Tags: TheBrainCode/nipype
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1.3.0 (November 11, 2019) Full changelog: https://github.com/nipy/nipype/milestone/34?closed=1 * FIX: Fixed typo in QwarpInputSpec Trait description (nipy#3079) * FIX: Restore ``AFNICommand._get_fname``, required by some interfaces (nipy#3071) * FIX: Remove asynchronous chdir callback (nipy#3060) * FIX: Minimize scope for directory changes while loading results file (nipy#3061) * ENH: Minimize the number of calls to ``_load_results`` when populating inputs (nipy#3075) * ENH: Refactor savepkl/loadpkl - add a window for loadpkl to wait for the file (nipy#3089) * ENH: Add "ExportFile" interface as simple alternative to "DataSink" (nipy#3054) * ENH: Allow nipype.cfg in cwd to be read even if ~/.nipype does not exist (nipy#3072) * ENH: Add precommit information for contributors and pre-commit style (nipy#3063) * ENH: Delay etelemetry for non-interactive sessions, report bad versions (nipy#3049) * ENH: Run memoized check_version at REPL import, Node/Workflow/Interface init (nipy#30) * RF: Provide functions to augment old Path.mkdir, Path.resolve methods (nipy#3050) * RF: Redirect nipype.workflows to niflow.nipype1.workflows (nipy#3067) * TST: Skip dcm2niix test if data fails to download (nipy#3059) * TST: dcm2niix test fix (nipy#3058) * MAINT: Drop Python 3.4 support (nipy#3062) * CI: ``make specs`` on Travis (nipy#3066)
1.3.0-rc1 Release candidate for Nipype 1.3.0, released off-schedule to enable testing and allow downstream projects to move off of 1.2.3. Final release scheduled for Monday, October 28. Full changelog: https://github.com/nipy/nipype/milestone/34?closed=1 * FIX: Restore ``AFNICommand._get_fname``, required by some interfaces (nipy#3071) * FIX: Remove asynchronous chdir callback (nipy#3060) * FIX: Minimize scope for directory changes while loading results file (nipy#3061) * ENH: Add precommit information for contributors and pre-commit style (nipy#3063) * ENH: Delay etelemetry for non-interactive sessions, report bad versions (nipy#3049) * ENH: Run memoized check_version at REPL import, Node/Workflow/Interface init (nipy#30) * RF: Provide functions to augment old Path.mkdir, Path.resolve methods (nipy#3050) * RF: Redirect nipype.workflows to niflow.nipype1.workflows (nipy#3067) * TST: Skip dcm2niix test if data fails to download (nipy#3059) * TST: dcm2niix test fix (nipy#3058) * MAINT: Drop Python 3.4 support (nipy#3062) * CI: ``make specs`` on Travis (nipy#3066)
1.2.3 (September 23, 2019) Python 1.2.3 will be the last version to support Python 3.4. Full changelog: https://github.com/nipy/nipype/milestone/35?closed=1 * FIX: Patch Path.mkdir for Python 2 (nipy#3037) * FIX: Drop deprecated message argument to ``FileNotFoundError`` (nipy#3035) * FIX: Handle NIFTI extensions in ``afni.Qwarp`` (nipy#3028) * FIX: Disallow returning ``None`` in ``pipeline.utils.load_resultfile`` (nipy#3023) * ENH: Allow afni.CatMatvec to accept empty string opkeys (nipy#2943) * ENH: Add ``mrrtrix3.MRResize`` interface (nipy#3031) * ENH: Add version check / telemetry to Nipype (nipy#3027) * ENH: Update MCFLIRT outputs for FSL 6+ (nipy#3029) * ENH: Lightweight node cache checking (nipy#3026) * ENH: Avoid loading result from file when writing reports (nipy#3024) * ENH: replace portalocker with filelock (nipy#3025) * MAINT: Set minimum yapf for `checkspecs` to 0.27 (nipy#3033)
1.2.2 (September 07, 2019) Full changelog: https://github.com/nipy/nipype/milestone/33?closed=1 * FIX: Ensure ``loadpkl`` returns a not None value (nipy#3020) * FIX: ``loadpkl`` failed when pklz file contained versioning info (nipy#3017) * FIX: Update mne.WatershedBEM command line (nipy#3007) * FIX: Specify correct stop criterion flag in PETPVC (nipy#3010) * ENH: add interface for AFNI 3dTsmooth (nipy#2948) * ENH: Additional arguments to ANTs N4BiasFieldCorrection (nipy#3012) * ENH: Add ``--rescale-intensities`` and name_source to N4BiasFieldCorrection (nipy#3011) * ENH: Add index_mask_file input to ImageStats (nipy#3005) * RF: Remove versioning from loadpkl (nipy#3019) * MAINT: Add ``python_requires`` to package metadata (nipy#3006)
1.2.1 (August 19, 2019) Full changelog: https://github.com/nipy/nipype/milestone/32?closed=1 * FIX: Resolve/rebase paths from/to results files (nipy#2971) * FIX: Use ``load_resultfile`` when loading a results pickle (nipy#2985) * FIX: Incorrect extension identified when checking ``File`` traits (nipy#2987) * FIX: Correctly pickle ``OuputMultiObject`` traits (nipy#2983) * FIX: Improve output handling in DWIDenoise and DWIBiasCorrect (nipy#2978) * FIX: Docker build (nipy#2963) * FIX: Remove '=' signs from EddyQuad argument specifications (nipy#2941) * FIX: Set input model to bedpostx for camino.TrackBedpostxProba (nipy#2947) * FIX: Allow ``max_sh``not to be set (auto mode) (nipy#2940) * ENH: Update mrtrix reconst.py EstimateFOD max_sh to be able to accept list (nipy#2990) * ENH: Let ``indirectory`` handle ``nipype.utils.filemanip.Path`` (nipy#2989) * ENH: Add resolve/rebase ``BasePath`` traits methods & tests (nipy#2970) * ENH: Modify ``Directory`` and ``File`` traits to get along with pathlib (nipy#2962) * REF: Update nipype2boutiques script (nipy#2894) * TST: Parametrize JoinNode expansion tests over config ``needed_outputs`` (nipy#2981) * MAINT: Pin lxml<4.4.0 for Python 3.4 (nipy#2980) * MAINT: Refactor ``aggregate_outputs`` for readability (nipy#2969) * MAINT: Bump neurodocker version (nipy#2965) * MAINT: Various minor improvements to complement previous PR (nipy#2964) * MAINT: Sort dependencies alphabetically (nipy#2961)
1.2.0 (May 09, 2019) Full changelog: https://github.com/nipy/nipype/milestone/31?closed=1 * FIX: Parsing of filename in AlignEpiAnatPy when filename does not have + (nipy#2909) * FIX: Import nibabel reorientation bug fix (nipy#2912) * FIX: Update FNIRT outputs for warped_file log_file to include cwd (nipy#2900) * FIX: Sort conditions in bids_gen_info to ensure consistent order (nipy#2867) * FIX: Some traits-5.0.0 don't work with Python 2.7 (nipy#1) * ENH: CompCor enhancement (nipy#2878) * ENH: Do not override caught exceptions with FileNotFoundError from unfinished hashfile (nipy#2919) * ENH: More verbose description when a faulty results file is loaded (nipy#2920) * ENH: Add all DIPY workflows dynamically (nipy#2905) * ENH: Add mrdegibbs and dwibiascorrect from mrtrix3 (nipy#2904) * TEST: Fix CI builds (nipy#2927) * MAINT: Reduce deprecation warnings (nipy#2903)
1.1.9 (February 25, 2019) Full changelog: https://github.com/nipy/nipype/milestone/30?closed=1 * FIX: Make positional arguments to LaplacianThickness require previous argument (nipy#2848) * FIX: Import math and csv modules for bids_gen_info (nipy#2881) * FIX: Ensure outputs can be listed in camino.ProcStreamlines by defining instance variable (nipy#2739) * ENH: Allow afni.MaskTool to take multiple input files (nipy#2892) * ENH: Add flags dictionary input to spm.Level1Design (nipy#2861) * ENH: Threshold stddev once only in TSNR (nipy#2883) * ENH: Add workbench.CiftiSmooth interface (nipy#2871) * DOC: Replace initialism typo in comment with intended phrase (nipy#2875) * DOC: Fix typos in ANTs Registration input documentation (nipy#2869)
1.1.8 (January 28, 2019) * FIX: ANTS LaplacianThickness cmdline opts fixed up (nipy#2846) * FIX: Resolve LinAlgError during SVD (nipy#2838) * ENH: Add interfaces wrapping DIPY worflows (nipy#2830) * ENH: Update BIDSDataGrabber for pybids 0.7 (nipy#2737) * ENH: Add FSL `eddy_quad` interface (nipy#2825) * ENH: Support tckgen -select in MRtrix3 v3+ (nipy#2823) * ENH: Support for BIDS event files (nipy#2845) * ENH: CompositeTransformUtil, new ANTs interface (nipy#2785) * RF: Move pytest and pytest-xdist from general requirement into tests_required (nipy#2850) * DOC: Add S3DataGrabber example (nipy#2849) * DOC: Skip conftest module in API generation (nipy#2852) * DOC: Hyperlink DOIs to preferred resolver (nipy#2833) * MAINT: Install numpy!=1.16.0 from conda in Docker (nipy#2862) * MAINT: Drop pytest-xdist requirement, minimum pytest version (nipy#2856) * MAINT: Disable numpy 1.16.0 for Py2.7 (nipy#2855)
1.1.7 (December 17, 2018) * FIX: Copy node list before generating a flat graph (nipy#2828) * FIX: Update pytest req'd version to 3.6 (nipy#2827) * FIX: Set ResourceMonitor.fname to an absolute path (nipy#2824) * FIX: Order of SPM.NewSegment channel_info boolean tuple is (Field, Corrected) (nipy#2817) * FIX: Indices were swapped for memory and cpu profile data (nipy#2816) * FIX: ``status_callback`` not called with ``stop_on_first_crash`` (nipy#2810) * FIX: Change undefined ScriptError on LFS plugin to IOError (nipy#2803) * ENH: Add NaN failure mode to CompCor interfaces (nipy#2819) * ENH: Enable cnr_maps and residuals outputs for FSL eddy (nipy#2750) * ENH: Improve ``str2bool`` + doctests (nipy#2807) * TST: Improve py.test configuration of doctests (nipy#2802) * DOC: Update DOI badge to point to all versions (nipy#2804) * MAINT: Offload interfaces with help formatting (nipy#2797) * MAINT: Reduce minimal code redundancy in filemanip.get_dependencies (nipy#2782) * MAINT: Delayed imports to reduce import time (nipy#2809)
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