Hi,

Commit b701733 breaks SdA.py and the tests with error:

Traceback (most recent call last):
File "", line 1, in
File "SdA.py", line 382, in test_SdA
batch_size=batch_size)
File "SdA.py", line 226, in pretraining_functions
self.x: train_set_x[batch_begin: batch_end]
File "/local/lib/python2.7/site-packages/theano/compile/function.py", line 248, in function
"In() instances and tuple inputs trigger the old "
NotImplementedError: In() instances and tuple inputs trigger the old semantics, which disallow using updates and givens

Perhaps consider making these optional function arguments mandatory by removing theano.In

I can submit a pull request if it helps.

Thanks.