_TransB, __pyx_v_alpha, __pyx_v_A, __pyx_v_B, __pyx_v_beta, __pyx_v_C); + __pyx_r = __pyx_pf_4nipy_4labs_8bindings_6linalg_46blas_dgemm(__pyx_self, __pyx_v_TransA, __pyx_v_TransB, __pyx_v_alpha, __pyx_v_A, __pyx_v_B, __pyx_v_beta, __pyx_v_C); /* function exit code */ __Pyx_RefNannyFinishContext(); return __pyx_r; } -static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_44blas_dgemm(CYTHON_UNUSED PyObject *__pyx_self, int __pyx_v_TransA, int __pyx_v_TransB, double __pyx_v_alpha, PyObject *__pyx_v_A, PyObject *__pyx_v_B, double __pyx_v_beta, PyObject *__pyx_v_C) { +static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_46blas_dgemm(CYTHON_UNUSED PyObject *__pyx_self, int __pyx_v_TransA, int __pyx_v_TransB, double __pyx_v_alpha, PyObject *__pyx_v_A, PyObject *__pyx_v_B, double __pyx_v_beta, PyObject *__pyx_v_C) { fff_matrix *__pyx_v_a; fff_matrix *__pyx_v_b; fff_matrix *__pyx_v_c; @@ -5607,37 +5613,37 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_44blas_dgemm(CYTHON_UNUS int __pyx_clineno = 0; __Pyx_RefNannySetupContext("blas_dgemm", 0); - /* "nipy/labs/bindings/linalg.pyx":400 - * """ - * cdef fff_matrix *a, *b, *c, *d + /* "nipy/labs/bindings/linalg.pyx":422 + * cdef fff_matrix *c + * cdef fff_matrix *d * a = fff_matrix_fromPyArray(A) # <<<<<<<<<<<<<< * b = fff_matrix_fromPyArray(B) * c = fff_matrix_fromPyArray(C) */ - if (!(likely(((__pyx_v_A) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_A, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 400; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (!(likely(((__pyx_v_A) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_A, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 422; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __pyx_v_a = fff_matrix_fromPyArray(((PyArrayObject *)__pyx_v_A)); - /* "nipy/labs/bindings/linalg.pyx":401 - * cdef fff_matrix *a, *b, *c, *d + /* "nipy/labs/bindings/linalg.pyx":423 + * cdef fff_matrix *d * a = fff_matrix_fromPyArray(A) * b = fff_matrix_fromPyArray(B) # <<<<<<<<<<<<<< * c = fff_matrix_fromPyArray(C) * d = fff_matrix_new(c.size1, c.size2) */ - if (!(likely(((__pyx_v_B) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_B, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 401; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (!(likely(((__pyx_v_B) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_B, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 423; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __pyx_v_b = fff_matrix_fromPyArray(((PyArrayObject *)__pyx_v_B)); - /* "nipy/labs/bindings/linalg.pyx":402 + /* "nipy/labs/bindings/linalg.pyx":424 * a = fff_matrix_fromPyArray(A) * b = fff_matrix_fromPyArray(B) * c = fff_matrix_fromPyArray(C) # <<<<<<<<<<<<<< * d = fff_matrix_new(c.size1, c.size2) * fff_matrix_memcpy(d, c) */ - if (!(likely(((__pyx_v_C) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_C, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 402; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (!(likely(((__pyx_v_C) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_C, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 424; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __pyx_v_c = fff_matrix_fromPyArray(((PyArrayObject *)__pyx_v_C)); - /* "nipy/labs/bindings/linalg.pyx":403 + /* "nipy/labs/bindings/linalg.pyx":425 * b = fff_matrix_fromPyArray(B) * c = fff_matrix_fromPyArray(C) * d = fff_matrix_new(c.size1, c.size2) # <<<<<<<<<<<<<< @@ -5646,7 +5652,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_44blas_dgemm(CYTHON_UNUS */ __pyx_v_d = fff_matrix_new(__pyx_v_c->size1, __pyx_v_c->size2); - /* "nipy/labs/bindings/linalg.pyx":404 + /* "nipy/labs/bindings/linalg.pyx":426 * c = fff_matrix_fromPyArray(C) * d = fff_matrix_new(c.size1, c.size2) * fff_matrix_memcpy(d, c) # <<<<<<<<<<<<<< @@ -5655,7 +5661,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_44blas_dgemm(CYTHON_UNUS */ fff_matrix_memcpy(__pyx_v_d, __pyx_v_c); - /* "nipy/labs/bindings/linalg.pyx":405 + /* "nipy/labs/bindings/linalg.pyx":427 * d = fff_matrix_new(c.size1, c.size2) * fff_matrix_memcpy(d, c) * fff_blas_dgemm(flag_transpose(TransA), flag_transpose(TransB), alpha, a, b, beta, d) # <<<<<<<<<<<<<< @@ -5664,7 +5670,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_44blas_dgemm(CYTHON_UNUS */ fff_blas_dgemm(__pyx_f_4nipy_4labs_8bindings_6linalg_flag_transpose(__pyx_v_TransA), __pyx_f_4nipy_4labs_8bindings_6linalg_flag_transpose(__pyx_v_TransB), __pyx_v_alpha, __pyx_v_a, __pyx_v_b, __pyx_v_beta, __pyx_v_d); - /* "nipy/labs/bindings/linalg.pyx":406 + /* "nipy/labs/bindings/linalg.pyx":428 * fff_matrix_memcpy(d, c) * fff_blas_dgemm(flag_transpose(TransA), flag_transpose(TransB), alpha, a, b, beta, d) * fff_matrix_delete(a) # <<<<<<<<<<<<<< @@ -5673,7 +5679,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_44blas_dgemm(CYTHON_UNUS */ fff_matrix_delete(__pyx_v_a); - /* "nipy/labs/bindings/linalg.pyx":407 + /* "nipy/labs/bindings/linalg.pyx":429 * fff_blas_dgemm(flag_transpose(TransA), flag_transpose(TransB), alpha, a, b, beta, d) * fff_matrix_delete(a) * fff_matrix_delete(b) # <<<<<<<<<<<<<< @@ -5682,7 +5688,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_44blas_dgemm(CYTHON_UNUS */ fff_matrix_delete(__pyx_v_b); - /* "nipy/labs/bindings/linalg.pyx":408 + /* "nipy/labs/bindings/linalg.pyx":430 * fff_matrix_delete(a) * fff_matrix_delete(b) * fff_matrix_delete(c) # <<<<<<<<<<<<<< @@ -5691,19 +5697,19 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_44blas_dgemm(CYTHON_UNUS */ fff_matrix_delete(__pyx_v_c); - /* "nipy/labs/bindings/linalg.pyx":409 + /* "nipy/labs/bindings/linalg.pyx":431 * fff_matrix_delete(b) * fff_matrix_delete(c) * D = fff_matrix_toPyArray(d) # <<<<<<<<<<<<<< * return D * */ - __pyx_t_1 = ((PyObject *)fff_matrix_toPyArray(__pyx_v_d)); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 409; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = ((PyObject *)fff_matrix_toPyArray(__pyx_v_d)); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 431; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); __pyx_v_D = ((PyArrayObject *)__pyx_t_1); __pyx_t_1 = 0; - /* "nipy/labs/bindings/linalg.pyx":410 + /* "nipy/labs/bindings/linalg.pyx":432 * fff_matrix_delete(c) * D = fff_matrix_toPyArray(d) * return D # <<<<<<<<<<<<<< @@ -5715,7 +5721,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_44blas_dgemm(CYTHON_UNUS __pyx_r = ((PyObject *)__pyx_v_D); goto __pyx_L0; - /* "nipy/labs/bindings/linalg.pyx":391 + /* "nipy/labs/bindings/linalg.pyx":410 * * ### BLAS 3 * def blas_dgemm(int TransA, int TransB, double alpha, A, B, double beta, C): # <<<<<<<<<<<<<< @@ -5735,7 +5741,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_44blas_dgemm(CYTHON_UNUS return __pyx_r; } -/* "nipy/labs/bindings/linalg.pyx":413 +/* "nipy/labs/bindings/linalg.pyx":435 * * * def blas_dsymm(int Side, int Uplo, double alpha, A, B, beta, C): # <<<<<<<<<<<<<< @@ -5744,10 +5750,10 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_44blas_dgemm(CYTHON_UNUS */ /* Python wrapper */ -static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_47blas_dsymm(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/ -static char __pyx_doc_4nipy_4labs_8bindings_6linalg_46blas_dsymm[] = "\n D = blas_dsymm(int Side, int Uplo, double alpha, A, B, beta, C).\n \n Compute the matrix-matrix product and sum C = \007lpha A B + \010eta C\n for Side is CblasLeft and C = \007lpha B A + \010eta C for Side is\n CblasRight, where the matrix A is symmetric. When Uplo is\n CblasUpper then the upper triangle and diagonal of A are used, and\n when Uplo is CblasLower then the lower triangle and diagonal of A\n are used.\n "; -static PyMethodDef __pyx_mdef_4nipy_4labs_8bindings_6linalg_47blas_dsymm = {__Pyx_NAMESTR("blas_dsymm"), (PyCFunction)__pyx_pw_4nipy_4labs_8bindings_6linalg_47blas_dsymm, METH_VARARGS|METH_KEYWORDS, __Pyx_DOCSTR(__pyx_doc_4nipy_4labs_8bindings_6linalg_46blas_dsymm)}; -static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_47blas_dsymm(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds) { +static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_49blas_dsymm(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/ +static char __pyx_doc_4nipy_4labs_8bindings_6linalg_48blas_dsymm[] = "\n D = blas_dsymm(int Side, int Uplo, double alpha, A, B, beta, C).\n \n Compute the matrix-matrix product and sum C = \007lpha A B + \010eta C\n for Side is CblasLeft and C = \007lpha B A + \010eta C for Side is\n CblasRight, where the matrix A is symmetric. When Uplo is\n CblasUpper then the upper triangle and diagonal of A are used, and\n when Uplo is CblasLower then the lower triangle and diagonal of A\n are used.\n "; +static PyMethodDef __pyx_mdef_4nipy_4labs_8bindings_6linalg_49blas_dsymm = {__Pyx_NAMESTR("blas_dsymm"), (PyCFunction)__pyx_pw_4nipy_4labs_8bindings_6linalg_49blas_dsymm, METH_VARARGS|METH_KEYWORDS, __Pyx_DOCSTR(__pyx_doc_4nipy_4labs_8bindings_6linalg_48blas_dsymm)}; +static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_49blas_dsymm(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds) { int __pyx_v_Side; int __pyx_v_Uplo; double __pyx_v_alpha; @@ -5786,36 +5792,36 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_47blas_dsymm(PyObject *_ case 1: if (likely((values[1] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_Uplo)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("blas_dsymm", 1, 7, 7, 1); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 413; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("blas_dsymm", 1, 7, 7, 1); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 435; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } case 2: if (likely((values[2] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_alpha)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("blas_dsymm", 1, 7, 7, 2); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 413; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("blas_dsymm", 1, 7, 7, 2); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 435; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } case 3: if (likely((values[3] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_A)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("blas_dsymm", 1, 7, 7, 3); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 413; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("blas_dsymm", 1, 7, 7, 3); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 435; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } case 4: if (likely((values[4] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_B)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("blas_dsymm", 1, 7, 7, 4); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 413; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("blas_dsymm", 1, 7, 7, 4); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 435; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } case 5: if (likely((values[5] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_beta)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("blas_dsymm", 1, 7, 7, 5); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 413; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("blas_dsymm", 1, 7, 7, 5); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 435; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } case 6: if (likely((values[6] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_C)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("blas_dsymm", 1, 7, 7, 6); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 413; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("blas_dsymm", 1, 7, 7, 6); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 435; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } if (unlikely(kw_args > 0)) { - if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "blas_dsymm") < 0)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 413; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "blas_dsymm") < 0)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 435; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } else if (PyTuple_GET_SIZE(__pyx_args) != 7) { goto __pyx_L5_argtuple_error; @@ -5828,9 +5834,9 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_47blas_dsymm(PyObject *_ values[5] = PyTuple_GET_ITEM(__pyx_args, 5); values[6] = PyTuple_GET_ITEM(__pyx_args, 6); } - __pyx_v_Side = __Pyx_PyInt_As_int(values[0]); if (unlikely((__pyx_v_Side == (int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 413; __pyx_clineno = __LINE__; goto __pyx_L3_error;} - __pyx_v_Uplo = __Pyx_PyInt_As_int(values[1]); if (unlikely((__pyx_v_Uplo == (int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 413; __pyx_clineno = __LINE__; goto __pyx_L3_error;} - __pyx_v_alpha = __pyx_PyFloat_AsDouble(values[2]); if (unlikely((__pyx_v_alpha == (double)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 413; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_Side = __Pyx_PyInt_As_int(values[0]); if (unlikely((__pyx_v_Side == (int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 435; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_Uplo = __Pyx_PyInt_As_int(values[1]); if (unlikely((__pyx_v_Uplo == (int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 435; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_alpha = __pyx_PyFloat_AsDouble(values[2]); if (unlikely((__pyx_v_alpha == (double)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 435; __pyx_clineno = __LINE__; goto __pyx_L3_error;} __pyx_v_A = values[3]; __pyx_v_B = values[4]; __pyx_v_beta = values[5]; @@ -5838,20 +5844,20 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_47blas_dsymm(PyObject *_ } goto __pyx_L4_argument_unpacking_done; __pyx_L5_argtuple_error:; - __Pyx_RaiseArgtupleInvalid("blas_dsymm", 1, 7, 7, PyTuple_GET_SIZE(__pyx_args)); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 413; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("blas_dsymm", 1, 7, 7, PyTuple_GET_SIZE(__pyx_args)); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 435; __pyx_clineno = __LINE__; goto __pyx_L3_error;} __pyx_L3_error:; __Pyx_AddTraceback("nipy.labs.bindings.linalg.blas_dsymm", __pyx_clineno, __pyx_lineno, __pyx_filename); __Pyx_RefNannyFinishContext(); return NULL; __pyx_L4_argument_unpacking_done:; - __pyx_r = __pyx_pf_4nipy_4labs_8bindings_6linalg_46blas_dsymm(__pyx_self, __pyx_v_Side, __pyx_v_Uplo, __pyx_v_alpha, __pyx_v_A, __pyx_v_B, __pyx_v_beta, __pyx_v_C); + __pyx_r = __pyx_pf_4nipy_4labs_8bindings_6linalg_48blas_dsymm(__pyx_self, __pyx_v_Side, __pyx_v_Uplo, __pyx_v_alpha, __pyx_v_A, __pyx_v_B, __pyx_v_beta, __pyx_v_C); /* function exit code */ __Pyx_RefNannyFinishContext(); return __pyx_r; } -static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_46blas_dsymm(CYTHON_UNUSED PyObject *__pyx_self, int __pyx_v_Side, int __pyx_v_Uplo, double __pyx_v_alpha, PyObject *__pyx_v_A, PyObject *__pyx_v_B, PyObject *__pyx_v_beta, PyObject *__pyx_v_C) { +static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_48blas_dsymm(CYTHON_UNUSED PyObject *__pyx_self, int __pyx_v_Side, int __pyx_v_Uplo, double __pyx_v_alpha, PyObject *__pyx_v_A, PyObject *__pyx_v_B, PyObject *__pyx_v_beta, PyObject *__pyx_v_C) { fff_matrix *__pyx_v_a; fff_matrix *__pyx_v_b; fff_matrix *__pyx_v_c; @@ -5866,37 +5872,37 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_46blas_dsymm(CYTHON_UNUS int __pyx_clineno = 0; __Pyx_RefNannySetupContext("blas_dsymm", 0); - /* "nipy/labs/bindings/linalg.pyx":425 - * """ - * cdef fff_matrix *a, *b, *c, *d + /* "nipy/labs/bindings/linalg.pyx":450 + * cdef fff_matrix *c + * cdef fff_matrix *d * a = fff_matrix_fromPyArray(A) # <<<<<<<<<<<<<< * b = fff_matrix_fromPyArray(B) * c = fff_matrix_fromPyArray(C) */ - if (!(likely(((__pyx_v_A) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_A, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 425; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (!(likely(((__pyx_v_A) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_A, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 450; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __pyx_v_a = fff_matrix_fromPyArray(((PyArrayObject *)__pyx_v_A)); - /* "nipy/labs/bindings/linalg.pyx":426 - * cdef fff_matrix *a, *b, *c, *d + /* "nipy/labs/bindings/linalg.pyx":451 + * cdef fff_matrix *d * a = fff_matrix_fromPyArray(A) * b = fff_matrix_fromPyArray(B) # <<<<<<<<<<<<<< * c = fff_matrix_fromPyArray(C) * d = fff_matrix_new(c.size1, c.size2) */ - if (!(likely(((__pyx_v_B) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_B, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 426; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (!(likely(((__pyx_v_B) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_B, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 451; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __pyx_v_b = fff_matrix_fromPyArray(((PyArrayObject *)__pyx_v_B)); - /* "nipy/labs/bindings/linalg.pyx":427 + /* "nipy/labs/bindings/linalg.pyx":452 * a = fff_matrix_fromPyArray(A) * b = fff_matrix_fromPyArray(B) * c = fff_matrix_fromPyArray(C) # <<<<<<<<<<<<<< * d = fff_matrix_new(c.size1, c.size2) * fff_matrix_memcpy(d, c) */ - if (!(likely(((__pyx_v_C) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_C, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 427; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (!(likely(((__pyx_v_C) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_C, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 452; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __pyx_v_c = fff_matrix_fromPyArray(((PyArrayObject *)__pyx_v_C)); - /* "nipy/labs/bindings/linalg.pyx":428 + /* "nipy/labs/bindings/linalg.pyx":453 * b = fff_matrix_fromPyArray(B) * c = fff_matrix_fromPyArray(C) * d = fff_matrix_new(c.size1, c.size2) # <<<<<<<<<<<<<< @@ -5905,7 +5911,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_46blas_dsymm(CYTHON_UNUS */ __pyx_v_d = fff_matrix_new(__pyx_v_c->size1, __pyx_v_c->size2); - /* "nipy/labs/bindings/linalg.pyx":429 + /* "nipy/labs/bindings/linalg.pyx":454 * c = fff_matrix_fromPyArray(C) * d = fff_matrix_new(c.size1, c.size2) * fff_matrix_memcpy(d, c) # <<<<<<<<<<<<<< @@ -5914,17 +5920,17 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_46blas_dsymm(CYTHON_UNUS */ fff_matrix_memcpy(__pyx_v_d, __pyx_v_c); - /* "nipy/labs/bindings/linalg.pyx":430 + /* "nipy/labs/bindings/linalg.pyx":455 * d = fff_matrix_new(c.size1, c.size2) * fff_matrix_memcpy(d, c) * fff_blas_dsymm(flag_side(Side), flag_uplo(Uplo), alpha, a, b, beta, d) # <<<<<<<<<<<<<< * fff_matrix_delete(a) * fff_matrix_delete(b) */ - __pyx_t_1 = __pyx_PyFloat_AsDouble(__pyx_v_beta); if (unlikely((__pyx_t_1 == (double)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 430; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = __pyx_PyFloat_AsDouble(__pyx_v_beta); if (unlikely((__pyx_t_1 == (double)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 455; __pyx_clineno = __LINE__; goto __pyx_L1_error;} fff_blas_dsymm(__pyx_f_4nipy_4labs_8bindings_6linalg_flag_side(__pyx_v_Side), __pyx_f_4nipy_4labs_8bindings_6linalg_flag_uplo(__pyx_v_Uplo), __pyx_v_alpha, __pyx_v_a, __pyx_v_b, __pyx_t_1, __pyx_v_d); - /* "nipy/labs/bindings/linalg.pyx":431 + /* "nipy/labs/bindings/linalg.pyx":456 * fff_matrix_memcpy(d, c) * fff_blas_dsymm(flag_side(Side), flag_uplo(Uplo), alpha, a, b, beta, d) * fff_matrix_delete(a) # <<<<<<<<<<<<<< @@ -5933,7 +5939,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_46blas_dsymm(CYTHON_UNUS */ fff_matrix_delete(__pyx_v_a); - /* "nipy/labs/bindings/linalg.pyx":432 + /* "nipy/labs/bindings/linalg.pyx":457 * fff_blas_dsymm(flag_side(Side), flag_uplo(Uplo), alpha, a, b, beta, d) * fff_matrix_delete(a) * fff_matrix_delete(b) # <<<<<<<<<<<<<< @@ -5942,7 +5948,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_46blas_dsymm(CYTHON_UNUS */ fff_matrix_delete(__pyx_v_b); - /* "nipy/labs/bindings/linalg.pyx":433 + /* "nipy/labs/bindings/linalg.pyx":458 * fff_matrix_delete(a) * fff_matrix_delete(b) * fff_matrix_delete(c) # <<<<<<<<<<<<<< @@ -5951,19 +5957,19 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_46blas_dsymm(CYTHON_UNUS */ fff_matrix_delete(__pyx_v_c); - /* "nipy/labs/bindings/linalg.pyx":434 + /* "nipy/labs/bindings/linalg.pyx":459 * fff_matrix_delete(b) * fff_matrix_delete(c) * D = fff_matrix_toPyArray(d) # <<<<<<<<<<<<<< * return D * */ - __pyx_t_2 = ((PyObject *)fff_matrix_toPyArray(__pyx_v_d)); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 434; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_2 = ((PyObject *)fff_matrix_toPyArray(__pyx_v_d)); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 459; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_2); __pyx_v_D = ((PyArrayObject *)__pyx_t_2); __pyx_t_2 = 0; - /* "nipy/labs/bindings/linalg.pyx":435 + /* "nipy/labs/bindings/linalg.pyx":460 * fff_matrix_delete(c) * D = fff_matrix_toPyArray(d) * return D # <<<<<<<<<<<<<< @@ -5975,7 +5981,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_46blas_dsymm(CYTHON_UNUS __pyx_r = ((PyObject *)__pyx_v_D); goto __pyx_L0; - /* "nipy/labs/bindings/linalg.pyx":413 + /* "nipy/labs/bindings/linalg.pyx":435 * * * def blas_dsymm(int Side, int Uplo, double alpha, A, B, beta, C): # <<<<<<<<<<<<<< @@ -5995,7 +6001,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_46blas_dsymm(CYTHON_UNUS return __pyx_r; } -/* "nipy/labs/bindings/linalg.pyx":438 +/* "nipy/labs/bindings/linalg.pyx":463 * * * def blas_dsyrk(int Uplo, int Trans, double alpha, A, double beta, C): # <<<<<<<<<<<<<< @@ -6004,10 +6010,10 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_46blas_dsymm(CYTHON_UNUS */ /* Python wrapper */ -static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_49blas_dsyrk(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/ -static char __pyx_doc_4nipy_4labs_8bindings_6linalg_48blas_dsyrk[] = "\n D = blas_dsyrk(int Uplo, int Trans, double alpha, A, double beta, C).\n \n Compute a rank-k update of the symmetric matrix C, C = \007lpha A\n A^T + \010eta C when Trans is CblasNoTrans and C = \007lpha A^T A +\n \010eta C when Trans is CblasTrans. Since the matrix C is symmetric\n only its upper half or lower half need to be stored. When Uplo is\n CblasUpper then the upper triangle and diagonal of C are used, and\n when Uplo is CblasLower then the lower triangle and diagonal of C\n are used.\n "; -static PyMethodDef __pyx_mdef_4nipy_4labs_8bindings_6linalg_49blas_dsyrk = {__Pyx_NAMESTR("blas_dsyrk"), (PyCFunction)__pyx_pw_4nipy_4labs_8bindings_6linalg_49blas_dsyrk, METH_VARARGS|METH_KEYWORDS, __Pyx_DOCSTR(__pyx_doc_4nipy_4labs_8bindings_6linalg_48blas_dsyrk)}; -static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_49blas_dsyrk(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds) { +static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_51blas_dsyrk(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/ +static char __pyx_doc_4nipy_4labs_8bindings_6linalg_50blas_dsyrk[] = "\n D = blas_dsyrk(int Uplo, int Trans, double alpha, A, double beta, C).\n \n Compute a rank-k update of the symmetric matrix C, C = \007lpha A\n A^T + \010eta C when Trans is CblasNoTrans and C = \007lpha A^T A +\n \010eta C when Trans is CblasTrans. Since the matrix C is symmetric\n only its upper half or lower half need to be stored. When Uplo is\n CblasUpper then the upper triangle and diagonal of C are used, and\n when Uplo is CblasLower then the lower triangle and diagonal of C\n are used.\n "; +static PyMethodDef __pyx_mdef_4nipy_4labs_8bindings_6linalg_51blas_dsyrk = {__Pyx_NAMESTR("blas_dsyrk"), (PyCFunction)__pyx_pw_4nipy_4labs_8bindings_6linalg_51blas_dsyrk, METH_VARARGS|METH_KEYWORDS, __Pyx_DOCSTR(__pyx_doc_4nipy_4labs_8bindings_6linalg_50blas_dsyrk)}; +static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_51blas_dsyrk(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds) { int __pyx_v_Uplo; int __pyx_v_Trans; double __pyx_v_alpha; @@ -6044,31 +6050,31 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_49blas_dsyrk(PyObject *_ case 1: if (likely((values[1] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_Trans)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("blas_dsyrk", 1, 6, 6, 1); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 438; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("blas_dsyrk", 1, 6, 6, 1); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 463; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } case 2: if (likely((values[2] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_alpha)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("blas_dsyrk", 1, 6, 6, 2); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 438; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("blas_dsyrk", 1, 6, 6, 2); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 463; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } case 3: if (likely((values[3] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_A)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("blas_dsyrk", 1, 6, 6, 3); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 438; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("blas_dsyrk", 1, 6, 6, 3); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 463; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } case 4: if (likely((values[4] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_beta)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("blas_dsyrk", 1, 6, 6, 4); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 438; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("blas_dsyrk", 1, 6, 6, 4); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 463; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } case 5: if (likely((values[5] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_C)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("blas_dsyrk", 1, 6, 6, 5); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 438; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("blas_dsyrk", 1, 6, 6, 5); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 463; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } if (unlikely(kw_args > 0)) { - if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "blas_dsyrk") < 0)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 438; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "blas_dsyrk") < 0)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 463; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } else if (PyTuple_GET_SIZE(__pyx_args) != 6) { goto __pyx_L5_argtuple_error; @@ -6080,29 +6086,29 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_49blas_dsyrk(PyObject *_ values[4] = PyTuple_GET_ITEM(__pyx_args, 4); values[5] = PyTuple_GET_ITEM(__pyx_args, 5); } - __pyx_v_Uplo = __Pyx_PyInt_As_int(values[0]); if (unlikely((__pyx_v_Uplo == (int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 438; __pyx_clineno = __LINE__; goto __pyx_L3_error;} - __pyx_v_Trans = __Pyx_PyInt_As_int(values[1]); if (unlikely((__pyx_v_Trans == (int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 438; __pyx_clineno = __LINE__; goto __pyx_L3_error;} - __pyx_v_alpha = __pyx_PyFloat_AsDouble(values[2]); if (unlikely((__pyx_v_alpha == (double)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 438; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_Uplo = __Pyx_PyInt_As_int(values[0]); if (unlikely((__pyx_v_Uplo == (int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 463; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_Trans = __Pyx_PyInt_As_int(values[1]); if (unlikely((__pyx_v_Trans == (int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 463; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_alpha = __pyx_PyFloat_AsDouble(values[2]); if (unlikely((__pyx_v_alpha == (double)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 463; __pyx_clineno = __LINE__; goto __pyx_L3_error;} __pyx_v_A = values[3]; - __pyx_v_beta = __pyx_PyFloat_AsDouble(values[4]); if (unlikely((__pyx_v_beta == (double)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 438; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_beta = __pyx_PyFloat_AsDouble(values[4]); if (unlikely((__pyx_v_beta == (double)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 463; __pyx_clineno = __LINE__; goto __pyx_L3_error;} __pyx_v_C = values[5]; } goto __pyx_L4_argument_unpacking_done; __pyx_L5_argtuple_error:; - __Pyx_RaiseArgtupleInvalid("blas_dsyrk", 1, 6, 6, PyTuple_GET_SIZE(__pyx_args)); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 438; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("blas_dsyrk", 1, 6, 6, PyTuple_GET_SIZE(__pyx_args)); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 463; __pyx_clineno = __LINE__; goto __pyx_L3_error;} __pyx_L3_error:; __Pyx_AddTraceback("nipy.labs.bindings.linalg.blas_dsyrk", __pyx_clineno, __pyx_lineno, __pyx_filename); __Pyx_RefNannyFinishContext(); return NULL; __pyx_L4_argument_unpacking_done:; - __pyx_r = __pyx_pf_4nipy_4labs_8bindings_6linalg_48blas_dsyrk(__pyx_self, __pyx_v_Uplo, __pyx_v_Trans, __pyx_v_alpha, __pyx_v_A, __pyx_v_beta, __pyx_v_C); + __pyx_r = __pyx_pf_4nipy_4labs_8bindings_6linalg_50blas_dsyrk(__pyx_self, __pyx_v_Uplo, __pyx_v_Trans, __pyx_v_alpha, __pyx_v_A, __pyx_v_beta, __pyx_v_C); /* function exit code */ __Pyx_RefNannyFinishContext(); return __pyx_r; } -static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_48blas_dsyrk(CYTHON_UNUSED PyObject *__pyx_self, int __pyx_v_Uplo, int __pyx_v_Trans, double __pyx_v_alpha, PyObject *__pyx_v_A, double __pyx_v_beta, PyObject *__pyx_v_C) { +static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_50blas_dsyrk(CYTHON_UNUSED PyObject *__pyx_self, int __pyx_v_Uplo, int __pyx_v_Trans, double __pyx_v_alpha, PyObject *__pyx_v_A, double __pyx_v_beta, PyObject *__pyx_v_C) { fff_matrix *__pyx_v_a; fff_matrix *__pyx_v_c; fff_matrix *__pyx_v_d; @@ -6115,27 +6121,27 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_48blas_dsyrk(CYTHON_UNUS int __pyx_clineno = 0; __Pyx_RefNannySetupContext("blas_dsyrk", 0); - /* "nipy/labs/bindings/linalg.pyx":451 - * """ - * cdef fff_matrix *a, *c, *d + /* "nipy/labs/bindings/linalg.pyx":478 + * cdef fff_matrix *c + * cdef fff_matrix *d * a = fff_matrix_fromPyArray(A) # <<<<<<<<<<<<<< * c = fff_matrix_fromPyArray(C) * d = fff_matrix_new(a.size1, a.size2) */ - if (!(likely(((__pyx_v_A) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_A, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 451; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (!(likely(((__pyx_v_A) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_A, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 478; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __pyx_v_a = fff_matrix_fromPyArray(((PyArrayObject *)__pyx_v_A)); - /* "nipy/labs/bindings/linalg.pyx":452 - * cdef fff_matrix *a, *c, *d + /* "nipy/labs/bindings/linalg.pyx":479 + * cdef fff_matrix *d * a = fff_matrix_fromPyArray(A) * c = fff_matrix_fromPyArray(C) # <<<<<<<<<<<<<< * d = fff_matrix_new(a.size1, a.size2) * fff_matrix_memcpy(d, c) */ - if (!(likely(((__pyx_v_C) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_C, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 452; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (!(likely(((__pyx_v_C) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_C, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 479; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __pyx_v_c = fff_matrix_fromPyArray(((PyArrayObject *)__pyx_v_C)); - /* "nipy/labs/bindings/linalg.pyx":453 + /* "nipy/labs/bindings/linalg.pyx":480 * a = fff_matrix_fromPyArray(A) * c = fff_matrix_fromPyArray(C) * d = fff_matrix_new(a.size1, a.size2) # <<<<<<<<<<<<<< @@ -6144,7 +6150,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_48blas_dsyrk(CYTHON_UNUS */ __pyx_v_d = fff_matrix_new(__pyx_v_a->size1, __pyx_v_a->size2); - /* "nipy/labs/bindings/linalg.pyx":454 + /* "nipy/labs/bindings/linalg.pyx":481 * c = fff_matrix_fromPyArray(C) * d = fff_matrix_new(a.size1, a.size2) * fff_matrix_memcpy(d, c) # <<<<<<<<<<<<<< @@ -6153,7 +6159,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_48blas_dsyrk(CYTHON_UNUS */ fff_matrix_memcpy(__pyx_v_d, __pyx_v_c); - /* "nipy/labs/bindings/linalg.pyx":455 + /* "nipy/labs/bindings/linalg.pyx":482 * d = fff_matrix_new(a.size1, a.size2) * fff_matrix_memcpy(d, c) * fff_blas_dsyrk(flag_uplo(Uplo), flag_transpose(Trans), alpha, a, beta, d) # <<<<<<<<<<<<<< @@ -6162,7 +6168,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_48blas_dsyrk(CYTHON_UNUS */ fff_blas_dsyrk(__pyx_f_4nipy_4labs_8bindings_6linalg_flag_uplo(__pyx_v_Uplo), __pyx_f_4nipy_4labs_8bindings_6linalg_flag_transpose(__pyx_v_Trans), __pyx_v_alpha, __pyx_v_a, __pyx_v_beta, __pyx_v_d); - /* "nipy/labs/bindings/linalg.pyx":456 + /* "nipy/labs/bindings/linalg.pyx":483 * fff_matrix_memcpy(d, c) * fff_blas_dsyrk(flag_uplo(Uplo), flag_transpose(Trans), alpha, a, beta, d) * fff_matrix_delete(a) # <<<<<<<<<<<<<< @@ -6171,7 +6177,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_48blas_dsyrk(CYTHON_UNUS */ fff_matrix_delete(__pyx_v_a); - /* "nipy/labs/bindings/linalg.pyx":457 + /* "nipy/labs/bindings/linalg.pyx":484 * fff_blas_dsyrk(flag_uplo(Uplo), flag_transpose(Trans), alpha, a, beta, d) * fff_matrix_delete(a) * fff_matrix_delete(c) # <<<<<<<<<<<<<< @@ -6180,19 +6186,19 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_48blas_dsyrk(CYTHON_UNUS */ fff_matrix_delete(__pyx_v_c); - /* "nipy/labs/bindings/linalg.pyx":458 + /* "nipy/labs/bindings/linalg.pyx":485 * fff_matrix_delete(a) * fff_matrix_delete(c) * D = fff_matrix_toPyArray(d) # <<<<<<<<<<<<<< * return D * */ - __pyx_t_1 = ((PyObject *)fff_matrix_toPyArray(__pyx_v_d)); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 458; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = ((PyObject *)fff_matrix_toPyArray(__pyx_v_d)); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 485; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); __pyx_v_D = ((PyArrayObject *)__pyx_t_1); __pyx_t_1 = 0; - /* "nipy/labs/bindings/linalg.pyx":459 + /* "nipy/labs/bindings/linalg.pyx":486 * fff_matrix_delete(c) * D = fff_matrix_toPyArray(d) * return D # <<<<<<<<<<<<<< @@ -6204,7 +6210,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_48blas_dsyrk(CYTHON_UNUS __pyx_r = ((PyObject *)__pyx_v_D); goto __pyx_L0; - /* "nipy/labs/bindings/linalg.pyx":438 + /* "nipy/labs/bindings/linalg.pyx":463 * * * def blas_dsyrk(int Uplo, int Trans, double alpha, A, double beta, C): # <<<<<<<<<<<<<< @@ -6224,7 +6230,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_48blas_dsyrk(CYTHON_UNUS return __pyx_r; } -/* "nipy/labs/bindings/linalg.pyx":462 +/* "nipy/labs/bindings/linalg.pyx":489 * * * def blas_dsyr2k(int Uplo, int Trans, double alpha, A, B, double beta, C): # <<<<<<<<<<<<<< @@ -6233,10 +6239,10 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_48blas_dsyrk(CYTHON_UNUS */ /* Python wrapper */ -static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_51blas_dsyr2k(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/ -static char __pyx_doc_4nipy_4labs_8bindings_6linalg_50blas_dsyr2k[] = "\n Compute a rank-2k update of the symmetric matrix C, C = \007lpha A B^T +\n \007lpha B A^T + \010eta C when Trans is CblasNoTrans and C = \007lpha A^T B\n + \007lpha B^T A + \010eta C when Trans is CblasTrans. Since the matrix C\n is symmetric only its upper half or lower half need to be stored. When\n Uplo is CblasUpper then the upper triangle and diagonal of C are used,\n and when Uplo is CblasLower then the lower triangle and diagonal of C\n are used.\n "; -static PyMethodDef __pyx_mdef_4nipy_4labs_8bindings_6linalg_51blas_dsyr2k = {__Pyx_NAMESTR("blas_dsyr2k"), (PyCFunction)__pyx_pw_4nipy_4labs_8bindings_6linalg_51blas_dsyr2k, METH_VARARGS|METH_KEYWORDS, __Pyx_DOCSTR(__pyx_doc_4nipy_4labs_8bindings_6linalg_50blas_dsyr2k)}; -static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_51blas_dsyr2k(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds) { +static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_53blas_dsyr2k(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/ +static char __pyx_doc_4nipy_4labs_8bindings_6linalg_52blas_dsyr2k[] = "\n Compute a rank-2k update of the symmetric matrix C, C = \007lpha A B^T +\n \007lpha B A^T + \010eta C when Trans is CblasNoTrans and C = \007lpha A^T B\n + \007lpha B^T A + \010eta C when Trans is CblasTrans. Since the matrix C\n is symmetric only its upper half or lower half need to be stored. When\n Uplo is CblasUpper then the upper triangle and diagonal of C are used,\n and when Uplo is CblasLower then the lower triangle and diagonal of C\n are used.\n "; +static PyMethodDef __pyx_mdef_4nipy_4labs_8bindings_6linalg_53blas_dsyr2k = {__Pyx_NAMESTR("blas_dsyr2k"), (PyCFunction)__pyx_pw_4nipy_4labs_8bindings_6linalg_53blas_dsyr2k, METH_VARARGS|METH_KEYWORDS, __Pyx_DOCSTR(__pyx_doc_4nipy_4labs_8bindings_6linalg_52blas_dsyr2k)}; +static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_53blas_dsyr2k(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds) { int __pyx_v_Uplo; int __pyx_v_Trans; double __pyx_v_alpha; @@ -6275,36 +6281,36 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_51blas_dsyr2k(PyObject * case 1: if (likely((values[1] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_Trans)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("blas_dsyr2k", 1, 7, 7, 1); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 462; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("blas_dsyr2k", 1, 7, 7, 1); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 489; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } case 2: if (likely((values[2] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_alpha)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("blas_dsyr2k", 1, 7, 7, 2); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 462; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("blas_dsyr2k", 1, 7, 7, 2); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 489; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } case 3: if (likely((values[3] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_A)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("blas_dsyr2k", 1, 7, 7, 3); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 462; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("blas_dsyr2k", 1, 7, 7, 3); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 489; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } case 4: if (likely((values[4] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_B)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("blas_dsyr2k", 1, 7, 7, 4); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 462; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("blas_dsyr2k", 1, 7, 7, 4); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 489; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } case 5: if (likely((values[5] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_beta)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("blas_dsyr2k", 1, 7, 7, 5); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 462; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("blas_dsyr2k", 1, 7, 7, 5); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 489; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } case 6: if (likely((values[6] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_C)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("blas_dsyr2k", 1, 7, 7, 6); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 462; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("blas_dsyr2k", 1, 7, 7, 6); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 489; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } if (unlikely(kw_args > 0)) { - if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "blas_dsyr2k") < 0)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 462; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "blas_dsyr2k") < 0)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 489; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } else if (PyTuple_GET_SIZE(__pyx_args) != 7) { goto __pyx_L5_argtuple_error; @@ -6317,30 +6323,30 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_6linalg_51blas_dsyr2k(PyObject * values[5] = PyTuple_GET_ITEM(__pyx_args, 5); values[6] = PyTuple_GET_ITEM(__pyx_args, 6); } - __pyx_v_Uplo = __Pyx_PyInt_As_int(values[0]); if (unlikely((__pyx_v_Uplo == (int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 462; __pyx_clineno = __LINE__; goto __pyx_L3_error;} - __pyx_v_Trans = __Pyx_PyInt_As_int(values[1]); if (unlikely((__pyx_v_Trans == (int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 462; __pyx_clineno = __LINE__; goto __pyx_L3_error;} - __pyx_v_alpha = __pyx_PyFloat_AsDouble(values[2]); if (unlikely((__pyx_v_alpha == (double)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 462; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_Uplo = __Pyx_PyInt_As_int(values[0]); if (unlikely((__pyx_v_Uplo == (int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 489; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_Trans = __Pyx_PyInt_As_int(values[1]); if (unlikely((__pyx_v_Trans == (int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 489; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_alpha = __pyx_PyFloat_AsDouble(values[2]); if (unlikely((__pyx_v_alpha == (double)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 489; __pyx_clineno = __LINE__; goto __pyx_L3_error;} __pyx_v_A = values[3]; __pyx_v_B = values[4]; - __pyx_v_beta = __pyx_PyFloat_AsDouble(values[5]); if (unlikely((__pyx_v_beta == (double)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 462; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_beta = __pyx_PyFloat_AsDouble(values[5]); if (unlikely((__pyx_v_beta == (double)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 489; __pyx_clineno = __LINE__; goto __pyx_L3_error;} __pyx_v_C = values[6]; } goto __pyx_L4_argument_unpacking_done; __pyx_L5_argtuple_error:; - __Pyx_RaiseArgtupleInvalid("blas_dsyr2k", 1, 7, 7, PyTuple_GET_SIZE(__pyx_args)); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 462; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("blas_dsyr2k", 1, 7, 7, PyTuple_GET_SIZE(__pyx_args)); {__pyx_filename = __pyx_f[1]; __pyx_lineno = 489; __pyx_clineno = __LINE__; goto __pyx_L3_error;} __pyx_L3_error:; __Pyx_AddTraceback("nipy.labs.bindings.linalg.blas_dsyr2k", __pyx_clineno, __pyx_lineno, __pyx_filename); __Pyx_RefNannyFinishContext(); return NULL; __pyx_L4_argument_unpacking_done:; - __pyx_r = __pyx_pf_4nipy_4labs_8bindings_6linalg_50blas_dsyr2k(__pyx_self, __pyx_v_Uplo, __pyx_v_Trans, __pyx_v_alpha, __pyx_v_A, __pyx_v_B, __pyx_v_beta, __pyx_v_C); + __pyx_r = __pyx_pf_4nipy_4labs_8bindings_6linalg_52blas_dsyr2k(__pyx_self, __pyx_v_Uplo, __pyx_v_Trans, __pyx_v_alpha, __pyx_v_A, __pyx_v_B, __pyx_v_beta, __pyx_v_C); /* function exit code */ __Pyx_RefNannyFinishContext(); return __pyx_r; } -static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_50blas_dsyr2k(CYTHON_UNUSED PyObject *__pyx_self, int __pyx_v_Uplo, int __pyx_v_Trans, double __pyx_v_alpha, PyObject *__pyx_v_A, PyObject *__pyx_v_B, double __pyx_v_beta, PyObject *__pyx_v_C) { +static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_52blas_dsyr2k(CYTHON_UNUSED PyObject *__pyx_self, int __pyx_v_Uplo, int __pyx_v_Trans, double __pyx_v_alpha, PyObject *__pyx_v_A, PyObject *__pyx_v_B, double __pyx_v_beta, PyObject *__pyx_v_C) { fff_matrix *__pyx_v_a; fff_matrix *__pyx_v_b; fff_matrix *__pyx_v_c; @@ -6354,37 +6360,37 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_50blas_dsyr2k(CYTHON_UNU int __pyx_clineno = 0; __Pyx_RefNannySetupContext("blas_dsyr2k", 0); - /* "nipy/labs/bindings/linalg.pyx":473 - * """ - * cdef fff_matrix *a, *b, *c, *d + /* "nipy/labs/bindings/linalg.pyx":503 + * cdef fff_matrix *c + * cdef fff_matrix *d * a = fff_matrix_fromPyArray(A) # <<<<<<<<<<<<<< * b = fff_matrix_fromPyArray(B) * c = fff_matrix_fromPyArray(C) */ - if (!(likely(((__pyx_v_A) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_A, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 473; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (!(likely(((__pyx_v_A) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_A, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 503; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __pyx_v_a = fff_matrix_fromPyArray(((PyArrayObject *)__pyx_v_A)); - /* "nipy/labs/bindings/linalg.pyx":474 - * cdef fff_matrix *a, *b, *c, *d + /* "nipy/labs/bindings/linalg.pyx":504 + * cdef fff_matrix *d * a = fff_matrix_fromPyArray(A) * b = fff_matrix_fromPyArray(B) # <<<<<<<<<<<<<< * c = fff_matrix_fromPyArray(C) * d = fff_matrix_new(a.size1, a.size2) */ - if (!(likely(((__pyx_v_B) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_B, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[1]; 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- /* "nipy/labs/bindings/linalg.pyx":476 + /* "nipy/labs/bindings/linalg.pyx":506 * b = fff_matrix_fromPyArray(B) * c = fff_matrix_fromPyArray(C) * d = fff_matrix_new(a.size1, a.size2) # <<<<<<<<<<<<<< @@ -6393,7 +6399,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_50blas_dsyr2k(CYTHON_UNU */ __pyx_v_d = fff_matrix_new(__pyx_v_a->size1, __pyx_v_a->size2); - /* "nipy/labs/bindings/linalg.pyx":477 + /* "nipy/labs/bindings/linalg.pyx":507 * c = fff_matrix_fromPyArray(C) * d = fff_matrix_new(a.size1, a.size2) * fff_matrix_memcpy(d, c) # <<<<<<<<<<<<<< @@ -6402,7 +6408,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_50blas_dsyr2k(CYTHON_UNU */ fff_matrix_memcpy(__pyx_v_d, __pyx_v_c); - /* "nipy/labs/bindings/linalg.pyx":478 + /* "nipy/labs/bindings/linalg.pyx":508 * d = fff_matrix_new(a.size1, a.size2) * fff_matrix_memcpy(d, c) * fff_blas_dsyr2k(flag_uplo(Uplo), flag_transpose(Trans), alpha, a, b, beta, d) # <<<<<<<<<<<<<< @@ -6411,7 +6417,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_6linalg_50blas_dsyr2k(CYTHON_UNU */ fff_blas_dsyr2k(__pyx_f_4nipy_4labs_8bindings_6linalg_flag_uplo(__pyx_v_Uplo), __pyx_f_4nipy_4labs_8bindings_6linalg_flag_transpose(__pyx_v_Trans), __pyx_v_alpha, __pyx_v_a, __pyx_v_b, __pyx_v_beta, __pyx_v_d); 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__pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_2 = PyList_New(5); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 6; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_2); __Pyx_INCREF(__pyx_n_s_dgetrf); PyList_SET_ITEM(__pyx_t_2, 0, __pyx_n_s_dgetrf); @@ -9267,11 +9285,14 @@ PyMODINIT_FUNC PyInit_linalg(void) __Pyx_INCREF(__pyx_n_s_dpotrf); PyList_SET_ITEM(__pyx_t_2, 1, __pyx_n_s_dpotrf); __Pyx_GIVEREF(__pyx_n_s_dpotrf); + __Pyx_INCREF(__pyx_n_s_dpotrs); + PyList_SET_ITEM(__pyx_t_2, 2, __pyx_n_s_dpotrs); + __Pyx_GIVEREF(__pyx_n_s_dpotrs); __Pyx_INCREF(__pyx_n_s_dgesdd); - PyList_SET_ITEM(__pyx_t_2, 2, __pyx_n_s_dgesdd); + PyList_SET_ITEM(__pyx_t_2, 3, __pyx_n_s_dgesdd); __Pyx_GIVEREF(__pyx_n_s_dgesdd); __Pyx_INCREF(__pyx_n_s_dgeqrf); - PyList_SET_ITEM(__pyx_t_2, 3, __pyx_n_s_dgeqrf); + PyList_SET_ITEM(__pyx_t_2, 4, __pyx_n_s_dgeqrf); __Pyx_GIVEREF(__pyx_n_s_dgeqrf); __pyx_t_1 = __Pyx_Import(__pyx_n_s_scipy_linalg__flapack, __pyx_t_2, -1); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 6; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); @@ -9284,6 +9305,10 @@ PyMODINIT_FUNC PyInit_linalg(void) __Pyx_GOTREF(__pyx_t_2); if (PyDict_SetItem(__pyx_d, __pyx_n_s_dpotrf, __pyx_t_2) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 6; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0; + __pyx_t_2 = __Pyx_ImportFrom(__pyx_t_1, __pyx_n_s_dpotrs); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 6; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_GOTREF(__pyx_t_2); + if (PyDict_SetItem(__pyx_d, __pyx_n_s_dpotrs, __pyx_t_2) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 6; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0; __pyx_t_2 = __Pyx_ImportFrom(__pyx_t_1, __pyx_n_s_dgesdd); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 6; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_2); if (PyDict_SetItem(__pyx_d, __pyx_n_s_dgesdd, __pyx_t_2) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 6; __pyx_clineno = __LINE__; goto __pyx_L1_error;} @@ -9294,6 +9319,18 @@ PyMODINIT_FUNC PyInit_linalg(void) __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0; __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; + /* "../../../lib/fff_python_wrapper/fffpy_import_lapack.pxi":50 + * void fffpy_import_lapack_func(object ptr, int key) + * + * def fffpy_import_lapack(): # <<<<<<<<<<<<<< + * fffpy_import_blas_func(ddot._cpointer, FFF_BLAS_DDOT) + * fffpy_import_blas_func(dnrm2._cpointer, FFF_BLAS_DNRM2) + */ + __pyx_t_1 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_8bindings_6linalg_1fffpy_import_lapack, NULL, __pyx_n_s_nipy_labs_bindings_linalg); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 50; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_GOTREF(__pyx_t_1); + if (PyDict_SetItem(__pyx_d, __pyx_n_s_fffpy_import_lapack, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 50; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; + /* "nipy/labs/bindings/linalg.pyx":74 * * # Initialize numpy @@ -9331,9 +9368,12 @@ PyMODINIT_FUNC PyInit_linalg(void) * * # Binded routines */ - __pyx_t_1 = __pyx_f_4nipy_4labs_8bindings_6linalg_fffpy_import_lapack(); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 79; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = __Pyx_GetModuleGlobalName(__pyx_n_s_fffpy_import_lapack); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 79; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); + __pyx_t_2 = __Pyx_PyObject_Call(__pyx_t_1, __pyx_empty_tuple, NULL); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 79; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_GOTREF(__pyx_t_2); __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; + __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0; /* "nipy/labs/bindings/linalg.pyx":84 * @@ -9342,10 +9382,10 @@ PyMODINIT_FUNC PyInit_linalg(void) * """ * Get i-th element. */ - __pyx_t_1 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_8bindings_6linalg_1vector_get, NULL, __pyx_n_s_nipy_labs_bindings_linalg); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 84; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_GOTREF(__pyx_t_1); - if (PyDict_SetItem(__pyx_d, __pyx_n_s_vector_get, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 84; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; + __pyx_t_2 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_8bindings_6linalg_3vector_get, NULL, __pyx_n_s_nipy_labs_bindings_linalg); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 84; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_GOTREF(__pyx_t_2); + if (PyDict_SetItem(__pyx_d, __pyx_n_s_vector_get, __pyx_t_2) < 0) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 84; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0; /* "nipy/labs/bindings/linalg.pyx":96 * return xi @@ -9354,308 +9394,308 @@ PyMODINIT_FUNC PyInit_linalg(void) * """ * Set i-th element. */ - __pyx_t_1 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_8bindings_6linalg_3vector_set, NULL, __pyx_n_s_nipy_labs_bindings_linalg); 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if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 391; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_GOTREF(__pyx_t_1); - if (PyDict_SetItem(__pyx_d, __pyx_n_s_blas_dgemm, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 391; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; + __pyx_t_2 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_8bindings_6linalg_47blas_dgemm, NULL, __pyx_n_s_nipy_labs_bindings_linalg); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 410; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_GOTREF(__pyx_t_2); + if (PyDict_SetItem(__pyx_d, __pyx_n_s_blas_dgemm, __pyx_t_2) < 0) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 410; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0; - /* "nipy/labs/bindings/linalg.pyx":413 + /* "nipy/labs/bindings/linalg.pyx":435 * * * def blas_dsymm(int Side, int Uplo, double alpha, A, B, beta, C): # <<<<<<<<<<<<<< * """ * D = blas_dsymm(int Side, int Uplo, double alpha, A, B, beta, C). */ - __pyx_t_1 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_8bindings_6linalg_47blas_dsymm, NULL, __pyx_n_s_nipy_labs_bindings_linalg); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 413; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_GOTREF(__pyx_t_1); - if (PyDict_SetItem(__pyx_d, __pyx_n_s_blas_dsymm, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 413; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; + __pyx_t_2 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_8bindings_6linalg_49blas_dsymm, NULL, __pyx_n_s_nipy_labs_bindings_linalg); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 435; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_GOTREF(__pyx_t_2); + if (PyDict_SetItem(__pyx_d, __pyx_n_s_blas_dsymm, __pyx_t_2) < 0) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 435; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0; - /* "nipy/labs/bindings/linalg.pyx":438 + /* "nipy/labs/bindings/linalg.pyx":463 * * * def blas_dsyrk(int Uplo, int Trans, double alpha, A, double beta, C): # <<<<<<<<<<<<<< * """ * D = blas_dsyrk(int Uplo, int Trans, double alpha, A, double beta, C). */ - __pyx_t_1 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_8bindings_6linalg_49blas_dsyrk, NULL, __pyx_n_s_nipy_labs_bindings_linalg); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 438; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_GOTREF(__pyx_t_1); - if (PyDict_SetItem(__pyx_d, __pyx_n_s_blas_dsyrk, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 438; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; + __pyx_t_2 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_8bindings_6linalg_51blas_dsyrk, NULL, __pyx_n_s_nipy_labs_bindings_linalg); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 463; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_GOTREF(__pyx_t_2); + if (PyDict_SetItem(__pyx_d, __pyx_n_s_blas_dsyrk, __pyx_t_2) < 0) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 463; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0; - /* "nipy/labs/bindings/linalg.pyx":462 + /* "nipy/labs/bindings/linalg.pyx":489 * * * def blas_dsyr2k(int Uplo, int Trans, double alpha, A, B, double beta, C): # <<<<<<<<<<<<<< * """ * Compute a rank-2k update of the symmetric matrix C, C = \alpha A B^T + */ - __pyx_t_1 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_8bindings_6linalg_51blas_dsyr2k, NULL, __pyx_n_s_nipy_labs_bindings_linalg); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 462; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_GOTREF(__pyx_t_1); - if (PyDict_SetItem(__pyx_d, __pyx_n_s_blas_dsyr2k, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 462; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; + __pyx_t_2 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_8bindings_6linalg_53blas_dsyr2k, NULL, __pyx_n_s_nipy_labs_bindings_linalg); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 489; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_GOTREF(__pyx_t_2); + if (PyDict_SetItem(__pyx_d, __pyx_n_s_blas_dsyr2k, __pyx_t_2) < 0) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 489; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0; /* "nipy/labs/bindings/linalg.pyx":1 * # -*- Mode: Python -*- Not really, but the syntax is close enough # <<<<<<<<<<<<<< * * """ */ - __pyx_t_1 = PyDict_New(); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 1; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_GOTREF(__pyx_t_1); - if (PyDict_SetItem(__pyx_d, __pyx_n_s_test, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 1; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; + __pyx_t_2 = PyDict_New(); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 1; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_GOTREF(__pyx_t_2); + if (PyDict_SetItem(__pyx_d, __pyx_n_s_test, __pyx_t_2) < 0) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 1; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0; /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":976 * arr.base = baseptr diff --git a/nipy/labs/bindings/linalg.pyx b/nipy/labs/bindings/linalg.pyx index b24debf1c1..c2a4ff4f50 100644 --- a/nipy/labs/bindings/linalg.pyx +++ b/nipy/labs/bindings/linalg.pyx @@ -98,7 +98,8 @@ def vector_set(X, size_t i, double a): Set i-th element. vector_set(x, i, a) """ - cdef fff_vector *x, *y + cdef fff_vector *x + cdef fff_vector *y x = fff_vector_fromPyArray(X) y = fff_vector_new(x.size) fff_vector_memcpy(y, x) @@ -112,7 +113,8 @@ def vector_set_all(X, double a): Set to a constant value. vector_set_all(x, a) """ - cdef fff_vector *x, *y + cdef fff_vector *x + cdef fff_vector *y x = fff_vector_fromPyArray(X) y = fff_vector_new(x.size) fff_vector_memcpy(y, x) @@ -126,7 +128,8 @@ def vector_scale(X, double a): Multiply by a constant value. y = vector_scale(x, a) """ - cdef fff_vector *x, *y + cdef fff_vector *x + cdef fff_vector *y x = fff_vector_fromPyArray(X) y = fff_vector_new(x.size) fff_vector_memcpy(y, x) @@ -140,7 +143,8 @@ def vector_add_constant(X, double a): Add a constant value. y = vector_add_constant(x, a) """ - cdef fff_vector *x, *y + cdef fff_vector *x + cdef fff_vector *y x = fff_vector_fromPyArray(X) y = fff_vector_new(x.size) fff_vector_memcpy(y, x) @@ -154,7 +158,9 @@ def vector_add(X, Y): Add two vectors. z = vector_add(x, y) """ - cdef fff_vector *x, *y, *z + cdef fff_vector *x + cdef fff_vector *y + cdef fff_vector *z x = fff_vector_fromPyArray(X) y = fff_vector_fromPyArray(Y) z = fff_vector_new(x.size) @@ -170,7 +176,9 @@ def vector_sub(X, Y): Substract two vectors: x - y z = vector_sub(x, y) """ - cdef fff_vector *x, *y, *z + cdef fff_vector *x + cdef fff_vector *y + cdef fff_vector *z x = fff_vector_fromPyArray(X) y = fff_vector_fromPyArray(Y) z = fff_vector_new(x.size) @@ -186,7 +194,9 @@ def vector_mul(X, Y): Element-wise multiplication. z = vector_mul(x, y) """ - cdef fff_vector *x, *y, *z + cdef fff_vector *x + cdef fff_vector *y + cdef fff_vector *z x = fff_vector_fromPyArray(X) y = fff_vector_fromPyArray(Y) z = fff_vector_new(x.size) @@ -202,7 +212,9 @@ def vector_div(X, Y): Element-wise division. z = vector_div(x, y) """ - cdef fff_vector *x, *y, *z + cdef fff_vector *x + cdef fff_vector *y + cdef fff_vector *z x = fff_vector_fromPyArray(X) y = fff_vector_fromPyArray(Y) z = fff_vector_new(x.size) @@ -293,7 +305,8 @@ def matrix_transpose(A): Transpose a matrix. B = matrix_transpose(A) """ - cdef fff_matrix *a, *b + cdef fff_matrix *a + cdef fff_matrix *b a = fff_matrix_fromPyArray(A) b = fff_matrix_new(a.size2, a.size1) fff_matrix_transpose(b, a) @@ -305,7 +318,9 @@ def matrix_add(A, B): """ C = matrix_add(A, B) """ - cdef fff_matrix *a, *b, *c + cdef fff_matrix *a + cdef fff_matrix *b + cdef fff_matrix *c a = fff_matrix_fromPyArray(A) b = fff_matrix_fromPyArray(B) c = fff_matrix_new(a.size1, a.size2) @@ -361,13 +376,16 @@ def blas_dasum(X): return fff_blas_dasum(x) def blas_ddot(X, Y): - cdef fff_vector *x, *y + cdef fff_vector *x + cdef fff_vector *y x = fff_vector_fromPyArray(X) y = fff_vector_fromPyArray(Y) return fff_blas_ddot(x, y) def blas_daxpy(double alpha, X, Y): - cdef fff_vector *x, *y, *z + cdef fff_vector *x + cdef fff_vector *y + cdef fff_vector *z x = fff_vector_fromPyArray(X) y = fff_vector_fromPyArray(Y) z = fff_vector_new(y.size) @@ -377,7 +395,8 @@ def blas_daxpy(double alpha, X, Y): return Z def blas_dscal(double alpha, X): - cdef fff_vector *x, *y + cdef fff_vector *x + cdef fff_vector *y x = fff_vector_fromPyArray(X) y = fff_vector_new(x.size) fff_vector_memcpy(y, x) @@ -396,7 +415,10 @@ def blas_dgemm(int TransA, int TransB, double alpha, A, B, double beta, C): beta C where op(A) = A, A^T, A^H for TransA = CblasNoTrans, CblasTrans, CblasConjTrans and similarly for the parameter TransB. """ - cdef fff_matrix *a, *b, *c, *d + cdef fff_matrix *a + cdef fff_matrix *b + cdef fff_matrix *c + cdef fff_matrix *d a = fff_matrix_fromPyArray(A) b = fff_matrix_fromPyArray(B) c = fff_matrix_fromPyArray(C) @@ -421,7 +443,10 @@ def blas_dsymm(int Side, int Uplo, double alpha, A, B, beta, C): when Uplo is CblasLower then the lower triangle and diagonal of A are used. """ - cdef fff_matrix *a, *b, *c, *d + cdef fff_matrix *a + cdef fff_matrix *b + cdef fff_matrix *c + cdef fff_matrix *d a = fff_matrix_fromPyArray(A) b = fff_matrix_fromPyArray(B) c = fff_matrix_fromPyArray(C) @@ -447,7 +472,9 @@ def blas_dsyrk(int Uplo, int Trans, double alpha, A, double beta, C): when Uplo is CblasLower then the lower triangle and diagonal of C are used. """ - cdef fff_matrix *a, *c, *d + cdef fff_matrix *a + cdef fff_matrix *c + cdef fff_matrix *d a = fff_matrix_fromPyArray(A) c = fff_matrix_fromPyArray(C) d = fff_matrix_new(a.size1, a.size2) @@ -469,7 +496,10 @@ def blas_dsyr2k(int Uplo, int Trans, double alpha, A, B, double beta, C): and when Uplo is CblasLower then the lower triangle and diagonal of C are used. """ - cdef fff_matrix *a, *b, *c, *d + cdef fff_matrix *a + cdef fff_matrix *b + cdef fff_matrix *c + cdef fff_matrix *d a = fff_matrix_fromPyArray(A) b = fff_matrix_fromPyArray(B) c = fff_matrix_fromPyArray(C) diff --git a/nipy/labs/bindings/wrapper.c b/nipy/labs/bindings/wrapper.c index 85d2273921..78018cba0c 100644 --- a/nipy/labs/bindings/wrapper.c +++ b/nipy/labs/bindings/wrapper.c @@ -1,4 +1,4 @@ -/* Generated by Cython 0.20.1post0 (Debian 0.20.1+git90-g0e6e38e-1ubuntu2) on Mon Nov 10 15:44:04 2014 */ +/* Generated by Cython 0.20.1post0 (Debian 0.20.1+git90-g0e6e38e-1ubuntu2) on Mon Mar 30 13:00:22 2015 */ #define PY_SSIZE_T_CLEAN #ifndef CYTHON_USE_PYLONG_INTERNALS @@ -1666,17 +1666,17 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_7wrapper_4pass_vector(CYTHON_UNU int __pyx_clineno = 0; __Pyx_RefNannySetupContext("pass_vector", 0); - /* "nipy/labs/bindings/wrapper.pyx":66 - * """ - * cdef fff_vector *x, *y + /* "nipy/labs/bindings/wrapper.pyx":67 + * cdef fff_vector *x + * cdef fff_vector *y * x = fff_vector_fromPyArray(X) # <<<<<<<<<<<<<< * y = fff_vector_new(x.size) * fff_vector_memcpy(y, x) */ __pyx_v_x = fff_vector_fromPyArray(__pyx_v_X); - /* "nipy/labs/bindings/wrapper.pyx":67 - * cdef fff_vector *x, *y + /* "nipy/labs/bindings/wrapper.pyx":68 + * cdef fff_vector *y * x = fff_vector_fromPyArray(X) * y = fff_vector_new(x.size) # <<<<<<<<<<<<<< * fff_vector_memcpy(y, x) @@ -1684,7 +1684,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_7wrapper_4pass_vector(CYTHON_UNU */ __pyx_v_y = fff_vector_new(__pyx_v_x->size); - /* "nipy/labs/bindings/wrapper.pyx":68 + /* "nipy/labs/bindings/wrapper.pyx":69 * x = fff_vector_fromPyArray(X) * y = fff_vector_new(x.size) * fff_vector_memcpy(y, x) # <<<<<<<<<<<<<< @@ -1693,7 +1693,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_7wrapper_4pass_vector(CYTHON_UNU */ fff_vector_memcpy(__pyx_v_y, __pyx_v_x); - /* "nipy/labs/bindings/wrapper.pyx":69 + /* "nipy/labs/bindings/wrapper.pyx":70 * y = fff_vector_new(x.size) * fff_vector_memcpy(y, x) * fff_vector_delete(x) # <<<<<<<<<<<<<< @@ -1702,7 +1702,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_7wrapper_4pass_vector(CYTHON_UNU */ fff_vector_delete(__pyx_v_x); - /* "nipy/labs/bindings/wrapper.pyx":70 + /* "nipy/labs/bindings/wrapper.pyx":71 * fff_vector_memcpy(y, x) * fff_vector_delete(x) * return fff_vector_toPyArray(y) # <<<<<<<<<<<<<< @@ -1710,7 +1710,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_7wrapper_4pass_vector(CYTHON_UNU * */ __Pyx_XDECREF(__pyx_r); - __pyx_t_1 = ((PyObject *)fff_vector_toPyArray(__pyx_v_y)); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 70; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = ((PyObject *)fff_vector_toPyArray(__pyx_v_y)); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 71; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); __pyx_r = __pyx_t_1; __pyx_t_1 = 0; @@ -1735,7 +1735,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_7wrapper_4pass_vector(CYTHON_UNU return __pyx_r; } -/* "nipy/labs/bindings/wrapper.pyx":73 +/* "nipy/labs/bindings/wrapper.pyx":74 * * * def copy_vector(ndarray X, int flag): # <<<<<<<<<<<<<< @@ -1776,11 +1776,11 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_7wrapper_7copy_vector(PyObject * case 1: if (likely((values[1] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_flag)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("copy_vector", 1, 2, 2, 1); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 73; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("copy_vector", 1, 2, 2, 1); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 74; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } if (unlikely(kw_args > 0)) { - if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "copy_vector") < 0)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 73; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "copy_vector") < 0)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 74; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } else if (PyTuple_GET_SIZE(__pyx_args) != 2) { goto __pyx_L5_argtuple_error; @@ -1789,17 +1789,17 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_7wrapper_7copy_vector(PyObject * values[1] = PyTuple_GET_ITEM(__pyx_args, 1); 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if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 89; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); - __pyx_t_2 = __Pyx_PyInt_As_int(__pyx_t_1); if (unlikely((__pyx_t_2 == (int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 88; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_2 = __Pyx_PyInt_As_int(__pyx_t_1); if (unlikely((__pyx_t_2 == (int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 89; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; __pyx_v_itemsize = __pyx_t_2; - /* "nipy/labs/bindings/wrapper.pyx":89 + /* "nipy/labs/bindings/wrapper.pyx":90 * stride = X.strides[0] * itemsize = X.descr.elsize * type = X.descr.type_num # <<<<<<<<<<<<<< @@ -1880,7 +1880,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_7wrapper_6copy_vector(CYTHON_UNU __pyx_t_2 = __pyx_v_X->descr->type_num; __pyx_v_type = __pyx_t_2; - /* "nipy/labs/bindings/wrapper.pyx":91 + /* "nipy/labs/bindings/wrapper.pyx":92 * type = X.descr.type_num * * relstride = stride/itemsize # <<<<<<<<<<<<<< @@ -1895,7 +1895,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_7wrapper_6copy_vector(CYTHON_UNU #ifdef WITH_THREAD PyGILState_Release(__pyx_gilstate_save); #endif - {__pyx_filename = __pyx_f[0]; __pyx_lineno = 91; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + {__pyx_filename = __pyx_f[0]; __pyx_lineno = 92; __pyx_clineno = __LINE__; goto __pyx_L1_error;} } else if (sizeof(int) == sizeof(long) && (!(((int)-1) > 0)) && unlikely(__pyx_v_itemsize == (int)-1) && unlikely(UNARY_NEG_WOULD_OVERFLOW(__pyx_v_stride))) { #ifdef WITH_THREAD @@ -1905,11 +1905,11 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_7wrapper_6copy_vector(CYTHON_UNU #ifdef WITH_THREAD PyGILState_Release(__pyx_gilstate_save); #endif - {__pyx_filename = __pyx_f[0]; __pyx_lineno = 91; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + {__pyx_filename = __pyx_f[0]; __pyx_lineno = 92; __pyx_clineno = __LINE__; goto __pyx_L1_error;} } __pyx_v_relstride = __Pyx_div_int(__pyx_v_stride, __pyx_v_itemsize); - /* "nipy/labs/bindings/wrapper.pyx":92 + /* "nipy/labs/bindings/wrapper.pyx":93 * * relstride = stride/itemsize * fff_type = fff_datatype_fromNumPy(type) # <<<<<<<<<<<<<< @@ -1918,7 +1918,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_7wrapper_6copy_vector(CYTHON_UNU */ __pyx_v_fff_type = fff_datatype_fromNumPy(__pyx_v_type); - /* "nipy/labs/bindings/wrapper.pyx":94 + /* "nipy/labs/bindings/wrapper.pyx":95 * fff_type = fff_datatype_fromNumPy(type) * * y = fff_vector_new(size) # <<<<<<<<<<<<<< @@ -1927,7 +1927,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_7wrapper_6copy_vector(CYTHON_UNU */ __pyx_v_y = fff_vector_new(__pyx_v_size); - /* "nipy/labs/bindings/wrapper.pyx":96 + /* "nipy/labs/bindings/wrapper.pyx":97 * y = fff_vector_new(size) * * if flag == 0: # <<<<<<<<<<<<<< @@ -1937,7 +1937,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_7wrapper_6copy_vector(CYTHON_UNU __pyx_t_3 = ((__pyx_v_flag == 0) != 0); if (__pyx_t_3) { - /* "nipy/labs/bindings/wrapper.pyx":97 + /* "nipy/labs/bindings/wrapper.pyx":98 * * if flag == 0: * fff_vector_fetch(y, data, fff_type, relstride) # <<<<<<<<<<<<<< @@ -1949,7 +1949,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_7wrapper_6copy_vector(CYTHON_UNU } /*else*/ { - /* "nipy/labs/bindings/wrapper.pyx":99 + /* "nipy/labs/bindings/wrapper.pyx":100 * fff_vector_fetch(y, data, fff_type, relstride) * else: * fff_vector_fetch_using_NumPy(y, data, stride, type, itemsize) # <<<<<<<<<<<<<< @@ -1960,7 +1960,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_7wrapper_6copy_vector(CYTHON_UNU } __pyx_L3:; 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} -/* "nipy/labs/bindings/wrapper.pyx":104 +/* "nipy/labs/bindings/wrapper.pyx":105 * * * def pass_matrix(ndarray X): # <<<<<<<<<<<<<< @@ -2012,7 +2012,7 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_7wrapper_9pass_matrix(PyObject * PyObject *__pyx_r = 0; __Pyx_RefNannyDeclarations __Pyx_RefNannySetupContext("pass_matrix (wrapper)", 0); - if (unlikely(!__Pyx_ArgTypeTest(((PyObject *)__pyx_v_X), __pyx_ptype_5numpy_ndarray, 1, "X", 0))) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 104; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (unlikely(!__Pyx_ArgTypeTest(((PyObject *)__pyx_v_X), __pyx_ptype_5numpy_ndarray, 1, "X", 0))) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 105; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __pyx_r = __pyx_pf_4nipy_4labs_8bindings_7wrapper_8pass_matrix(__pyx_self, ((PyArrayObject *)__pyx_v_X)); /* function exit code */ @@ -2035,17 +2035,17 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_7wrapper_8pass_matrix(CYTHON_UNU int __pyx_clineno = 0; __Pyx_RefNannySetupContext("pass_matrix", 0); - /* "nipy/labs/bindings/wrapper.pyx":109 - * """ - * cdef fff_matrix *x, *y + /* "nipy/labs/bindings/wrapper.pyx":111 + * cdef fff_matrix *x + * cdef fff_matrix *y * x = fff_matrix_fromPyArray(X) # <<<<<<<<<<<<<< * y = fff_matrix_new(x.size1, x.size2) * fff_matrix_memcpy(y, x) */ __pyx_v_x = fff_matrix_fromPyArray(__pyx_v_X); - /* "nipy/labs/bindings/wrapper.pyx":110 - * cdef fff_matrix *x, *y + /* "nipy/labs/bindings/wrapper.pyx":112 + * cdef fff_matrix *y * x = fff_matrix_fromPyArray(X) * y = fff_matrix_new(x.size1, x.size2) # <<<<<<<<<<<<<< * fff_matrix_memcpy(y, x) @@ -2053,7 +2053,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_7wrapper_8pass_matrix(CYTHON_UNU */ __pyx_v_y = fff_matrix_new(__pyx_v_x->size1, __pyx_v_x->size2); - /* "nipy/labs/bindings/wrapper.pyx":111 + /* "nipy/labs/bindings/wrapper.pyx":113 * x = fff_matrix_fromPyArray(X) * y = fff_matrix_new(x.size1, x.size2) * fff_matrix_memcpy(y, x) # <<<<<<<<<<<<<< @@ -2062,7 +2062,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_7wrapper_8pass_matrix(CYTHON_UNU */ fff_matrix_memcpy(__pyx_v_y, __pyx_v_x); - /* "nipy/labs/bindings/wrapper.pyx":112 + /* "nipy/labs/bindings/wrapper.pyx":114 * y = fff_matrix_new(x.size1, x.size2) * fff_matrix_memcpy(y, x) * fff_matrix_delete(x) # <<<<<<<<<<<<<< @@ -2071,7 +2071,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_7wrapper_8pass_matrix(CYTHON_UNU */ fff_matrix_delete(__pyx_v_x); - /* "nipy/labs/bindings/wrapper.pyx":113 + /* "nipy/labs/bindings/wrapper.pyx":115 * fff_matrix_memcpy(y, x) * fff_matrix_delete(x) * return fff_matrix_toPyArray(y) # <<<<<<<<<<<<<< @@ -2079,13 +2079,13 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_7wrapper_8pass_matrix(CYTHON_UNU * */ __Pyx_XDECREF(__pyx_r); - __pyx_t_1 = ((PyObject *)fff_matrix_toPyArray(__pyx_v_y)); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 113; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = ((PyObject *)fff_matrix_toPyArray(__pyx_v_y)); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 115; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); __pyx_r = __pyx_t_1; __pyx_t_1 = 0; goto __pyx_L0; - /* "nipy/labs/bindings/wrapper.pyx":104 + /* "nipy/labs/bindings/wrapper.pyx":105 * * * def pass_matrix(ndarray X): # <<<<<<<<<<<<<< @@ -2104,7 +2104,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_7wrapper_8pass_matrix(CYTHON_UNU return __pyx_r; } -/* "nipy/labs/bindings/wrapper.pyx":116 +/* "nipy/labs/bindings/wrapper.pyx":118 * * * def pass_array(ndarray X): # <<<<<<<<<<<<<< @@ -2123,7 +2123,7 @@ static PyObject *__pyx_pw_4nipy_4labs_8bindings_7wrapper_11pass_array(PyObject * PyObject *__pyx_r = 0; __Pyx_RefNannyDeclarations __Pyx_RefNannySetupContext("pass_array (wrapper)", 0); - if (unlikely(!__Pyx_ArgTypeTest(((PyObject *)__pyx_v_X), __pyx_ptype_5numpy_ndarray, 1, "X", 0))) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 116; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (unlikely(!__Pyx_ArgTypeTest(((PyObject *)__pyx_v_X), __pyx_ptype_5numpy_ndarray, 1, "X", 0))) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 118; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __pyx_r = __pyx_pf_4nipy_4labs_8bindings_7wrapper_10pass_array(__pyx_self, ((PyArrayObject *)__pyx_v_X)); /* function exit code */ @@ -2146,17 +2146,17 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_7wrapper_10pass_array(CYTHON_UNU int __pyx_clineno = 0; __Pyx_RefNannySetupContext("pass_array", 0); - /* "nipy/labs/bindings/wrapper.pyx":121 - * """ - * cdef fff_array *x, *y + /* "nipy/labs/bindings/wrapper.pyx":124 + * cdef fff_array *x + * cdef fff_array *y * x = fff_array_fromPyArray(X) # <<<<<<<<<<<<<< * y = fff_array_new(x.datatype, x.dimX, x.dimY, x.dimZ, x.dimT) * fff_array_copy(y, x) */ __pyx_v_x = fff_array_fromPyArray(__pyx_v_X); - /* "nipy/labs/bindings/wrapper.pyx":122 - * cdef fff_array *x, *y + /* "nipy/labs/bindings/wrapper.pyx":125 + * cdef fff_array *y * x = fff_array_fromPyArray(X) * y = fff_array_new(x.datatype, x.dimX, x.dimY, x.dimZ, x.dimT) # <<<<<<<<<<<<<< * fff_array_copy(y, x) @@ -2164,7 +2164,7 @@ static PyObject *__pyx_pf_4nipy_4labs_8bindings_7wrapper_10pass_array(CYTHON_UNU */ __pyx_v_y = fff_array_new(__pyx_v_x->datatype, __pyx_v_x->dimX, __pyx_v_x->dimY, __pyx_v_x->dimZ, __pyx_v_x->dimT); 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Behavior should be equivalent to Z = Y.copy(). """ - cdef fff_vector *y, *z + cdef fff_vector *y + cdef fff_vector *z cdef fffpy_multi_iterator* multi # Allocate output array @@ -184,7 +190,8 @@ def sum_via_iterators(ndarray Y, int axis=0): Return the sum of input elements along the dimension specified by axis. Behavior should be equivalent to Z = Y.sum(axis). """ - cdef fff_vector *y, *z + cdef fff_vector *y + cdef fff_vector *z cdef fffpy_multi_iterator* multi # Allocate output array diff --git a/nipy/labs/glm/kalman.c b/nipy/labs/glm/kalman.c index e2f73bb210..680ae03137 100644 --- a/nipy/labs/glm/kalman.c +++ b/nipy/labs/glm/kalman.c @@ -1,4 +1,4 @@ -/* Generated by Cython 0.20.1post0 (Debian 0.20.1+git90-g0e6e38e-1ubuntu2) on Mon Nov 10 15:44:40 2014 */ +/* Generated by Cython 0.20.1post0 (Debian 0.20.1+git90-g0e6e38e-1ubuntu2) on Mon Mar 30 14:03:11 2015 */ #define PY_SSIZE_T_CLEAN #ifndef CYTHON_USE_PYLONG_INTERNALS @@ -356,6 +356,8 @@ void __Pyx_call_destructor(T* x) { #include "fff_matrix.h" #include "fff_array.h" #include "fffpy.h" +#include "fff_blas.h" +#include "fff_lapack.h" #include "fff_glm_kalman.h" #ifdef _OPENMP #include @@ -1132,7 +1134,6 @@ static CYTHON_INLINE char *__pyx_f_5numpy__util_dtypestring(PyArray_Descr *, cha /* Module declarations from 'fff' */ /* Module declarations from 'nipy.labs.glm.kalman' */ -static PyObject *__pyx_f_4nipy_4labs_3glm_6kalman_fffpy_import_lapack(void); /*proto*/ #define __Pyx_MODULE_NAME "nipy.labs.glm.kalman" int __pyx_module_is_main_nipy__labs__glm__kalman = 0; @@ -1140,8 +1141,9 @@ int __pyx_module_is_main_nipy__labs__glm__kalman = 0; static PyObject *__pyx_builtin_range; static PyObject *__pyx_builtin_ValueError; static PyObject *__pyx_builtin_RuntimeError; -static PyObject *__pyx_pf_4nipy_4labs_3glm_6kalman_ols(CYTHON_UNUSED PyObject *__pyx_self, PyArrayObject *__pyx_v_Y, PyArrayObject *__pyx_v_X, int __pyx_v_axis); /* proto */ -static PyObject *__pyx_pf_4nipy_4labs_3glm_6kalman_2ar1(CYTHON_UNUSED PyObject *__pyx_self, PyArrayObject *__pyx_v_Y, PyArrayObject *__pyx_v_X, int __pyx_v_niter, int __pyx_v_axis); /* proto */ +static PyObject *__pyx_pf_4nipy_4labs_3glm_6kalman_fffpy_import_lapack(CYTHON_UNUSED PyObject *__pyx_self); /* proto */ +static PyObject *__pyx_pf_4nipy_4labs_3glm_6kalman_2ols(CYTHON_UNUSED PyObject *__pyx_self, PyArrayObject *__pyx_v_Y, PyArrayObject *__pyx_v_X, int __pyx_v_axis); /* proto */ +static PyObject *__pyx_pf_4nipy_4labs_3glm_6kalman_4ar1(CYTHON_UNUSED PyObject *__pyx_self, PyArrayObject *__pyx_v_Y, PyArrayObject *__pyx_v_X, int __pyx_v_niter, int __pyx_v_axis); /* proto */ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, Py_buffer *__pyx_v_info, int __pyx_v_flags); /* proto */ static void __pyx_pf_5numpy_7ndarray_2__releasebuffer__(PyArrayObject *__pyx_v_self, Py_buffer *__pyx_v_info); /* proto */ static char __pyx_k_A[] = "A"; @@ -1211,6 +1213,7 @@ static char __pyx_k_dgesdd[] = "dgesdd"; static char __pyx_k_dgetrf[] = "dgetrf"; static char __pyx_k_double[] = "double"; static char __pyx_k_dpotrf[] = "dpotrf"; +static char __pyx_k_dpotrs[] = "dpotrs"; static char __pyx_k_drotmg[] = "drotmg"; static char __pyx_k_dsyr2k[] = "dsyr2k"; static char __pyx_k_idamax[] = "idamax"; @@ -1222,12 +1225,14 @@ static char __pyx_k_version[] = "__version__"; static char __pyx_k_cpointer[] = "_cpointer"; static char __pyx_k_ValueError[] = "ValueError"; static char __pyx_k_RuntimeError[] = "RuntimeError"; +static char __pyx_k_fffpy_import_lapack[] = "fffpy_import_lapack"; static char __pyx_k_scipy_linalg__fblas[] = "scipy.linalg._fblas"; static char __pyx_k_nipy_labs_glm_kalman[] = "nipy.labs.glm.kalman"; static char __pyx_k_scipy_linalg__flapack[] = "scipy.linalg._flapack"; static char __pyx_k_ndarray_is_not_C_contiguous[] = "ndarray is not C contiguous"; static char __pyx_k_Incremental_Kalman_like_filters[] = "\nIncremental (Kalman-like) filters for linear regression. \n\nAuthor: Alexis Roche, 2008.\n"; static char __pyx_k_home_roche_git_nipy_nipy_labs_g[] = "/home/roche/git/nipy/nipy/labs/glm/kalman.pyx"; +static char __pyx_k_lib_fff_python_wrapper_fffpy_im[] = "../../../lib/fff_python_wrapper/fffpy_import_lapack.pxi"; static char __pyx_k_unknown_dtype_code_in_numpy_pxd[] = "unknown dtype code in numpy.pxd (%d)"; static char __pyx_k_Format_string_allocated_too_shor[] = "Format string allocated too short, see comment in numpy.pxd"; static char __pyx_k_Non_native_byte_order_not_suppor[] = "Non-native byte order not supported"; @@ -1266,6 +1271,7 @@ static PyObject *__pyx_n_s_dnrm2; static PyObject *__pyx_n_s_dof; static PyObject *__pyx_n_s_double; 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@@ -1870,7 +1877,7 @@ static PyObject *__pyx_pf_4nipy_4labs_3glm_6kalman_ols(CYTHON_UNUSED PyObject *_ int __pyx_clineno = 0; __Pyx_RefNannySetupContext("ols", 0); - /* "nipy/labs/glm/kalman.pyx":97 + /* "nipy/labs/glm/kalman.pyx":99 * * # View on design matrix * x = fff_matrix_fromPyArray(X) # <<<<<<<<<<<<<< @@ -1879,7 +1886,7 @@ static PyObject *__pyx_pf_4nipy_4labs_3glm_6kalman_ols(CYTHON_UNUSED PyObject *_ */ __pyx_v_x = fff_matrix_fromPyArray(__pyx_v_X); - /* "nipy/labs/glm/kalman.pyx":100 + /* "nipy/labs/glm/kalman.pyx":102 * * # Number of regressors * p = x.size2 # <<<<<<<<<<<<<< @@ -1889,65 +1896,65 @@ static PyObject *__pyx_pf_4nipy_4labs_3glm_6kalman_ols(CYTHON_UNUSED PyObject *_ __pyx_t_1 = __pyx_v_x->size2; __pyx_v_p = __pyx_t_1; - /* "nipy/labs/glm/kalman.pyx":107 + /* "nipy/labs/glm/kalman.pyx":109 * # type; see: * # http://codespeak.net/pipermail/cython-dev/2009-April/005229.html * dims = [Y.shape[i] for i in range(Y.ndim)] # <<<<<<<<<<<<<< * dims[axis] = p * B = np.zeros(dims, dtype=np.double) */ - __pyx_t_2 = PyList_New(0); 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__pyx_lineno = 111; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (PyDict_SetItem(__pyx_t_2, __pyx_n_s_dtype, __pyx_t_7) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 113; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_DECREF(__pyx_t_7); __pyx_t_7 = 0; - __pyx_t_7 = __Pyx_PyObject_Call(__pyx_t_6, __pyx_t_8, __pyx_t_2); if (unlikely(!__pyx_t_7)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 111; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_7 = __Pyx_PyObject_Call(__pyx_t_6, __pyx_t_8, __pyx_t_2); if (unlikely(!__pyx_t_7)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 113; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_7); __Pyx_DECREF(__pyx_t_6); __pyx_t_6 = 0; __Pyx_DECREF(__pyx_t_8); __pyx_t_8 = 0; @@ -1998,7 +2005,7 @@ static PyObject *__pyx_pf_4nipy_4labs_3glm_6kalman_ols(CYTHON_UNUSED PyObject *_ __pyx_v_S2 = __pyx_t_7; __pyx_t_7 = 0; - /* "nipy/labs/glm/kalman.pyx":114 + /* "nipy/labs/glm/kalman.pyx":116 * * # Allocate local structure * kfilt = fff_glm_KF_new(p) # <<<<<<<<<<<<<< @@ -2007,7 +2014,7 @@ static PyObject *__pyx_pf_4nipy_4labs_3glm_6kalman_ols(CYTHON_UNUSED PyObject *_ */ __pyx_v_kfilt = fff_glm_KF_new(__pyx_v_p); - /* "nipy/labs/glm/kalman.pyx":117 + /* "nipy/labs/glm/kalman.pyx":119 * * # Create a new array iterator * multi = fffpy_multi_iterator_new(3, axis, Y, B, S2) # <<<<<<<<<<<<<< @@ -2016,7 +2023,7 @@ static PyObject *__pyx_pf_4nipy_4labs_3glm_6kalman_ols(CYTHON_UNUSED PyObject *_ */ __pyx_v_multi = fffpy_multi_iterator_new(3, __pyx_v_axis, ((void *)__pyx_v_Y), ((void *)__pyx_v_B), ((void *)__pyx_v_S2)); - /* "nipy/labs/glm/kalman.pyx":120 + /* "nipy/labs/glm/kalman.pyx":122 * * # Create views * y = multi.vector[0] # <<<<<<<<<<<<<< @@ -2025,7 +2032,7 @@ static PyObject *__pyx_pf_4nipy_4labs_3glm_6kalman_ols(CYTHON_UNUSED PyObject *_ */ __pyx_v_y = (__pyx_v_multi->vector[0]); - /* "nipy/labs/glm/kalman.pyx":121 + /* "nipy/labs/glm/kalman.pyx":123 * # Create views * y = multi.vector[0] * b = multi.vector[1] # <<<<<<<<<<<<<< @@ -2034,7 +2041,7 @@ static PyObject *__pyx_pf_4nipy_4labs_3glm_6kalman_ols(CYTHON_UNUSED PyObject *_ */ __pyx_v_b = (__pyx_v_multi->vector[1]); - /* "nipy/labs/glm/kalman.pyx":122 + /* "nipy/labs/glm/kalman.pyx":124 * y = multi.vector[0] * b = multi.vector[1] * s2 = multi.vector[2] # <<<<<<<<<<<<<< @@ -2043,7 +2050,7 @@ static PyObject *__pyx_pf_4nipy_4labs_3glm_6kalman_ols(CYTHON_UNUSED PyObject *_ */ __pyx_v_s2 = (__pyx_v_multi->vector[2]); - /* "nipy/labs/glm/kalman.pyx":125 + /* "nipy/labs/glm/kalman.pyx":127 * * # Loop * while(multi.index < multi.size): # <<<<<<<<<<<<<< @@ -2054,7 +2061,7 @@ static PyObject *__pyx_pf_4nipy_4labs_3glm_6kalman_ols(CYTHON_UNUSED PyObject *_ __pyx_t_9 = ((__pyx_v_multi->index < __pyx_v_multi->size) != 0); if (!__pyx_t_9) break; - /* "nipy/labs/glm/kalman.pyx":126 + /* "nipy/labs/glm/kalman.pyx":128 * # Loop * while(multi.index < multi.size): * fff_glm_KF_fit(kfilt, y, x) # <<<<<<<<<<<<<< @@ -2063,7 +2070,7 @@ static PyObject *__pyx_pf_4nipy_4labs_3glm_6kalman_ols(CYTHON_UNUSED PyObject *_ */ fff_glm_KF_fit(__pyx_v_kfilt, __pyx_v_y, __pyx_v_x); - /* "nipy/labs/glm/kalman.pyx":127 + /* "nipy/labs/glm/kalman.pyx":129 * while(multi.index < multi.size): * fff_glm_KF_fit(kfilt, y, x) * fff_vector_memcpy(b, kfilt.b) # <<<<<<<<<<<<<< @@ -2072,7 +2079,7 @@ static PyObject *__pyx_pf_4nipy_4labs_3glm_6kalman_ols(CYTHON_UNUSED PyObject *_ */ fff_vector_memcpy(__pyx_v_b, __pyx_v_kfilt->b); - /* "nipy/labs/glm/kalman.pyx":128 + /* "nipy/labs/glm/kalman.pyx":130 * fff_glm_KF_fit(kfilt, y, x) * fff_vector_memcpy(b, kfilt.b) * s2.data[0] = kfilt.s2 # <<<<<<<<<<<<<< @@ -2082,7 +2089,7 @@ static PyObject *__pyx_pf_4nipy_4labs_3glm_6kalman_ols(CYTHON_UNUSED PyObject *_ __pyx_t_10 = __pyx_v_kfilt->s2; (__pyx_v_s2->data[0]) = __pyx_t_10; - /* "nipy/labs/glm/kalman.pyx":129 + /* "nipy/labs/glm/kalman.pyx":131 * fff_vector_memcpy(b, kfilt.b) * s2.data[0] = kfilt.s2 * fffpy_multi_iterator_update(multi) # <<<<<<<<<<<<<< @@ -2092,19 +2099,19 @@ static PyObject *__pyx_pf_4nipy_4labs_3glm_6kalman_ols(CYTHON_UNUSED PyObject *_ fffpy_multi_iterator_update(__pyx_v_multi); } - /* "nipy/labs/glm/kalman.pyx":132 + /* "nipy/labs/glm/kalman.pyx":134 * * # Normalized variance (computed from the last item) * VB = fff_matrix_const_toPyArray(kfilt.Vb); # <<<<<<<<<<<<<< * dof = kfilt.dof * */ - __pyx_t_7 = ((PyObject *)fff_matrix_const_toPyArray(__pyx_v_kfilt->Vb)); if (unlikely(!__pyx_t_7)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 132; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_7 = ((PyObject *)fff_matrix_const_toPyArray(__pyx_v_kfilt->Vb)); if (unlikely(!__pyx_t_7)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 134; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_7); __pyx_v_VB = ((PyArrayObject *)__pyx_t_7); __pyx_t_7 = 0; - /* "nipy/labs/glm/kalman.pyx":133 + /* "nipy/labs/glm/kalman.pyx":135 * # Normalized variance (computed from the last item) * VB = fff_matrix_const_toPyArray(kfilt.Vb); * dof = kfilt.dof # <<<<<<<<<<<<<< @@ -2114,7 +2121,7 @@ static PyObject *__pyx_pf_4nipy_4labs_3glm_6kalman_ols(CYTHON_UNUSED PyObject *_ __pyx_t_10 = __pyx_v_kfilt->dof; __pyx_v_dof = __pyx_t_10; - /* "nipy/labs/glm/kalman.pyx":136 + /* "nipy/labs/glm/kalman.pyx":138 * * # Free memory * fff_matrix_delete(x) # <<<<<<<<<<<<<< @@ -2123,7 +2130,7 @@ static PyObject *__pyx_pf_4nipy_4labs_3glm_6kalman_ols(CYTHON_UNUSED PyObject *_ */ fff_matrix_delete(__pyx_v_x); - /* "nipy/labs/glm/kalman.pyx":137 + /* "nipy/labs/glm/kalman.pyx":139 * # Free memory * fff_matrix_delete(x) * fff_glm_KF_delete(kfilt) # <<<<<<<<<<<<<< @@ -2132,7 +2139,7 @@ static PyObject *__pyx_pf_4nipy_4labs_3glm_6kalman_ols(CYTHON_UNUSED PyObject *_ */ fff_glm_KF_delete(__pyx_v_kfilt); - /* "nipy/labs/glm/kalman.pyx":138 + /* "nipy/labs/glm/kalman.pyx":140 * fff_matrix_delete(x) * fff_glm_KF_delete(kfilt) * fffpy_multi_iterator_delete(multi) # <<<<<<<<<<<<<< @@ -2141,7 +2148,7 @@ static PyObject *__pyx_pf_4nipy_4labs_3glm_6kalman_ols(CYTHON_UNUSED PyObject *_ */ fffpy_multi_iterator_delete(__pyx_v_multi); 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@@ -2196,7 +2203,7 @@ static PyObject *__pyx_pf_4nipy_4labs_3glm_6kalman_ols(CYTHON_UNUSED PyObject *_ return __pyx_r; } -/* "nipy/labs/glm/kalman.pyx":144 +/* "nipy/labs/glm/kalman.pyx":146 * * * def ar1(ndarray Y, ndarray X, int niter=2, int axis=0): # <<<<<<<<<<<<<< @@ -2205,10 +2212,10 @@ static PyObject *__pyx_pf_4nipy_4labs_3glm_6kalman_ols(CYTHON_UNUSED PyObject *_ */ /* Python wrapper */ -static PyObject *__pyx_pw_4nipy_4labs_3glm_6kalman_3ar1(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/ -static char __pyx_doc_4nipy_4labs_3glm_6kalman_2ar1[] = "\n (beta, norm_var_beta, s2, dof, a) = ar1(Y, X, niter=2, axis=0)\n\n Refined Kalman filter -- enhanced Kalman filter to account for\n noise autocorrelation using an AR(1) model. Pseudo-likelihood\n multiple regression using the refined Kalman filter, a Kalman\n variant based on a AR(1) error model. Fit the N-dimensional array\n Y along the given axis in terms of the regressors in matrix X. The\n regressors must be stored columnwise.\n\n OUTPUT: a five-element tuple\n beta -- array of parameter estimates\n norm_var_beta -- array of normalized variance matrices (which are data dependent\n unlike in standard OLS regression)\n s2 -- array of squared scale parameters to multiply norm_var_beta for the variance matrix of beta.\n dof -- scalar degrees of freedom\n a -- array of error autocorrelation estimates\n\n REFERENCE:\n Roche et al, MICCAI 2004.\n "; -static PyMethodDef __pyx_mdef_4nipy_4labs_3glm_6kalman_3ar1 = {__Pyx_NAMESTR("ar1"), (PyCFunction)__pyx_pw_4nipy_4labs_3glm_6kalman_3ar1, METH_VARARGS|METH_KEYWORDS, __Pyx_DOCSTR(__pyx_doc_4nipy_4labs_3glm_6kalman_2ar1)}; -static PyObject *__pyx_pw_4nipy_4labs_3glm_6kalman_3ar1(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds) { +static PyObject *__pyx_pw_4nipy_4labs_3glm_6kalman_5ar1(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/ +static char __pyx_doc_4nipy_4labs_3glm_6kalman_4ar1[] = "\n (beta, norm_var_beta, s2, dof, a) = ar1(Y, X, niter=2, axis=0)\n\n Refined Kalman filter -- enhanced Kalman filter to account for\n noise autocorrelation using an AR(1) model. Pseudo-likelihood\n multiple regression using the refined Kalman filter, a Kalman\n variant based on a AR(1) error model. Fit the N-dimensional array\n Y along the given axis in terms of the regressors in matrix X. The\n regressors must be stored columnwise.\n\n OUTPUT: a five-element tuple\n beta -- array of parameter estimates\n norm_var_beta -- array of normalized variance matrices (which are data dependent\n unlike in standard OLS regression)\n s2 -- array of squared scale parameters to multiply norm_var_beta for the variance matrix of beta.\n dof -- scalar degrees of freedom\n a -- array of error autocorrelation estimates\n\n REFERENCE:\n Roche et al, MICCAI 2004.\n "; +static PyMethodDef __pyx_mdef_4nipy_4labs_3glm_6kalman_5ar1 = {__Pyx_NAMESTR("ar1"), (PyCFunction)__pyx_pw_4nipy_4labs_3glm_6kalman_5ar1, METH_VARARGS|METH_KEYWORDS, __Pyx_DOCSTR(__pyx_doc_4nipy_4labs_3glm_6kalman_4ar1)}; +static PyObject *__pyx_pw_4nipy_4labs_3glm_6kalman_5ar1(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds) { PyArrayObject *__pyx_v_Y = 0; PyArrayObject *__pyx_v_X = 0; int __pyx_v_niter; @@ -2241,7 +2248,7 @@ static PyObject *__pyx_pw_4nipy_4labs_3glm_6kalman_3ar1(PyObject *__pyx_self, Py case 1: if (likely((values[1] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_X)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("ar1", 0, 2, 4, 1); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 144; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("ar1", 0, 2, 4, 1); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 146; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } case 2: if (kw_args > 0) { @@ -2255,7 +2262,7 @@ static PyObject *__pyx_pw_4nipy_4labs_3glm_6kalman_3ar1(PyObject *__pyx_self, Py } } if (unlikely(kw_args > 0)) { - if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "ar1") < 0)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 144; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "ar1") < 0)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 146; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } else { switch (PyTuple_GET_SIZE(__pyx_args)) { @@ -2270,27 +2277,27 @@ static PyObject *__pyx_pw_4nipy_4labs_3glm_6kalman_3ar1(PyObject *__pyx_self, Py __pyx_v_Y = ((PyArrayObject *)values[0]); __pyx_v_X = ((PyArrayObject *)values[1]); if (values[2]) { - __pyx_v_niter = __Pyx_PyInt_As_int(values[2]); if (unlikely((__pyx_v_niter == (int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 144; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_niter = __Pyx_PyInt_As_int(values[2]); if (unlikely((__pyx_v_niter == (int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 146; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } else { __pyx_v_niter = ((int)2); } if (values[3]) { - __pyx_v_axis = __Pyx_PyInt_As_int(values[3]); if (unlikely((__pyx_v_axis == (int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 144; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_axis = __Pyx_PyInt_As_int(values[3]); if (unlikely((__pyx_v_axis == (int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 146; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } else { __pyx_v_axis = ((int)0); } } goto __pyx_L4_argument_unpacking_done; __pyx_L5_argtuple_error:; - __Pyx_RaiseArgtupleInvalid("ar1", 0, 2, 4, PyTuple_GET_SIZE(__pyx_args)); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 144; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("ar1", 0, 2, 4, PyTuple_GET_SIZE(__pyx_args)); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 146; __pyx_clineno = __LINE__; goto __pyx_L3_error;} __pyx_L3_error:; __Pyx_AddTraceback("nipy.labs.glm.kalman.ar1", __pyx_clineno, __pyx_lineno, __pyx_filename); __Pyx_RefNannyFinishContext(); return NULL; __pyx_L4_argument_unpacking_done:; - if (unlikely(!__Pyx_ArgTypeTest(((PyObject *)__pyx_v_Y), __pyx_ptype_5numpy_ndarray, 1, "Y", 0))) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 144; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - if (unlikely(!__Pyx_ArgTypeTest(((PyObject *)__pyx_v_X), __pyx_ptype_5numpy_ndarray, 1, "X", 0))) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 144; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __pyx_r = __pyx_pf_4nipy_4labs_3glm_6kalman_2ar1(__pyx_self, __pyx_v_Y, __pyx_v_X, __pyx_v_niter, __pyx_v_axis); 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if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 6; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_2 = PyList_New(5); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 6; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_2); __Pyx_INCREF(__pyx_n_s_dgetrf); PyList_SET_ITEM(__pyx_t_2, 0, __pyx_n_s_dgetrf); @@ -5309,11 +5328,14 @@ PyMODINIT_FUNC PyInit_kalman(void) __Pyx_INCREF(__pyx_n_s_dpotrf); PyList_SET_ITEM(__pyx_t_2, 1, __pyx_n_s_dpotrf); __Pyx_GIVEREF(__pyx_n_s_dpotrf); + __Pyx_INCREF(__pyx_n_s_dpotrs); + PyList_SET_ITEM(__pyx_t_2, 2, __pyx_n_s_dpotrs); + __Pyx_GIVEREF(__pyx_n_s_dpotrs); __Pyx_INCREF(__pyx_n_s_dgesdd); - PyList_SET_ITEM(__pyx_t_2, 2, __pyx_n_s_dgesdd); + PyList_SET_ITEM(__pyx_t_2, 3, __pyx_n_s_dgesdd); __Pyx_GIVEREF(__pyx_n_s_dgesdd); __Pyx_INCREF(__pyx_n_s_dgeqrf); - PyList_SET_ITEM(__pyx_t_2, 3, __pyx_n_s_dgeqrf); + PyList_SET_ITEM(__pyx_t_2, 4, __pyx_n_s_dgeqrf); __Pyx_GIVEREF(__pyx_n_s_dgeqrf); __pyx_t_1 = __Pyx_Import(__pyx_n_s_scipy_linalg__flapack, __pyx_t_2, -1); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 6; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); @@ -5326,6 +5348,10 @@ PyMODINIT_FUNC PyInit_kalman(void) __Pyx_GOTREF(__pyx_t_2); if (PyDict_SetItem(__pyx_d, __pyx_n_s_dpotrf, __pyx_t_2) < 0) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 6; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0; + __pyx_t_2 = __Pyx_ImportFrom(__pyx_t_1, __pyx_n_s_dpotrs); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 6; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_GOTREF(__pyx_t_2); + if (PyDict_SetItem(__pyx_d, __pyx_n_s_dpotrs, __pyx_t_2) < 0) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 6; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0; __pyx_t_2 = __Pyx_ImportFrom(__pyx_t_1, __pyx_n_s_dgesdd); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 6; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_2); if (PyDict_SetItem(__pyx_d, __pyx_n_s_dgesdd, __pyx_t_2) < 0) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 6; __pyx_clineno = __LINE__; goto __pyx_L1_error;} @@ -5336,6 +5362,18 @@ PyMODINIT_FUNC PyInit_kalman(void) __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0; __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; + /* "../../../lib/fff_python_wrapper/fffpy_import_lapack.pxi":50 + * void fffpy_import_lapack_func(object ptr, int key) + * + * def fffpy_import_lapack(): # <<<<<<<<<<<<<< + * fffpy_import_blas_func(ddot._cpointer, FFF_BLAS_DDOT) + * fffpy_import_blas_func(dnrm2._cpointer, FFF_BLAS_DNRM2) + */ + __pyx_t_1 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_3glm_6kalman_1fffpy_import_lapack, NULL, __pyx_n_s_nipy_labs_glm_kalman); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 50; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_GOTREF(__pyx_t_1); + if (PyDict_SetItem(__pyx_d, __pyx_n_s_fffpy_import_lapack, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 50; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; + /* "nipy/labs/glm/kalman.pyx":63 * * # Initialize numpy @@ -5373,9 +5411,12 @@ PyMODINIT_FUNC PyInit_kalman(void) * * */ - __pyx_t_1 = __pyx_f_4nipy_4labs_3glm_6kalman_fffpy_import_lapack(); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 66; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = __Pyx_GetModuleGlobalName(__pyx_n_s_fffpy_import_lapack); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 66; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); + __pyx_t_2 = __Pyx_PyObject_Call(__pyx_t_1, __pyx_empty_tuple, NULL); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 66; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_GOTREF(__pyx_t_2); __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; + __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0; /* "nipy/labs/glm/kalman.pyx":70 * @@ -5384,32 +5425,32 @@ PyMODINIT_FUNC PyInit_kalman(void) * """ * (beta, norm_var_beta, s2, dof) = ols(Y, X, axis=0). */ - __pyx_t_1 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_3glm_6kalman_1ols, NULL, __pyx_n_s_nipy_labs_glm_kalman); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 70; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_GOTREF(__pyx_t_1); - if (PyDict_SetItem(__pyx_d, __pyx_n_s_ols, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 70; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; + __pyx_t_2 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_3glm_6kalman_3ols, NULL, __pyx_n_s_nipy_labs_glm_kalman); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 70; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_GOTREF(__pyx_t_2); + if (PyDict_SetItem(__pyx_d, __pyx_n_s_ols, __pyx_t_2) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 70; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0; - /* "nipy/labs/glm/kalman.pyx":144 + /* "nipy/labs/glm/kalman.pyx":146 * * * def ar1(ndarray Y, ndarray X, int niter=2, int axis=0): # <<<<<<<<<<<<<< * """ * (beta, norm_var_beta, s2, dof, a) = ar1(Y, X, niter=2, axis=0) */ - __pyx_t_1 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_3glm_6kalman_3ar1, NULL, __pyx_n_s_nipy_labs_glm_kalman); 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__pyx_lineno = 1; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_GOTREF(__pyx_t_1); - if (PyDict_SetItem(__pyx_d, __pyx_n_s_test, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 1; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; + __pyx_t_2 = PyDict_New(); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 1; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_GOTREF(__pyx_t_2); + if (PyDict_SetItem(__pyx_d, __pyx_n_s_test, __pyx_t_2) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 1; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0; /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":976 * arr.base = baseptr diff --git a/nipy/labs/glm/kalman.pyx b/nipy/labs/glm/kalman.pyx index e36854e28b..f70b3fc037 100644 --- a/nipy/labs/glm/kalman.pyx +++ b/nipy/labs/glm/kalman.pyx @@ -86,7 +86,9 @@ def ols(ndarray Y, ndarray X, int axis=0): REFERENCE: Roche et al, ISBI 2004. """ - cdef fff_vector *y, *b, *s2 + cdef fff_vector *y + cdef fff_vector *b + cdef fff_vector *s2 cdef fff_matrix *x cdef fff_glm_KF *kfilt cdef size_t p @@ -163,7 +165,11 @@ def ar1(ndarray Y, ndarray X, int niter=2, int axis=0): REFERENCE: Roche et al, MICCAI 2004. """ - cdef fff_vector *y, *b, *vb, *s2, *a + cdef fff_vector *y + cdef fff_vector *b + cdef fff_vector *vb + cdef fff_vector *s2 + cdef fff_vector *a cdef fff_vector Vb_flat cdef fff_matrix *x cdef fff_glm_RKF *rkfilt diff --git a/nipy/labs/group/glm_twolevel.c b/nipy/labs/group/glm_twolevel.c index d9981bdf76..f4ba93f3a5 100644 --- a/nipy/labs/group/glm_twolevel.c +++ b/nipy/labs/group/glm_twolevel.c @@ -1,4 +1,4 @@ -/* Generated by Cython 0.20.1post0 (Debian 0.20.1+git90-g0e6e38e-1ubuntu2) on Mon Nov 10 15:45:10 2014 */ +/* Generated by Cython 0.20.1post0 (Debian 0.20.1+git90-g0e6e38e-1ubuntu2) on Mon Mar 30 14:02:50 2015 */ #define PY_SSIZE_T_CLEAN #ifndef CYTHON_USE_PYLONG_INTERNALS @@ -356,6 +356,8 @@ void __Pyx_call_destructor(T* x) { #include "fff_matrix.h" #include "fff_array.h" #include "fffpy.h" +#include "fff_blas.h" +#include "fff_lapack.h" #include "fff_glm_twolevel.h" #ifdef _OPENMP #include @@ -1136,7 +1138,6 @@ static CYTHON_INLINE char *__pyx_f_5numpy__util_dtypestring(PyArray_Descr *, cha /* Module declarations from 'fff' */ /* Module declarations from 'nipy.labs.group.glm_twolevel' */ -static PyObject *__pyx_f_4nipy_4labs_5group_12glm_twolevel_fffpy_import_lapack(void); /*proto*/ #define __Pyx_MODULE_NAME "nipy.labs.group.glm_twolevel" int __pyx_module_is_main_nipy__labs__group__glm_twolevel = 0; @@ -1144,9 +1145,10 @@ int __pyx_module_is_main_nipy__labs__group__glm_twolevel = 0; static PyObject *__pyx_builtin_range; static PyObject *__pyx_builtin_ValueError; static PyObject *__pyx_builtin_RuntimeError; -static PyObject *__pyx_pf_4nipy_4labs_5group_12glm_twolevel_em(CYTHON_UNUSED PyObject *__pyx_self, PyArrayObject *__pyx_v_Y, PyArrayObject *__pyx_v_VY, PyArrayObject *__pyx_v_X, PyArrayObject *__pyx_v_C, int __pyx_v_axis, int __pyx_v_niter); /* proto */ -static PyObject *__pyx_pf_4nipy_4labs_5group_12glm_twolevel_2log_likelihood(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_Y, PyObject *__pyx_v_VY, PyObject *__pyx_v_X, PyObject *__pyx_v_B, PyObject *__pyx_v_S2, int __pyx_v_axis); /* proto */ -static PyObject *__pyx_pf_4nipy_4labs_5group_12glm_twolevel_4log_likelihood_ratio(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_Y, PyObject *__pyx_v_VY, PyObject *__pyx_v_X, PyObject *__pyx_v_C, int __pyx_v_axis, int __pyx_v_niter); /* proto */ +static PyObject *__pyx_pf_4nipy_4labs_5group_12glm_twolevel_fffpy_import_lapack(CYTHON_UNUSED PyObject *__pyx_self); /* proto */ +static PyObject *__pyx_pf_4nipy_4labs_5group_12glm_twolevel_2em(CYTHON_UNUSED PyObject *__pyx_self, PyArrayObject *__pyx_v_Y, PyArrayObject *__pyx_v_VY, PyArrayObject *__pyx_v_X, PyArrayObject *__pyx_v_C, int __pyx_v_axis, int __pyx_v_niter); /* proto */ +static PyObject *__pyx_pf_4nipy_4labs_5group_12glm_twolevel_4log_likelihood(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_Y, PyObject *__pyx_v_VY, PyObject *__pyx_v_X, PyObject *__pyx_v_B, PyObject *__pyx_v_S2, int __pyx_v_axis); /* proto */ +static PyObject *__pyx_pf_4nipy_4labs_5group_12glm_twolevel_6log_likelihood_ratio(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_Y, PyObject *__pyx_v_VY, PyObject *__pyx_v_X, PyObject *__pyx_v_C, int __pyx_v_axis, int __pyx_v_niter); /* proto */ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, Py_buffer *__pyx_v_info, int __pyx_v_flags); /* proto */ static void __pyx_pf_5numpy_7ndarray_2__releasebuffer__(PyArrayObject *__pyx_v_self, Py_buffer *__pyx_v_info); /* proto */ static char __pyx_k_A[] = "A"; @@ -1225,6 +1227,7 @@ static char __pyx_k_dgeqrf[] = "dgeqrf"; static char __pyx_k_dgesdd[] = "dgesdd"; static char __pyx_k_dgetrf[] = "dgetrf"; static char __pyx_k_dpotrf[] = "dpotrf"; +static char __pyx_k_dpotrs[] = "dpotrs"; static char __pyx_k_drotmg[] = "drotmg"; static char __pyx_k_dsyr2k[] = "dsyr2k"; static char __pyx_k_idamax[] = "idamax"; @@ -1238,6 +1241,7 @@ static char __pyx_k_transpose[] = "transpose"; static char __pyx_k_ValueError[] = "ValueError"; static char __pyx_k_RuntimeError[] = "RuntimeError"; static char __pyx_k_log_likelihood[] = "log_likelihood"; +static char __pyx_k_fffpy_import_lapack[] = "fffpy_import_lapack"; static char __pyx_k_scipy_linalg__fblas[] = "scipy.linalg._fblas"; static char __pyx_k_log_likelihood_ratio[] = "log_likelihood_ratio"; static char __pyx_k_scipy_linalg__flapack[] = "scipy.linalg._flapack"; @@ -1245,6 +1249,7 @@ static char __pyx_k_ndarray_is_not_C_contiguous[] = "ndarray is not C contiguous static char __pyx_k_nipy_labs_group_glm_twolevel[] = "nipy.labs.group.glm_twolevel"; static char __pyx_k_Two_level_general_linear_model[] = "\nTwo-level general linear model for group analyses.\n\nAuthor: Alexis Roche, 2008.\n"; static char __pyx_k_home_roche_git_nipy_nipy_labs_g[] = "/home/roche/git/nipy/nipy/labs/group/glm_twolevel.pyx"; +static char __pyx_k_lib_fff_python_wrapper_fffpy_im[] = "../../../lib/fff_python_wrapper/fffpy_import_lapack.pxi"; static char __pyx_k_unknown_dtype_code_in_numpy_pxd[] = "unknown dtype code in numpy.pxd (%d)"; static char __pyx_k_Format_string_allocated_too_shor[] = "Format string allocated too short, see comment in numpy.pxd"; static char __pyx_k_Non_native_byte_order_not_suppor[] = "Non-native byte order not supported"; @@ -1284,6 +1289,7 @@ static PyObject *__pyx_n_s_dims; static PyObject *__pyx_n_s_dnrm2; static PyObject *__pyx_n_s_dot; static PyObject *__pyx_n_s_dpotrf; 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goto __pyx_L1_error;} + __pyx_t_4 = __Pyx_PyObject_GetAttrStr(((PyObject *)__pyx_v_C), __pyx_n_s_transpose); if (unlikely(!__pyx_t_4)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 87; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_4); - __pyx_t_7 = __Pyx_PyObject_Call(__pyx_t_4, __pyx_empty_tuple, NULL); if (unlikely(!__pyx_t_7)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 83; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_7 = __Pyx_PyObject_Call(__pyx_t_4, __pyx_empty_tuple, NULL); if (unlikely(!__pyx_t_7)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 87; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_7); __Pyx_DECREF(__pyx_t_4); __pyx_t_4 = 0; - __pyx_t_4 = PyTuple_New(2); if (unlikely(!__pyx_t_4)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 83; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_4 = PyTuple_New(2); if (unlikely(!__pyx_t_4)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 87; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_4); 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- /* "nipy/labs/group/glm_twolevel.pyx":104 + /* "nipy/labs/group/glm_twolevel.pyx":108 * # Create views * y = multi.vector[0] * vy = multi.vector[1] # <<<<<<<<<<<<<< @@ -2402,7 +2409,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_12glm_twolevel_em(CYTHON_UNUSED PyO */ __pyx_v_vy = (__pyx_v_multi->vector[1]); - /* "nipy/labs/group/glm_twolevel.pyx":105 + /* "nipy/labs/group/glm_twolevel.pyx":109 * y = multi.vector[0] * vy = multi.vector[1] * b = multi.vector[2] # <<<<<<<<<<<<<< @@ -2411,7 +2418,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_12glm_twolevel_em(CYTHON_UNUSED PyO */ __pyx_v_b = (__pyx_v_multi->vector[2]); - /* "nipy/labs/group/glm_twolevel.pyx":106 + /* "nipy/labs/group/glm_twolevel.pyx":110 * vy = multi.vector[1] * b = multi.vector[2] * s2 = multi.vector[3] # <<<<<<<<<<<<<< @@ -2420,7 +2427,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_12glm_twolevel_em(CYTHON_UNUSED PyO */ __pyx_v_s2 = (__pyx_v_multi->vector[3]); - /* "nipy/labs/group/glm_twolevel.pyx":109 + /* "nipy/labs/group/glm_twolevel.pyx":113 * * # Loop * while(multi.index < multi.size): # <<<<<<<<<<<<<< @@ -2431,7 +2438,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_12glm_twolevel_em(CYTHON_UNUSED PyO __pyx_t_3 = ((__pyx_v_multi->index < __pyx_v_multi->size) != 0); if (!__pyx_t_3) break; - /* "nipy/labs/group/glm_twolevel.pyx":110 + /* "nipy/labs/group/glm_twolevel.pyx":114 * # Loop * while(multi.index < multi.size): * fff_glm_twolevel_EM_init(em) # <<<<<<<<<<<<<< @@ -2440,7 +2447,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_12glm_twolevel_em(CYTHON_UNUSED PyO */ fff_glm_twolevel_EM_init(__pyx_v_em); - /* "nipy/labs/group/glm_twolevel.pyx":111 + /* "nipy/labs/group/glm_twolevel.pyx":115 * while(multi.index < multi.size): * fff_glm_twolevel_EM_init(em) * fff_glm_twolevel_EM_run(em, y, vy, x, ppx, niter) # <<<<<<<<<<<<<< @@ -2449,7 +2456,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_12glm_twolevel_em(CYTHON_UNUSED PyO */ fff_glm_twolevel_EM_run(__pyx_v_em, __pyx_v_y, __pyx_v_vy, __pyx_v_x, __pyx_v_ppx, __pyx_v_niter); - /* "nipy/labs/group/glm_twolevel.pyx":112 + /* "nipy/labs/group/glm_twolevel.pyx":116 * fff_glm_twolevel_EM_init(em) * fff_glm_twolevel_EM_run(em, y, vy, x, ppx, niter) * fff_vector_memcpy(b, em.b) # <<<<<<<<<<<<<< @@ -2458,7 +2465,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_12glm_twolevel_em(CYTHON_UNUSED PyO */ fff_vector_memcpy(__pyx_v_b, __pyx_v_em->b); - /* "nipy/labs/group/glm_twolevel.pyx":113 + /* "nipy/labs/group/glm_twolevel.pyx":117 * fff_glm_twolevel_EM_run(em, y, vy, x, ppx, niter) * fff_vector_memcpy(b, em.b) * s2.data[0] = em.s2 # <<<<<<<<<<<<<< @@ -2468,7 +2475,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_12glm_twolevel_em(CYTHON_UNUSED PyO __pyx_t_11 = __pyx_v_em->s2; (__pyx_v_s2->data[0]) = __pyx_t_11; - /* "nipy/labs/group/glm_twolevel.pyx":114 + /* "nipy/labs/group/glm_twolevel.pyx":118 * fff_vector_memcpy(b, em.b) * s2.data[0] = em.s2 * fffpy_multi_iterator_update(multi) # <<<<<<<<<<<<<< @@ -2478,7 +2485,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_12glm_twolevel_em(CYTHON_UNUSED PyO fffpy_multi_iterator_update(__pyx_v_multi); } - /* "nipy/labs/group/glm_twolevel.pyx":117 + /* "nipy/labs/group/glm_twolevel.pyx":121 * * # Free memory * fff_matrix_delete(x) # <<<<<<<<<<<<<< @@ -2487,7 +2494,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_12glm_twolevel_em(CYTHON_UNUSED PyO */ fff_matrix_delete(__pyx_v_x); - /* "nipy/labs/group/glm_twolevel.pyx":118 + /* "nipy/labs/group/glm_twolevel.pyx":122 * # Free memory * fff_matrix_delete(x) * fff_matrix_delete(ppx) # <<<<<<<<<<<<<< @@ -2496,7 +2503,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_12glm_twolevel_em(CYTHON_UNUSED PyO */ fff_matrix_delete(__pyx_v_ppx); - /* "nipy/labs/group/glm_twolevel.pyx":119 + /* "nipy/labs/group/glm_twolevel.pyx":123 * fff_matrix_delete(x) * fff_matrix_delete(ppx) * fffpy_multi_iterator_delete(multi) # <<<<<<<<<<<<<< @@ -2505,7 +2512,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_12glm_twolevel_em(CYTHON_UNUSED PyO */ fffpy_multi_iterator_delete(__pyx_v_multi); - /* "nipy/labs/group/glm_twolevel.pyx":120 + /* "nipy/labs/group/glm_twolevel.pyx":124 * fff_matrix_delete(ppx) * fffpy_multi_iterator_delete(multi) * fff_glm_twolevel_EM_delete(em) # <<<<<<<<<<<<<< @@ -2514,7 +2521,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_12glm_twolevel_em(CYTHON_UNUSED PyO */ fff_glm_twolevel_EM_delete(__pyx_v_em); - /* "nipy/labs/group/glm_twolevel.pyx":123 + /* "nipy/labs/group/glm_twolevel.pyx":127 * * # Return * return B, S2 # <<<<<<<<<<<<<< @@ -2522,7 +2529,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_12glm_twolevel_em(CYTHON_UNUSED PyO * */ __Pyx_XDECREF(__pyx_r); - __pyx_t_6 = PyTuple_New(2); if (unlikely(!__pyx_t_6)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 123; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_6 = PyTuple_New(2); if (unlikely(!__pyx_t_6)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 127; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_6); __Pyx_INCREF(__pyx_v_B); PyTuple_SET_ITEM(__pyx_t_6, 0, __pyx_v_B); @@ -2564,7 +2571,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_12glm_twolevel_em(CYTHON_UNUSED PyO return __pyx_r; } -/* "nipy/labs/group/glm_twolevel.pyx":128 +/* "nipy/labs/group/glm_twolevel.pyx":132 * * * def log_likelihood(Y, VY, X, B, S2, int axis=0): # <<<<<<<<<<<<<< @@ -2573,10 +2580,10 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_12glm_twolevel_em(CYTHON_UNUSED PyO */ /* Python wrapper */ -static PyObject *__pyx_pw_4nipy_4labs_5group_12glm_twolevel_3log_likelihood(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/ -static char __pyx_doc_4nipy_4labs_5group_12glm_twolevel_2log_likelihood[] = "\n ll = log_likelihood(y, vy, X, b, s2, axis=0)\n Log likelihood in a mixed-effect GLM.\n OUTPUT: array\n REFERENCE:\n Keller and Roche, ISBI 2008.\n "; 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{__pyx_filename = __pyx_f[0]; __pyx_lineno = 132; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } case 3: if (likely((values[3] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_B)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("log_likelihood", 0, 5, 6, 3); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 128; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("log_likelihood", 0, 5, 6, 3); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 132; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } case 4: if (likely((values[4] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_S2)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("log_likelihood", 0, 5, 6, 4); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 128; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("log_likelihood", 0, 5, 6, 4); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 132; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } case 5: if (kw_args > 0) { @@ -2637,7 +2644,7 @@ static PyObject *__pyx_pw_4nipy_4labs_5group_12glm_twolevel_3log_likelihood(PyOb } } if (unlikely(kw_args > 0)) { - if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "log_likelihood") < 0)) {__pyx_filename = __pyx_f[0]; 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__pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_2 = PyList_GET_ITEM(__pyx_t_3, __pyx_t_4); __Pyx_INCREF(__pyx_t_2); __pyx_t_4++; if (unlikely(0 < 0)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 150; __pyx_clineno = __LINE__; goto __pyx_L1_error;} #else - __pyx_t_2 = PySequence_ITEM(__pyx_t_3, __pyx_t_4); __pyx_t_4++; if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 141; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_2 = PySequence_ITEM(__pyx_t_3, __pyx_t_4); __pyx_t_4++; if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 150; __pyx_clineno = __LINE__; goto __pyx_L1_error;} #endif } else if (!__pyx_t_5 && PyTuple_CheckExact(__pyx_t_3)) { if (__pyx_t_4 >= PyTuple_GET_SIZE(__pyx_t_3)) break; #if CYTHON_COMPILING_IN_CPYTHON - __pyx_t_2 = PyTuple_GET_ITEM(__pyx_t_3, __pyx_t_4); __Pyx_INCREF(__pyx_t_2); __pyx_t_4++; if (unlikely(0 < 0)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 141; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_2 = PyTuple_GET_ITEM(__pyx_t_3, __pyx_t_4); 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__pyx_t_1 = 0; __pyx_v_LL = __pyx_t_6; __pyx_t_6 = 0; - /* "nipy/labs/group/glm_twolevel.pyx":146 + /* "nipy/labs/group/glm_twolevel.pyx":155 * * # View on design matrix * x = fff_matrix_fromPyArray(X) # <<<<<<<<<<<<<< * * # Local structure */ - if (!(likely(((__pyx_v_X) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_X, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 146; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (!(likely(((__pyx_v_X) == Py_None) || likely(__Pyx_TypeTest(__pyx_v_X, __pyx_ptype_5numpy_ndarray))))) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 155; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __pyx_v_x = fff_matrix_fromPyArray(((PyArrayObject *)__pyx_v_X)); - /* "nipy/labs/group/glm_twolevel.pyx":149 + /* "nipy/labs/group/glm_twolevel.pyx":158 * * # Local structure * tmp = fff_vector_new(x.size1) # <<<<<<<<<<<<<< @@ -2824,7 +2831,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_12glm_twolevel_2log_likelihood(CYTH */ __pyx_v_tmp = fff_vector_new(__pyx_v_x->size1); - /* "nipy/labs/group/glm_twolevel.pyx":152 + /* "nipy/labs/group/glm_twolevel.pyx":161 * * # Multi iterator * multi = fffpy_multi_iterator_new(5, axis, Y, VY, # <<<<<<<<<<<<<< @@ -2833,7 +2840,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_12glm_twolevel_2log_likelihood(CYTH */ __pyx_v_multi = fffpy_multi_iterator_new(5, __pyx_v_axis, ((void *)__pyx_v_Y), ((void *)__pyx_v_VY), ((void *)__pyx_v_B), ((void *)__pyx_v_S2), ((void *)__pyx_v_LL)); - /* "nipy/labs/group/glm_twolevel.pyx":156 + /* "nipy/labs/group/glm_twolevel.pyx":165 * * # View on iterable arrays * y = multi.vector[0] # <<<<<<<<<<<<<< @@ -2842,7 +2849,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_12glm_twolevel_2log_likelihood(CYTH */ __pyx_v_y = (__pyx_v_multi->vector[0]); - /* "nipy/labs/group/glm_twolevel.pyx":157 + /* "nipy/labs/group/glm_twolevel.pyx":166 * # View on iterable arrays * y = multi.vector[0] * vy = multi.vector[1] # <<<<<<<<<<<<<< @@ -2851,7 +2858,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_12glm_twolevel_2log_likelihood(CYTH */ __pyx_v_vy = (__pyx_v_multi->vector[1]); - /* "nipy/labs/group/glm_twolevel.pyx":158 + /* "nipy/labs/group/glm_twolevel.pyx":167 * y = multi.vector[0] * vy = multi.vector[1] * b = multi.vector[2] # <<<<<<<<<<<<<< @@ -2860,7 +2867,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_12glm_twolevel_2log_likelihood(CYTH */ __pyx_v_b = (__pyx_v_multi->vector[2]); - /* "nipy/labs/group/glm_twolevel.pyx":159 + /* "nipy/labs/group/glm_twolevel.pyx":168 * vy = multi.vector[1] * b = multi.vector[2] * s2 = multi.vector[3] # <<<<<<<<<<<<<< @@ -2869,7 +2876,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_12glm_twolevel_2log_likelihood(CYTH */ __pyx_v_s2 = (__pyx_v_multi->vector[3]); - /* "nipy/labs/group/glm_twolevel.pyx":160 + /* "nipy/labs/group/glm_twolevel.pyx":169 * b = multi.vector[2] * s2 = multi.vector[3] * ll = multi.vector[4] # <<<<<<<<<<<<<< @@ -2878,7 +2885,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_12glm_twolevel_2log_likelihood(CYTH */ __pyx_v_ll = (__pyx_v_multi->vector[4]); - /* "nipy/labs/group/glm_twolevel.pyx":163 + /* "nipy/labs/group/glm_twolevel.pyx":172 * * # Loop * while(multi.index < multi.size): # <<<<<<<<<<<<<< @@ -2889,7 +2896,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_12glm_twolevel_2log_likelihood(CYTH __pyx_t_7 = ((__pyx_v_multi->index < __pyx_v_multi->size) != 0); if (!__pyx_t_7) break; - /* "nipy/labs/group/glm_twolevel.pyx":164 + /* "nipy/labs/group/glm_twolevel.pyx":173 * # Loop * while(multi.index < multi.size): * ll.data[0] = fff_glm_twolevel_log_likelihood(y, vy, x, b, s2.data[0], tmp) # <<<<<<<<<<<<<< @@ -2898,7 +2905,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_12glm_twolevel_2log_likelihood(CYTH */ (__pyx_v_ll->data[0]) = fff_glm_twolevel_log_likelihood(__pyx_v_y, __pyx_v_vy, __pyx_v_x, __pyx_v_b, (__pyx_v_s2->data[0]), __pyx_v_tmp); - /* "nipy/labs/group/glm_twolevel.pyx":165 + /* "nipy/labs/group/glm_twolevel.pyx":174 * while(multi.index < multi.size): * ll.data[0] = fff_glm_twolevel_log_likelihood(y, vy, x, b, s2.data[0], tmp) * fffpy_multi_iterator_update(multi) # <<<<<<<<<<<<<< @@ -2908,7 +2915,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_12glm_twolevel_2log_likelihood(CYTH fffpy_multi_iterator_update(__pyx_v_multi); } - /* "nipy/labs/group/glm_twolevel.pyx":168 + /* "nipy/labs/group/glm_twolevel.pyx":177 * * # Free memory * fff_matrix_delete(x) # <<<<<<<<<<<<<< @@ -2917,7 +2924,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_12glm_twolevel_2log_likelihood(CYTH */ fff_matrix_delete(__pyx_v_x); - /* "nipy/labs/group/glm_twolevel.pyx":169 + /* "nipy/labs/group/glm_twolevel.pyx":178 * # Free memory * fff_matrix_delete(x) * fff_vector_delete(tmp) # <<<<<<<<<<<<<< @@ -2926,7 +2933,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_12glm_twolevel_2log_likelihood(CYTH */ fff_vector_delete(__pyx_v_tmp); - /* "nipy/labs/group/glm_twolevel.pyx":170 + /* "nipy/labs/group/glm_twolevel.pyx":179 * fff_matrix_delete(x) * fff_vector_delete(tmp) * fffpy_multi_iterator_delete(multi) # <<<<<<<<<<<<<< @@ -2935,7 +2942,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_12glm_twolevel_2log_likelihood(CYTH */ fffpy_multi_iterator_delete(__pyx_v_multi); - /* "nipy/labs/group/glm_twolevel.pyx":173 + /* "nipy/labs/group/glm_twolevel.pyx":182 * * # Return * return LL # <<<<<<<<<<<<<< @@ -2947,7 +2954,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_12glm_twolevel_2log_likelihood(CYTH __pyx_r = __pyx_v_LL; goto __pyx_L0; - /* "nipy/labs/group/glm_twolevel.pyx":128 + /* "nipy/labs/group/glm_twolevel.pyx":132 * * * def log_likelihood(Y, VY, X, B, S2, int axis=0): # <<<<<<<<<<<<<< @@ -2972,7 +2979,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_12glm_twolevel_2log_likelihood(CYTH return __pyx_r; } -/* "nipy/labs/group/glm_twolevel.pyx":176 +/* "nipy/labs/group/glm_twolevel.pyx":185 * * * def log_likelihood_ratio(Y, VY, X, C, int axis=0, int niter=DEF_NITER): # <<<<<<<<<<<<<< @@ -2981,10 +2988,10 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_12glm_twolevel_2log_likelihood(CYTH */ /* Python wrapper */ -static PyObject *__pyx_pw_4nipy_4labs_5group_12glm_twolevel_5log_likelihood_ratio(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/ -static char __pyx_doc_4nipy_4labs_5group_12glm_twolevel_4log_likelihood_ratio[] = "\n lda = em(y, vy, X, C, axis=0, niter=DEF_NITER).\n "; -static PyMethodDef __pyx_mdef_4nipy_4labs_5group_12glm_twolevel_5log_likelihood_ratio = {__Pyx_NAMESTR("log_likelihood_ratio"), (PyCFunction)__pyx_pw_4nipy_4labs_5group_12glm_twolevel_5log_likelihood_ratio, METH_VARARGS|METH_KEYWORDS, __Pyx_DOCSTR(__pyx_doc_4nipy_4labs_5group_12glm_twolevel_4log_likelihood_ratio)}; -static PyObject *__pyx_pw_4nipy_4labs_5group_12glm_twolevel_5log_likelihood_ratio(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds) { +static PyObject *__pyx_pw_4nipy_4labs_5group_12glm_twolevel_7log_likelihood_ratio(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/ +static char __pyx_doc_4nipy_4labs_5group_12glm_twolevel_6log_likelihood_ratio[] = "\n lda = em(y, vy, X, C, axis=0, niter=DEF_NITER).\n "; +static PyMethodDef __pyx_mdef_4nipy_4labs_5group_12glm_twolevel_7log_likelihood_ratio = {__Pyx_NAMESTR("log_likelihood_ratio"), (PyCFunction)__pyx_pw_4nipy_4labs_5group_12glm_twolevel_7log_likelihood_ratio, METH_VARARGS|METH_KEYWORDS, __Pyx_DOCSTR(__pyx_doc_4nipy_4labs_5group_12glm_twolevel_6log_likelihood_ratio)}; +static PyObject *__pyx_pw_4nipy_4labs_5group_12glm_twolevel_7log_likelihood_ratio(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds) { PyObject *__pyx_v_Y = 0; PyObject *__pyx_v_VY = 0; PyObject *__pyx_v_X = 0; @@ -3021,17 +3028,17 @@ static PyObject *__pyx_pw_4nipy_4labs_5group_12glm_twolevel_5log_likelihood_rati case 1: if (likely((values[1] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_VY)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("log_likelihood_ratio", 0, 4, 6, 1); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 176; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("log_likelihood_ratio", 0, 4, 6, 1); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 185; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } case 2: if (likely((values[2] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_X)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("log_likelihood_ratio", 0, 4, 6, 2); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 176; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("log_likelihood_ratio", 0, 4, 6, 2); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 185; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } case 3: if (likely((values[3] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_C)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("log_likelihood_ratio", 0, 4, 6, 3); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 176; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("log_likelihood_ratio", 0, 4, 6, 3); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 185; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } case 4: if (kw_args > 0) { @@ -3045,7 +3052,7 @@ static PyObject *__pyx_pw_4nipy_4labs_5group_12glm_twolevel_5log_likelihood_rati } } if (unlikely(kw_args > 0)) { - if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "log_likelihood_ratio") < 0)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 176; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "log_likelihood_ratio") < 0)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 185; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } else { switch (PyTuple_GET_SIZE(__pyx_args)) { @@ -3064,32 +3071,32 @@ static PyObject *__pyx_pw_4nipy_4labs_5group_12glm_twolevel_5log_likelihood_rati __pyx_v_X = values[2]; __pyx_v_C = values[3]; if (values[4]) { - __pyx_v_axis = __Pyx_PyInt_As_int(values[4]); if (unlikely((__pyx_v_axis == (int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 176; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_axis = __Pyx_PyInt_As_int(values[4]); if (unlikely((__pyx_v_axis == (int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 185; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } else { __pyx_v_axis = ((int)0); } if (values[5]) { - __pyx_v_niter = __Pyx_PyInt_As_int(values[5]); if (unlikely((__pyx_v_niter == (int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 176; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_niter = __Pyx_PyInt_As_int(values[5]); if (unlikely((__pyx_v_niter == (int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 185; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } else { __pyx_v_niter = __pyx_k__2; } } goto __pyx_L4_argument_unpacking_done; __pyx_L5_argtuple_error:; - __Pyx_RaiseArgtupleInvalid("log_likelihood_ratio", 0, 4, 6, PyTuple_GET_SIZE(__pyx_args)); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 176; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("log_likelihood_ratio", 0, 4, 6, PyTuple_GET_SIZE(__pyx_args)); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 185; __pyx_clineno = __LINE__; goto __pyx_L3_error;} __pyx_L3_error:; __Pyx_AddTraceback("nipy.labs.group.glm_twolevel.log_likelihood_ratio", __pyx_clineno, __pyx_lineno, __pyx_filename); __Pyx_RefNannyFinishContext(); return NULL; __pyx_L4_argument_unpacking_done:; - __pyx_r = __pyx_pf_4nipy_4labs_5group_12glm_twolevel_4log_likelihood_ratio(__pyx_self, __pyx_v_Y, __pyx_v_VY, __pyx_v_X, __pyx_v_C, __pyx_v_axis, __pyx_v_niter); + __pyx_r = __pyx_pf_4nipy_4labs_5group_12glm_twolevel_6log_likelihood_ratio(__pyx_self, __pyx_v_Y, __pyx_v_VY, __pyx_v_X, __pyx_v_C, __pyx_v_axis, __pyx_v_niter); /* function exit code */ __Pyx_RefNannyFinishContext(); return __pyx_r; } -static PyObject *__pyx_pf_4nipy_4labs_5group_12glm_twolevel_4log_likelihood_ratio(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_Y, PyObject *__pyx_v_VY, PyObject *__pyx_v_X, PyObject *__pyx_v_C, int __pyx_v_axis, int __pyx_v_niter) { +static PyObject *__pyx_pf_4nipy_4labs_5group_12glm_twolevel_6log_likelihood_ratio(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_Y, PyObject *__pyx_v_VY, PyObject *__pyx_v_X, PyObject *__pyx_v_C, int __pyx_v_axis, int __pyx_v_niter) { PyObject *__pyx_v_B = NULL; PyObject *__pyx_v_S2 = NULL; PyObject *__pyx_v_ll0 = NULL; @@ -3107,20 +3114,20 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_12glm_twolevel_4log_likelihood_rati int __pyx_clineno = 0; __Pyx_RefNannySetupContext("log_likelihood_ratio", 0); - /* "nipy/labs/group/glm_twolevel.pyx":182 + /* "nipy/labs/group/glm_twolevel.pyx":191 * * # Constrained log-likelihood * B, S2 = em(Y, VY, X, C, axis, niter) # <<<<<<<<<<<<<< * ll0 = log_likelihood(Y, VY, X, B, S2, axis) * */ - __pyx_t_1 = __Pyx_GetModuleGlobalName(__pyx_n_s_em); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 182; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = __Pyx_GetModuleGlobalName(__pyx_n_s_em); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 191; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); - __pyx_t_2 = __Pyx_PyInt_From_int(__pyx_v_axis); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 182; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_2 = __Pyx_PyInt_From_int(__pyx_v_axis); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 191; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_2); - __pyx_t_3 = __Pyx_PyInt_From_int(__pyx_v_niter); if (unlikely(!__pyx_t_3)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 182; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_3 = __Pyx_PyInt_From_int(__pyx_v_niter); if (unlikely(!__pyx_t_3)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 191; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_3); - __pyx_t_4 = PyTuple_New(6); if (unlikely(!__pyx_t_4)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 182; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_4 = PyTuple_New(6); if (unlikely(!__pyx_t_4)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 191; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_4); __Pyx_INCREF(__pyx_v_Y); PyTuple_SET_ITEM(__pyx_t_4, 0, __pyx_v_Y); @@ -3140,7 +3147,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_12glm_twolevel_4log_likelihood_rati __Pyx_GIVEREF(__pyx_t_3); 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__Pyx_INCREF(__pyx_t_1); #else - __pyx_t_4 = PySequence_ITEM(sequence, 0); if (unlikely(!__pyx_t_4)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 182; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_4 = PySequence_ITEM(sequence, 0); if (unlikely(!__pyx_t_4)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 191; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_4); - __pyx_t_1 = PySequence_ITEM(sequence, 1); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 182; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = PySequence_ITEM(sequence, 1); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 191; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); #endif __Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0; } else { Py_ssize_t index = -1; - __pyx_t_2 = PyObject_GetIter(__pyx_t_3); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 182; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_2 = PyObject_GetIter(__pyx_t_3); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 191; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_2); __Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0; __pyx_t_5 = Py_TYPE(__pyx_t_2)->tp_iternext; @@ -3183,7 +3190,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_12glm_twolevel_4log_likelihood_rati __Pyx_GOTREF(__pyx_t_4); index = 1; __pyx_t_1 = __pyx_t_5(__pyx_t_2); if (unlikely(!__pyx_t_1)) goto __pyx_L3_unpacking_failed; __Pyx_GOTREF(__pyx_t_1); - if (__Pyx_IternextUnpackEndCheck(__pyx_t_5(__pyx_t_2), 2) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 182; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (__Pyx_IternextUnpackEndCheck(__pyx_t_5(__pyx_t_2), 2) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 191; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __pyx_t_5 = NULL; __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0; goto __pyx_L4_unpacking_done; @@ -3191,7 +3198,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_12glm_twolevel_4log_likelihood_rati __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0; __pyx_t_5 = NULL; if (__Pyx_IterFinish() == 0) __Pyx_RaiseNeedMoreValuesError(index); - {__pyx_filename = __pyx_f[0]; __pyx_lineno = 182; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + {__pyx_filename = __pyx_f[0]; __pyx_lineno = 191; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __pyx_L4_unpacking_done:; } __pyx_v_B = __pyx_t_4; @@ -3199,18 +3206,18 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_12glm_twolevel_4log_likelihood_rati __pyx_v_S2 = __pyx_t_1; __pyx_t_1 = 0; - /* "nipy/labs/group/glm_twolevel.pyx":183 + /* "nipy/labs/group/glm_twolevel.pyx":192 * # Constrained log-likelihood * B, S2 = em(Y, VY, X, C, axis, niter) * ll0 = log_likelihood(Y, VY, X, B, S2, axis) # <<<<<<<<<<<<<< * * # Unconstrained log-likelihood */ - __pyx_t_3 = __Pyx_GetModuleGlobalName(__pyx_n_s_log_likelihood); if (unlikely(!__pyx_t_3)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 183; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_3 = __Pyx_GetModuleGlobalName(__pyx_n_s_log_likelihood); if (unlikely(!__pyx_t_3)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 192; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_3); - __pyx_t_1 = __Pyx_PyInt_From_int(__pyx_v_axis); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 183; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = __Pyx_PyInt_From_int(__pyx_v_axis); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 192; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); - __pyx_t_4 = PyTuple_New(6); if (unlikely(!__pyx_t_4)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 183; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_4 = PyTuple_New(6); if (unlikely(!__pyx_t_4)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 192; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_4); __Pyx_INCREF(__pyx_v_Y); PyTuple_SET_ITEM(__pyx_t_4, 0, __pyx_v_Y); @@ -3230,27 +3237,27 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_12glm_twolevel_4log_likelihood_rati PyTuple_SET_ITEM(__pyx_t_4, 5, __pyx_t_1); __Pyx_GIVEREF(__pyx_t_1); __pyx_t_1 = 0; - __pyx_t_1 = __Pyx_PyObject_Call(__pyx_t_3, __pyx_t_4, NULL); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 183; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = __Pyx_PyObject_Call(__pyx_t_3, __pyx_t_4, NULL); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 192; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); __Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0; __Pyx_DECREF(__pyx_t_4); __pyx_t_4 = 0; __pyx_v_ll0 = __pyx_t_1; __pyx_t_1 = 0; - /* "nipy/labs/group/glm_twolevel.pyx":186 + /* "nipy/labs/group/glm_twolevel.pyx":195 * * # Unconstrained log-likelihood * B, S2 = em(Y, VY, X, None, axis, niter) # <<<<<<<<<<<<<< * ll = log_likelihood(Y, VY, X, B, S2, axis) * */ - __pyx_t_1 = __Pyx_GetModuleGlobalName(__pyx_n_s_em); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 186; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = __Pyx_GetModuleGlobalName(__pyx_n_s_em); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 195; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); - __pyx_t_4 = __Pyx_PyInt_From_int(__pyx_v_axis); if (unlikely(!__pyx_t_4)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 186; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_4 = __Pyx_PyInt_From_int(__pyx_v_axis); if (unlikely(!__pyx_t_4)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 195; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_4); - __pyx_t_3 = __Pyx_PyInt_From_int(__pyx_v_niter); if (unlikely(!__pyx_t_3)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 186; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_3 = __Pyx_PyInt_From_int(__pyx_v_niter); if (unlikely(!__pyx_t_3)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 195; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_3); - __pyx_t_2 = PyTuple_New(6); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 186; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_2 = PyTuple_New(6); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 195; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_2); __Pyx_INCREF(__pyx_v_Y); PyTuple_SET_ITEM(__pyx_t_2, 0, __pyx_v_Y); @@ -3270,7 +3277,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_12glm_twolevel_4log_likelihood_rati __Pyx_GIVEREF(__pyx_t_3); __pyx_t_4 = 0; __pyx_t_3 = 0; - __pyx_t_3 = __Pyx_PyObject_Call(__pyx_t_1, __pyx_t_2, NULL); if (unlikely(!__pyx_t_3)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 186; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_3 = __Pyx_PyObject_Call(__pyx_t_1, __pyx_t_2, NULL); if (unlikely(!__pyx_t_3)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 195; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_3); __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0; @@ -3284,7 +3291,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_12glm_twolevel_4log_likelihood_rati if (unlikely(size != 2)) { if (size > 2) __Pyx_RaiseTooManyValuesError(2); else if (size >= 0) __Pyx_RaiseNeedMoreValuesError(size); - {__pyx_filename = __pyx_f[0]; __pyx_lineno = 186; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + {__pyx_filename = __pyx_f[0]; __pyx_lineno = 195; __pyx_clineno = __LINE__; goto __pyx_L1_error;} } #if CYTHON_COMPILING_IN_CPYTHON if (likely(PyTuple_CheckExact(sequence))) { @@ -3297,15 +3304,15 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_12glm_twolevel_4log_likelihood_rati __Pyx_INCREF(__pyx_t_2); __Pyx_INCREF(__pyx_t_1); #else - __pyx_t_2 = PySequence_ITEM(sequence, 0); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 186; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_2 = PySequence_ITEM(sequence, 0); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 195; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_2); - __pyx_t_1 = PySequence_ITEM(sequence, 1); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 186; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = PySequence_ITEM(sequence, 1); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 195; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); #endif __Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0; } else { Py_ssize_t index = -1; - __pyx_t_4 = PyObject_GetIter(__pyx_t_3); if (unlikely(!__pyx_t_4)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 186; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_4 = PyObject_GetIter(__pyx_t_3); if (unlikely(!__pyx_t_4)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 195; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_4); __Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0; __pyx_t_5 = Py_TYPE(__pyx_t_4)->tp_iternext; @@ -3313,7 +3320,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_12glm_twolevel_4log_likelihood_rati __Pyx_GOTREF(__pyx_t_2); index = 1; __pyx_t_1 = __pyx_t_5(__pyx_t_4); if (unlikely(!__pyx_t_1)) goto __pyx_L5_unpacking_failed; __Pyx_GOTREF(__pyx_t_1); - if (__Pyx_IternextUnpackEndCheck(__pyx_t_5(__pyx_t_4), 2) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 186; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (__Pyx_IternextUnpackEndCheck(__pyx_t_5(__pyx_t_4), 2) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 195; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __pyx_t_5 = NULL; __Pyx_DECREF(__pyx_t_4); __pyx_t_4 = 0; goto __pyx_L6_unpacking_done; @@ -3321,7 +3328,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_12glm_twolevel_4log_likelihood_rati __Pyx_DECREF(__pyx_t_4); __pyx_t_4 = 0; __pyx_t_5 = NULL; if (__Pyx_IterFinish() == 0) __Pyx_RaiseNeedMoreValuesError(index); - {__pyx_filename = __pyx_f[0]; __pyx_lineno = 186; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + {__pyx_filename = __pyx_f[0]; __pyx_lineno = 195; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __pyx_L6_unpacking_done:; } __Pyx_DECREF_SET(__pyx_v_B, __pyx_t_2); @@ -3329,18 +3336,18 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_12glm_twolevel_4log_likelihood_rati __Pyx_DECREF_SET(__pyx_v_S2, __pyx_t_1); __pyx_t_1 = 0; - /* "nipy/labs/group/glm_twolevel.pyx":187 + /* "nipy/labs/group/glm_twolevel.pyx":196 * # Unconstrained log-likelihood * B, S2 = em(Y, VY, X, None, axis, niter) * ll = log_likelihood(Y, VY, X, B, S2, axis) # <<<<<<<<<<<<<< * * # -2 log R = 2*(ll-ll0) */ - __pyx_t_3 = __Pyx_GetModuleGlobalName(__pyx_n_s_log_likelihood); 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__pyx_lineno = 6; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_2 = PyList_New(5); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 6; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_2); __Pyx_INCREF(__pyx_n_s_dgetrf); PyList_SET_ITEM(__pyx_t_2, 0, __pyx_n_s_dgetrf); @@ -5935,11 +5954,14 @@ PyMODINIT_FUNC PyInit_glm_twolevel(void) __Pyx_INCREF(__pyx_n_s_dpotrf); PyList_SET_ITEM(__pyx_t_2, 1, __pyx_n_s_dpotrf); __Pyx_GIVEREF(__pyx_n_s_dpotrf); + __Pyx_INCREF(__pyx_n_s_dpotrs); + PyList_SET_ITEM(__pyx_t_2, 2, __pyx_n_s_dpotrs); + __Pyx_GIVEREF(__pyx_n_s_dpotrs); __Pyx_INCREF(__pyx_n_s_dgesdd); - PyList_SET_ITEM(__pyx_t_2, 2, __pyx_n_s_dgesdd); + PyList_SET_ITEM(__pyx_t_2, 3, __pyx_n_s_dgesdd); __Pyx_GIVEREF(__pyx_n_s_dgesdd); __Pyx_INCREF(__pyx_n_s_dgeqrf); - PyList_SET_ITEM(__pyx_t_2, 3, __pyx_n_s_dgeqrf); + PyList_SET_ITEM(__pyx_t_2, 4, __pyx_n_s_dgeqrf); __Pyx_GIVEREF(__pyx_n_s_dgeqrf); __pyx_t_1 = __Pyx_Import(__pyx_n_s_scipy_linalg__flapack, __pyx_t_2, -1); 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goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_2); if (PyDict_SetItem(__pyx_d, __pyx_n_s_dgesdd, __pyx_t_2) < 0) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 6; __pyx_clineno = __LINE__; goto __pyx_L1_error;} @@ -5962,6 +5988,18 @@ PyMODINIT_FUNC PyInit_glm_twolevel(void) __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0; __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; + /* "../../../lib/fff_python_wrapper/fffpy_import_lapack.pxi":50 + * void fffpy_import_lapack_func(object ptr, int key) + * + * def fffpy_import_lapack(): # <<<<<<<<<<<<<< + * fffpy_import_blas_func(ddot._cpointer, FFF_BLAS_DDOT) + * fffpy_import_blas_func(dnrm2._cpointer, FFF_BLAS_DNRM2) + */ + __pyx_t_1 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_5group_12glm_twolevel_1fffpy_import_lapack, NULL, __pyx_n_s_nipy_labs_group_glm_twolevel); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 50; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_GOTREF(__pyx_t_1); + if (PyDict_SetItem(__pyx_d, __pyx_n_s_fffpy_import_lapack, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[1]; 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""" cdef size_t n, p - cdef fff_vector *y, *vy, *b, *s2 - cdef fff_matrix *x, *ppx + cdef fff_vector *y + cdef fff_vector *vy + cdef fff_vector *b + cdef fff_vector *s2 + cdef fff_matrix *x + cdef fff_matrix *ppx cdef fff_glm_twolevel_EM *em cdef fffpy_multi_iterator* multi @@ -133,7 +137,12 @@ def log_likelihood(Y, VY, X, B, S2, int axis=0): REFERENCE: Keller and Roche, ISBI 2008. """ - cdef fff_vector *y, *vy, *b, *s2, *ll, *tmp + cdef fff_vector *y + cdef fff_vector *vy + cdef fff_vector *b + cdef fff_vector *s2 + cdef fff_vector *ll + cdef fff_vector *tmp cdef fff_matrix *x cdef fffpy_multi_iterator* multi diff --git a/nipy/labs/group/onesample.c b/nipy/labs/group/onesample.c index 6a6ac6a55b..89daa028e4 100644 --- a/nipy/labs/group/onesample.c +++ b/nipy/labs/group/onesample.c @@ -1,4 +1,4 @@ -/* Generated by Cython 0.20.1post0 (Debian 0.20.1+git90-g0e6e38e-1ubuntu2) on Mon Nov 10 15:44:54 2014 */ +/* Generated by Cython 0.20.1post0 (Debian 0.20.1+git90-g0e6e38e-1ubuntu2) on Mon Mar 30 14:00:21 2015 */ #define PY_SSIZE_T_CLEAN #ifndef CYTHON_USE_PYLONG_INTERNALS @@ -356,6 +356,8 @@ void __Pyx_call_destructor(T* x) { #include "fff_matrix.h" #include "fff_array.h" #include "fffpy.h" +#include "fff_blas.h" +#include "fff_lapack.h" #include "fff_onesample_stat.h" #ifdef _OPENMP #include @@ -1136,7 +1138,6 @@ static CYTHON_INLINE char *__pyx_f_5numpy__util_dtypestring(PyArray_Descr *, cha /* Module declarations from 'fff' */ /* Module declarations from 'nipy.labs.group.onesample' */ -static PyObject *__pyx_f_4nipy_4labs_5group_9onesample_fffpy_import_lapack(void); 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/* proto */ +static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_8pdf_fit_gmfx(CYTHON_UNUSED PyObject *__pyx_self, PyArrayObject *__pyx_v_Y, PyArrayObject *__pyx_v_V, int __pyx_v_axis, int __pyx_v_niter, int __pyx_v_constraint, double __pyx_v_base); /* proto */ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, Py_buffer *__pyx_v_info, int __pyx_v_flags); /* proto */ static void __pyx_pf_5numpy_7ndarray_2__releasebuffer__(PyArrayObject *__pyx_v_self, Py_buffer *__pyx_v_info); /* proto */ static char __pyx_k_B[] = "B"; @@ -1229,6 +1231,7 @@ static char __pyx_k_dgeqrf[] = "dgeqrf"; static char __pyx_k_dgesdd[] = "dgesdd"; static char __pyx_k_dgetrf[] = "dgetrf"; static char __pyx_k_dpotrf[] = "dpotrf"; +static char __pyx_k_dpotrs[] = "dpotrs"; static char __pyx_k_drotmg[] = "drotmg"; static char __pyx_k_dsyr2k[] = "dsyr2k"; static char __pyx_k_idamax[] = "idamax"; @@ -1255,12 +1258,14 @@ static char __pyx_k_RuntimeError[] = "RuntimeError"; static char __pyx_k_pdf_fit_gmfx[] = "pdf_fit_gmfx"; static char __pyx_k_wilcoxon_mfx[] = "wilcoxon_mfx"; static char __pyx_k_mean_gauss_mfx[] = "mean_gauss_mfx"; +static char __pyx_k_fffpy_import_lapack[] = "fffpy_import_lapack"; static char __pyx_k_scipy_linalg__fblas[] = "scipy.linalg._fblas"; static char __pyx_k_scipy_linalg__flapack[] = "scipy.linalg._flapack"; static char __pyx_k_nipy_labs_group_onesample[] = "nipy.labs.group.onesample"; static char __pyx_k_ndarray_is_not_C_contiguous[] = "ndarray is not C contiguous"; static char __pyx_k_Routines_for_massively_univaria[] = "\nRoutines for massively univariate random-effect and mixed-effect analysis.\n\nAuthor: Alexis Roche, 2008.\n"; static char __pyx_k_home_roche_git_nipy_nipy_labs_g[] = "/home/roche/git/nipy/nipy/labs/group/onesample.pyx"; +static char __pyx_k_lib_fff_python_wrapper_fffpy_im[] = "../../../lib/fff_python_wrapper/fffpy_import_lapack.pxi"; static char __pyx_k_unknown_dtype_code_in_numpy_pxd[] = "unknown dtype code in numpy.pxd (%d)"; static char __pyx_k_Format_string_allocated_too_shor[] = "Format string allocated too short, see comment in numpy.pxd"; 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if (unlikely(PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 102; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0; __pyx_v_flag_stat = __pyx_t_3; - /* "nipy/labs/group/onesample.pyx":106 + /* "nipy/labs/group/onesample.pyx":109 * * # Get number of observations * n = Y.shape[axis] # <<<<<<<<<<<<<< @@ -1998,19 +2005,19 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_stat(CYTHON_UNUSED PyObj */ __pyx_v_n = ((unsigned int)(__pyx_v_Y->dimensions[__pyx_v_axis])); - /* "nipy/labs/group/onesample.pyx":109 + /* "nipy/labs/group/onesample.pyx":112 * * # Read out magic numbers * if Magics == None: # <<<<<<<<<<<<<< * magics = fff_vector_new(1) * magics.data[0] = 0 ## Just to make sure */ - __pyx_t_2 = PyObject_RichCompare(((PyObject *)__pyx_v_Magics), Py_None, Py_EQ); __Pyx_XGOTREF(__pyx_t_2); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 109; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __pyx_t_4 = __Pyx_PyObject_IsTrue(__pyx_t_2); if (unlikely(__pyx_t_4 < 0)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 109; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_2 = PyObject_RichCompare(((PyObject *)__pyx_v_Magics), Py_None, Py_EQ); __Pyx_XGOTREF(__pyx_t_2); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 112; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_4 = __Pyx_PyObject_IsTrue(__pyx_t_2); if (unlikely(__pyx_t_4 < 0)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 112; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0; if (__pyx_t_4) { - /* "nipy/labs/group/onesample.pyx":110 + /* "nipy/labs/group/onesample.pyx":113 * # Read out magic numbers * if Magics == None: * magics = fff_vector_new(1) # <<<<<<<<<<<<<< @@ -2019,7 +2026,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_stat(CYTHON_UNUSED PyObj */ __pyx_v_magics = fff_vector_new(1); - /* "nipy/labs/group/onesample.pyx":111 + /* "nipy/labs/group/onesample.pyx":114 * if Magics == None: * magics = fff_vector_new(1) * magics.data[0] = 0 ## Just to make sure # <<<<<<<<<<<<<< @@ -2031,7 +2038,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_stat(CYTHON_UNUSED PyObj } /*else*/ { - /* "nipy/labs/group/onesample.pyx":113 + /* "nipy/labs/group/onesample.pyx":116 * magics.data[0] = 0 ## Just to make sure * else: * magics = fff_vector_fromPyArray(Magics) # <<<<<<<<<<<<<< @@ -2042,7 +2049,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_stat(CYTHON_UNUSED PyObj } __pyx_L3:; - /* "nipy/labs/group/onesample.pyx":116 + /* "nipy/labs/group/onesample.pyx":119 * * # Create output array * nsimu = magics.size # <<<<<<<<<<<<<< @@ -2052,63 +2059,63 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_stat(CYTHON_UNUSED PyObj __pyx_t_5 = __pyx_v_magics->size; __pyx_v_nsimu = __pyx_t_5; - /* "nipy/labs/group/onesample.pyx":117 + /* "nipy/labs/group/onesample.pyx":120 * # Create output array * nsimu = magics.size * dims = [Y.shape[i] for i in range(Y.ndim)] # <<<<<<<<<<<<<< * dims[axis] = nsimu * T = np.zeros(dims) */ - __pyx_t_2 = PyList_New(0); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 117; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_2 = PyList_New(0); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 120; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_2); __pyx_t_6 = __pyx_v_Y->nd; for (__pyx_t_7 = 0; __pyx_t_7 < __pyx_t_6; __pyx_t_7+=1) { __pyx_v_i = __pyx_t_7; - __pyx_t_1 = __Pyx_PyInt_From_Py_intptr_t((__pyx_v_Y->dimensions[__pyx_v_i])); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 117; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = __Pyx_PyInt_From_Py_intptr_t((__pyx_v_Y->dimensions[__pyx_v_i])); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 120; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); - if (unlikely(__Pyx_ListComp_Append(__pyx_t_2, (PyObject*)__pyx_t_1))) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 117; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (unlikely(__Pyx_ListComp_Append(__pyx_t_2, (PyObject*)__pyx_t_1))) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 120; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; } __pyx_v_dims = ((PyObject*)__pyx_t_2); __pyx_t_2 = 0; - /* "nipy/labs/group/onesample.pyx":118 + /* "nipy/labs/group/onesample.pyx":121 * nsimu = magics.size * dims = [Y.shape[i] for i in range(Y.ndim)] * dims[axis] = nsimu # <<<<<<<<<<<<<< * T = np.zeros(dims) * */ - __pyx_t_2 = __Pyx_PyInt_From_unsigned_long(__pyx_v_nsimu); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 118; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_2 = __Pyx_PyInt_From_unsigned_long(__pyx_v_nsimu); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 121; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_2); - if (unlikely(__Pyx_SetItemInt(__pyx_v_dims, __pyx_v_axis, __pyx_t_2, int, 1, __Pyx_PyInt_From_int, 1, 1, 1) < 0)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 118; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (unlikely(__Pyx_SetItemInt(__pyx_v_dims, __pyx_v_axis, __pyx_t_2, int, 1, __Pyx_PyInt_From_int, 1, 1, 1) < 0)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 121; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0; - /* "nipy/labs/group/onesample.pyx":119 + /* "nipy/labs/group/onesample.pyx":122 * dims = [Y.shape[i] for i in range(Y.ndim)] * dims[axis] = nsimu * T = np.zeros(dims) # <<<<<<<<<<<<<< * * # Create local structure */ - __pyx_t_2 = __Pyx_GetModuleGlobalName(__pyx_n_s_np); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 119; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_2 = __Pyx_GetModuleGlobalName(__pyx_n_s_np); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 122; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_2); - __pyx_t_1 = __Pyx_PyObject_GetAttrStr(__pyx_t_2, __pyx_n_s_zeros); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 119; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = __Pyx_PyObject_GetAttrStr(__pyx_t_2, __pyx_n_s_zeros); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 122; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0; - __pyx_t_2 = PyTuple_New(1); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 119; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_2 = PyTuple_New(1); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 122; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_2); __Pyx_INCREF(__pyx_v_dims); PyTuple_SET_ITEM(__pyx_t_2, 0, __pyx_v_dims); __Pyx_GIVEREF(__pyx_v_dims); - __pyx_t_8 = __Pyx_PyObject_Call(__pyx_t_1, __pyx_t_2, NULL); if (unlikely(!__pyx_t_8)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 119; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_8 = __Pyx_PyObject_Call(__pyx_t_1, __pyx_t_2, NULL); if (unlikely(!__pyx_t_8)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 122; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_8); __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0; __pyx_v_T = __pyx_t_8; __pyx_t_8 = 0; - /* "nipy/labs/group/onesample.pyx":122 + /* "nipy/labs/group/onesample.pyx":125 * * # Create local structure * stat = fff_onesample_stat_new(n, flag_stat, base) # <<<<<<<<<<<<<< @@ -2117,7 +2124,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_stat(CYTHON_UNUSED PyObj */ __pyx_v_stat = fff_onesample_stat_new(__pyx_v_n, __pyx_v_flag_stat, __pyx_v_base); - /* "nipy/labs/group/onesample.pyx":123 + /* "nipy/labs/group/onesample.pyx":126 * # Create local structure * stat = fff_onesample_stat_new(n, flag_stat, base) * yp = fff_vector_new(n) # <<<<<<<<<<<<<< @@ -2126,7 +2133,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_stat(CYTHON_UNUSED PyObj */ __pyx_v_yp = fff_vector_new(__pyx_v_n); - /* "nipy/labs/group/onesample.pyx":126 + /* "nipy/labs/group/onesample.pyx":129 * * # Multi-iterator * multi = fffpy_multi_iterator_new(2, axis, Y, T) # <<<<<<<<<<<<<< @@ -2135,7 +2142,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_stat(CYTHON_UNUSED PyObj */ __pyx_v_multi = fffpy_multi_iterator_new(2, __pyx_v_axis, ((void *)__pyx_v_Y), ((void *)__pyx_v_T)); - /* "nipy/labs/group/onesample.pyx":129 + /* "nipy/labs/group/onesample.pyx":132 * * # Vector views * y = multi.vector[0] # <<<<<<<<<<<<<< @@ -2144,7 +2151,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_stat(CYTHON_UNUSED PyObj */ __pyx_v_y = (__pyx_v_multi->vector[0]); - /* "nipy/labs/group/onesample.pyx":130 + /* "nipy/labs/group/onesample.pyx":133 * # Vector views * y = multi.vector[0] * t = multi.vector[1] # <<<<<<<<<<<<<< @@ -2153,7 +2160,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_stat(CYTHON_UNUSED PyObj */ __pyx_v_t = (__pyx_v_multi->vector[1]); - /* "nipy/labs/group/onesample.pyx":133 + /* "nipy/labs/group/onesample.pyx":136 * * # Loop * for simu from 0 <= simu < nsimu: # <<<<<<<<<<<<<< @@ -2163,7 +2170,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_stat(CYTHON_UNUSED PyObj __pyx_t_9 = __pyx_v_nsimu; for (__pyx_v_simu = 0; __pyx_v_simu < __pyx_t_9; __pyx_v_simu++) { - /* "nipy/labs/group/onesample.pyx":136 + /* "nipy/labs/group/onesample.pyx":139 * * # Set the magic number * magic = magics.data[simu*magics.stride] # <<<<<<<<<<<<<< @@ -2172,7 +2179,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_stat(CYTHON_UNUSED PyObj */ __pyx_v_magic = (__pyx_v_magics->data[(__pyx_v_simu * __pyx_v_magics->stride)]); - /* "nipy/labs/group/onesample.pyx":139 + /* "nipy/labs/group/onesample.pyx":142 * * # Reset the multi-iterator * fffpy_multi_iterator_reset(multi); # <<<<<<<<<<<<<< @@ -2181,7 +2188,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_stat(CYTHON_UNUSED PyObj */ fffpy_multi_iterator_reset(__pyx_v_multi); - /* "nipy/labs/group/onesample.pyx":142 + /* "nipy/labs/group/onesample.pyx":145 * * # Perform the loop * idx = simu*t.stride # <<<<<<<<<<<<<< @@ -2190,7 +2197,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_stat(CYTHON_UNUSED PyObj */ __pyx_v_idx = (__pyx_v_simu * __pyx_v_t->stride); - /* "nipy/labs/group/onesample.pyx":143 + /* "nipy/labs/group/onesample.pyx":146 * # Perform the loop * idx = simu*t.stride * while(multi.index < multi.size): # <<<<<<<<<<<<<< @@ -2201,7 +2208,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_stat(CYTHON_UNUSED PyObj __pyx_t_4 = ((__pyx_v_multi->index < __pyx_v_multi->size) != 0); if (!__pyx_t_4) break; - /* "nipy/labs/group/onesample.pyx":144 + /* "nipy/labs/group/onesample.pyx":147 * idx = simu*t.stride * while(multi.index < multi.size): * fff_onesample_permute_signs(yp, y, magic) # <<<<<<<<<<<<<< @@ -2210,7 +2217,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_stat(CYTHON_UNUSED PyObj */ fff_onesample_permute_signs(__pyx_v_yp, __pyx_v_y, __pyx_v_magic); - /* "nipy/labs/group/onesample.pyx":145 + /* "nipy/labs/group/onesample.pyx":148 * while(multi.index < multi.size): * fff_onesample_permute_signs(yp, y, magic) * t.data[idx] = fff_onesample_stat_eval(stat, yp) # <<<<<<<<<<<<<< @@ -2219,7 +2226,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_stat(CYTHON_UNUSED PyObj */ (__pyx_v_t->data[__pyx_v_idx]) = fff_onesample_stat_eval(__pyx_v_stat, __pyx_v_yp); - /* "nipy/labs/group/onesample.pyx":146 + /* "nipy/labs/group/onesample.pyx":149 * fff_onesample_permute_signs(yp, y, magic) * t.data[idx] = fff_onesample_stat_eval(stat, yp) * fffpy_multi_iterator_update(multi) # <<<<<<<<<<<<<< @@ -2230,7 +2237,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_stat(CYTHON_UNUSED PyObj } } - /* "nipy/labs/group/onesample.pyx":149 + /* "nipy/labs/group/onesample.pyx":152 * * # Free memory * fffpy_multi_iterator_delete(multi) # <<<<<<<<<<<<<< @@ -2239,7 +2246,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_stat(CYTHON_UNUSED PyObj */ fffpy_multi_iterator_delete(__pyx_v_multi); - /* "nipy/labs/group/onesample.pyx":150 + /* "nipy/labs/group/onesample.pyx":153 * # Free memory * fffpy_multi_iterator_delete(multi) * fff_vector_delete(yp) # <<<<<<<<<<<<<< @@ -2248,7 +2255,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_stat(CYTHON_UNUSED PyObj */ fff_vector_delete(__pyx_v_yp); - /* "nipy/labs/group/onesample.pyx":151 + /* "nipy/labs/group/onesample.pyx":154 * fffpy_multi_iterator_delete(multi) * fff_vector_delete(yp) * fff_vector_delete(magics) # <<<<<<<<<<<<<< @@ -2257,7 +2264,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_stat(CYTHON_UNUSED PyObj */ fff_vector_delete(__pyx_v_magics); - /* "nipy/labs/group/onesample.pyx":152 + /* "nipy/labs/group/onesample.pyx":155 * fff_vector_delete(yp) * fff_vector_delete(magics) * fff_onesample_stat_delete(stat) # <<<<<<<<<<<<<< @@ -2266,7 +2273,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_stat(CYTHON_UNUSED PyObj */ fff_onesample_stat_delete(__pyx_v_stat); - /* "nipy/labs/group/onesample.pyx":155 + /* "nipy/labs/group/onesample.pyx":158 * * # Return * return T # <<<<<<<<<<<<<< @@ -2301,7 +2308,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_stat(CYTHON_UNUSED PyObj return __pyx_r; } -/* "nipy/labs/group/onesample.pyx":158 +/* "nipy/labs/group/onesample.pyx":161 * * * def stat_mfx(ndarray Y, ndarray V, id='student_mfx', double base=0.0, # <<<<<<<<<<<<<< @@ -2310,10 +2317,10 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_stat(CYTHON_UNUSED PyObj */ /* Python wrapper */ -static PyObject *__pyx_pw_4nipy_4labs_5group_9onesample_3stat_mfx(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/ -static char __pyx_doc_4nipy_4labs_5group_9onesample_2stat_mfx[] = "\n T = stat_mfx(Y, V, id='student_mfx', base=0.0, axis=0, magics=None, niter=5).\n \n Compute a one-sample test statistic, with mixed-effect correction,\n over a number of deterministic or random permutations.\n "; -static PyMethodDef __pyx_mdef_4nipy_4labs_5group_9onesample_3stat_mfx = {__Pyx_NAMESTR("stat_mfx"), (PyCFunction)__pyx_pw_4nipy_4labs_5group_9onesample_3stat_mfx, METH_VARARGS|METH_KEYWORDS, __Pyx_DOCSTR(__pyx_doc_4nipy_4labs_5group_9onesample_2stat_mfx)}; -static PyObject *__pyx_pw_4nipy_4labs_5group_9onesample_3stat_mfx(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds) { +static PyObject *__pyx_pw_4nipy_4labs_5group_9onesample_5stat_mfx(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/ +static char __pyx_doc_4nipy_4labs_5group_9onesample_4stat_mfx[] = "\n T = stat_mfx(Y, V, id='student_mfx', base=0.0, axis=0, magics=None, niter=5).\n \n Compute a one-sample test statistic, with mixed-effect correction,\n over a number of deterministic or random permutations.\n "; +static PyMethodDef __pyx_mdef_4nipy_4labs_5group_9onesample_5stat_mfx = {__Pyx_NAMESTR("stat_mfx"), (PyCFunction)__pyx_pw_4nipy_4labs_5group_9onesample_5stat_mfx, METH_VARARGS|METH_KEYWORDS, __Pyx_DOCSTR(__pyx_doc_4nipy_4labs_5group_9onesample_4stat_mfx)}; +static PyObject *__pyx_pw_4nipy_4labs_5group_9onesample_5stat_mfx(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds) { PyArrayObject *__pyx_v_Y = 0; PyArrayObject *__pyx_v_V = 0; PyObject *__pyx_v_id = 0; @@ -2332,7 +2339,7 @@ static PyObject *__pyx_pw_4nipy_4labs_5group_9onesample_3stat_mfx(PyObject *__py PyObject* values[7] = {0,0,0,0,0,0,0}; values[2] = ((PyObject *)__pyx_n_s_student_mfx); - /* "nipy/labs/group/onesample.pyx":159 + /* "nipy/labs/group/onesample.pyx":162 * * def stat_mfx(ndarray Y, ndarray V, id='student_mfx', double base=0.0, * int axis=0, ndarray Magics=None, unsigned int niter=5): # <<<<<<<<<<<<<< @@ -2362,7 +2369,7 @@ static PyObject *__pyx_pw_4nipy_4labs_5group_9onesample_3stat_mfx(PyObject *__py case 1: if (likely((values[1] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_V)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("stat_mfx", 0, 2, 7, 1); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 158; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("stat_mfx", 0, 2, 7, 1); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 161; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } case 2: if (kw_args > 0) { @@ -2391,7 +2398,7 @@ static PyObject *__pyx_pw_4nipy_4labs_5group_9onesample_3stat_mfx(PyObject *__py } } if (unlikely(kw_args > 0)) { - if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "stat_mfx") < 0)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 158; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "stat_mfx") < 0)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 161; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } else { switch (PyTuple_GET_SIZE(__pyx_args)) { @@ -2410,36 +2417,36 @@ static PyObject *__pyx_pw_4nipy_4labs_5group_9onesample_3stat_mfx(PyObject *__py __pyx_v_V = ((PyArrayObject *)values[1]); __pyx_v_id = values[2]; if (values[3]) { - __pyx_v_base = __pyx_PyFloat_AsDouble(values[3]); if (unlikely((__pyx_v_base == (double)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 158; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_base = __pyx_PyFloat_AsDouble(values[3]); if (unlikely((__pyx_v_base == (double)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 161; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } else { __pyx_v_base = ((double)0.0); } if (values[4]) { - __pyx_v_axis = __Pyx_PyInt_As_int(values[4]); if (unlikely((__pyx_v_axis == (int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 159; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_axis = __Pyx_PyInt_As_int(values[4]); if (unlikely((__pyx_v_axis == (int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 162; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } else { __pyx_v_axis = ((int)0); } __pyx_v_Magics = ((PyArrayObject *)values[5]); if (values[6]) { - __pyx_v_niter = __Pyx_PyInt_As_unsigned_int(values[6]); if (unlikely((__pyx_v_niter == (unsigned int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 159; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_niter = __Pyx_PyInt_As_unsigned_int(values[6]); if (unlikely((__pyx_v_niter == (unsigned int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 162; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } else { __pyx_v_niter = ((unsigned int)5); } } goto __pyx_L4_argument_unpacking_done; __pyx_L5_argtuple_error:; - __Pyx_RaiseArgtupleInvalid("stat_mfx", 0, 2, 7, PyTuple_GET_SIZE(__pyx_args)); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 158; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("stat_mfx", 0, 2, 7, PyTuple_GET_SIZE(__pyx_args)); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 161; __pyx_clineno = __LINE__; goto __pyx_L3_error;} __pyx_L3_error:; __Pyx_AddTraceback("nipy.labs.group.onesample.stat_mfx", __pyx_clineno, __pyx_lineno, __pyx_filename); __Pyx_RefNannyFinishContext(); return NULL; __pyx_L4_argument_unpacking_done:; - if (unlikely(!__Pyx_ArgTypeTest(((PyObject *)__pyx_v_Y), __pyx_ptype_5numpy_ndarray, 1, "Y", 0))) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 158; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - if (unlikely(!__Pyx_ArgTypeTest(((PyObject *)__pyx_v_V), __pyx_ptype_5numpy_ndarray, 1, "V", 0))) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 158; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - if (unlikely(!__Pyx_ArgTypeTest(((PyObject *)__pyx_v_Magics), __pyx_ptype_5numpy_ndarray, 1, "Magics", 0))) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 159; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __pyx_r = __pyx_pf_4nipy_4labs_5group_9onesample_2stat_mfx(__pyx_self, __pyx_v_Y, __pyx_v_V, __pyx_v_id, __pyx_v_base, __pyx_v_axis, __pyx_v_Magics, __pyx_v_niter); + if (unlikely(!__Pyx_ArgTypeTest(((PyObject *)__pyx_v_Y), __pyx_ptype_5numpy_ndarray, 1, "Y", 0))) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 161; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (unlikely(!__Pyx_ArgTypeTest(((PyObject *)__pyx_v_V), __pyx_ptype_5numpy_ndarray, 1, "V", 0))) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 161; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (unlikely(!__Pyx_ArgTypeTest(((PyObject *)__pyx_v_Magics), __pyx_ptype_5numpy_ndarray, 1, "Magics", 0))) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 162; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_r = __pyx_pf_4nipy_4labs_5group_9onesample_4stat_mfx(__pyx_self, __pyx_v_Y, __pyx_v_V, __pyx_v_id, __pyx_v_base, __pyx_v_axis, __pyx_v_Magics, __pyx_v_niter); - /* "nipy/labs/group/onesample.pyx":158 + /* "nipy/labs/group/onesample.pyx":161 * * * def stat_mfx(ndarray Y, ndarray V, id='student_mfx', double base=0.0, # <<<<<<<<<<<<<< @@ -2456,7 +2463,7 @@ static PyObject *__pyx_pw_4nipy_4labs_5group_9onesample_3stat_mfx(PyObject *__py return __pyx_r; } -static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_2stat_mfx(CYTHON_UNUSED PyObject *__pyx_self, PyArrayObject *__pyx_v_Y, PyArrayObject *__pyx_v_V, PyObject *__pyx_v_id, double __pyx_v_base, int __pyx_v_axis, PyArrayObject *__pyx_v_Magics, unsigned int __pyx_v_niter) { +static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_4stat_mfx(CYTHON_UNUSED PyObject *__pyx_self, PyArrayObject *__pyx_v_Y, PyArrayObject *__pyx_v_V, PyObject *__pyx_v_id, double __pyx_v_base, int __pyx_v_axis, PyArrayObject *__pyx_v_Magics, unsigned int __pyx_v_niter) { fff_vector *__pyx_v_y; 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__pyx_lineno = 195; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_2); __Pyx_INCREF(__pyx_v_dims); PyTuple_SET_ITEM(__pyx_t_2, 0, __pyx_v_dims); __Pyx_GIVEREF(__pyx_v_dims); - __pyx_t_8 = __Pyx_PyObject_Call(__pyx_t_1, __pyx_t_2, NULL); if (unlikely(!__pyx_t_8)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 188; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_8 = __Pyx_PyObject_Call(__pyx_t_1, __pyx_t_2, NULL); if (unlikely(!__pyx_t_8)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 195; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_8); __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0; __pyx_v_T = __pyx_t_8; __pyx_t_8 = 0; - /* "nipy/labs/group/onesample.pyx":191 + /* "nipy/labs/group/onesample.pyx":198 * * # Create local structure * stat = fff_onesample_stat_mfx_new(n, flag_stat, base) # <<<<<<<<<<<<<< @@ -2632,7 +2639,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_2stat_mfx(CYTHON_UNUSED */ __pyx_v_stat = fff_onesample_stat_mfx_new(__pyx_v_n, __pyx_v_flag_stat, __pyx_v_base); - /* "nipy/labs/group/onesample.pyx":192 + /* "nipy/labs/group/onesample.pyx":199 * # Create local structure * stat = fff_onesample_stat_mfx_new(n, flag_stat, base) * stat.niter = niter # <<<<<<<<<<<<<< @@ -2641,7 +2648,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_2stat_mfx(CYTHON_UNUSED */ __pyx_v_stat->niter = __pyx_v_niter; - /* "nipy/labs/group/onesample.pyx":193 + /* "nipy/labs/group/onesample.pyx":200 * stat = fff_onesample_stat_mfx_new(n, flag_stat, base) * stat.niter = niter * yp = fff_vector_new(n) # <<<<<<<<<<<<<< @@ -2650,7 +2657,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_2stat_mfx(CYTHON_UNUSED */ __pyx_v_yp = fff_vector_new(__pyx_v_n); - /* "nipy/labs/group/onesample.pyx":196 + /* "nipy/labs/group/onesample.pyx":203 * * # Multi-iterator * multi = fffpy_multi_iterator_new(3, axis, Y, V, T) # <<<<<<<<<<<<<< @@ -2659,7 +2666,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_2stat_mfx(CYTHON_UNUSED */ __pyx_v_multi = fffpy_multi_iterator_new(3, __pyx_v_axis, ((void *)__pyx_v_Y), ((void *)__pyx_v_V), ((void *)__pyx_v_T)); - /* "nipy/labs/group/onesample.pyx":199 + /* "nipy/labs/group/onesample.pyx":206 * * # Vector views * y = multi.vector[0] # <<<<<<<<<<<<<< @@ -2668,7 +2675,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_2stat_mfx(CYTHON_UNUSED */ __pyx_v_y = (__pyx_v_multi->vector[0]); - /* "nipy/labs/group/onesample.pyx":200 + /* "nipy/labs/group/onesample.pyx":207 * # Vector views * y = multi.vector[0] * v = multi.vector[1] # <<<<<<<<<<<<<< @@ -2677,7 +2684,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_2stat_mfx(CYTHON_UNUSED */ __pyx_v_v = (__pyx_v_multi->vector[1]); - /* "nipy/labs/group/onesample.pyx":201 + /* "nipy/labs/group/onesample.pyx":208 * y = multi.vector[0] * v = multi.vector[1] * t = multi.vector[2] # <<<<<<<<<<<<<< @@ -2686,7 +2693,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_2stat_mfx(CYTHON_UNUSED */ __pyx_v_t = (__pyx_v_multi->vector[2]); - /* "nipy/labs/group/onesample.pyx":204 + /* "nipy/labs/group/onesample.pyx":211 * * # Loop * for simu from 0 <= simu < nsimu: # <<<<<<<<<<<<<< @@ -2696,7 +2703,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_2stat_mfx(CYTHON_UNUSED __pyx_t_5 = __pyx_v_nsimu; for (__pyx_v_simu = 0; __pyx_v_simu < __pyx_t_5; __pyx_v_simu++) { - /* "nipy/labs/group/onesample.pyx":207 + /* "nipy/labs/group/onesample.pyx":214 * * # Set the magic number * magic = magics.data[simu*magics.stride] # <<<<<<<<<<<<<< @@ -2705,7 +2712,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_2stat_mfx(CYTHON_UNUSED */ __pyx_v_magic = (__pyx_v_magics->data[(__pyx_v_simu * __pyx_v_magics->stride)]); - /* "nipy/labs/group/onesample.pyx":210 + /* "nipy/labs/group/onesample.pyx":217 * * # Reset the multi-iterator * fffpy_multi_iterator_reset(multi) # <<<<<<<<<<<<<< @@ -2714,7 +2721,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_2stat_mfx(CYTHON_UNUSED */ fffpy_multi_iterator_reset(__pyx_v_multi); - /* "nipy/labs/group/onesample.pyx":213 + /* "nipy/labs/group/onesample.pyx":220 * * # Perform the loop * idx = simu*t.stride # <<<<<<<<<<<<<< @@ -2723,7 +2730,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_2stat_mfx(CYTHON_UNUSED */ __pyx_v_idx = (__pyx_v_simu * __pyx_v_t->stride); - /* "nipy/labs/group/onesample.pyx":214 + /* "nipy/labs/group/onesample.pyx":221 * # Perform the loop * idx = simu*t.stride * while(multi.index < multi.size): # <<<<<<<<<<<<<< @@ -2734,7 +2741,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_2stat_mfx(CYTHON_UNUSED __pyx_t_4 = ((__pyx_v_multi->index < __pyx_v_multi->size) != 0); if (!__pyx_t_4) break; - /* "nipy/labs/group/onesample.pyx":215 + /* "nipy/labs/group/onesample.pyx":222 * idx = simu*t.stride * while(multi.index < multi.size): * fff_onesample_permute_signs(yp, y, magic) # <<<<<<<<<<<<<< @@ -2743,7 +2750,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_2stat_mfx(CYTHON_UNUSED */ fff_onesample_permute_signs(__pyx_v_yp, __pyx_v_y, __pyx_v_magic); - /* "nipy/labs/group/onesample.pyx":216 + /* "nipy/labs/group/onesample.pyx":223 * while(multi.index < multi.size): * fff_onesample_permute_signs(yp, y, magic) * t.data[idx] = fff_onesample_stat_mfx_eval(stat, yp, v) # <<<<<<<<<<<<<< @@ -2752,7 +2759,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_2stat_mfx(CYTHON_UNUSED */ (__pyx_v_t->data[__pyx_v_idx]) = fff_onesample_stat_mfx_eval(__pyx_v_stat, __pyx_v_yp, __pyx_v_v); - /* "nipy/labs/group/onesample.pyx":217 + /* "nipy/labs/group/onesample.pyx":224 * fff_onesample_permute_signs(yp, y, magic) * t.data[idx] = fff_onesample_stat_mfx_eval(stat, yp, v) * fffpy_multi_iterator_update(multi) # <<<<<<<<<<<<<< @@ -2763,7 +2770,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_2stat_mfx(CYTHON_UNUSED } } - /* "nipy/labs/group/onesample.pyx":221 + /* "nipy/labs/group/onesample.pyx":228 * * # Free memory * fffpy_multi_iterator_delete(multi) # <<<<<<<<<<<<<< @@ -2772,7 +2779,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_2stat_mfx(CYTHON_UNUSED */ fffpy_multi_iterator_delete(__pyx_v_multi); - /* "nipy/labs/group/onesample.pyx":222 + /* "nipy/labs/group/onesample.pyx":229 * # Free memory * fffpy_multi_iterator_delete(multi) * fff_vector_delete(yp) # <<<<<<<<<<<<<< @@ -2781,7 +2788,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_2stat_mfx(CYTHON_UNUSED */ fff_vector_delete(__pyx_v_yp); - /* "nipy/labs/group/onesample.pyx":223 + /* "nipy/labs/group/onesample.pyx":230 * fffpy_multi_iterator_delete(multi) * fff_vector_delete(yp) * fff_vector_delete(magics) # <<<<<<<<<<<<<< @@ -2790,7 +2797,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_2stat_mfx(CYTHON_UNUSED */ fff_vector_delete(__pyx_v_magics); - /* "nipy/labs/group/onesample.pyx":224 + /* "nipy/labs/group/onesample.pyx":231 * fff_vector_delete(yp) * fff_vector_delete(magics) * fff_onesample_stat_mfx_delete(stat) # <<<<<<<<<<<<<< @@ -2799,7 +2806,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_2stat_mfx(CYTHON_UNUSED */ fff_onesample_stat_mfx_delete(__pyx_v_stat); - /* "nipy/labs/group/onesample.pyx":227 + /* "nipy/labs/group/onesample.pyx":234 * * # Return * return T # <<<<<<<<<<<<<< @@ -2811,7 +2818,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_2stat_mfx(CYTHON_UNUSED __pyx_r = __pyx_v_T; goto __pyx_L0; - /* "nipy/labs/group/onesample.pyx":158 + /* "nipy/labs/group/onesample.pyx":161 * * * def stat_mfx(ndarray Y, ndarray V, id='student_mfx', double base=0.0, # <<<<<<<<<<<<<< @@ -2834,7 +2841,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_2stat_mfx(CYTHON_UNUSED return __pyx_r; } -/* "nipy/labs/group/onesample.pyx":231 +/* "nipy/labs/group/onesample.pyx":238 * * * def pdf_fit_mfx(ndarray Y, ndarray V, int axis=0, int niter=5, int constraint=0, double base=0.0): # <<<<<<<<<<<<<< @@ -2843,10 +2850,10 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_2stat_mfx(CYTHON_UNUSED */ /* Python wrapper */ -static PyObject *__pyx_pw_4nipy_4labs_5group_9onesample_5pdf_fit_mfx(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/ -static char __pyx_doc_4nipy_4labs_5group_9onesample_4pdf_fit_mfx[] = "\n (W, Z) = pdf_fit_mfx(data=Y, vardata=V, axis=0, niter=5, constraint=False, base=0.0).\n \n Comments to follow.\n "; -static PyMethodDef __pyx_mdef_4nipy_4labs_5group_9onesample_5pdf_fit_mfx = {__Pyx_NAMESTR("pdf_fit_mfx"), (PyCFunction)__pyx_pw_4nipy_4labs_5group_9onesample_5pdf_fit_mfx, METH_VARARGS|METH_KEYWORDS, __Pyx_DOCSTR(__pyx_doc_4nipy_4labs_5group_9onesample_4pdf_fit_mfx)}; -static PyObject *__pyx_pw_4nipy_4labs_5group_9onesample_5pdf_fit_mfx(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds) { +static PyObject *__pyx_pw_4nipy_4labs_5group_9onesample_7pdf_fit_mfx(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/ +static char __pyx_doc_4nipy_4labs_5group_9onesample_6pdf_fit_mfx[] = "\n (W, Z) = pdf_fit_mfx(data=Y, vardata=V, axis=0, niter=5, constraint=False, base=0.0).\n \n Comments to follow.\n "; +static PyMethodDef __pyx_mdef_4nipy_4labs_5group_9onesample_7pdf_fit_mfx = {__Pyx_NAMESTR("pdf_fit_mfx"), (PyCFunction)__pyx_pw_4nipy_4labs_5group_9onesample_7pdf_fit_mfx, METH_VARARGS|METH_KEYWORDS, __Pyx_DOCSTR(__pyx_doc_4nipy_4labs_5group_9onesample_6pdf_fit_mfx)}; +static PyObject *__pyx_pw_4nipy_4labs_5group_9onesample_7pdf_fit_mfx(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds) { PyArrayObject *__pyx_v_Y = 0; PyArrayObject *__pyx_v_V = 0; int __pyx_v_axis; @@ -2883,7 +2890,7 @@ static PyObject *__pyx_pw_4nipy_4labs_5group_9onesample_5pdf_fit_mfx(PyObject *_ case 1: if (likely((values[1] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_V)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("pdf_fit_mfx", 0, 2, 6, 1); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 231; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("pdf_fit_mfx", 0, 2, 6, 1); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 238; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } case 2: if (kw_args > 0) { @@ -2907,7 +2914,7 @@ static PyObject *__pyx_pw_4nipy_4labs_5group_9onesample_5pdf_fit_mfx(PyObject *_ } } if (unlikely(kw_args > 0)) { - if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "pdf_fit_mfx") < 0)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 231; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "pdf_fit_mfx") < 0)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 238; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } else { switch (PyTuple_GET_SIZE(__pyx_args)) { @@ -2924,37 +2931,37 @@ static PyObject *__pyx_pw_4nipy_4labs_5group_9onesample_5pdf_fit_mfx(PyObject *_ __pyx_v_Y = ((PyArrayObject *)values[0]); __pyx_v_V = ((PyArrayObject *)values[1]); if (values[2]) { - __pyx_v_axis = __Pyx_PyInt_As_int(values[2]); if (unlikely((__pyx_v_axis == (int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 231; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_axis = __Pyx_PyInt_As_int(values[2]); if (unlikely((__pyx_v_axis == (int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 238; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } else { __pyx_v_axis = ((int)0); } if (values[3]) { - __pyx_v_niter = __Pyx_PyInt_As_int(values[3]); 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__pyx_lineno = 231; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_base = __pyx_PyFloat_AsDouble(values[5]); if (unlikely((__pyx_v_base == (double)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 238; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } else { __pyx_v_base = ((double)0.0); } } goto __pyx_L4_argument_unpacking_done; __pyx_L5_argtuple_error:; - __Pyx_RaiseArgtupleInvalid("pdf_fit_mfx", 0, 2, 6, PyTuple_GET_SIZE(__pyx_args)); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 231; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("pdf_fit_mfx", 0, 2, 6, PyTuple_GET_SIZE(__pyx_args)); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 238; __pyx_clineno = __LINE__; goto __pyx_L3_error;} __pyx_L3_error:; __Pyx_AddTraceback("nipy.labs.group.onesample.pdf_fit_mfx", __pyx_clineno, __pyx_lineno, __pyx_filename); __Pyx_RefNannyFinishContext(); return NULL; __pyx_L4_argument_unpacking_done:; - if (unlikely(!__Pyx_ArgTypeTest(((PyObject *)__pyx_v_Y), __pyx_ptype_5numpy_ndarray, 1, "Y", 0))) {__pyx_filename = __pyx_f[0]; 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if (!__pyx_t_6) break; - /* "nipy/labs/group/onesample.pyx":263 + /* "nipy/labs/group/onesample.pyx":273 * # Loop * while(multi.index < multi.size): * fff_onesample_stat_mfx_pdf_fit(w, z, stat, y, v) # <<<<<<<<<<<<<< @@ -3159,7 +3166,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_4pdf_fit_mfx(CYTHON_UNUS */ fff_onesample_stat_mfx_pdf_fit(__pyx_v_w, __pyx_v_z, __pyx_v_stat, __pyx_v_y, __pyx_v_v); - /* "nipy/labs/group/onesample.pyx":264 + /* "nipy/labs/group/onesample.pyx":274 * while(multi.index < multi.size): * fff_onesample_stat_mfx_pdf_fit(w, z, stat, y, v) * fffpy_multi_iterator_update(multi) # <<<<<<<<<<<<<< @@ -3169,7 +3176,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_4pdf_fit_mfx(CYTHON_UNUS fffpy_multi_iterator_update(__pyx_v_multi); } - /* "nipy/labs/group/onesample.pyx":268 + /* "nipy/labs/group/onesample.pyx":278 * * # Delete local structures * fffpy_multi_iterator_delete(multi) # <<<<<<<<<<<<<< @@ -3178,7 +3185,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_4pdf_fit_mfx(CYTHON_UNUS */ fffpy_multi_iterator_delete(__pyx_v_multi); - /* "nipy/labs/group/onesample.pyx":269 + /* "nipy/labs/group/onesample.pyx":279 * # Delete local structures * fffpy_multi_iterator_delete(multi) * fff_onesample_stat_mfx_delete(stat) # <<<<<<<<<<<<<< @@ -3187,7 +3194,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_4pdf_fit_mfx(CYTHON_UNUS */ fff_onesample_stat_mfx_delete(__pyx_v_stat); - /* "nipy/labs/group/onesample.pyx":272 + /* "nipy/labs/group/onesample.pyx":282 * * # Return * return W, Z # <<<<<<<<<<<<<< @@ -3195,7 +3202,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_4pdf_fit_mfx(CYTHON_UNUS * */ __Pyx_XDECREF(__pyx_r); - __pyx_t_4 = PyTuple_New(2); if (unlikely(!__pyx_t_4)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 272; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_4 = PyTuple_New(2); if (unlikely(!__pyx_t_4)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 282; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_4); __Pyx_INCREF(__pyx_v_W); PyTuple_SET_ITEM(__pyx_t_4, 0, __pyx_v_W); 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+static PyObject *__pyx_pw_4nipy_4labs_5group_9onesample_9pdf_fit_gmfx(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds) { PyArrayObject *__pyx_v_Y = 0; PyArrayObject *__pyx_v_V = 0; int __pyx_v_axis; @@ -3280,7 +3287,7 @@ static PyObject *__pyx_pw_4nipy_4labs_5group_9onesample_7pdf_fit_gmfx(PyObject * case 1: if (likely((values[1] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_V)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("pdf_fit_gmfx", 0, 2, 6, 1); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 275; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("pdf_fit_gmfx", 0, 2, 6, 1); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 285; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } case 2: if (kw_args > 0) { @@ -3304,7 +3311,7 @@ static PyObject *__pyx_pw_4nipy_4labs_5group_9onesample_7pdf_fit_gmfx(PyObject * } } if (unlikely(kw_args > 0)) { - if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "pdf_fit_gmfx") < 0)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 275; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "pdf_fit_gmfx") < 0)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 285; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } else { switch (PyTuple_GET_SIZE(__pyx_args)) { @@ -3321,37 +3328,37 @@ static PyObject *__pyx_pw_4nipy_4labs_5group_9onesample_7pdf_fit_gmfx(PyObject * __pyx_v_Y = ((PyArrayObject *)values[0]); __pyx_v_V = ((PyArrayObject *)values[1]); if (values[2]) { - __pyx_v_axis = __Pyx_PyInt_As_int(values[2]); if (unlikely((__pyx_v_axis == (int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 275; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_axis = __Pyx_PyInt_As_int(values[2]); if (unlikely((__pyx_v_axis == (int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 285; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } else { __pyx_v_axis = ((int)0); } if (values[3]) { - __pyx_v_niter = __Pyx_PyInt_As_int(values[3]); if (unlikely((__pyx_v_niter == (int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 275; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_niter = __Pyx_PyInt_As_int(values[3]); if (unlikely((__pyx_v_niter == (int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 285; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } else { __pyx_v_niter = ((int)5); } if (values[4]) { - __pyx_v_constraint = __Pyx_PyInt_As_int(values[4]); if (unlikely((__pyx_v_constraint == (int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 275; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_constraint = __Pyx_PyInt_As_int(values[4]); if (unlikely((__pyx_v_constraint == (int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 285; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } else { __pyx_v_constraint = ((int)0); } if (values[5]) { - __pyx_v_base = __pyx_PyFloat_AsDouble(values[5]); if (unlikely((__pyx_v_base == (double)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 275; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_base = __pyx_PyFloat_AsDouble(values[5]); if (unlikely((__pyx_v_base == (double)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 285; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } else { __pyx_v_base = ((double)0.0); } } goto __pyx_L4_argument_unpacking_done; __pyx_L5_argtuple_error:; - __Pyx_RaiseArgtupleInvalid("pdf_fit_gmfx", 0, 2, 6, PyTuple_GET_SIZE(__pyx_args)); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 275; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("pdf_fit_gmfx", 0, 2, 6, PyTuple_GET_SIZE(__pyx_args)); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 285; __pyx_clineno = __LINE__; goto __pyx_L3_error;} __pyx_L3_error:; __Pyx_AddTraceback("nipy.labs.group.onesample.pdf_fit_gmfx", __pyx_clineno, __pyx_lineno, __pyx_filename); __Pyx_RefNannyFinishContext(); return NULL; __pyx_L4_argument_unpacking_done:; - if (unlikely(!__Pyx_ArgTypeTest(((PyObject *)__pyx_v_Y), __pyx_ptype_5numpy_ndarray, 1, "Y", 0))) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 275; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - if (unlikely(!__Pyx_ArgTypeTest(((PyObject *)__pyx_v_V), __pyx_ptype_5numpy_ndarray, 1, "V", 0))) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 275; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __pyx_r = __pyx_pf_4nipy_4labs_5group_9onesample_6pdf_fit_gmfx(__pyx_self, __pyx_v_Y, __pyx_v_V, __pyx_v_axis, __pyx_v_niter, __pyx_v_constraint, __pyx_v_base); + if (unlikely(!__Pyx_ArgTypeTest(((PyObject *)__pyx_v_Y), __pyx_ptype_5numpy_ndarray, 1, "Y", 0))) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 285; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (unlikely(!__Pyx_ArgTypeTest(((PyObject *)__pyx_v_V), __pyx_ptype_5numpy_ndarray, 1, "V", 0))) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 285; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_r = __pyx_pf_4nipy_4labs_5group_9onesample_8pdf_fit_gmfx(__pyx_self, __pyx_v_Y, __pyx_v_V, __pyx_v_axis, __pyx_v_niter, __pyx_v_constraint, __pyx_v_base); /* function exit code */ goto __pyx_L0; @@ -3362,7 +3369,7 @@ static PyObject *__pyx_pw_4nipy_4labs_5group_9onesample_7pdf_fit_gmfx(PyObject * return __pyx_r; } -static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_6pdf_fit_gmfx(CYTHON_UNUSED PyObject *__pyx_self, PyArrayObject *__pyx_v_Y, PyArrayObject *__pyx_v_V, int __pyx_v_axis, int __pyx_v_niter, int __pyx_v_constraint, double __pyx_v_base) { +static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_8pdf_fit_gmfx(CYTHON_UNUSED PyObject *__pyx_self, PyArrayObject *__pyx_v_Y, PyArrayObject *__pyx_v_V, int __pyx_v_axis, int __pyx_v_niter, int __pyx_v_constraint, double __pyx_v_base) { fff_vector *__pyx_v_y; fff_vector *__pyx_v_v; fff_vector *__pyx_v_mu; @@ -3387,7 +3394,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_6pdf_fit_gmfx(CYTHON_UNU int __pyx_clineno = 0; __Pyx_RefNannySetupContext("pdf_fit_gmfx", 0); - /* "nipy/labs/group/onesample.pyx":284 + /* "nipy/labs/group/onesample.pyx":297 * cdef fff_onesample_stat_mfx* stat * cdef fffpy_multi_iterator* multi * cdef int n = Y.shape[axis] # <<<<<<<<<<<<<< @@ -3396,84 +3403,84 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_6pdf_fit_gmfx(CYTHON_UNU */ __pyx_v_n = (__pyx_v_Y->dimensions[__pyx_v_axis]); 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- /* "nipy/labs/group/onesample.pyx":294 + /* "nipy/labs/group/onesample.pyx":307 * # Create local structure * stat = fff_onesample_stat_mfx_new(n, FFF_ONESAMPLE_STUDENT_MFX, base) * stat.niter = niter # <<<<<<<<<<<<<< @@ -3491,7 +3498,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_6pdf_fit_gmfx(CYTHON_UNU */ __pyx_v_stat->niter = __pyx_v_niter; - /* "nipy/labs/group/onesample.pyx":295 + /* "nipy/labs/group/onesample.pyx":308 * stat = fff_onesample_stat_mfx_new(n, FFF_ONESAMPLE_STUDENT_MFX, base) * stat.niter = niter * stat.constraint = constraint # <<<<<<<<<<<<<< @@ -3500,7 +3507,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_6pdf_fit_gmfx(CYTHON_UNU */ __pyx_v_stat->constraint = __pyx_v_constraint; - /* "nipy/labs/group/onesample.pyx":298 + /* "nipy/labs/group/onesample.pyx":311 * * # Multi-iterator * multi = fffpy_multi_iterator_new(4, axis, Y, V, MU, S2) # <<<<<<<<<<<<<< @@ -3509,7 +3516,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_6pdf_fit_gmfx(CYTHON_UNU */ __pyx_v_multi = fffpy_multi_iterator_new(4, __pyx_v_axis, ((void *)__pyx_v_Y), ((void *)__pyx_v_V), ((void *)__pyx_v_MU), ((void *)__pyx_v_S2)); - /* "nipy/labs/group/onesample.pyx":301 + /* "nipy/labs/group/onesample.pyx":314 * * # Create views on nd-arrays * y = multi.vector[0] # <<<<<<<<<<<<<< @@ -3518,7 +3525,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_6pdf_fit_gmfx(CYTHON_UNU */ __pyx_v_y = (__pyx_v_multi->vector[0]); - /* "nipy/labs/group/onesample.pyx":302 + /* "nipy/labs/group/onesample.pyx":315 * # Create views on nd-arrays * y = multi.vector[0] * v = multi.vector[1] # <<<<<<<<<<<<<< @@ -3527,7 +3534,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_6pdf_fit_gmfx(CYTHON_UNU */ __pyx_v_v = (__pyx_v_multi->vector[1]); - /* "nipy/labs/group/onesample.pyx":303 + /* "nipy/labs/group/onesample.pyx":316 * y = multi.vector[0] * v = multi.vector[1] * mu = multi.vector[2] # <<<<<<<<<<<<<< @@ -3536,7 +3543,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_6pdf_fit_gmfx(CYTHON_UNU */ __pyx_v_mu = (__pyx_v_multi->vector[2]); - /* "nipy/labs/group/onesample.pyx":304 + /* "nipy/labs/group/onesample.pyx":317 * v = multi.vector[1] * mu = multi.vector[2] * s2 = multi.vector[3] # <<<<<<<<<<<<<< @@ -3545,7 +3552,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_6pdf_fit_gmfx(CYTHON_UNU */ __pyx_v_s2 = (__pyx_v_multi->vector[3]); - /* "nipy/labs/group/onesample.pyx":307 + /* "nipy/labs/group/onesample.pyx":320 * * # Loop * while(multi.index < multi.size): # <<<<<<<<<<<<<< @@ -3556,7 +3563,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_6pdf_fit_gmfx(CYTHON_UNU __pyx_t_6 = ((__pyx_v_multi->index < __pyx_v_multi->size) != 0); if (!__pyx_t_6) break; - /* "nipy/labs/group/onesample.pyx":308 + /* "nipy/labs/group/onesample.pyx":321 * # Loop * while(multi.index < multi.size): * fff_onesample_stat_gmfx_pdf_fit(mu.data, s2.data, stat, y, v) # <<<<<<<<<<<<<< @@ -3565,7 +3572,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_6pdf_fit_gmfx(CYTHON_UNU */ fff_onesample_stat_gmfx_pdf_fit(__pyx_v_mu->data, __pyx_v_s2->data, __pyx_v_stat, __pyx_v_y, __pyx_v_v); - /* "nipy/labs/group/onesample.pyx":309 + /* "nipy/labs/group/onesample.pyx":322 * while(multi.index < multi.size): * fff_onesample_stat_gmfx_pdf_fit(mu.data, s2.data, stat, y, v) * fffpy_multi_iterator_update(multi) # <<<<<<<<<<<<<< @@ -3575,7 +3582,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_6pdf_fit_gmfx(CYTHON_UNU fffpy_multi_iterator_update(__pyx_v_multi); } - /* "nipy/labs/group/onesample.pyx":313 + /* "nipy/labs/group/onesample.pyx":326 * * # Delete local structures * fffpy_multi_iterator_delete(multi) # <<<<<<<<<<<<<< @@ -3584,7 +3591,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_6pdf_fit_gmfx(CYTHON_UNU */ fffpy_multi_iterator_delete(__pyx_v_multi); - /* "nipy/labs/group/onesample.pyx":314 + /* "nipy/labs/group/onesample.pyx":327 * # Delete local structures * fffpy_multi_iterator_delete(multi) * fff_onesample_stat_mfx_delete(stat) # <<<<<<<<<<<<<< @@ -3593,7 +3600,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_6pdf_fit_gmfx(CYTHON_UNU */ fff_onesample_stat_mfx_delete(__pyx_v_stat); - /* "nipy/labs/group/onesample.pyx":317 + /* "nipy/labs/group/onesample.pyx":330 * * # Return * return MU, S2 # <<<<<<<<<<<<<< @@ -3601,7 +3608,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9onesample_6pdf_fit_gmfx(CYTHON_UNU * */ __Pyx_XDECREF(__pyx_r); - __pyx_t_4 = PyTuple_New(2); if (unlikely(!__pyx_t_4)) {__pyx_filename = __pyx_f[0]; 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__pyx_lineno = 70; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; /* "nipy/labs/group/onesample.pyx":71 * # Stat dictionary @@ -6248,10 +6289,10 @@ PyMODINIT_FUNC PyInit_onesample(void) * 'student': FFF_ONESAMPLE_STUDENT, * 'laplace': FFF_ONESAMPLE_LAPLACE, */ - __pyx_t_2 = PyInt_FromLong(FFF_ONESAMPLE_EMPIRICAL_MEDIAN); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 71; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_GOTREF(__pyx_t_2); - if (PyDict_SetItem(__pyx_t_1, __pyx_n_s_median, __pyx_t_2) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 70; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0; + __pyx_t_1 = PyInt_FromLong(FFF_ONESAMPLE_EMPIRICAL_MEDIAN); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 71; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_GOTREF(__pyx_t_1); + if (PyDict_SetItem(__pyx_t_2, __pyx_n_s_median, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 70; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; /* "nipy/labs/group/onesample.pyx":72 * stats = {'mean': FFF_ONESAMPLE_EMPIRICAL_MEAN, @@ -6260,10 +6301,10 @@ PyMODINIT_FUNC PyInit_onesample(void) * 'laplace': FFF_ONESAMPLE_LAPLACE, * 'tukey': FFF_ONESAMPLE_TUKEY, */ - __pyx_t_2 = PyInt_FromLong(FFF_ONESAMPLE_STUDENT); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 72; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_GOTREF(__pyx_t_2); - if (PyDict_SetItem(__pyx_t_1, __pyx_n_s_student, __pyx_t_2) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 70; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0; + __pyx_t_1 = PyInt_FromLong(FFF_ONESAMPLE_STUDENT); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 72; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_GOTREF(__pyx_t_1); + if (PyDict_SetItem(__pyx_t_2, __pyx_n_s_student, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 70; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; /* "nipy/labs/group/onesample.pyx":73 * 'median': FFF_ONESAMPLE_EMPIRICAL_MEDIAN, @@ -6272,10 +6313,10 @@ PyMODINIT_FUNC PyInit_onesample(void) * 'tukey': FFF_ONESAMPLE_TUKEY, * 'sign': FFF_ONESAMPLE_SIGN_STAT, */ - __pyx_t_2 = PyInt_FromLong(FFF_ONESAMPLE_LAPLACE); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 73; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_GOTREF(__pyx_t_2); - if (PyDict_SetItem(__pyx_t_1, __pyx_n_s_laplace, __pyx_t_2) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 70; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0; + __pyx_t_1 = PyInt_FromLong(FFF_ONESAMPLE_LAPLACE); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 73; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_GOTREF(__pyx_t_1); + if (PyDict_SetItem(__pyx_t_2, __pyx_n_s_laplace, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 70; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; /* "nipy/labs/group/onesample.pyx":74 * 'student': FFF_ONESAMPLE_STUDENT, @@ -6284,10 +6325,10 @@ PyMODINIT_FUNC PyInit_onesample(void) * 'sign': FFF_ONESAMPLE_SIGN_STAT, * 'wilcoxon': FFF_ONESAMPLE_WILCOXON, */ - __pyx_t_2 = PyInt_FromLong(FFF_ONESAMPLE_TUKEY); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 74; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_GOTREF(__pyx_t_2); - if (PyDict_SetItem(__pyx_t_1, __pyx_n_s_tukey, __pyx_t_2) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 70; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0; + __pyx_t_1 = PyInt_FromLong(FFF_ONESAMPLE_TUKEY); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 74; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_GOTREF(__pyx_t_1); + if (PyDict_SetItem(__pyx_t_2, __pyx_n_s_tukey, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 70; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; /* "nipy/labs/group/onesample.pyx":75 * 'laplace': FFF_ONESAMPLE_LAPLACE, @@ -6296,10 +6337,10 @@ PyMODINIT_FUNC PyInit_onesample(void) * 'wilcoxon': FFF_ONESAMPLE_WILCOXON, * 'elr': FFF_ONESAMPLE_ELR, */ - __pyx_t_2 = PyInt_FromLong(FFF_ONESAMPLE_SIGN_STAT); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 75; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_GOTREF(__pyx_t_2); - if (PyDict_SetItem(__pyx_t_1, __pyx_n_s_sign, __pyx_t_2) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 70; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0; + __pyx_t_1 = PyInt_FromLong(FFF_ONESAMPLE_SIGN_STAT); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 75; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_GOTREF(__pyx_t_1); + if (PyDict_SetItem(__pyx_t_2, __pyx_n_s_sign, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 70; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; /* "nipy/labs/group/onesample.pyx":76 * 'tukey': FFF_ONESAMPLE_TUKEY, @@ -6308,10 +6349,10 @@ PyMODINIT_FUNC PyInit_onesample(void) * 'elr': FFF_ONESAMPLE_ELR, * 'grubb': FFF_ONESAMPLE_GRUBB, */ - __pyx_t_2 = PyInt_FromLong(FFF_ONESAMPLE_WILCOXON); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 76; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_GOTREF(__pyx_t_2); - if (PyDict_SetItem(__pyx_t_1, __pyx_n_s_wilcoxon, __pyx_t_2) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 70; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0; + __pyx_t_1 = PyInt_FromLong(FFF_ONESAMPLE_WILCOXON); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 76; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_GOTREF(__pyx_t_1); + if (PyDict_SetItem(__pyx_t_2, __pyx_n_s_wilcoxon, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 70; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; /* "nipy/labs/group/onesample.pyx":77 * 'sign': FFF_ONESAMPLE_SIGN_STAT, @@ -6320,10 +6361,10 @@ PyMODINIT_FUNC PyInit_onesample(void) * 'grubb': FFF_ONESAMPLE_GRUBB, * 'mean_mfx': FFF_ONESAMPLE_EMPIRICAL_MEAN_MFX, */ - __pyx_t_2 = PyInt_FromLong(FFF_ONESAMPLE_ELR); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 77; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_GOTREF(__pyx_t_2); - if (PyDict_SetItem(__pyx_t_1, __pyx_n_s_elr, __pyx_t_2) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 70; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0; + __pyx_t_1 = PyInt_FromLong(FFF_ONESAMPLE_ELR); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 77; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_GOTREF(__pyx_t_1); + if (PyDict_SetItem(__pyx_t_2, __pyx_n_s_elr, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 70; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; /* "nipy/labs/group/onesample.pyx":78 * 'wilcoxon': FFF_ONESAMPLE_WILCOXON, @@ -6332,10 +6373,10 @@ PyMODINIT_FUNC PyInit_onesample(void) * 'mean_mfx': FFF_ONESAMPLE_EMPIRICAL_MEAN_MFX, * 'median_mfx': FFF_ONESAMPLE_EMPIRICAL_MEDIAN_MFX, */ - __pyx_t_2 = PyInt_FromLong(FFF_ONESAMPLE_GRUBB); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 78; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_GOTREF(__pyx_t_2); - if (PyDict_SetItem(__pyx_t_1, __pyx_n_s_grubb, __pyx_t_2) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 70; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0; + __pyx_t_1 = PyInt_FromLong(FFF_ONESAMPLE_GRUBB); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 78; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_GOTREF(__pyx_t_1); + if (PyDict_SetItem(__pyx_t_2, __pyx_n_s_grubb, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 70; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; /* "nipy/labs/group/onesample.pyx":79 * 'elr': FFF_ONESAMPLE_ELR, @@ -6344,10 +6385,10 @@ PyMODINIT_FUNC PyInit_onesample(void) * 'median_mfx': FFF_ONESAMPLE_EMPIRICAL_MEDIAN_MFX, * 'mean_gauss_mfx': FFF_ONESAMPLE_GAUSSIAN_MEAN_MFX, */ - __pyx_t_2 = PyInt_FromLong(FFF_ONESAMPLE_EMPIRICAL_MEAN_MFX); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 79; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_GOTREF(__pyx_t_2); - if (PyDict_SetItem(__pyx_t_1, __pyx_n_s_mean_mfx, __pyx_t_2) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 70; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0; + __pyx_t_1 = PyInt_FromLong(FFF_ONESAMPLE_EMPIRICAL_MEAN_MFX); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 79; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_GOTREF(__pyx_t_1); + if (PyDict_SetItem(__pyx_t_2, __pyx_n_s_mean_mfx, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 70; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; /* "nipy/labs/group/onesample.pyx":80 * 'grubb': FFF_ONESAMPLE_GRUBB, @@ -6356,10 +6397,10 @@ PyMODINIT_FUNC PyInit_onesample(void) * 'mean_gauss_mfx': FFF_ONESAMPLE_GAUSSIAN_MEAN_MFX, * 'student_mfx': FFF_ONESAMPLE_STUDENT_MFX, */ - __pyx_t_2 = PyInt_FromLong(FFF_ONESAMPLE_EMPIRICAL_MEDIAN_MFX); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 80; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_GOTREF(__pyx_t_2); - if (PyDict_SetItem(__pyx_t_1, __pyx_n_s_median_mfx, __pyx_t_2) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 70; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0; + __pyx_t_1 = PyInt_FromLong(FFF_ONESAMPLE_EMPIRICAL_MEDIAN_MFX); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 80; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_GOTREF(__pyx_t_1); + if (PyDict_SetItem(__pyx_t_2, __pyx_n_s_median_mfx, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 70; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; /* "nipy/labs/group/onesample.pyx":81 * 'mean_mfx': FFF_ONESAMPLE_EMPIRICAL_MEAN_MFX, @@ -6368,10 +6409,10 @@ PyMODINIT_FUNC PyInit_onesample(void) * 'student_mfx': FFF_ONESAMPLE_STUDENT_MFX, * 'sign_mfx': FFF_ONESAMPLE_SIGN_STAT_MFX, */ - __pyx_t_2 = PyInt_FromLong(FFF_ONESAMPLE_GAUSSIAN_MEAN_MFX); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 81; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_GOTREF(__pyx_t_2); - if (PyDict_SetItem(__pyx_t_1, __pyx_n_s_mean_gauss_mfx, __pyx_t_2) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 70; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0; + __pyx_t_1 = PyInt_FromLong(FFF_ONESAMPLE_GAUSSIAN_MEAN_MFX); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 81; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_GOTREF(__pyx_t_1); + if (PyDict_SetItem(__pyx_t_2, __pyx_n_s_mean_gauss_mfx, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 70; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; /* "nipy/labs/group/onesample.pyx":82 * 'median_mfx': FFF_ONESAMPLE_EMPIRICAL_MEDIAN_MFX, @@ -6380,10 +6421,10 @@ PyMODINIT_FUNC PyInit_onesample(void) * 'sign_mfx': FFF_ONESAMPLE_SIGN_STAT_MFX, * 'wilcoxon_mfx': FFF_ONESAMPLE_WILCOXON_MFX, */ - __pyx_t_2 = PyInt_FromLong(FFF_ONESAMPLE_STUDENT_MFX); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 82; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_GOTREF(__pyx_t_2); - if (PyDict_SetItem(__pyx_t_1, __pyx_n_s_student_mfx, __pyx_t_2) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 70; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0; + __pyx_t_1 = PyInt_FromLong(FFF_ONESAMPLE_STUDENT_MFX); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 82; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_GOTREF(__pyx_t_1); + if (PyDict_SetItem(__pyx_t_2, __pyx_n_s_student_mfx, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 70; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; /* "nipy/labs/group/onesample.pyx":83 * 'mean_gauss_mfx': FFF_ONESAMPLE_GAUSSIAN_MEAN_MFX, @@ -6392,10 +6433,10 @@ PyMODINIT_FUNC PyInit_onesample(void) * 'wilcoxon_mfx': FFF_ONESAMPLE_WILCOXON_MFX, * 'elr_mfx': FFF_ONESAMPLE_ELR_MFX} */ - __pyx_t_2 = PyInt_FromLong(FFF_ONESAMPLE_SIGN_STAT_MFX); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 83; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_GOTREF(__pyx_t_2); - if (PyDict_SetItem(__pyx_t_1, __pyx_n_s_sign_mfx, __pyx_t_2) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 70; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0; + __pyx_t_1 = PyInt_FromLong(FFF_ONESAMPLE_SIGN_STAT_MFX); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 83; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_GOTREF(__pyx_t_1); + if (PyDict_SetItem(__pyx_t_2, __pyx_n_s_sign_mfx, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 70; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; /* "nipy/labs/group/onesample.pyx":84 * 'student_mfx': FFF_ONESAMPLE_STUDENT_MFX, @@ -6404,10 +6445,10 @@ PyMODINIT_FUNC PyInit_onesample(void) * 'elr_mfx': FFF_ONESAMPLE_ELR_MFX} * */ - __pyx_t_2 = PyInt_FromLong(FFF_ONESAMPLE_WILCOXON_MFX); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 84; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_GOTREF(__pyx_t_2); - if (PyDict_SetItem(__pyx_t_1, __pyx_n_s_wilcoxon_mfx, __pyx_t_2) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 70; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0; + __pyx_t_1 = PyInt_FromLong(FFF_ONESAMPLE_WILCOXON_MFX); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 84; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_GOTREF(__pyx_t_1); + if (PyDict_SetItem(__pyx_t_2, __pyx_n_s_wilcoxon_mfx, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 70; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; /* "nipy/labs/group/onesample.pyx":85 * 'sign_mfx': FFF_ONESAMPLE_SIGN_STAT_MFX, @@ -6416,12 +6457,12 @@ PyMODINIT_FUNC PyInit_onesample(void) * * */ - __pyx_t_2 = PyInt_FromLong(FFF_ONESAMPLE_ELR_MFX); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 85; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_GOTREF(__pyx_t_2); - if (PyDict_SetItem(__pyx_t_1, __pyx_n_s_elr_mfx, __pyx_t_2) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 70; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0; - if (PyDict_SetItem(__pyx_d, __pyx_n_s_stats, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 70; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = PyInt_FromLong(FFF_ONESAMPLE_ELR_MFX); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 85; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_GOTREF(__pyx_t_1); + if (PyDict_SetItem(__pyx_t_2, __pyx_n_s_elr_mfx, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 70; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; + if (PyDict_SetItem(__pyx_d, __pyx_n_s_stats, __pyx_t_2) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 70; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0; /* "nipy/labs/group/onesample.pyx":89 * @@ -6430,56 +6471,56 @@ PyMODINIT_FUNC PyInit_onesample(void) * int axis=0, ndarray Magics=None): * """ */ - __pyx_t_1 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_5group_9onesample_1stat, NULL, __pyx_n_s_nipy_labs_group_onesample); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 89; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_GOTREF(__pyx_t_1); - if (PyDict_SetItem(__pyx_d, __pyx_n_s_stat, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 89; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; + __pyx_t_2 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_5group_9onesample_3stat, NULL, __pyx_n_s_nipy_labs_group_onesample); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 89; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_GOTREF(__pyx_t_2); + if (PyDict_SetItem(__pyx_d, __pyx_n_s_stat, __pyx_t_2) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 89; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0; - /* "nipy/labs/group/onesample.pyx":158 + /* "nipy/labs/group/onesample.pyx":161 * * * def stat_mfx(ndarray Y, ndarray V, id='student_mfx', double base=0.0, # <<<<<<<<<<<<<< * int axis=0, ndarray Magics=None, unsigned int niter=5): * """ */ - __pyx_t_1 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_5group_9onesample_3stat_mfx, NULL, __pyx_n_s_nipy_labs_group_onesample); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 158; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_GOTREF(__pyx_t_1); - if (PyDict_SetItem(__pyx_d, __pyx_n_s_stat_mfx, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 158; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; + __pyx_t_2 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_5group_9onesample_5stat_mfx, NULL, __pyx_n_s_nipy_labs_group_onesample); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 161; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_GOTREF(__pyx_t_2); + if (PyDict_SetItem(__pyx_d, __pyx_n_s_stat_mfx, __pyx_t_2) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 161; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0; - /* "nipy/labs/group/onesample.pyx":231 + /* "nipy/labs/group/onesample.pyx":238 * * * def pdf_fit_mfx(ndarray Y, ndarray V, int axis=0, int niter=5, int constraint=0, double base=0.0): # <<<<<<<<<<<<<< * """ * (W, Z) = pdf_fit_mfx(data=Y, vardata=V, axis=0, niter=5, constraint=False, base=0.0). */ - __pyx_t_1 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_5group_9onesample_5pdf_fit_mfx, NULL, __pyx_n_s_nipy_labs_group_onesample); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 231; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_GOTREF(__pyx_t_1); - if (PyDict_SetItem(__pyx_d, __pyx_n_s_pdf_fit_mfx, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 231; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; + __pyx_t_2 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_5group_9onesample_7pdf_fit_mfx, NULL, __pyx_n_s_nipy_labs_group_onesample); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 238; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_GOTREF(__pyx_t_2); + if (PyDict_SetItem(__pyx_d, __pyx_n_s_pdf_fit_mfx, __pyx_t_2) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 238; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0; - /* "nipy/labs/group/onesample.pyx":275 + /* "nipy/labs/group/onesample.pyx":285 * * * def pdf_fit_gmfx(ndarray Y, ndarray V, int axis=0, int niter=5, int constraint=0, double base=0.0): # <<<<<<<<<<<<<< * """ * (MU, S2) = pdf_fit_gmfx(data=Y, vardata=V, axis=0, niter=5, constraint=False, base=0.0). */ - __pyx_t_1 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_5group_9onesample_7pdf_fit_gmfx, NULL, __pyx_n_s_nipy_labs_group_onesample); 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""" - cdef fff_vector *y, *t, *magics, *yp + cdef fff_vector *y + cdef fff_vector *t + cdef fff_vector *magics + cdef fff_vector *yp cdef fff_onesample_stat* stat cdef fff_onesample_stat_flag flag_stat = stats[id] cdef unsigned int n @@ -163,7 +166,11 @@ def stat_mfx(ndarray Y, ndarray V, id='student_mfx', double base=0.0, Compute a one-sample test statistic, with mixed-effect correction, over a number of deterministic or random permutations. """ - cdef fff_vector *y, *v, *t, *magics, *yp + cdef fff_vector *y + cdef fff_vector *v + cdef fff_vector *t + cdef fff_vector *magics + cdef fff_vector *yp cdef fff_onesample_stat_mfx* stat cdef fff_onesample_stat_flag flag_stat = stats[id] cdef int n @@ -234,7 +241,10 @@ def pdf_fit_mfx(ndarray Y, ndarray V, int axis=0, int niter=5, int constraint=0, Comments to follow. """ - cdef fff_vector *y, *v, *w, *z + cdef fff_vector *y + cdef fff_vector *v + cdef fff_vector *w + cdef fff_vector *z cdef fff_onesample_stat_mfx* stat cdef fffpy_multi_iterator* multi cdef int n = Y.shape[axis] @@ -278,7 +288,10 @@ def pdf_fit_gmfx(ndarray Y, ndarray V, int axis=0, int niter=5, int constraint=0 Comments to follow. """ - cdef fff_vector *y, *v, *mu, *s2 + cdef fff_vector *y + cdef fff_vector *v + cdef fff_vector *mu + cdef fff_vector *s2 cdef fff_onesample_stat_mfx* stat cdef fffpy_multi_iterator* multi cdef int n = Y.shape[axis] diff --git a/nipy/labs/group/twosample.c b/nipy/labs/group/twosample.c index 2d16d2ec99..2298fdf9f2 100644 --- a/nipy/labs/group/twosample.c +++ b/nipy/labs/group/twosample.c @@ -1,4 +1,4 @@ -/* Generated by Cython 0.20.1post0 (Debian 0.20.1+git90-g0e6e38e-1ubuntu2) on Mon Nov 10 15:44:59 2014 */ +/* Generated by Cython 0.20.1post0 (Debian 0.20.1+git90-g0e6e38e-1ubuntu2) on Mon Mar 30 14:01:51 2015 */ #define PY_SSIZE_T_CLEAN #ifndef CYTHON_USE_PYLONG_INTERNALS @@ -356,6 +356,8 @@ void __Pyx_call_destructor(T* x) { #include "fff_matrix.h" #include "fff_array.h" #include "fffpy.h" +#include "fff_blas.h" +#include "fff_lapack.h" #include "fff_twosample_stat.h" #ifdef _OPENMP #include @@ -1136,7 +1138,6 @@ static CYTHON_INLINE char *__pyx_f_5numpy__util_dtypestring(PyArray_Descr *, cha /* Module declarations from 'fff' */ /* Module declarations from 'nipy.labs.group.twosample' */ -static PyObject *__pyx_f_4nipy_4labs_5group_9twosample_fffpy_import_lapack(void); /*proto*/ #define __Pyx_MODULE_NAME "nipy.labs.group.twosample" int __pyx_module_is_main_nipy__labs__group__twosample = 0; @@ -1144,9 +1145,10 @@ int __pyx_module_is_main_nipy__labs__group__twosample = 0; static PyObject *__pyx_builtin_range; static PyObject *__pyx_builtin_ValueError; static PyObject *__pyx_builtin_RuntimeError; -static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_count_permutations(CYTHON_UNUSED PyObject *__pyx_self, unsigned int __pyx_v_n1, unsigned int __pyx_v_n2); /* proto */ -static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_2stat(CYTHON_UNUSED PyObject *__pyx_self, PyArrayObject *__pyx_v_Y1, PyArrayObject *__pyx_v_Y2, PyObject *__pyx_v_id, int __pyx_v_axis, PyArrayObject *__pyx_v_Magics); /* proto */ -static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_4stat_mfx(CYTHON_UNUSED PyObject *__pyx_self, PyArrayObject *__pyx_v_Y1, PyArrayObject *__pyx_v_V1, PyArrayObject *__pyx_v_Y2, PyArrayObject *__pyx_v_V2, PyObject *__pyx_v_id, int __pyx_v_axis, PyArrayObject *__pyx_v_Magics, unsigned int __pyx_v_niter); /* proto */ +static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_fffpy_import_lapack(CYTHON_UNUSED PyObject *__pyx_self); /* proto */ +static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_2count_permutations(CYTHON_UNUSED PyObject *__pyx_self, unsigned int __pyx_v_n1, unsigned int __pyx_v_n2); /* proto */ +static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_4stat(CYTHON_UNUSED PyObject *__pyx_self, PyArrayObject *__pyx_v_Y1, PyArrayObject *__pyx_v_Y2, PyObject *__pyx_v_id, int __pyx_v_axis, PyArrayObject *__pyx_v_Magics); /* proto */ +static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_6stat_mfx(CYTHON_UNUSED PyObject *__pyx_self, PyArrayObject *__pyx_v_Y1, PyArrayObject *__pyx_v_V1, PyArrayObject *__pyx_v_Y2, PyArrayObject *__pyx_v_V2, PyObject *__pyx_v_id, int __pyx_v_axis, PyArrayObject *__pyx_v_Magics, unsigned int __pyx_v_niter); /* proto */ static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, Py_buffer *__pyx_v_info, int __pyx_v_flags); /* proto */ static void __pyx_pf_5numpy_7ndarray_2__releasebuffer__(PyArrayObject *__pyx_v_self, Py_buffer *__pyx_v_info); /* proto */ static char __pyx_k_B[] = "B"; @@ -1224,6 +1226,7 @@ static char __pyx_k_dgeqrf[] = "dgeqrf"; static char __pyx_k_dgesdd[] = "dgesdd"; static char __pyx_k_dgetrf[] = "dgetrf"; static char __pyx_k_dpotrf[] = "dpotrf"; +static char __pyx_k_dpotrs[] = "dpotrs"; static char __pyx_k_drotmg[] = "drotmg"; static char __pyx_k_dsyr2k[] = "dsyr2k"; static char __pyx_k_idamax[] = "idamax"; @@ -1239,12 +1242,14 @@ static char __pyx_k_ValueError[] = "ValueError"; static char __pyx_k_student_mfx[] = "student_mfx"; static char __pyx_k_RuntimeError[] = "RuntimeError"; static char __pyx_k_count_permutations[] = "count_permutations"; +static char __pyx_k_fffpy_import_lapack[] = "fffpy_import_lapack"; static char __pyx_k_scipy_linalg__fblas[] = "scipy.linalg._fblas"; static char __pyx_k_scipy_linalg__flapack[] = "scipy.linalg._flapack"; static char __pyx_k_nipy_labs_group_twosample[] = "nipy.labs.group.twosample"; static char __pyx_k_ndarray_is_not_C_contiguous[] = "ndarray is not C contiguous"; static char __pyx_k_Routines_for_massively_univaria[] = "\nRoutines for massively univariate random-effect and mixed-effect\nanalysis. Two-sample case.\n\nAuthor: Alexis Roche, 2008.\n"; static char __pyx_k_home_roche_git_nipy_nipy_labs_g[] = "/home/roche/git/nipy/nipy/labs/group/twosample.pyx"; +static char __pyx_k_lib_fff_python_wrapper_fffpy_im[] = "../../../lib/fff_python_wrapper/fffpy_import_lapack.pxi"; static char __pyx_k_unknown_dtype_code_in_numpy_pxd[] = "unknown dtype code in numpy.pxd (%d)"; static char __pyx_k_Format_string_allocated_too_shor[] = "Format string allocated too short, see comment in numpy.pxd"; static char __pyx_k_Non_native_byte_order_not_suppor[] = "Non-native byte order not supported"; @@ -1278,6 +1283,7 @@ static PyObject *__pyx_n_s_dgetrf; static PyObject *__pyx_n_s_dims; static PyObject *__pyx_n_s_dnrm2; static PyObject *__pyx_n_s_dpotrf; +static PyObject *__pyx_n_s_dpotrs; static PyObject *__pyx_n_s_drot; static PyObject *__pyx_n_s_drotg; static PyObject *__pyx_n_s_drotm; @@ -1289,6 +1295,7 @@ static PyObject *__pyx_n_s_dsymv; static PyObject *__pyx_n_s_dsyr2k; static PyObject *__pyx_n_s_dsyrk; static PyObject *__pyx_n_s_dtrmv; +static PyObject *__pyx_n_s_fffpy_import_lapack; static PyObject *__pyx_n_s_flag_stat; static PyObject *__pyx_kp_s_home_roche_git_nipy_nipy_labs_g; static PyObject *__pyx_n_s_i; @@ -1298,6 +1305,7 @@ static PyObject *__pyx_n_s_idx; static PyObject *__pyx_n_s_idx1; static PyObject *__pyx_n_s_idx2; static PyObject *__pyx_n_s_import; +static PyObject *__pyx_kp_s_lib_fff_python_wrapper_fffpy_im; static PyObject *__pyx_n_s_magic; static PyObject *__pyx_n_s_magics; static PyObject *__pyx_n_s_main; @@ -1340,402 +1348,424 @@ static PyObject *__pyx_tuple__3; static PyObject *__pyx_tuple__4; static PyObject *__pyx_tuple__5; static PyObject *__pyx_tuple__6; -static PyObject *__pyx_tuple__7; -static PyObject *__pyx_tuple__9; -static PyObject *__pyx_tuple__11; -static PyObject *__pyx_codeobj__8; -static PyObject *__pyx_codeobj__10; -static PyObject *__pyx_codeobj__12; +static PyObject *__pyx_tuple__8; +static PyObject *__pyx_tuple__10; +static PyObject *__pyx_tuple__12; 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if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 99; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_2 = __Pyx_GetModuleGlobalName(__pyx_n_s_np); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 104; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_2); - __pyx_t_1 = __Pyx_PyObject_GetAttrStr(__pyx_t_2, __pyx_n_s_zeros); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 99; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = __Pyx_PyObject_GetAttrStr(__pyx_t_2, __pyx_n_s_zeros); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 104; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0; - __pyx_t_2 = PyTuple_New(1); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 99; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_2 = PyTuple_New(1); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 104; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_2); __Pyx_INCREF(__pyx_v_dims); PyTuple_SET_ITEM(__pyx_t_2, 0, __pyx_v_dims); __Pyx_GIVEREF(__pyx_v_dims); - __pyx_t_8 = __Pyx_PyObject_Call(__pyx_t_1, __pyx_t_2, NULL); if (unlikely(!__pyx_t_8)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 99; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_8 = __Pyx_PyObject_Call(__pyx_t_1, __pyx_t_2, NULL); if (unlikely(!__pyx_t_8)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 104; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_8); __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0; __pyx_v_T = __pyx_t_8; __pyx_t_8 = 0; - /* "nipy/labs/group/twosample.pyx":102 + /* "nipy/labs/group/twosample.pyx":107 * * # Create local structure * yp = fff_vector_new(n) # <<<<<<<<<<<<<< @@ -2220,7 +2227,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_2stat(CYTHON_UNUSED PyOb */ __pyx_v_yp = fff_vector_new(__pyx_v_n); - /* "nipy/labs/group/twosample.pyx":103 + /* "nipy/labs/group/twosample.pyx":108 * # Create local structure * yp = fff_vector_new(n) * idx1 = fff_array_new1d(FFF_UINT, n1) # <<<<<<<<<<<<<< @@ -2229,7 +2236,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_2stat(CYTHON_UNUSED PyOb */ __pyx_v_idx1 = fff_array_new1d(FFF_UINT, __pyx_v_n1); - /* "nipy/labs/group/twosample.pyx":104 + /* "nipy/labs/group/twosample.pyx":109 * yp = fff_vector_new(n) * idx1 = fff_array_new1d(FFF_UINT, n1) * idx2 = fff_array_new1d(FFF_UINT, n2) # <<<<<<<<<<<<<< @@ -2238,7 +2245,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_2stat(CYTHON_UNUSED PyOb */ __pyx_v_idx2 = fff_array_new1d(FFF_UINT, __pyx_v_n2); - /* "nipy/labs/group/twosample.pyx":105 + /* "nipy/labs/group/twosample.pyx":110 * idx1 = fff_array_new1d(FFF_UINT, n1) * idx2 = fff_array_new1d(FFF_UINT, n2) * stat = fff_twosample_stat_new(n1, n2, flag_stat) # <<<<<<<<<<<<<< @@ -2247,7 +2254,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_2stat(CYTHON_UNUSED PyOb */ __pyx_v_stat = fff_twosample_stat_new(__pyx_v_n1, __pyx_v_n2, __pyx_v_flag_stat); - /* "nipy/labs/group/twosample.pyx":108 + /* "nipy/labs/group/twosample.pyx":113 * * # Multi-iterator * multi = fffpy_multi_iterator_new(3, axis, Y1, Y2, T) # <<<<<<<<<<<<<< @@ -2256,7 +2263,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_2stat(CYTHON_UNUSED PyOb */ __pyx_v_multi = fffpy_multi_iterator_new(3, __pyx_v_axis, ((void *)__pyx_v_Y1), ((void *)__pyx_v_Y2), ((void *)__pyx_v_T)); - /* "nipy/labs/group/twosample.pyx":111 + /* "nipy/labs/group/twosample.pyx":116 * * # Vector views * y1 = multi.vector[0] # <<<<<<<<<<<<<< @@ -2265,7 +2272,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_2stat(CYTHON_UNUSED PyOb */ __pyx_v_y1 = (__pyx_v_multi->vector[0]); - /* "nipy/labs/group/twosample.pyx":112 + /* "nipy/labs/group/twosample.pyx":117 * # Vector views * y1 = multi.vector[0] * y2 = multi.vector[1] # <<<<<<<<<<<<<< @@ -2274,7 +2281,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_2stat(CYTHON_UNUSED PyOb */ __pyx_v_y2 = (__pyx_v_multi->vector[1]); - /* "nipy/labs/group/twosample.pyx":113 + /* "nipy/labs/group/twosample.pyx":118 * y1 = multi.vector[0] * y2 = multi.vector[1] * t = multi.vector[2] # <<<<<<<<<<<<<< @@ -2283,7 +2290,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_2stat(CYTHON_UNUSED PyOb */ __pyx_v_t = (__pyx_v_multi->vector[2]); - /* "nipy/labs/group/twosample.pyx":116 + /* "nipy/labs/group/twosample.pyx":121 * * # Loop * for simu from 0 <= simu < nsimu: # <<<<<<<<<<<<<< @@ -2293,7 +2300,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_2stat(CYTHON_UNUSED PyOb __pyx_t_9 = __pyx_v_nsimu; for (__pyx_v_simu = 0; __pyx_v_simu < __pyx_t_9; __pyx_v_simu++) { - /* "nipy/labs/group/twosample.pyx":119 + /* "nipy/labs/group/twosample.pyx":124 * * # Set the magic number * magic = magics.data[simu*magics.stride] # <<<<<<<<<<<<<< @@ -2302,7 +2309,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_2stat(CYTHON_UNUSED PyOb */ __pyx_v_magic = (__pyx_v_magics->data[(__pyx_v_simu * __pyx_v_magics->stride)]); - /* "nipy/labs/group/twosample.pyx":122 + /* "nipy/labs/group/twosample.pyx":127 * * # Generate permutation * nex = fff_twosample_permutation(idx1.data, # <<<<<<<<<<<<<< @@ -2311,7 +2318,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_2stat(CYTHON_UNUSED PyOb */ __pyx_v_nex = fff_twosample_permutation(((unsigned int *)__pyx_v_idx1->data), ((unsigned int *)__pyx_v_idx2->data), __pyx_v_n1, __pyx_v_n2, (&__pyx_v_magic)); - /* "nipy/labs/group/twosample.pyx":127 + /* "nipy/labs/group/twosample.pyx":132 * * # Reset the multi-iterator * fffpy_multi_iterator_reset(multi) # <<<<<<<<<<<<<< @@ -2320,7 +2327,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_2stat(CYTHON_UNUSED PyOb */ fffpy_multi_iterator_reset(__pyx_v_multi); - /* "nipy/labs/group/twosample.pyx":130 + /* "nipy/labs/group/twosample.pyx":135 * * # Perform the loop * idx = simu*t.stride # <<<<<<<<<<<<<< @@ -2329,7 +2336,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_2stat(CYTHON_UNUSED PyOb */ __pyx_v_idx = (__pyx_v_simu * __pyx_v_t->stride); - /* "nipy/labs/group/twosample.pyx":131 + /* "nipy/labs/group/twosample.pyx":136 * # Perform the loop * idx = simu*t.stride * while(multi.index < multi.size): # <<<<<<<<<<<<<< @@ -2340,7 +2347,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_2stat(CYTHON_UNUSED PyOb __pyx_t_4 = ((__pyx_v_multi->index < __pyx_v_multi->size) != 0); if (!__pyx_t_4) break; - /* "nipy/labs/group/twosample.pyx":132 + /* "nipy/labs/group/twosample.pyx":137 * idx = simu*t.stride * while(multi.index < multi.size): * fff_twosample_apply_permutation(yp, NULL, y1, NULL, y2, NULL, nex, # <<<<<<<<<<<<<< @@ -2349,7 +2356,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_2stat(CYTHON_UNUSED PyOb */ fff_twosample_apply_permutation(__pyx_v_yp, NULL, __pyx_v_y1, NULL, __pyx_v_y2, NULL, __pyx_v_nex, ((unsigned int *)__pyx_v_idx1->data), ((unsigned int *)__pyx_v_idx2->data)); - /* "nipy/labs/group/twosample.pyx":135 + /* "nipy/labs/group/twosample.pyx":140 * idx1.data, * idx2.data) * t.data[idx] = fff_twosample_stat_eval(stat, yp) # <<<<<<<<<<<<<< @@ -2358,7 +2365,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_2stat(CYTHON_UNUSED PyOb */ (__pyx_v_t->data[__pyx_v_idx]) = fff_twosample_stat_eval(__pyx_v_stat, __pyx_v_yp); - /* "nipy/labs/group/twosample.pyx":136 + /* "nipy/labs/group/twosample.pyx":141 * idx2.data) * t.data[idx] = fff_twosample_stat_eval(stat, yp) * fffpy_multi_iterator_update(multi) # <<<<<<<<<<<<<< @@ -2369,7 +2376,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_2stat(CYTHON_UNUSED PyOb } } - /* "nipy/labs/group/twosample.pyx":139 + /* "nipy/labs/group/twosample.pyx":144 * * # Delete local structures * fffpy_multi_iterator_delete(multi) # <<<<<<<<<<<<<< @@ -2378,7 +2385,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_2stat(CYTHON_UNUSED PyOb */ fffpy_multi_iterator_delete(__pyx_v_multi); - /* "nipy/labs/group/twosample.pyx":140 + /* "nipy/labs/group/twosample.pyx":145 * # Delete local structures * fffpy_multi_iterator_delete(multi) * fff_vector_delete(magics) # <<<<<<<<<<<<<< @@ -2387,7 +2394,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_2stat(CYTHON_UNUSED PyOb */ fff_vector_delete(__pyx_v_magics); - /* "nipy/labs/group/twosample.pyx":141 + /* "nipy/labs/group/twosample.pyx":146 * fffpy_multi_iterator_delete(multi) * fff_vector_delete(magics) * fff_vector_delete(yp) # <<<<<<<<<<<<<< @@ -2396,7 +2403,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_2stat(CYTHON_UNUSED PyOb */ fff_vector_delete(__pyx_v_yp); - /* "nipy/labs/group/twosample.pyx":142 + /* "nipy/labs/group/twosample.pyx":147 * fff_vector_delete(magics) * fff_vector_delete(yp) * fff_array_delete(idx1) # <<<<<<<<<<<<<< @@ -2405,7 +2412,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_2stat(CYTHON_UNUSED PyOb */ fff_array_delete(__pyx_v_idx1); - /* "nipy/labs/group/twosample.pyx":143 + /* "nipy/labs/group/twosample.pyx":148 * fff_vector_delete(yp) * fff_array_delete(idx1) * fff_array_delete(idx2) # <<<<<<<<<<<<<< @@ -2414,7 +2421,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_2stat(CYTHON_UNUSED PyOb */ fff_array_delete(__pyx_v_idx2); - /* "nipy/labs/group/twosample.pyx":144 + /* "nipy/labs/group/twosample.pyx":149 * fff_array_delete(idx1) * fff_array_delete(idx2) * fff_twosample_stat_delete(stat) # <<<<<<<<<<<<<< @@ -2423,7 +2430,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_2stat(CYTHON_UNUSED PyOb */ fff_twosample_stat_delete(__pyx_v_stat); - /* "nipy/labs/group/twosample.pyx":147 + /* "nipy/labs/group/twosample.pyx":152 * * # Return * return T # <<<<<<<<<<<<<< @@ -2458,7 +2465,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_2stat(CYTHON_UNUSED PyOb return __pyx_r; } -/* "nipy/labs/group/twosample.pyx":150 +/* "nipy/labs/group/twosample.pyx":155 * * * def stat_mfx(ndarray Y1, ndarray V1, ndarray Y2, ndarray V2, # <<<<<<<<<<<<<< @@ -2467,10 +2474,10 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_2stat(CYTHON_UNUSED PyOb */ /* Python wrapper */ -static PyObject *__pyx_pw_4nipy_4labs_5group_9twosample_5stat_mfx(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/ -static char __pyx_doc_4nipy_4labs_5group_9twosample_4stat_mfx[] = "\n T = stat(Y1, V1, Y2, V2, id='student', axis=0, magics=None, niter=5).\n \n Compute a two-sample test statistic (Y1>Y2) over a number of\n deterministic or random permutations.\n "; -static PyMethodDef __pyx_mdef_4nipy_4labs_5group_9twosample_5stat_mfx = {__Pyx_NAMESTR("stat_mfx"), (PyCFunction)__pyx_pw_4nipy_4labs_5group_9twosample_5stat_mfx, METH_VARARGS|METH_KEYWORDS, __Pyx_DOCSTR(__pyx_doc_4nipy_4labs_5group_9twosample_4stat_mfx)}; -static PyObject *__pyx_pw_4nipy_4labs_5group_9twosample_5stat_mfx(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds) { +static PyObject *__pyx_pw_4nipy_4labs_5group_9twosample_7stat_mfx(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/ +static char __pyx_doc_4nipy_4labs_5group_9twosample_6stat_mfx[] = "\n T = stat(Y1, V1, Y2, V2, id='student', axis=0, magics=None, niter=5).\n \n Compute a two-sample test statistic (Y1>Y2) over a number of\n deterministic or random permutations.\n "; +static PyMethodDef __pyx_mdef_4nipy_4labs_5group_9twosample_7stat_mfx = {__Pyx_NAMESTR("stat_mfx"), (PyCFunction)__pyx_pw_4nipy_4labs_5group_9twosample_7stat_mfx, METH_VARARGS|METH_KEYWORDS, __Pyx_DOCSTR(__pyx_doc_4nipy_4labs_5group_9twosample_6stat_mfx)}; +static PyObject *__pyx_pw_4nipy_4labs_5group_9twosample_7stat_mfx(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds) { PyArrayObject *__pyx_v_Y1 = 0; PyArrayObject *__pyx_v_V1 = 0; PyArrayObject *__pyx_v_Y2 = 0; @@ -2490,7 +2497,7 @@ static PyObject *__pyx_pw_4nipy_4labs_5group_9twosample_5stat_mfx(PyObject *__py PyObject* values[8] = {0,0,0,0,0,0,0,0}; values[4] = ((PyObject *)__pyx_n_s_student_mfx); - /* "nipy/labs/group/twosample.pyx":151 + /* "nipy/labs/group/twosample.pyx":156 * * def stat_mfx(ndarray Y1, ndarray V1, ndarray Y2, ndarray V2, * id='student_mfx', int axis=0, ndarray Magics=None, # <<<<<<<<<<<<<< @@ -2521,17 +2528,17 @@ static PyObject *__pyx_pw_4nipy_4labs_5group_9twosample_5stat_mfx(PyObject *__py case 1: if (likely((values[1] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_V1)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("stat_mfx", 0, 4, 8, 1); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 150; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("stat_mfx", 0, 4, 8, 1); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 155; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } case 2: if (likely((values[2] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_Y2)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("stat_mfx", 0, 4, 8, 2); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 150; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("stat_mfx", 0, 4, 8, 2); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 155; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } case 3: if (likely((values[3] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_V2)) != 0)) kw_args--; else { - __Pyx_RaiseArgtupleInvalid("stat_mfx", 0, 4, 8, 3); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 150; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("stat_mfx", 0, 4, 8, 3); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 155; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } case 4: if (kw_args > 0) { @@ -2555,7 +2562,7 @@ static PyObject *__pyx_pw_4nipy_4labs_5group_9twosample_5stat_mfx(PyObject *__py } } if (unlikely(kw_args > 0)) { - if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "stat_mfx") < 0)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 150; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "stat_mfx") < 0)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 155; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } } else { switch (PyTuple_GET_SIZE(__pyx_args)) { @@ -2577,33 +2584,33 @@ static PyObject *__pyx_pw_4nipy_4labs_5group_9twosample_5stat_mfx(PyObject *__py __pyx_v_V2 = ((PyArrayObject *)values[3]); __pyx_v_id = values[4]; if (values[5]) { - __pyx_v_axis = __Pyx_PyInt_As_int(values[5]); if (unlikely((__pyx_v_axis == (int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 151; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_axis = __Pyx_PyInt_As_int(values[5]); if (unlikely((__pyx_v_axis == (int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 156; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } else { __pyx_v_axis = ((int)0); } __pyx_v_Magics = ((PyArrayObject *)values[6]); if (values[7]) { - __pyx_v_niter = __Pyx_PyInt_As_unsigned_int(values[7]); if (unlikely((__pyx_v_niter == (unsigned int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 152; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __pyx_v_niter = __Pyx_PyInt_As_unsigned_int(values[7]); if (unlikely((__pyx_v_niter == (unsigned int)-1) && PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 157; __pyx_clineno = __LINE__; goto __pyx_L3_error;} } else { __pyx_v_niter = ((unsigned int)5); } } goto __pyx_L4_argument_unpacking_done; __pyx_L5_argtuple_error:; - __Pyx_RaiseArgtupleInvalid("stat_mfx", 0, 4, 8, PyTuple_GET_SIZE(__pyx_args)); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 150; __pyx_clineno = __LINE__; goto __pyx_L3_error;} + __Pyx_RaiseArgtupleInvalid("stat_mfx", 0, 4, 8, PyTuple_GET_SIZE(__pyx_args)); {__pyx_filename = __pyx_f[0]; __pyx_lineno = 155; __pyx_clineno = __LINE__; goto __pyx_L3_error;} __pyx_L3_error:; __Pyx_AddTraceback("nipy.labs.group.twosample.stat_mfx", __pyx_clineno, __pyx_lineno, __pyx_filename); __Pyx_RefNannyFinishContext(); return NULL; __pyx_L4_argument_unpacking_done:; - if (unlikely(!__Pyx_ArgTypeTest(((PyObject *)__pyx_v_Y1), __pyx_ptype_5numpy_ndarray, 1, "Y1", 0))) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 150; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - if (unlikely(!__Pyx_ArgTypeTest(((PyObject *)__pyx_v_V1), __pyx_ptype_5numpy_ndarray, 1, "V1", 0))) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 150; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - if (unlikely(!__Pyx_ArgTypeTest(((PyObject *)__pyx_v_Y2), __pyx_ptype_5numpy_ndarray, 1, "Y2", 0))) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 150; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - if (unlikely(!__Pyx_ArgTypeTest(((PyObject *)__pyx_v_V2), __pyx_ptype_5numpy_ndarray, 1, "V2", 0))) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 150; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - if (unlikely(!__Pyx_ArgTypeTest(((PyObject *)__pyx_v_Magics), __pyx_ptype_5numpy_ndarray, 1, "Magics", 0))) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 151; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __pyx_r = __pyx_pf_4nipy_4labs_5group_9twosample_4stat_mfx(__pyx_self, __pyx_v_Y1, __pyx_v_V1, __pyx_v_Y2, __pyx_v_V2, __pyx_v_id, __pyx_v_axis, __pyx_v_Magics, __pyx_v_niter); + if (unlikely(!__Pyx_ArgTypeTest(((PyObject *)__pyx_v_Y1), __pyx_ptype_5numpy_ndarray, 1, "Y1", 0))) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 155; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (unlikely(!__Pyx_ArgTypeTest(((PyObject *)__pyx_v_V1), __pyx_ptype_5numpy_ndarray, 1, "V1", 0))) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 155; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (unlikely(!__Pyx_ArgTypeTest(((PyObject *)__pyx_v_Y2), __pyx_ptype_5numpy_ndarray, 1, "Y2", 0))) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 155; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (unlikely(!__Pyx_ArgTypeTest(((PyObject *)__pyx_v_V2), __pyx_ptype_5numpy_ndarray, 1, "V2", 0))) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 155; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (unlikely(!__Pyx_ArgTypeTest(((PyObject *)__pyx_v_Magics), __pyx_ptype_5numpy_ndarray, 1, "Magics", 0))) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 156; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_r = __pyx_pf_4nipy_4labs_5group_9twosample_6stat_mfx(__pyx_self, __pyx_v_Y1, __pyx_v_V1, __pyx_v_Y2, __pyx_v_V2, __pyx_v_id, __pyx_v_axis, __pyx_v_Magics, __pyx_v_niter); - /* "nipy/labs/group/twosample.pyx":150 + /* "nipy/labs/group/twosample.pyx":155 * * * def stat_mfx(ndarray Y1, ndarray V1, ndarray Y2, ndarray V2, # <<<<<<<<<<<<<< @@ -2620,7 +2627,7 @@ static PyObject *__pyx_pw_4nipy_4labs_5group_9twosample_5stat_mfx(PyObject *__py return __pyx_r; 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if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 164; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = __Pyx_GetModuleGlobalName(__pyx_n_s_stats); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 177; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); - __pyx_t_2 = PyObject_GetItem(__pyx_t_1, __pyx_v_id); if (unlikely(__pyx_t_2 == NULL)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 164; __pyx_clineno = __LINE__; goto __pyx_L1_error;}; + __pyx_t_2 = PyObject_GetItem(__pyx_t_1, __pyx_v_id); if (unlikely(__pyx_t_2 == NULL)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 177; __pyx_clineno = __LINE__; goto __pyx_L1_error;}; __Pyx_GOTREF(__pyx_t_2); __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; - __pyx_t_3 = ((fff_twosample_stat_flag)PyInt_AsLong(__pyx_t_2)); if (unlikely(PyErr_Occurred())) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 164; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_3 = ((fff_twosample_stat_flag)PyInt_AsLong(__pyx_t_2)); 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- /* "nipy/labs/group/twosample.pyx":188 + /* "nipy/labs/group/twosample.pyx":201 * # Create local structure * yp = fff_vector_new(n) * vp = fff_vector_new(n) # <<<<<<<<<<<<<< @@ -2832,7 +2839,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_4stat_mfx(CYTHON_UNUSED */ __pyx_v_vp = fff_vector_new(__pyx_v_n); - /* "nipy/labs/group/twosample.pyx":189 + /* "nipy/labs/group/twosample.pyx":202 * yp = fff_vector_new(n) * vp = fff_vector_new(n) * idx1 = fff_array_new1d(FFF_UINT, n1) # <<<<<<<<<<<<<< @@ -2841,7 +2848,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_4stat_mfx(CYTHON_UNUSED */ __pyx_v_idx1 = fff_array_new1d(FFF_UINT, __pyx_v_n1); - /* "nipy/labs/group/twosample.pyx":190 + /* "nipy/labs/group/twosample.pyx":203 * vp = fff_vector_new(n) * idx1 = fff_array_new1d(FFF_UINT, n1) * idx2 = fff_array_new1d(FFF_UINT, n2) # <<<<<<<<<<<<<< @@ -2850,7 +2857,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_4stat_mfx(CYTHON_UNUSED */ __pyx_v_idx2 = fff_array_new1d(FFF_UINT, __pyx_v_n2); - /* "nipy/labs/group/twosample.pyx":191 + /* "nipy/labs/group/twosample.pyx":204 * idx1 = fff_array_new1d(FFF_UINT, n1) * idx2 = fff_array_new1d(FFF_UINT, n2) * stat = fff_twosample_stat_mfx_new(n1, n2, flag_stat) # <<<<<<<<<<<<<< @@ -2859,7 +2866,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_4stat_mfx(CYTHON_UNUSED */ __pyx_v_stat = fff_twosample_stat_mfx_new(__pyx_v_n1, __pyx_v_n2, __pyx_v_flag_stat); - /* "nipy/labs/group/twosample.pyx":192 + /* "nipy/labs/group/twosample.pyx":205 * idx2 = fff_array_new1d(FFF_UINT, n2) * stat = fff_twosample_stat_mfx_new(n1, n2, flag_stat) * stat.niter = niter # <<<<<<<<<<<<<< @@ -2868,7 +2875,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_4stat_mfx(CYTHON_UNUSED */ __pyx_v_stat->niter = __pyx_v_niter; - /* "nipy/labs/group/twosample.pyx":195 + /* "nipy/labs/group/twosample.pyx":208 * * # Multi-iterator * multi = fffpy_multi_iterator_new(5, axis, # <<<<<<<<<<<<<< @@ -2877,7 +2884,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_4stat_mfx(CYTHON_UNUSED */ __pyx_v_multi = fffpy_multi_iterator_new(5, __pyx_v_axis, ((void *)__pyx_v_Y1), ((void *)__pyx_v_V1), ((void *)__pyx_v_Y2), ((void *)__pyx_v_V2), ((void *)__pyx_v_T)); - /* "nipy/labs/group/twosample.pyx":201 + /* "nipy/labs/group/twosample.pyx":214 * * # Vector views * y1 = multi.vector[0] # <<<<<<<<<<<<<< @@ -2886,7 +2893,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_4stat_mfx(CYTHON_UNUSED */ __pyx_v_y1 = (__pyx_v_multi->vector[0]); - /* "nipy/labs/group/twosample.pyx":202 + /* "nipy/labs/group/twosample.pyx":215 * # Vector views * y1 = multi.vector[0] * v1 = multi.vector[1] # <<<<<<<<<<<<<< @@ -2895,7 +2902,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_4stat_mfx(CYTHON_UNUSED */ __pyx_v_v1 = (__pyx_v_multi->vector[1]); - /* "nipy/labs/group/twosample.pyx":203 + /* "nipy/labs/group/twosample.pyx":216 * y1 = multi.vector[0] * v1 = multi.vector[1] * y2 = multi.vector[2] # <<<<<<<<<<<<<< @@ -2904,7 +2911,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_4stat_mfx(CYTHON_UNUSED */ __pyx_v_y2 = (__pyx_v_multi->vector[2]); - /* "nipy/labs/group/twosample.pyx":204 + /* "nipy/labs/group/twosample.pyx":217 * v1 = multi.vector[1] * y2 = multi.vector[2] * v2 = multi.vector[3] # <<<<<<<<<<<<<< @@ -2913,7 +2920,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_4stat_mfx(CYTHON_UNUSED */ __pyx_v_v2 = (__pyx_v_multi->vector[3]); - /* "nipy/labs/group/twosample.pyx":205 + /* "nipy/labs/group/twosample.pyx":218 * y2 = multi.vector[2] * v2 = multi.vector[3] * t = multi.vector[4] # <<<<<<<<<<<<<< @@ -2922,7 +2929,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_4stat_mfx(CYTHON_UNUSED */ __pyx_v_t = (__pyx_v_multi->vector[4]); - /* "nipy/labs/group/twosample.pyx":208 + /* "nipy/labs/group/twosample.pyx":221 * * # Loop * for simu from 0 <= simu < nsimu: # <<<<<<<<<<<<<< @@ -2932,7 +2939,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_4stat_mfx(CYTHON_UNUSED __pyx_t_9 = __pyx_v_nsimu; for (__pyx_v_simu = 0; __pyx_v_simu < __pyx_t_9; __pyx_v_simu++) { - /* "nipy/labs/group/twosample.pyx":211 + /* "nipy/labs/group/twosample.pyx":224 * * # Set the magic number * magic = magics.data[simu*magics.stride] # <<<<<<<<<<<<<< @@ -2941,7 +2948,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_4stat_mfx(CYTHON_UNUSED */ __pyx_v_magic = (__pyx_v_magics->data[(__pyx_v_simu * __pyx_v_magics->stride)]); - /* "nipy/labs/group/twosample.pyx":214 + /* "nipy/labs/group/twosample.pyx":227 * * # Generate permutation * nex = fff_twosample_permutation(idx1.data, # <<<<<<<<<<<<<< @@ -2950,7 +2957,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_4stat_mfx(CYTHON_UNUSED */ __pyx_v_nex = fff_twosample_permutation(((unsigned int *)__pyx_v_idx1->data), ((unsigned int *)__pyx_v_idx2->data), __pyx_v_n1, __pyx_v_n2, (&__pyx_v_magic)); - /* "nipy/labs/group/twosample.pyx":219 + /* "nipy/labs/group/twosample.pyx":232 * * # Reset the multi-iterator * fffpy_multi_iterator_reset(multi) # <<<<<<<<<<<<<< @@ -2959,7 +2966,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_4stat_mfx(CYTHON_UNUSED */ fffpy_multi_iterator_reset(__pyx_v_multi); - /* "nipy/labs/group/twosample.pyx":222 + /* "nipy/labs/group/twosample.pyx":235 * * # Perform the loop * idx = simu*t.stride # <<<<<<<<<<<<<< @@ -2968,7 +2975,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_4stat_mfx(CYTHON_UNUSED */ __pyx_v_idx = (__pyx_v_simu * __pyx_v_t->stride); - /* "nipy/labs/group/twosample.pyx":223 + /* "nipy/labs/group/twosample.pyx":236 * # Perform the loop * idx = simu*t.stride * while(multi.index < multi.size): # <<<<<<<<<<<<<< @@ -2979,7 +2986,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_4stat_mfx(CYTHON_UNUSED __pyx_t_4 = ((__pyx_v_multi->index < __pyx_v_multi->size) != 0); if (!__pyx_t_4) break; - /* "nipy/labs/group/twosample.pyx":224 + /* "nipy/labs/group/twosample.pyx":237 * idx = simu*t.stride * while(multi.index < multi.size): * fff_twosample_apply_permutation(yp, vp, y1, v1, y2, v2, nex, # <<<<<<<<<<<<<< @@ -2988,7 +2995,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_4stat_mfx(CYTHON_UNUSED */ fff_twosample_apply_permutation(__pyx_v_yp, __pyx_v_vp, __pyx_v_y1, __pyx_v_v1, __pyx_v_y2, __pyx_v_v2, __pyx_v_nex, ((unsigned int *)__pyx_v_idx1->data), ((unsigned int *)__pyx_v_idx2->data)); - /* "nipy/labs/group/twosample.pyx":227 + /* "nipy/labs/group/twosample.pyx":240 * idx1.data, * idx2.data) * t.data[idx] = fff_twosample_stat_mfx_eval(stat, yp, vp) # <<<<<<<<<<<<<< @@ -2997,7 +3004,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_4stat_mfx(CYTHON_UNUSED */ (__pyx_v_t->data[__pyx_v_idx]) = fff_twosample_stat_mfx_eval(__pyx_v_stat, __pyx_v_yp, __pyx_v_vp); - /* "nipy/labs/group/twosample.pyx":228 + /* "nipy/labs/group/twosample.pyx":241 * idx2.data) * t.data[idx] = fff_twosample_stat_mfx_eval(stat, yp, vp) * fffpy_multi_iterator_update(multi) # <<<<<<<<<<<<<< @@ -3008,7 +3015,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_4stat_mfx(CYTHON_UNUSED } } - /* "nipy/labs/group/twosample.pyx":231 + /* "nipy/labs/group/twosample.pyx":244 * * # Delete local structures * fffpy_multi_iterator_delete(multi) # <<<<<<<<<<<<<< @@ -3017,7 +3024,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_4stat_mfx(CYTHON_UNUSED */ fffpy_multi_iterator_delete(__pyx_v_multi); - /* "nipy/labs/group/twosample.pyx":232 + /* "nipy/labs/group/twosample.pyx":245 * # Delete local structures * fffpy_multi_iterator_delete(multi) * fff_vector_delete(magics) # <<<<<<<<<<<<<< @@ -3026,7 +3033,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_4stat_mfx(CYTHON_UNUSED */ fff_vector_delete(__pyx_v_magics); - /* "nipy/labs/group/twosample.pyx":233 + /* "nipy/labs/group/twosample.pyx":246 * fffpy_multi_iterator_delete(multi) * fff_vector_delete(magics) * fff_vector_delete(yp) # <<<<<<<<<<<<<< @@ -3035,7 +3042,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_4stat_mfx(CYTHON_UNUSED */ fff_vector_delete(__pyx_v_yp); - /* "nipy/labs/group/twosample.pyx":234 + /* "nipy/labs/group/twosample.pyx":247 * fff_vector_delete(magics) * fff_vector_delete(yp) * fff_vector_delete(vp) # <<<<<<<<<<<<<< @@ -3044,7 +3051,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_4stat_mfx(CYTHON_UNUSED */ fff_vector_delete(__pyx_v_vp); - /* "nipy/labs/group/twosample.pyx":235 + /* "nipy/labs/group/twosample.pyx":248 * fff_vector_delete(yp) * fff_vector_delete(vp) * fff_array_delete(idx1) # <<<<<<<<<<<<<< @@ -3053,7 +3060,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_4stat_mfx(CYTHON_UNUSED */ fff_array_delete(__pyx_v_idx1); - /* "nipy/labs/group/twosample.pyx":236 + /* "nipy/labs/group/twosample.pyx":249 * fff_vector_delete(vp) * fff_array_delete(idx1) * fff_array_delete(idx2) # <<<<<<<<<<<<<< @@ -3062,7 +3069,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_4stat_mfx(CYTHON_UNUSED */ fff_array_delete(__pyx_v_idx2); - /* "nipy/labs/group/twosample.pyx":237 + /* "nipy/labs/group/twosample.pyx":250 * fff_array_delete(idx1) * fff_array_delete(idx2) * fff_twosample_stat_mfx_delete(stat) # <<<<<<<<<<<<<< @@ -3071,7 +3078,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_4stat_mfx(CYTHON_UNUSED */ fff_twosample_stat_mfx_delete(__pyx_v_stat); - /* "nipy/labs/group/twosample.pyx":240 + /* "nipy/labs/group/twosample.pyx":253 * * # Return * return T # <<<<<<<<<<<<<< @@ -3081,7 +3088,7 @@ static PyObject *__pyx_pf_4nipy_4labs_5group_9twosample_4stat_mfx(CYTHON_UNUSED __pyx_r = __pyx_v_T; goto __pyx_L0; - /* "nipy/labs/group/twosample.pyx":150 + /* "nipy/labs/group/twosample.pyx":155 * * * def stat_mfx(ndarray Y1, ndarray V1, ndarray Y2, ndarray V2, # <<<<<<<<<<<<<< @@ -5137,6 +5144,7 @@ static __Pyx_StringTabEntry __pyx_string_tab[] = { {&__pyx_n_s_dims, __pyx_k_dims, sizeof(__pyx_k_dims), 0, 0, 1, 1}, {&__pyx_n_s_dnrm2, __pyx_k_dnrm2, sizeof(__pyx_k_dnrm2), 0, 0, 1, 1}, {&__pyx_n_s_dpotrf, __pyx_k_dpotrf, sizeof(__pyx_k_dpotrf), 0, 0, 1, 1}, + {&__pyx_n_s_dpotrs, __pyx_k_dpotrs, sizeof(__pyx_k_dpotrs), 0, 0, 1, 1}, {&__pyx_n_s_drot, __pyx_k_drot, sizeof(__pyx_k_drot), 0, 0, 1, 1}, {&__pyx_n_s_drotg, __pyx_k_drotg, sizeof(__pyx_k_drotg), 0, 0, 1, 1}, {&__pyx_n_s_drotm, __pyx_k_drotm, sizeof(__pyx_k_drotm), 0, 0, 1, 1}, @@ -5148,6 +5156,7 @@ static __Pyx_StringTabEntry __pyx_string_tab[] = { {&__pyx_n_s_dsyr2k, __pyx_k_dsyr2k, sizeof(__pyx_k_dsyr2k), 0, 0, 1, 1}, {&__pyx_n_s_dsyrk, __pyx_k_dsyrk, sizeof(__pyx_k_dsyrk), 0, 0, 1, 1}, {&__pyx_n_s_dtrmv, __pyx_k_dtrmv, sizeof(__pyx_k_dtrmv), 0, 0, 1, 1}, + {&__pyx_n_s_fffpy_import_lapack, __pyx_k_fffpy_import_lapack, sizeof(__pyx_k_fffpy_import_lapack), 0, 0, 1, 1}, {&__pyx_n_s_flag_stat, __pyx_k_flag_stat, sizeof(__pyx_k_flag_stat), 0, 0, 1, 1}, {&__pyx_kp_s_home_roche_git_nipy_nipy_labs_g, __pyx_k_home_roche_git_nipy_nipy_labs_g, sizeof(__pyx_k_home_roche_git_nipy_nipy_labs_g), 0, 0, 1, 0}, {&__pyx_n_s_i, __pyx_k_i, sizeof(__pyx_k_i), 0, 0, 1, 1}, @@ -5157,6 +5166,7 @@ static __Pyx_StringTabEntry __pyx_string_tab[] = { {&__pyx_n_s_idx1, __pyx_k_idx1, sizeof(__pyx_k_idx1), 0, 0, 1, 1}, {&__pyx_n_s_idx2, __pyx_k_idx2, sizeof(__pyx_k_idx2), 0, 0, 1, 1}, {&__pyx_n_s_import, __pyx_k_import, sizeof(__pyx_k_import), 0, 0, 1, 1}, + {&__pyx_kp_s_lib_fff_python_wrapper_fffpy_im, __pyx_k_lib_fff_python_wrapper_fffpy_im, sizeof(__pyx_k_lib_fff_python_wrapper_fffpy_im), 0, 0, 1, 0}, {&__pyx_n_s_magic, __pyx_k_magic, sizeof(__pyx_k_magic), 0, 0, 1, 1}, {&__pyx_n_s_magics, __pyx_k_magics, sizeof(__pyx_k_magics), 0, 0, 1, 1}, {&__pyx_n_s_main, __pyx_k_main, sizeof(__pyx_k_main), 0, 0, 1, 1}, @@ -5196,7 +5206,7 @@ static __Pyx_StringTabEntry __pyx_string_tab[] = { {0, 0, 0, 0, 0, 0, 0} }; static int __Pyx_InitCachedBuiltins(void) { - __pyx_builtin_range = __Pyx_GetBuiltinName(__pyx_n_s_range); if (!__pyx_builtin_range) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 97; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_builtin_range = __Pyx_GetBuiltinName(__pyx_n_s_range); if (!__pyx_builtin_range) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 102; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __pyx_builtin_ValueError = __Pyx_GetBuiltinName(__pyx_n_s_ValueError); if (!__pyx_builtin_ValueError) {__pyx_filename = __pyx_f[2]; __pyx_lineno = 215; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __pyx_builtin_RuntimeError = __Pyx_GetBuiltinName(__pyx_n_s_RuntimeError); if (!__pyx_builtin_RuntimeError) {__pyx_filename = __pyx_f[2]; __pyx_lineno = 799; __pyx_clineno = __LINE__; goto __pyx_L1_error;} return 0; @@ -5274,6 +5284,15 @@ static int __Pyx_InitCachedConstants(void) { __Pyx_GOTREF(__pyx_tuple__6); __Pyx_GIVEREF(__pyx_tuple__6); + /* "../../../lib/fff_python_wrapper/fffpy_import_lapack.pxi":50 + * void fffpy_import_lapack_func(object ptr, int key) + * + * def fffpy_import_lapack(): # <<<<<<<<<<<<<< + * fffpy_import_blas_func(ddot._cpointer, FFF_BLAS_DDOT) + * fffpy_import_blas_func(dnrm2._cpointer, FFF_BLAS_DNRM2) + */ + __pyx_codeobj__7 = (PyObject*)__Pyx_PyCode_New(0, 0, 0, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_lib_fff_python_wrapper_fffpy_im, __pyx_n_s_fffpy_import_lapack, 50, __pyx_empty_bytes); 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__pyx_t_1 = __Pyx_Import(__pyx_n_s_scipy_linalg__flapack, __pyx_t_2, -1); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 6; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); @@ -5615,6 +5637,10 @@ PyMODINIT_FUNC PyInit_twosample(void) __Pyx_GOTREF(__pyx_t_2); if (PyDict_SetItem(__pyx_d, __pyx_n_s_dpotrf, __pyx_t_2) < 0) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 6; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0; + __pyx_t_2 = __Pyx_ImportFrom(__pyx_t_1, __pyx_n_s_dpotrs); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 6; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_GOTREF(__pyx_t_2); + if (PyDict_SetItem(__pyx_d, __pyx_n_s_dpotrs, __pyx_t_2) < 0) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 6; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0; __pyx_t_2 = __Pyx_ImportFrom(__pyx_t_1, __pyx_n_s_dgesdd); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 6; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_2); if (PyDict_SetItem(__pyx_d, __pyx_n_s_dgesdd, __pyx_t_2) < 0) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 6; __pyx_clineno = __LINE__; goto __pyx_L1_error;} @@ -5625,12 +5651,24 @@ PyMODINIT_FUNC PyInit_twosample(void) __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0; __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; - /* "nipy/labs/group/twosample.pyx":50 + /* "../../../lib/fff_python_wrapper/fffpy_import_lapack.pxi":50 + * void fffpy_import_lapack_func(object ptr, int key) * - * # Initialize numpy - * fffpy_import_array() # <<<<<<<<<<<<<< - * import_array() - * import numpy as np + * def fffpy_import_lapack(): # <<<<<<<<<<<<<< + * fffpy_import_blas_func(ddot._cpointer, FFF_BLAS_DDOT) + * fffpy_import_blas_func(dnrm2._cpointer, FFF_BLAS_DNRM2) + */ + __pyx_t_1 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_5group_9twosample_1fffpy_import_lapack, NULL, __pyx_n_s_nipy_labs_group_twosample); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 50; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_GOTREF(__pyx_t_1); + if (PyDict_SetItem(__pyx_d, __pyx_n_s_fffpy_import_lapack, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 50; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; + + /* "nipy/labs/group/twosample.pyx":17 + * + * # Exports from fff_twosample_stat.h + * cdef extern from "fff_twosample_stat.h": # <<<<<<<<<<<<<< + * + * ctypedef enum fff_twosample_stat_flag: */ fffpy_import_array(); @@ -5662,9 +5700,12 @@ PyMODINIT_FUNC PyInit_twosample(void) * * # Stat dictionary */ - __pyx_t_1 = __pyx_f_4nipy_4labs_5group_9twosample_fffpy_import_lapack(); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 53; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = __Pyx_GetModuleGlobalName(__pyx_n_s_fffpy_import_lapack); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 53; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); + __pyx_t_2 = __Pyx_PyObject_Call(__pyx_t_1, __pyx_empty_tuple, NULL); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 53; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_GOTREF(__pyx_t_2); __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; + __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0; /* "nipy/labs/group/twosample.pyx":56 * @@ -5673,12 +5714,12 @@ PyMODINIT_FUNC PyInit_twosample(void) * 'wilcoxon': FFF_TWOSAMPLE_WILCOXON, * 'student_mfx': FFF_TWOSAMPLE_STUDENT_MFX} */ - __pyx_t_1 = PyDict_New(); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 56; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_GOTREF(__pyx_t_1); - __pyx_t_2 = PyInt_FromLong(FFF_TWOSAMPLE_STUDENT); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 56; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_2 = PyDict_New(); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 56; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_2); 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__pyx_lineno = 56; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0; + __pyx_t_1 = PyInt_FromLong(FFF_TWOSAMPLE_WILCOXON); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 57; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_GOTREF(__pyx_t_1); + if (PyDict_SetItem(__pyx_t_2, __pyx_n_s_wilcoxon, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 56; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; /* "nipy/labs/group/twosample.pyx":58 * stats = {'student': FFF_TWOSAMPLE_STUDENT, @@ -5699,12 +5740,12 @@ PyMODINIT_FUNC PyInit_twosample(void) * * */ - __pyx_t_2 = PyInt_FromLong(FFF_TWOSAMPLE_STUDENT_MFX); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 58; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_GOTREF(__pyx_t_2); - if (PyDict_SetItem(__pyx_t_1, __pyx_n_s_student_mfx, __pyx_t_2) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 56; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0; - if (PyDict_SetItem(__pyx_d, __pyx_n_s_stats, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 56; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __pyx_t_1 = PyInt_FromLong(FFF_TWOSAMPLE_STUDENT_MFX); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 58; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_GOTREF(__pyx_t_1); + if (PyDict_SetItem(__pyx_t_2, __pyx_n_s_student_mfx, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 56; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; + if (PyDict_SetItem(__pyx_d, __pyx_n_s_stats, __pyx_t_2) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 56; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0; /* "nipy/labs/group/twosample.pyx":61 * @@ -5713,10 +5754,10 @@ PyMODINIT_FUNC PyInit_twosample(void) * cdef double n * fff_twosample_permutation(NULL, NULL, n1, n2, &n) */ - __pyx_t_1 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_5group_9twosample_1count_permutations, NULL, __pyx_n_s_nipy_labs_group_twosample); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 61; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_GOTREF(__pyx_t_1); - if (PyDict_SetItem(__pyx_d, __pyx_n_s_count_permutations, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 61; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; + __pyx_t_2 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_5group_9twosample_3count_permutations, NULL, __pyx_n_s_nipy_labs_group_twosample); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 61; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_GOTREF(__pyx_t_2); + if (PyDict_SetItem(__pyx_d, __pyx_n_s_count_permutations, __pyx_t_2) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 61; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0; /* "nipy/labs/group/twosample.pyx":67 * @@ -5725,32 +5766,32 @@ PyMODINIT_FUNC PyInit_twosample(void) * """ * T = stat(Y1, Y2, id='student', axis=0, magics=None). */ - __pyx_t_1 = PyCFunction_NewEx(&__pyx_mdef_4nipy_4labs_5group_9twosample_3stat, NULL, __pyx_n_s_nipy_labs_group_twosample); 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if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 1; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_GOTREF(__pyx_t_1); - if (PyDict_SetItem(__pyx_d, __pyx_n_s_test, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 1; __pyx_clineno = __LINE__; goto __pyx_L1_error;} - __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; + __pyx_t_2 = PyDict_New(); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 1; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_GOTREF(__pyx_t_2); + if (PyDict_SetItem(__pyx_d, __pyx_n_s_test, __pyx_t_2) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 1; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0; /* "/usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":976 * arr.base = baseptr diff --git a/nipy/labs/group/twosample.pyx b/nipy/labs/group/twosample.pyx index 21932fe351..43d2bd4aec 100644 --- a/nipy/labs/group/twosample.pyx +++ b/nipy/labs/group/twosample.pyx @@ -71,8 +71,13 @@ def stat(ndarray Y1, ndarray Y2, id='student', int axis=0, ndarray Magics=None): Compute a two-sample test statistic (Y1>Y2) over a number of deterministic or random permutations. """ - cdef fff_vector *y1, *y2, *t, *yp, *magics - cdef fff_array *idx1, *idx2 + cdef fff_vector *y1 + cdef fff_vector *y2 + cdef fff_vector *t + cdef fff_vector *yp + cdef fff_vector *magics + cdef fff_array *idx1 + cdef fff_array *idx2 cdef unsigned int n, n1, n2, nex cdef unsigned long int simu, nsimu, idx cdef fff_twosample_stat* stat @@ -156,8 +161,16 @@ def stat_mfx(ndarray Y1, ndarray V1, ndarray Y2, ndarray V2, Compute a two-sample test statistic (Y1>Y2) over a number of deterministic or random permutations. """ - cdef fff_vector *y1, *y2, *v1, *v2, *t, *yp, *vp, *magics - cdef fff_array *idx1, *idx2 + cdef fff_vector *y1 + cdef fff_vector *y2 + cdef fff_vector *v1 + cdef fff_vector *v2 + cdef fff_vector *t + cdef fff_vector *yp + cdef fff_vector *vp + cdef fff_vector *magics + cdef fff_array *idx1 + cdef fff_array *idx2 cdef unsigned int n, n1, n2, nex cdef unsigned long int simu, nsimu, idx cdef fff_twosample_stat_mfx* stat diff --git a/nipy/labs/utils/routines.c b/nipy/labs/utils/routines.c index 95b8cd3284..c4e5d0ed6e 100644 --- a/nipy/labs/utils/routines.c +++ b/nipy/labs/utils/routines.c @@ -1,4 +1,4 @@ -/* Generated by Cython 0.20.1post0 (Debian 0.20.1+git90-g0e6e38e-1ubuntu2) on Mon Mar 30 10:46:35 2015 */ +/* Generated by Cython 0.20.1post0 (Debian 0.20.1+git90-g0e6e38e-1ubuntu2) on Mon Mar 30 14:03:22 2015 */ #define PY_SSIZE_T_CLEAN #ifndef CYTHON_USE_PYLONG_INTERNALS @@ -356,9 +356,10 @@ void __Pyx_call_destructor(T* x) { #include "fff_matrix.h" #include "fff_array.h" #include "fffpy.h" +#include "fff_blas.h" +#include "fff_lapack.h" #include "fff_gen_stats.h" #include "fff_specfun.h" -#include "fff_lapack.h" #ifdef _OPENMP #include #endif /* _OPENMP */ @@ -1430,12 +1431,12 @@ static PyObject *__pyx_codeobj__22; 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