Merge pull request #5763 from Amrithasuresh/master

theano/tensor/blas_scipy.py

@@ -2,7 +2,7 @@
 Implementations of BLAS Ops based on scipy's BLAS bindings.
 """
 from __future__ import absolute_import, print_function, division
-import numpy
+import numpy as np
 
 from theano.tensor.blas import Ger, ger, ger_destructive, have_fblas
 from theano.tensor.blas import blas_optdb, optdb, local_optimizer
@@ -13,10 +13,10 @@ from theano.tensor.opt import in2out
 if have_fblas:
     from theano.tensor.blas import fblas
     _blas_ger_fns = {
-        numpy.dtype('float32'): fblas.sger,
-        numpy.dtype('float64'): fblas.dger,
-        numpy.dtype('complex64'): fblas.cgeru,
-        numpy.dtype('complex128'): fblas.zgeru,
+        np.dtype('float32'): fblas.sger,
+        np.dtype('float64'): fblas.dger,
+        np.dtype('complex64'): fblas.cgeru,
+        np.dtype('complex128'): fblas.zgeru,
     }
 
 
@@ -24,7 +24,7 @@ class ScipyGer(Ger):
 
     def prepare_node(self, node, storage_map, compute_map, impl):
         if impl == 'py':
-            node.tag.local_ger = _blas_ger_fns[numpy.dtype(
+            node.tag.local_ger = _blas_ger_fns[np.dtype(
                 node.inputs[0].type.dtype)]
 
     def perform(self, node, inputs, output_storage):

theano/tensor/elemwise.py

@@ -2,7 +2,7 @@ from __future__ import absolute_import, print_function, division
 import sys
 from copy import copy
 
-import numpy
+import numpy as np
 from six import iteritems, integer_types
 from six.moves import xrange
 
@@ -21,7 +21,7 @@ from theano.misc.frozendict import frozendict
 config = theano.config
 
 
-_numpy_ver = [int(n) for n in numpy.__version__.split('.')[:2]]
+_numpy_ver = [int(n) for n in np.__version__.split('.')[:2]]
 
 
 # tensor depends on elemwise to provide definitions for several ops
@@ -148,7 +148,7 @@ class DimShuffle(Op):
                 # isinstance(x, integer_types) returning False for
                 # numpy integers.  See
                 # <http://projects.scipy.org/numpy/ticket/2235>.
-                if not isinstance(j, (integer_types, numpy.integer)):
+                if not isinstance(j, (integer_types, np.integer)):
                     raise TypeError(
                         "DimShuffle indices must be python ints. "
                         "Got: '%s' of type '%s'.",
@@ -228,7 +228,7 @@ class DimShuffle(Op):
         storage, = out
         # drop
         res = input
-        if type(res) != numpy.ndarray and type(res) != numpy.memmap:
+        if type(res) != np.ndarray and type(res) != np.memmap:
             raise TypeError(res)
 
         # transpose
@@ -242,9 +242,9 @@ class DimShuffle(Op):
 
         # copy (if not inplace)
         if not self.inplace:
-            res = numpy.copy(res)
+            res = np.copy(res)
 
-        storage[0] = numpy.asarray(res)  # asarray puts scalars back into array
+        storage[0] = np.asarray(res)  # asarray puts scalars back into array
 
     def infer_shape(self, node, shapes):
         ishp, = shapes
@@ -487,7 +487,7 @@ second dimension
             nfunc_spec = getattr(scalar_op, 'nfunc_spec', None)
         self.nfunc_spec = nfunc_spec
         if nfunc_spec:
-            self.nfunc = getattr(numpy, nfunc_spec[0])
+            self.nfunc = getattr(np, nfunc_spec[0])
 
         super(Elemwise, self).__init__(openmp=openmp)
 
@@ -504,9 +504,9 @@ second dimension
         self.nfunc = None
         self.inplace_pattern = frozendict(self.inplace_pattern)
         if getattr(self, 'nfunc_spec', None):
-            self.nfunc = getattr(numpy, self.nfunc_spec[0])
+            self.nfunc = getattr(np, self.nfunc_spec[0])
         elif 0 < self.scalar_op.nin < 32:
-            self.ufunc = numpy.frompyfunc(self.scalar_op.impl,
+            self.ufunc = np.frompyfunc(self.scalar_op.impl,
                                        self.scalar_op.nin,
                                        self.scalar_op.nout)
 
@@ -723,7 +723,7 @@ second dimension
                 # the gradient contains a constant, translate it as
                 # an equivalent TensorType of size 1 and proper number of
                 # dimensions
-                res = theano.tensor.constant(numpy.asarray(r.data),
+                res = theano.tensor.constant(np.asarray(r.data),
                                              dtype=r.type.dtype)
                 return DimShuffle((), ['x'] * nd)(res)
 
@@ -750,7 +750,7 @@ second dimension
                 self.ufunc is None and
                 impl == 'py'):
 
-            ufunc = numpy.frompyfunc(self.scalar_op.impl,
+            ufunc = np.frompyfunc(self.scalar_op.impl,
                                   len(node.inputs),
                                   self.scalar_op.nout)
             if self.scalar_op.nin > 0:
@@ -772,9 +772,9 @@ second dimension
         # when the input is complex. So add it only when inputs is int.
         out_dtype = node.outputs[0].dtype
         if (out_dtype in theano.tensor.float_dtypes and
-                isinstance(self.nfunc, numpy.ufunc) and
+                isinstance(self.nfunc, np.ufunc) and
                 node.inputs[0].dtype in theano.tensor.discrete_dtypes):
-            char = numpy.sctype2char(out_dtype)
+            char = np.sctype2char(out_dtype)
             sig = char * node.nin + '->' + char * node.nout
             node.tag.sig = sig
         node.tag.fake_node = Apply(
@@ -870,7 +870,7 @@ second dimension
             if getattr(variable, "dtype", "") == 'object':
                 # Since numpy 1.6, function created with numpy.frompyfunc
                 # always return an ndarray with dtype object
-                variable = numpy.asarray(variable, dtype=nout.dtype)
+                variable = np.asarray(variable, dtype=nout.dtype)
 
             if i in self.inplace_pattern:
                 odat = inputs[self.inplace_pattern[i]]
@@ -879,15 +879,15 @@ second dimension
             # Sometimes NumPy return a Python type.
             # Some Theano op return a different dtype like floor, ceil,
             # trunc, eq, ...
-            elif (not isinstance(variable, numpy.ndarray) or
+            elif (not isinstance(variable, np.ndarray) or
                   variable.dtype != nout.dtype):
-                variable = numpy.asarray(variable, nout.dtype)
+                variable = np.asarray(variable, nout.dtype)
                 # The next line is needed for numpy 1.9. Otherwise
                 # there are tests that fail in DebugMode.
                 # Normally we would call theano.misc._asarray, but it
                 # is faster to inline the code. We know that the dtype
                 # are the same string, just different typenum.
-                if numpy.dtype(nout.dtype).num != variable.dtype.num:
+                if np.dtype(nout.dtype).num != variable.dtype.num:
                     variable = variable.view(dtype=nout.dtype)
                 storage[0] = variable
             # numpy.real return a view!
@@ -1302,9 +1302,9 @@ class CAReduce(Op):
         # There is a bug in numpy that results in isinstance(x,
         # integer_types) returning False for numpy integers.  See
         # <http://projects.scipy.org/numpy/ticket/2235>.
-        elif isinstance(axis, (integer_types, numpy.integer)):
+        elif isinstance(axis, (integer_types, np.integer)):
             self.axis = (axis,)
-        elif isinstance(axis, numpy.ndarray) and axis.ndim == 0:
+        elif isinstance(axis, np.ndarray) and axis.ndim == 0:
             self.axis = (int(axis),)
         else:
             self.axis = list(set(int(a) for a in axis))
@@ -1316,26 +1316,26 @@ class CAReduce(Op):
     def set_ufunc(self, scalar_op):
         # This is probably a speed up of the implementation
         if isinstance(scalar_op, theano.scalar.basic.Add):
-            self.ufunc = numpy.add
+            self.ufunc = np.add
         elif isinstance(scalar_op, theano.scalar.basic.Mul):
-            self.ufunc = numpy.multiply
+            self.ufunc = np.multiply
         elif isinstance(scalar_op, theano.scalar.basic.Maximum):
-            self.ufunc = numpy.maximum
+            self.ufunc = np.maximum
         elif isinstance(scalar_op, theano.scalar.basic.Minimum):
-            self.ufunc = numpy.minimum
+            self.ufunc = np.minimum
         elif (isinstance(scalar_op, theano.scalar.basic.AND) and
                 _numpy_ver >= [1, 12]):
             # numpy.bitwise_and.identity was incorrect for versions before
             # 1.12 (it was 1 instead of -1), so we skip it in that case.
             # We will fall back to the "else:" case, which defines a
             # ufunc without identity.
-            self.ufunc = numpy.bitwise_and
+            self.ufunc = np.bitwise_and
         elif isinstance(scalar_op, theano.scalar.basic.OR):
-            self.ufunc = numpy.bitwise_or
+            self.ufunc = np.bitwise_or
         elif isinstance(scalar_op, theano.scalar.basic.XOR):
-            self.ufunc = numpy.bitwise_xor
+            self.ufunc = np.bitwise_xor
         else:
-            self.ufunc = numpy.frompyfunc(scalar_op.impl, 2, 1)
+            self.ufunc = np.frompyfunc(scalar_op.impl, 2, 1)
 
     def _output_dtype(self, input_dtype):
         return input_dtype
@@ -1415,7 +1415,7 @@ class CAReduce(Op):
                         # Compute the shape of the output
                         v_shape = list(variable.shape)
                         del v_shape[dimension]
-                        variable = numpy.empty(tuple(v_shape),
+                        variable = np.empty(tuple(v_shape),
                                             dtype=acc_dtype)
                         variable.fill(self.scalar_op.identity)
                     else:
@@ -1427,8 +1427,8 @@ class CAReduce(Op):
                     variable = self.ufunc.reduce(variable, dimension,
                                                  dtype=acc_dtype)
 
-            variable = numpy.asarray(variable)
-            if numpy.may_share_memory(variable, input):
+            variable = np.asarray(variable)
+            if np.may_share_memory(variable, input):
                 # perhaps numpy is clever for reductions of size 1?
                 # We don't want this.
                 variable = variable.copy()
@@ -1436,7 +1436,7 @@ class CAReduce(Op):
                                         dtype=node.outputs[0].type.dtype)
         else:
             # Force a copy
-            output[0] = numpy.array(variable, copy=True,
+            output[0] = np.array(variable, copy=True,
                                  dtype=node.outputs[0].type.dtype)
 
     def infer_shape(self, node, shapes):

theano/tensor/extra_ops.py

 from __future__ import absolute_import, print_function, division
 import numpy as np
-import numpy
 from six.moves import xrange
 
 import theano
@@ -778,7 +777,7 @@ def repeat(x, repeats, axis=None):
         shape[axis] = shape[axis] * repeats
 
         # dims_ is the dimension of that intermediate tensor.
-        dims_ = list(numpy.arange(x.ndim))
+        dims_ = list(np.arange(x.ndim))
         dims_.insert(axis + 1, 'x')
 
         # After the original tensor is duplicated along the additional
@@ -806,7 +805,7 @@ class Bartlett(gof.Op):
     def perform(self, node, inputs, out_):
         M = inputs[0]
         out, = out_
-        out[0] = numpy.bartlett(M)
+        out[0] = np.bartlett(M)
 
     def infer_shape(self, node, in_shapes):
         temp = node.inputs[0]
@@ -882,7 +881,7 @@ class FillDiagonal(gof.Op):
             # Write the value out into the diagonal.
             a.flat[:end:step] = val
         else:
-            numpy.fill_diagonal(a, val)
+            np.fill_diagonal(a, val)
 
         output_storage[0][0] = a
 
@@ -1132,7 +1131,7 @@ class Unique(theano.Op):
         self.return_index = return_index
         self.return_inverse = return_inverse
         self.return_counts = return_counts
-        numpy_ver = [int(n) for n in numpy.__version__.split('.')[:2]]
+        numpy_ver = [int(n) for n in np.__version__.split('.')[:2]]
         if self.return_counts and bool(numpy_ver < [1, 9]):
             raise RuntimeError(
                 "Numpy version = " + np.__version__ +

theano/tensor/fourier.py

 from __future__ import absolute_import, print_function, division
-import numpy
+import numpy as np
 import math
 from theano import gof, tensor
 
@@ -98,7 +98,7 @@ class Fourier(gof.Op):
         a = inputs[0]
         n = inputs[1]
         axis = inputs[2]
-        output_storage[0][0] = numpy.fft.fft(a, n=int(n), axis=axis.item())
+        output_storage[0][0] = np.fft.fft(a, n=int(n), axis=axis.item())
 
     def grad(self, inputs, cost_grad):
         """
@@ -128,7 +128,7 @@ class Fourier(gof.Op):
         # tensor.set_subtensor(res[...,n::], 0, False, False), res)
 
         # Instead we resort to that to account for truncation:
-        flip_shape = list(numpy.arange(0, a.ndim)[::-1])
+        flip_shape = list(np.arange(0, a.ndim)[::-1])
         res = res.dimshuffle(flip_shape)
         res = tensor.switch(tensor.lt(n, tensor.shape(a)[axis]),
                             tensor.set_subtensor(res[n::, ], 0, False, False),
@@ -136,8 +136,8 @@ class Fourier(gof.Op):
         res = res.dimshuffle(flip_shape)
 
         # insures that gradient shape conforms to input shape:
-        out_shape = list(numpy.arange(0, axis)) + [a.ndim - 1] +\
-            list(numpy.arange(axis, a.ndim - 1))
+        out_shape = list(np.arange(0, axis)) + [a.ndim - 1] +\
+            list(np.arange(axis, a.ndim - 1))
         res = res.dimshuffle(*out_shape)
         return [res, None, None]
 

theano/tensor/io.py

 from __future__ import absolute_import, print_function, division
-import numpy
+import numpy as np
 from theano import gof
 from theano.gof import Constant, Generic, Op
 from theano.gof.sched import key_to_cmp
@@ -27,7 +27,7 @@ class LoadFromDisk(Op):
     __props__ = ("dtype", "broadcastable", "mmap_mode")
 
     def __init__(self, dtype, broadcastable, mmap_mode=None):
-        self.dtype = numpy.dtype(dtype)  # turn "float64" into numpy.float64
+        self.dtype = np.dtype(dtype)  # turn "float64" into np.float64
         self.broadcastable = broadcastable
         if mmap_mode not in (None, 'c'):
             raise ValueError("The only supported values for mmap_mode "
@@ -44,7 +44,7 @@ class LoadFromDisk(Op):
         path = inp[0]
         if (path.split('.')[-1] == 'npz'):
             raise ValueError("Expected a .npy file, got %s instead" % path)
-        result = numpy.load(path, mmap_mode=self.mmap_mode)
+        result = np.load(path, mmap_mode=self.mmap_mode)
         if result.dtype != self.dtype:
             raise TypeError("Expected an array of type %s, got %s instead" %
                             (self.dtype, result.dtype))
@@ -125,7 +125,7 @@ class MPIRecv(Op):
         self.source = source
         self.tag = tag
         self.shape = shape
-        self.dtype = numpy.dtype(dtype)  # turn "float64" into numpy.float64
+        self.dtype = np.dtype(dtype)  # turn "float64" into numpy.float64
         self.broadcastable = (False,) * len(shape)
 
     def make_node(self):
@@ -135,7 +135,7 @@ class MPIRecv(Op):
 
     def perform(self, node, inp, out):
 
-        data = numpy.zeros(self.shape, dtype=self.dtype)
+        data = np.zeros(self.shape, dtype=self.dtype)
         request = comm.Irecv(data, self.source, self.tag)
 
         out[0][0] = request

theano/tensor/nlinalg.py

@@ -2,7 +2,7 @@ from __future__ import absolute_import, print_function, division
 
 import logging
 import warnings
-import numpy
+import numpy as np
 from six.moves import xrange
 
 import theano
@@ -44,7 +44,7 @@ class MatrixPinv(Op):
     def perform(self, node, inputs, outputs):
         (x,) = inputs
         (z,) = outputs
-        z[0] = numpy.linalg.pinv(x).astype(x.dtype)
+        z[0] = np.linalg.pinv(x).astype(x.dtype)
 
 pinv = MatrixPinv()
 
@@ -76,7 +76,7 @@ class MatrixInverse(Op):
     def perform(self, node, inputs, outputs):
         (x,) = inputs
         (z,) = outputs
-        z[0] = numpy.linalg.inv(x).astype(x.dtype)
+        z[0] = np.linalg.inv(x).astype(x.dtype)
 
     def grad(self, inputs, g_outputs):
         r"""The gradient function should return
@@ -162,7 +162,7 @@ class AllocDiag(Op):
         (z,) = outputs
         if x.ndim != 1:
             raise TypeError(x)
-        z[0] = numpy.diag(x)
+        z[0] = np.diag(x)
 
     def infer_shape(self, node, shapes):
         x_s, = shapes
@@ -289,7 +289,7 @@ class Det(Op):
         (x,) = inputs
         (z,) = outputs
         try:
-            z[0] = numpy.asarray(numpy.linalg.det(x), dtype=x.dtype)
+            z[0] = np.asarray(np.linalg.det(x), dtype=x.dtype)
         except Exception:
             print('Failed to compute determinant', x)
             raise
@@ -313,7 +313,7 @@ class Eig(Op):
 
     """
 
-    _numop = staticmethod(numpy.linalg.eig)
+    _numop = staticmethod(np.linalg.eig)
     __props__ = ()
 
     def make_node(self, x):
@@ -341,7 +341,7 @@ class Eigh(Eig):
 
     """
 
-    _numop = staticmethod(numpy.linalg.eigh)
+    _numop = staticmethod(np.linalg.eigh)
     __props__ = ('UPLO',)
 
     def __init__(self, UPLO='L'):
@@ -356,7 +356,7 @@ class Eigh(Eig):
         # LAPACK.  Rather than trying to reproduce the (rather
         # involved) logic, we just probe linalg.eigh with a trivial
         # input.
-        w_dtype = self._numop([[numpy.dtype(x.dtype).type()]])[0].dtype.name
+        w_dtype = self._numop([[np.dtype(x.dtype).type()]])[0].dtype.name
         w = theano.tensor.vector(dtype=w_dtype)
         v = theano.tensor.matrix(dtype=x.dtype)
         return Apply(self, [x], [w, v])
@@ -419,11 +419,11 @@ class EighGrad(Op):
         assert UPLO in ['L', 'U']
         self.UPLO = UPLO
         if UPLO == 'L':
-            self.tri0 = numpy.tril
-            self.tri1 = lambda a: numpy.triu(a, 1)
+            self.tri0 = np.tril
+            self.tri1 = lambda a: np.triu(a, 1)
         else:
-            self.tri0 = numpy.triu
-            self.tri1 = lambda a: numpy.tril(a, -1)
+            self.tri0 = np.triu
+            self.tri1 = lambda a: np.tril(a, -1)
 
     def make_node(self, x, w, v, gw, gv):
         x, w, v, gw, gv = map(as_tensor_variable, (x, w, v, gw, gv))
@@ -445,7 +445,7 @@ class EighGrad(Op):
         """
         x, w, v, W, V = inputs
         N = x.shape[0]
-        outer = numpy.outer
+        outer = np.outer
 
         def G(n):
             return sum(v[:, m] * V.T[n].dot(v[:, m]) / (w[n] - w[m])
@@ -466,7 +466,7 @@ class EighGrad(Op):
 
         # Make sure we return the right dtype even if NumPy performed
         # upcasting in self.tri0.
-        outputs[0][0] = numpy.asarray(out, dtype=node.outputs[0].dtype)
+        outputs[0][0] = np.asarray(out, dtype=node.outputs[0].dtype)
 
     def infer_shape(self, node, shapes):
         return [shapes[0]]
@@ -486,7 +486,7 @@ class QRFull(Op):
 
     """
 
-    _numop = staticmethod(numpy.linalg.qr)
+    _numop = staticmethod(np.linalg.qr)
     __props__ = ('mode',)
 
     def __init__(self, mode):
@@ -519,7 +519,7 @@ class QRIncomplete(Op):
 
     """
 
-    _numop = staticmethod(numpy.linalg.qr)
+    _numop = staticmethod(np.linalg.qr)
     __props__ = ('mode',)
 
     def __init__(self, mode):
@@ -583,7 +583,7 @@ def qr(a, mode="reduced"):
     """
 
     x = [[2, 1], [3, 4]]
-    if isinstance(numpy.linalg.qr(x, mode), tuple):
+    if isinstance(np.linalg.qr(x, mode), tuple):
         return QRFull(mode)(a)
     else:
         return QRIncomplete(mode)(a)
@@ -606,7 +606,7 @@ class SVD(Op):
     """
 
     # See doc in the docstring of the function just after this class.
-    _numop = staticmethod(numpy.linalg.svd)
+    _numop = staticmethod(np.linalg.svd)
     __props__ = ('full_matrices', 'compute_uv')
 
     def __init__(self, full_matrices=True, compute_uv=True):
@@ -666,10 +666,10 @@ class lstsq(Op):
                              theano.tensor.lscalar(), theano.tensor.dvector()])
 
     def perform(self, node, inputs, outputs):
-        zz = numpy.linalg.lstsq(inputs[0], inputs[1], inputs[2])
+        zz = np.linalg.lstsq(inputs[0], inputs[1], inputs[2])
         outputs[0][0] = zz[0]
         outputs[1][0] = zz[1]
-        outputs[2][0] = numpy.array(zz[2])
+        outputs[2][0] = np.array(zz[2])
         outputs[3][0] = zz[3]
 
 
@@ -730,7 +730,7 @@ class TensorInv(Op):
     Class wrapper for tensorinv() function;
     Theano utilization of numpy.linalg.tensorinv;
     """
-    _numop = staticmethod(numpy.linalg.tensorinv)
+    _numop = staticmethod(np.linalg.tensorinv)
     __props__ = ('ind',)
 
     def __init__(self, ind=2):
@@ -790,7 +790,7 @@ class TensorSolve(Op):
     Class wrapper for tensorsolve function.
 
     """
-    _numop = staticmethod(numpy.linalg.tensorsolve)
+    _numop = staticmethod(np.linalg.tensorsolve)
     __props__ = ('axes', )
 
     def __init__(self, axes=None):

theano/tensor/raw_random.py

@@ -4,7 +4,7 @@ from __future__ import absolute_import, print_function, division
 import sys
 from copy import copy
 
-import numpy
+import numpy as np
 from six import string_types
 from six.moves import reduce, xrange
 
@@ -38,7 +38,7 @@ class RandomStateType(gof.Type):
             raise TypeError()
 
     def is_valid_value(self, a):
-        return type(a) == numpy.random.RandomState
+        return type(a) == np.random.RandomState
 
     def values_eq(self, a, b):
         sa = a.get_state()
@@ -47,7 +47,7 @@ class RandomStateType(gof.Type):
         if sa[0] != sb[0]:
             return False
         # 1-D array of 624 unsigned integer keys
-        if not numpy.all(sa[1] == sb[1]):
+        if not np.all(sa[1] == sb[1]):
             return False
         # integer "pos" representing the position in the array
         if sa[2] != sb[2]:
@@ -67,17 +67,17 @@ class RandomStateType(gof.Type):
 
     def get_size(self, shape_info):
         # The size is the data, that have constant size.
-        state = numpy.random.RandomState().get_state()
+        state = np.random.RandomState().get_state()
         size = 0
         for elem in state:
             if isinstance(elem, str):
                 size += len(elem)
-            elif isinstance(elem, numpy.ndarray):
+            elif isinstance(elem, np.ndarray):
                 size += elem.size * elem.itemsize
             elif isinstance(elem, int):
-                size += numpy.dtype("int").itemsize
+                size += np.dtype("int").itemsize
             elif isinstance(elem, float):
-                size += numpy.dtype("float").itemsize
+                size += np.dtype("float").itemsize
             else:
                 raise NotImplementedError()
         return size
@@ -151,7 +151,7 @@ class RandomFunction(gof.Op):
         fn, outtype, inplace, ndim_added = state
         self.fn = fn
         if isinstance(fn, string_types):
-            self.exec_fn = getattr(numpy.random.RandomState, fn)
+            self.exec_fn = getattr(np.random.RandomState, fn)
         else:
             self.exec_fn = fn
         self.outtype = outtype
@@ -240,7 +240,7 @@ class RandomFunction(gof.Op):
         # Numbers are drawn from r if self.inplace is True, and from a
         # copy of r if self.inplace is False
         r, shape, args = inputs[0], inputs[1], inputs[2:]
-        assert type(r) == numpy.random.RandomState, (type(r), r)
+        assert type(r) == np.random.RandomState, (type(r), r)
 
         # If shape == [], that means no shape is enforced, and numpy is
         # trusted to draw the appropriate number of samples, numpy uses
@@ -260,7 +260,7 @@ class RandomFunction(gof.Op):
             r = copy(r)
         rout[0] = r
         rval = self.exec_fn(r, *(args + [shape]))
-        if (not isinstance(rval, numpy.ndarray) or
+        if (not isinstance(rval, np.ndarray) or
                 str(rval.dtype) != node.outputs[1].type.dtype):
             rval = theano._asarray(rval, dtype=node.outputs[1].type.dtype)
 
@@ -527,13 +527,13 @@ def binomial(random_state, size=None, n=1, p=0.5, ndim=None,
     """
     if prob is not None:
         p = prob
-        print("DEPRECATION WARNING: the parameter prob to the binomal fct have been renamed to p to have the same name as numpy.", file=sys.stderr)
+        print("DEPRECATION WARNING: the parameter prob to the binomal fct have been renamed to p to have the same name as np.", file=sys.stderr)
     n = tensor.as_tensor_variable(n)
     p = tensor.as_tensor_variable(p)
     ndim, size, bcast = _infer_ndim_bcast(ndim, size, n, p)
     if n.dtype == 'int64':
         try:
-            numpy.random.binomial(n=numpy.asarray([2, 3, 4], dtype='int64'), p=numpy.asarray([.1, .2, .3], dtype='float64'))
+            np.random.binomial(n=np.asarray([2, 3, 4], dtype='int64'), p=np.asarray([.1, .2, .3], dtype='float64'))
         except TypeError:
             # THIS WORKS AROUND A NUMPY BUG on 32bit machine
             n = tensor.cast(n, 'int32')
@@ -583,7 +583,7 @@ def random_integers_helper(random_state, low, high, size):
             out_size = out_size + (dim_len,)
 
     # Build the indices over which to loop
-    out = numpy.ndarray(out_size)
+    out = np.ndarray(out_size)
     broadcast_ind = _generate_broadcasting_indices(out_size, low.shape,
                                                    high.shape)
     # Iterate over these indices, drawing one sample at a time from numpy
@@ -716,8 +716,8 @@ def permutation_helper(random_state, n, shape):
         shape = ()
     out_shape = list(shape)
     out_shape.append(n)
-    out = numpy.empty(out_shape, int)
-    for i in numpy.ndindex(*shape):
+    out = np.empty(out_shape, int)
+    for i in np.ndindex(*shape):
         out[i] = random_state.permutation(n)
 
     # print 'RETURNING', out.shape
@@ -801,7 +801,7 @@ def multinomial_helper(random_state, n, pvals, size):
     # Build the indices over which to loop
     # Note that here, the rows (inner-most 1D subtensors) of pvals and out
     # are indexed, not their individual elements
-    out = numpy.ndarray(out_size)
+    out = np.ndarray(out_size)
     broadcast_ind = _generate_broadcasting_indices(size, n.shape,
                                                    pvals.shape[:-1])
     # Iterate over these indices, drawing from one multinomial at a
@@ -815,16 +815,16 @@ def multinomial_helper(random_state, n, pvals, size):
         # of probabilities meets or exceeds 1.0.
         # In  perfect arithmetic this would be correct, but in float32 or
         # float64 it is too strict.
-        pisum = numpy.sum(pvi)
+        pisum = np.sum(pvi)
         if 1.0 < pisum < 1.0 + 1e-5:  # correct if we went a little over
             # because mtrand.pyx has a ValueError that will trigger if
             # sum(pvals[:-1]) > 1.0
             pvi = pvi * (1.0 - 5e-5)
             # pvi = pvi * .9
-            pisum = numpy.sum(pvi)
+            pisum = np.sum(pvi)
         elif pvi[-1] < 5e-5:  # will this even work?
             pvi = pvi * (1.0 - 5e-5)
-            pisum = numpy.sum(pvi)
+            pisum = np.sum(pvi)
         assert pisum <= 1.0, pisum
         out[mi] = random_state.multinomial(n=n[ni],
                                            pvals=pvi.astype('float64'))

theano/tensor/shared_randomstreams.py

@@ -7,7 +7,7 @@ from __future__ import absolute_import, print_function, division
 
 import copy
 
-import numpy
+import numpy as np
 
 from theano.compile.sharedvalue import (SharedVariable, shared_constructor,
                                         shared)
@@ -27,7 +27,7 @@ def randomstate_constructor(value, name=None, strict=False,
     SharedVariable Constructor for RandomState.
 
     """
-    if not isinstance(value, numpy.random.RandomState):
+    if not isinstance(value, np.random.RandomState):
         raise TypeError
     if not borrow:
         value = copy.deepcopy(value)
@@ -65,7 +65,7 @@ class RandomStreams(raw_random.RandomStreamsBase):
         # random number generator that provides seeds for member streams.
         self.default_instance_seed = seed
         # numpy.RandomState instance that gen() uses to seed new streams.
-        self.gen_seedgen = numpy.random.RandomState(seed)
+        self.gen_seedgen = np.random.RandomState(seed)
 
     def seed(self, seed=None):
         """
@@ -85,10 +85,10 @@ class RandomStreams(raw_random.RandomStreamsBase):
         if seed is None:
             seed = self.default_instance_seed
 
-        seedgen = numpy.random.RandomState(seed)
+        seedgen = np.random.RandomState(seed)
         for old_r, new_r in self.state_updates:
             old_r_seed = seedgen.randint(2 ** 30)
-            old_r.set_value(numpy.random.RandomState(int(old_r_seed)),
+            old_r.set_value(np.random.RandomState(int(old_r_seed)),
                             borrow=True)
 
     def __getitem__(self, item):
@@ -161,7 +161,7 @@ class RandomStreams(raw_random.RandomStreamsBase):
 
         """
         seed = int(self.gen_seedgen.randint(2 ** 30))
-        random_state_variable = shared(numpy.random.RandomState(seed))
+        random_state_variable = shared(np.random.RandomState(seed))
         # Add a reference to distinguish from other shared variables
         random_state_variable.tag.is_rng = True
         new_r, out = op(random_state_variable, *args, **kwargs)

theano/tensor/sharedvar.py

 from __future__ import absolute_import, print_function, division
 import traceback
 
-import numpy
+import numpy as np
 from six import integer_types
 
 import theano.tensor.basic
@@ -41,7 +41,7 @@ def tensor_constructor(value, name=None, strict=False, allow_downcast=None,
     if target != 'cpu':
         raise TypeError('not for cpu')
 
-    if not isinstance(value, numpy.ndarray):
+    if not isinstance(value, np.ndarray):
         raise TypeError()
 
     # if no broadcastable is given, then the default is to assume that
@@ -51,7 +51,7 @@ def tensor_constructor(value, name=None, strict=False, allow_downcast=None,
         broadcastable = (False,) * len(value.shape)
     type = TensorType(value.dtype, broadcastable=broadcastable)
     return TensorSharedVariable(type=type,
-                                value=numpy.array(value, copy=(not borrow)),
+                                value=np.array(value, copy=(not borrow)),
                                 name=name,
                                 strict=strict,
                                 allow_downcast=allow_downcast)
@@ -86,12 +86,12 @@ def scalar_constructor(value, name=None, strict=False, allow_downcast=None,
     if target != 'cpu':
         raise TypeError('not for cpu')
 
-    if not isinstance(value, (numpy.number, float, integer_types, complex)):
+    if not isinstance(value, (np.number, float, integer_types, complex)):
         raise TypeError()
     try:
         dtype = value.dtype
     except Exception:
-        dtype = numpy.asarray(value).dtype
+        dtype = np.asarray(value).dtype
 
     dtype = str(dtype)
     value = theano._asarray(value, dtype=dtype)
@@ -101,7 +101,7 @@ def scalar_constructor(value, name=None, strict=False, allow_downcast=None,
         # Do not pass the dtype to asarray because we want this to fail if
         # strict is True and the types do not match.
         rval = ScalarSharedVariable(type=tensor_type,
-                                    value=numpy.array(value, copy=True),
+                                    value=np.array(value, copy=True),
                                     name=name,
                                     strict=strict,
                                     allow_downcast=allow_downcast)

theano/tensor/signal/pool.py

@@ -9,7 +9,7 @@ from __future__ import absolute_import, print_function, division
 import warnings
 import itertools
 
-import numpy
+import numpy as np
 from six.moves import xrange
 import six.moves.builtins as builtins
 import theano
@@ -412,7 +412,7 @@ class Pool(OpenMPOp):
                     if isinstance(out, theano.Variable):
                         return tensor.maximum(out, 0)
                     else:
-                        return numpy.maximum(out, 0)
+                        return np.maximum(out, 0)
             else:
                 if isinstance(v, theano.Variable):
                     return tensor.switch(tensor.ge(stride, downsample),
@@ -516,7 +516,7 @@ class Pool(OpenMPOp):
         if not self.ignore_border:
             assert all(z > 0 for z in z_shape[-nd:])
         if (z[0] is None) or (z[0].shape != z_shape):
-            z[0] = numpy.empty(z_shape, dtype=x.dtype)
+            z[0] = np.empty(z_shape, dtype=x.dtype)
         zz = z[0]
         # size of pooling output
         pool_out_shp = zz.shape[-nd:]
@@ -525,16 +525,16 @@ class Pool(OpenMPOp):
 
         # pad the image
         if max(pad) != 0:
-            y = numpy.zeros(x.shape[:-nd] + img_shp, dtype=x.dtype)
+            y = np.zeros(x.shape[:-nd] + img_shp, dtype=x.dtype)
             y[(slice(None),) * (len(x.shape) - nd) +
               tuple(slice(pad[i], img_shp[i] - pad[i]) for i in xrange(nd))] = x
         else:
             y = x
-        func = numpy.max
+        func = np.max
         if self.mode == 'sum':
-            func = numpy.sum
+            func = np.sum
         elif self.mode != 'max':
-            func = numpy.average
+            func = np.average
 
         # precompute the region boundaries for each dimension
         region_slices = [[] for i in xrange(nd)]
@@ -548,11 +548,11 @@ class Pool(OpenMPOp):
                 region_slices[i].append(slice(start, end))
 
         # iterate over non-pooling dimensions
-        for k in numpy.ndindex(*x.shape[:-nd]):
+        for k in np.ndindex(*x.shape[:-nd]):
             zzk = zz[k]
             yk = y[k]
             # iterate over pooling regions
-            for r in numpy.ndindex(*pool_out_shp):
+            for r in np.ndindex(*pool_out_shp):
                 zzk[r] = func(
                     yk[[region_slices[i][r[i]] for i in xrange(nd)]])
 
@@ -1020,7 +1020,7 @@ class PoolGrad(OpenMPOp):
                 if isinstance(out, theano.Variable):
                     return tensor.maximum(out, 0)
                 else:
-                    return numpy.maximum(out, 0)
+                    return np.maximum(out, 0)
             else:
                 if isinstance(v, theano.Variable):
                     return tensor.switch(tensor.ge(stride, downsample),
@@ -1128,12 +1128,12 @@ class MaxPoolGrad(PoolGrad):
 
         # pad the image
         if max(pad) != 0:
-            y = numpy.zeros(x.shape[:-nd] + img_shp, dtype=x.dtype)
+            y = np.zeros(x.shape[:-nd] + img_shp, dtype=x.dtype)
             y[(slice(None),) * (len(x.shape) - nd) +
               tuple(slice(pad[i], img_shp[i] - pad[i]) for i in xrange(nd))] = x
         else:
             y = x
-        gx = numpy.zeros_like(y)
+        gx = np.zeros_like(y)
 
         # precompute the region boundaries for each dimension
         region_ranges = [[] for i in xrange(nd)]
@@ -1144,13 +1144,13 @@ class MaxPoolGrad(PoolGrad):
                 region_ranges[i].append(xrange(start, end))
 
         # iterate over non-pooling dimensions
-        for k in numpy.ndindex(*x.shape[:-nd]):
+        for k in np.ndindex(*x.shape[:-nd]):
             gxk = gx[k]
             gzk = gz[k]
             yk = y[k]
             maxoutk = maxout[k]
             # iterate over pooling regions
-            for r in numpy.ndindex(*pool_out_shp):
+            for r in np.ndindex(*pool_out_shp):
                 maxout_value = maxoutk[r]
                 # iterate inside region
                 for c in itertools.product(*[region_ranges[i][r[i]]
@@ -1444,7 +1444,7 @@ class AveragePoolGrad(PoolGrad):
             raise NotImplementedError()
         z_shape = self.out_shape(x.shape, ws, self.ignore_border, stride, pad, nd)
         if (gx_stg[0] is None) or (gx_stg[0].shape != z_shape):
-            gx_stg[0] = numpy.empty(z_shape, dtype=x.dtype)
+            gx_stg[0] = np.empty(z_shape, dtype=x.dtype)
         zz = gx_stg[0]
         # size of pooling output
         pool_out_shp = zz.shape[-nd:]
@@ -1453,7 +1453,7 @@ class AveragePoolGrad(PoolGrad):
         sum_mode = self.mode == 'sum'
 
         # initialize the padded output
-        gx = numpy.zeros((x.shape[:-nd] + img_shp), dtype=x.dtype)
+        gx = np.zeros((x.shape[:-nd] + img_shp), dtype=x.dtype)
 
         # precompute the region boundaries and sizes for each dimension
         region_slices = [[] for i in xrange(nd)]
@@ -1470,11 +1470,11 @@ class AveragePoolGrad(PoolGrad):
 
         # iterate over non-pooling dimensions
         region_slice = [None] * nd
-        for k in numpy.ndindex(*x.shape[:-nd]):
+        for k in np.ndindex(*x.shape[:-nd]):
             gzk = gz[k]
             gxk = gx[k]
             # iterate over pooling regions
-            for r in numpy.ndindex(*pool_out_shp):
+            for r in np.ndindex(*pool_out_shp):
                 region_size = 1
                 for i in xrange(nd):
                     region_slice[i] = region_slices[i][r[i]]
@@ -1783,7 +1783,7 @@ class DownsampleFactorMaxGradGrad(OpenMPOp):
                 'DownsampleFactorMaxGradGrad requires input '
                 'with {} or more dimensions'.format(nd))
         if (z[0] is None) or (z[0].shape != maxout.shape):
-            z[0] = numpy.zeros(maxout.shape, dtype=x.dtype)
+            z[0] = np.zeros(maxout.shape, dtype=x.dtype)
         ggz = z[0]  # grad wrt maxout_grad has the same shape as maxout
         # size of pooling output
         pool_out_shp = ggz.shape[-nd:]
@@ -1791,10 +1791,10 @@ class DownsampleFactorMaxGradGrad(OpenMPOp):
 
         # pad the image and its gradients
         if max(pad) > 0:
-            y_padded = numpy.zeros(x.shape[:-nd] + img_shp, dtype=x.dtype)
+            y_padded = np.zeros(x.shape[:-nd] + img_shp, dtype=x.dtype)
             y_padded[(slice(None),) * (len(x.shape) - nd) +
                      tuple(slice(pad[i], img_shp[i] - pad[i]) for i in xrange(nd))] = x
-            ggx_padded = numpy.zeros(x.shape[:-nd] + img_shp, dtype=x.dtype)
+            ggx_padded = np.zeros(x.shape[:-nd] + img_shp, dtype=x.dtype)
             ggx_padded[(slice(None),) * (len(x.shape) - nd) +
                        tuple(slice(pad[i], img_shp[i] - pad[i]) for i in xrange(nd))] = ggx
 
@@ -1811,13 +1811,13 @@ class DownsampleFactorMaxGradGrad(OpenMPOp):
                 region_ranges[i].append(xrange(start, end))
 
         # iterate over non-pooling dimensions
-        for k in numpy.ndindex(*x.shape[:-nd]):
+        for k in np.ndindex(*x.shape[:-nd]):
             ggxk = ggx_padded[k]
             ggzk = ggz[k]
             yk = y_padded[k]
             maxoutk = maxout[k]
             # iterate over pooling regions
-            for r in numpy.ndindex(*pool_out_shp):
+            for r in np.ndindex(*pool_out_shp):
                 # iterate inside region
                 maxout_value = maxoutk[r]
                 for c in itertools.product(*[region_ranges[i][r[i]]
@@ -2113,7 +2113,7 @@ class MaxPoolRop(OpenMPOp):
         if not self.ignore_border:
             assert all(z > 0 for z in z_shape[-nd:])
         if (z[0] is None) or (z[0].shape != z_shape):
-            z[0] = numpy.empty(z_shape, dtype=x.dtype)
+            z[0] = np.empty(z_shape, dtype=x.dtype)
         zz = z[0]
         # size of pooling output
         pool_out_shp = zz.shape[-nd:]
@@ -2122,10 +2122,10 @@ class MaxPoolRop(OpenMPOp):
 
         # pad the image and the eval point
         if max(pad) != 0:
-            y = numpy.zeros(x.shape[:-nd] + img_shp, dtype=x.dtype)
+            y = np.zeros(x.shape[:-nd] + img_shp, dtype=x.dtype)
             y[(slice(None),) * (len(x.shape) - nd) +
               tuple(slice(pad[i], img_shp[i] - pad[i]) for i in xrange(nd))] = x
-            ey = numpy.zeros(ex.shape[:-nd] + img_shp, dtype=ex.dtype)
+            ey = np.zeros(ex.shape[:-nd] + img_shp, dtype=ex.dtype)
             ey[(slice(None),) * (len(ex.shape) - nd) +
                tuple(slice(pad[i], img_shp[i] - pad[i]) for i in xrange(nd))] = ex
         else:
@@ -2144,18 +2144,18 @@ class MaxPoolRop(OpenMPOp):
                 region_slices[i].append(slice(start, end))
 
         # iterate over non-pooling dimensions
-        for k in numpy.ndindex(*x.shape[:-nd]):
+        for k in np.ndindex(*x.shape[:-nd]):
             zzk = zz[k]
             yk = y[k]
             eyk = ey[k]
             # iterate over pooling regions
-            for r in numpy.ndindex(*pool_out_shp):
+            for r in np.ndindex(*pool_out_shp):
                 # current slice in padded input
                 ykslice = yk[[region_slices[i][r[i]] for i in xrange(nd)]]
                 # current slice in eval points
                 eykslice = eyk[[region_slices[i][r[i]] for i in xrange(nd)]]
                 # indices of maximum
-                idx = numpy.unravel_index(numpy.argmax(ykslice), ykslice.shape)
+                idx = np.unravel_index(np.argmax(ykslice), ykslice.shape)
                 zzk[r] = eykslice[idx]
 
     def c_headers(self):

theano/tensor/signal/tests/test_conv.py

@@ -2,7 +2,7 @@ from __future__ import absolute_import, print_function, division
 import unittest
 
 from nose.plugins.skip import SkipTest
-import numpy
+import numpy as np
 
 import theano
 import theano.tensor as T
@@ -41,13 +41,13 @@ class TestSignalConv2D(unittest.TestCase):
         theano_conv = theano.function([input, filters], output)
 
         # initialize input and compute result
-        image_data = numpy.random.random(image_shape)
-        filter_data = numpy.random.random(filter_shape)
+        image_data = np.random.random(image_shape)
+        filter_data = np.random.random(filter_shape)
         theano_output = theano_conv(image_data, filter_data)
 
         # REFERENCE IMPLEMENTATION ############
-        out_shape2d = numpy.array(image_shape[-2:]) - numpy.array(filter_shape[-2:]) + 1
-        ref_output = numpy.zeros(tuple(out_shape2d))
+        out_shape2d = np.array(image_shape[-2:]) - np.array(filter_shape[-2:]) + 1
+        ref_output = np.zeros(tuple(out_shape2d))
 
         # reshape as 3D input tensors to make life easier
         image_data3d = image_data.reshape((bsize,) + image_shape[-2:])
@@ -64,7 +64,7 @@ class TestSignalConv2D(unittest.TestCase):
 
                 image2d = image_data3d[b, :, :]
                 filter2d = filter_data3d[k, :, :]
-                output2d = numpy.zeros(ref_output.shape)
+                output2d = np.zeros(ref_output.shape)
                 for row in range(ref_output.shape[0]):
                     for col in range(ref_output.shape[1]):
                         output2d[row, col] += (

theano/tensor/slinalg.py

@@ -3,7 +3,7 @@ import logging
 import warnings
 from six.moves import xrange
 
-import numpy
+import numpy as np
 
 try:
     import scipy.linalg
@@ -145,7 +145,7 @@ class CholeskyGrad(Op):
         dx = outputs[0]
         N = x.shape[0]
         if self.lower:
-            F = numpy.tril(dz)
+            F = np.tril(dz)
             for k in xrange(N - 1, -1, -1):
                 for j in xrange(k + 1, N):
                     for i in xrange(j, N):
@@ -156,7 +156,7 @@ class CholeskyGrad(Op):
                     F[k, k] -= L[j, k] * F[j, k]
                 F[k, k] /= (2 * L[k, k])
         else:
-            F = numpy.triu(dz)
+            F = np.triu(dz)
             for k in xrange(N - 1, -1, -1):
                 for j in xrange(k + 1, N):
                     for i in xrange(j, N):
@@ -206,8 +206,8 @@ class Solve(Op):
         # infer dtype by solving the most simple
         # case with (1, 1) matrices
         o_dtype = scipy.linalg.solve(
-            numpy.eye(1).astype(A.dtype),
-            numpy.eye(1).astype(b.dtype)).dtype
+            np.eye(1).astype(A.dtype),
+            np.eye(1).astype(b.dtype)).dtype
         x = tensor.tensor(
             broadcastable=b.broadcastable,
             dtype=o_dtype)
@@ -370,11 +370,11 @@ class EigvalshGrad(Op):
         assert lower in [True, False]
         self.lower = lower
         if lower:
-            self.tri0 = numpy.tril
-            self.tri1 = lambda a: numpy.triu(a, 1)
+            self.tri0 = np.tril
+            self.tri1 = lambda a: np.triu(a, 1)
         else:
-            self.tri0 = numpy.triu
-            self.tri1 = lambda a: numpy.tril(a, -1)
+            self.tri0 = np.triu
+            self.tri1 = lambda a: np.tril(a, -1)
 
     def make_node(self, a, b, gw):
         assert imported_scipy, (
@@ -394,14 +394,14 @@ class EigvalshGrad(Op):
     def perform(self, node, inputs, outputs):
         (a, b, gw) = inputs
         w, v = scipy.linalg.eigh(a, b, lower=self.lower)
-        gA = v.dot(numpy.diag(gw).dot(v.T))
-        gB = - v.dot(numpy.diag(gw * w).dot(v.T))
+        gA = v.dot(np.diag(gw).dot(v.T))
+        gB = - v.dot(np.diag(gw * w).dot(v.T))
 
         # See EighGrad comments for an explanation of these lines
         out1 = self.tri0(gA) + self.tri1(gA).T
         out2 = self.tri0(gB) + self.tri1(gB).T
-        outputs[0][0] = numpy.asarray(out1, dtype=node.outputs[0].dtype)
-        outputs[1][0] = numpy.asarray(out2, dtype=node.outputs[1].dtype)
+        outputs[0][0] = np.asarray(out1, dtype=node.outputs[0].dtype)
+        outputs[1][0] = np.asarray(out2, dtype=node.outputs[1].dtype)
 
     def infer_shape(self, node, shapes):
         return [shapes[0], shapes[1]]
@@ -510,13 +510,13 @@ class ExpmGrad(Op):
         w, V = scipy.linalg.eig(A, right=True)
         U = scipy.linalg.inv(V).T
 
-        exp_w = numpy.exp(w)
-        X = numpy.subtract.outer(exp_w, exp_w) / numpy.subtract.outer(w, w)
-        numpy.fill_diagonal(X, exp_w)
+        exp_w = np.exp(w)
+        X = np.subtract.outer(exp_w, exp_w) / np.subtract.outer(w, w)
+        np.fill_diagonal(X, exp_w)
         Y = U.dot(V.T.dot(gA).dot(U) * X).dot(V.T)
 
         with warnings.catch_warnings():
-            warnings.simplefilter("ignore", numpy.ComplexWarning)
+            warnings.simplefilter("ignore", np.ComplexWarning)
             out[0] = Y.astype(A.dtype)
 
 

theano/tensor/subtensor.py

@@ -4,7 +4,7 @@ from textwrap import dedent
 import warnings
 import logging
 
-import numpy
+import numpy as np
 from six import integer_types
 from six.moves import xrange
 
@@ -58,7 +58,7 @@ def make_constant(args):
                 return slice(conv(a.start),
                              conv(a.stop),
                              conv(a.step))
-            elif isinstance(a, (integer_types, numpy.integer)):
+            elif isinstance(a, (integer_types, np.integer)):
                 return scal.ScalarConstant(scal.int64, a)
             else:
                 return a
@@ -355,11 +355,11 @@ class Subtensor(Op):
 
         if (isinstance(entry, gof.Variable) and
                 entry.type in tensor_types and
-                numpy.all(entry.type.broadcastable)):
+                np.all(entry.type.broadcastable)):
             return scal.get_scalar_type(entry.type.dtype)
         elif (isinstance(entry, gof.Type) and
               entry in tensor_types and
-              numpy.all(entry.broadcastable)):
+              np.all(entry.broadcastable)):
             return scal.get_scalar_type(entry.dtype)
         elif slice_ok and isinstance(entry, slice):
             a = entry.start
@@ -385,7 +385,7 @@ class Subtensor(Op):
                 slice_c = None
 
             return slice(slice_a, slice_b, slice_c)
-        elif isinstance(entry, (integer_types, numpy.integer)):
+        elif isinstance(entry, (integer_types, np.integer)):
             # Disallow the use of python scalars in idx_list
             raise TypeError("Python scalar in idx_list."
                             "Please report this error to theano-dev.")
@@ -510,8 +510,8 @@ class Subtensor(Op):
                         if start is None:
                             start = 0
                         if (p.stop is None or
-                            (isinstance(p.stop, (integer_types, numpy.integer,
-                                                 numpy.ndarray)) and
+                            (isinstance(p.stop, (integer_types, np.integer,
+                                                 np.ndarray)) and
                              p.stop > start)):
                             broadcastable.append(True)
                             continue
@@ -531,7 +531,7 @@ class Subtensor(Op):
         if len(cdata) == 1:
             cdata = cdata[0]
 
-        out[0] = numpy.asarray(x.__getitem__(cdata))
+        out[0] = np.asarray(x.__getitem__(cdata))
 
     def infer_shape(self, node, shapes):
         xshp = shapes[0]
@@ -681,7 +681,7 @@ class Subtensor(Op):
             return pos[1]
 
         def init_entry(entry, depth=0):
-            if isinstance(entry, (numpy.integer, integer_types)):
+            if isinstance(entry, (np.integer, integer_types)):
                 init_cmds.append(
                     "subtensor_spec[%i] = %i;" % (spec_pos(),
                                                   entry))
@@ -1390,7 +1390,7 @@ class IncSubtensor(Op):
             op_is_set = 0
         fail = sub['fail']
         view_ndim = (node.inputs[0].ndim -
-                     numpy.sum([not isinstance(idx, slice)
+                     np.sum([not isinstance(idx, slice)
                              for idx in self.idx_list]))
 
         copy_of_x = self.copy_of_x(x)
@@ -1712,11 +1712,11 @@ class AdvancedSubtensor1(Op):
         # We need to check if values in i can fit in numpy.intp, because
         # if they don't, that should be an error (no array can have that
         # many elements on a 32-bit arch).
-        if i.dtype != numpy.intp:
-            i_ = theano._asarray(i, dtype=numpy.intp)
-            if not numpy.can_cast(i.dtype, numpy.intp):
+        if i.dtype != np.intp:
+            i_ = theano._asarray(i, dtype=np.intp)
+            if not np.can_cast(i.dtype, np.intp):
                 # Check if there was actually an incorrect conversion
-                if numpy.any(i != i_):
+                if np.any(i != i_):
                     raise IndexError(
                         'index contains values that are bigger '
                         'than the maximum array size on this system.', i)
@@ -1946,7 +1946,7 @@ class AdvancedIncSubtensor1(Op):
         return compile_cutils_code()
 
     def c_code(self, node, name, input_names, output_names, sub):
-        numpy_ver = [int(n) for n in numpy.__version__.split('.')[:2]]
+        numpy_ver = [int(n) for n in np.__version__.split('.')[:2]]
         if bool(numpy_ver < [1, 8]):
             raise NotImplementedError
         x, y, idx = input_names
@@ -2113,13 +2113,13 @@ def adv_index_broadcastable_pattern(a, idx):
         if isinstance(v.type, SliceType):
             return slice(None, None)
 
-        return numpy.zeros((2,) * v.ndim, int)
+        return np.zeros((2,) * v.ndim, int)
 
     newidx = tuple(map(replace_slice, idx))
 
     # 2 - True = 1; 2 - False = 2
     fakeshape = [2 - bc for bc in a.broadcastable]
-    retshape = numpy.empty(fakeshape)[newidx].shape
+    retshape = np.empty(fakeshape)[newidx].shape
     return tuple([dim == 1 for dim in retshape])
 
 

theano/tensor/tests/mlp_test.py

@@ -129,7 +129,7 @@ class HiddenLayer(object):
 
         Hidden unit activation is given by: tanh(dot(input,W) + b)
 
-        :type rng: np.random.RandomState
+        :type rng: numpy.random.RandomState
         :param rng: a random number generator used to initialize weights
 
         :type input: theano.tensor.dmatrix
@@ -176,7 +176,7 @@ class MLP(object):
     def __init__(self, rng, input, n_in, n_hidden, n_out):
         """Initialize the parameters for the multilayer perceptron
 
-        :type rng: np.random.RandomState
+        :type rng: numpy.random.RandomState
         :param rng: a random number generator used to initialize weights
 
         :type input: theano.tensor.TensorType

theano/tensor/tests/test_basic.py

@@ -164,8 +164,8 @@ def get_numeric_types(with_int=True, with_float=True, with_complex=False,
         # Return True if scalars defined from `cls1` are within the hierarchy
         # starting from `cls2`.
         # The third test below is to catch for instance the fact that
-        # one can use ``dtype=np.number`` and obtain a float64 scalar, even
-        # though `np.number` is not under `np.floating` in the class
+        # one can use ``dtype=numpy.number`` and obtain a float64 scalar, even
+        # though `numpy.number` is not under `numpy.floating` in the class
         # hierarchy.
         return (cls1 is cls2 or
                 issubclass(cls1, cls2) or

theano/tensor/tests/test_blas_c.py

 from __future__ import absolute_import, print_function, division
 import sys
-import numpy
+import numpy as np
 from unittest import TestCase
 
 from nose.plugins.skip import SkipTest
@@ -44,9 +44,9 @@ class TestCGer(TestCase, TestOptimizationMixin):
         self.a = tensor.tensor(dtype=dtype, broadcastable=())
         self.x = tensor.tensor(dtype=dtype, broadcastable=(False,))
         self.y = tensor.tensor(dtype=dtype, broadcastable=(False,))
-        self.Aval = numpy.ones((2, 3), dtype=dtype)
-        self.xval = numpy.asarray([1, 2], dtype=dtype)
-        self.yval = numpy.asarray([1.5, 2.7, 3.9], dtype=dtype)
+        self.Aval = np.ones((2, 3), dtype=dtype)
+        self.xval = np.asarray([1, 2], dtype=dtype)
+        self.yval = np.asarray([1.5, 2.7, 3.9], dtype=dtype)
 
     def function(self, inputs, outputs):
         return theano.function(inputs, outputs,
@@ -59,7 +59,7 @@ class TestCGer(TestCase, TestOptimizationMixin):
         f(self.Aval[::-1, ::-1], self.xval, self.yval)
 
     def b(self, bval):
-        return tensor.as_tensor_variable(numpy.asarray(bval, dtype=self.dtype))
+        return tensor.as_tensor_variable(np.asarray(bval, dtype=self.dtype))
 
     def test_eq(self):
         self.assertTrue(CGer(True) == CGer(True))
@@ -127,13 +127,13 @@ class TestCGemv(TestCase, TestOptimizationMixin):
         self.mode = theano.compile.get_default_mode().including('fast_run')
         # matrix
         self.A = tensor.tensor(dtype=dtype, broadcastable=(False, False))
-        self.Aval = numpy.ones((2, 3), dtype=dtype)
+        self.Aval = np.ones((2, 3), dtype=dtype)
 
         # vector
         self.x = tensor.tensor(dtype=dtype, broadcastable=(False,))
         self.y = tensor.tensor(dtype=dtype, broadcastable=(False,))
-        self.xval = numpy.asarray([1, 2], dtype=dtype)
-        self.yval = numpy.asarray([1.5, 2.7, 3.9], dtype=dtype)
+        self.xval = np.asarray([1, 2], dtype=dtype)
+        self.yval = np.asarray([1.5, 2.7, 3.9], dtype=dtype)
 
         # scalar
         self.a = tensor.tensor(dtype=dtype, broadcastable=())
@@ -144,11 +144,11 @@ class TestCGemv(TestCase, TestOptimizationMixin):
         f = theano.function([self.A, self.x, self.y, self.a],
                             self.a*self.y + theano.dot(self.A, self.x),
                             mode=mode)
-        Aval = numpy.ones((3, 1), dtype=self.dtype)
-        xval = numpy.ones((1,), dtype=self.dtype)
-        yval = float('NaN') * numpy.ones((3,), dtype=self.dtype)
+        Aval = np.ones((3, 1), dtype=self.dtype)
+        xval = np.ones((1,), dtype=self.dtype)
+        yval = float('NaN') * np.ones((3,), dtype=self.dtype)
         zval = f(Aval, xval, yval, 0)
-        assert not numpy.isnan(zval).any()
+        assert not np.isnan(zval).any()
 
     def test_optimizations_vm(self):
         skip_if_blas_ldflags_empty()
@@ -165,12 +165,12 @@ class TestCGemv(TestCase, TestOptimizationMixin):
         )
 
         # Assert they produce the same output
-        assert numpy.allclose(f(self.xval, self.Aval),
-                numpy.dot(self.xval, self.Aval))
+        assert np.allclose(f(self.xval, self.Aval),
+                np.dot(self.xval, self.Aval))
 
         # Test with negative strides on 2 dims
-        assert numpy.allclose(f(self.xval, self.Aval[::-1, ::-1]),
-                numpy.dot(self.xval, self.Aval[::-1, ::-1]))
+        assert np.allclose(f(self.xval, self.Aval[::-1, ::-1]),
+                np.dot(self.xval, self.Aval[::-1, ::-1]))
 
     def test_optimizations_mv(self):
         skip_if_blas_ldflags_empty()
@@ -187,11 +187,11 @@ class TestCGemv(TestCase, TestOptimizationMixin):
         )
 
         # Assert they produce the same output
-        assert numpy.allclose(f(self.Aval, self.yval),
-                numpy.dot(self.Aval, self.yval))
+        assert np.allclose(f(self.Aval, self.yval),
+                np.dot(self.Aval, self.yval))
         # Test with negative strides on 2 dims
-        assert numpy.allclose(f(self.Aval[::-1, ::-1], self.yval),
-                numpy.dot(self.Aval[::-1, ::-1], self.yval))
+        assert np.allclose(f(self.Aval[::-1, ::-1], self.yval),
+                np.dot(self.Aval[::-1, ::-1], self.yval))
 
     def test_force_gemv_init(self):
         if check_force_gemv_init():
@@ -203,20 +203,20 @@ class TestCGemv(TestCase, TestOptimizationMixin):
 
     def t_gemv1(self, m_shp):
         ''' test vector2 + dot(matrix, vector1) '''
-        rng = numpy.random.RandomState(unittest_tools.fetch_seed())
-        v1 = theano.shared(numpy.array(rng.uniform(size=(m_shp[1],)),
+        rng = np.random.RandomState(unittest_tools.fetch_seed())
+        v1 = theano.shared(np.array(rng.uniform(size=(m_shp[1],)),
                                        dtype='float32'))
-        v2_orig = numpy.array(rng.uniform(size=(m_shp[0],)), dtype='float32')
+        v2_orig = np.array(rng.uniform(size=(m_shp[0],)), dtype='float32')
         v2 = theano.shared(v2_orig)
-        m = theano.shared(numpy.array(rng.uniform(size=m_shp),
+        m = theano.shared(np.array(rng.uniform(size=m_shp),
                                       dtype='float32'))
 
         f = theano.function([], v2 + tensor.dot(m, v1),
                 mode=self.mode)
 
         # Assert they produce the same output
-        assert numpy.allclose(f(),
-                numpy.dot(m.get_value(), v1.get_value()) + v2_orig)
+        assert np.allclose(f(),
+                np.dot(m.get_value(), v1.get_value()) + v2_orig)
         topo = [n.op for n in f.maker.fgraph.toposort()]
         assert topo == [CGemv(inplace=False)], topo
 
@@ -227,8 +227,8 @@ class TestCGemv(TestCase, TestOptimizationMixin):
 
         # Assert they produce the same output
         g()
-        assert numpy.allclose(v2.get_value(),
-                numpy.dot(m.get_value(), v1.get_value()) + v2_orig)
+        assert np.allclose(v2.get_value(),
+                np.dot(m.get_value(), v1.get_value()) + v2_orig)
         topo = [n.op for n in g.maker.fgraph.toposort()]
         assert topo == [CGemv(inplace=True)]
 
@@ -237,11 +237,11 @@ class TestCGemv(TestCase, TestOptimizationMixin):
                 m.get_value(borrow=True)[::-1, ::-1],
                 borrow=True)
         v2.set_value(v2_orig)
-        assert numpy.allclose(f(),
-            numpy.dot(m.get_value(), v1.get_value()) + v2_orig)
+        assert np.allclose(f(),
+            np.dot(m.get_value(), v1.get_value()) + v2_orig)
         g()
-        assert numpy.allclose(v2.get_value(),
-            numpy.dot(m.get_value(), v1.get_value()) + v2_orig)
+        assert np.allclose(v2.get_value(),
+            np.dot(m.get_value(), v1.get_value()) + v2_orig)
 
     def test_gemv1(self):
         skip_if_blas_ldflags_empty()
@@ -265,12 +265,12 @@ class TestCGemv(TestCase, TestOptimizationMixin):
                 mode=self.mode)
 
         # Matrix value
-        A_val = numpy.ones((5, 3), dtype=dtype)
+        A_val = np.ones((5, 3), dtype=dtype)
         # Different vector length
-        ones_3 = numpy.ones(3, dtype=dtype)
-        ones_4 = numpy.ones(4, dtype=dtype)
-        ones_5 = numpy.ones(5, dtype=dtype)
-        ones_6 = numpy.ones(6, dtype=dtype)
+        ones_3 = np.ones(3, dtype=dtype)
+        ones_4 = np.ones(4, dtype=dtype)
+        ones_5 = np.ones(5, dtype=dtype)
+        ones_6 = np.ones(6, dtype=dtype)
 
         f(A_val, ones_3, ones_5)
         f(A_val[::-1, ::-1], ones_3, ones_5)
@@ -286,12 +286,12 @@ class TestCGemv(TestCase, TestOptimizationMixin):
         f = theano.function([x, y, z],
                             [tensor.dot(y, x), tensor.dot(z,x)],
                             mode=mode_blas_opt)
-        vx = numpy.random.rand(3, 3)
-        vy = numpy.random.rand(3)
-        vz = numpy.random.rand(3)
+        vx = np.random.rand(3, 3)
+        vy = np.random.rand(3)
+        vz = np.random.rand(3)
         out = f(vx, vy, vz)
-        assert numpy.allclose(out[0], numpy.dot(vy, vx))
-        assert numpy.allclose(out[1], numpy.dot(vz, vx))
+        assert np.allclose(out[0], np.dot(vy, vx))
+        assert np.allclose(out[1], np.dot(vz, vx))
         assert len([n for n in f.maker.fgraph.apply_nodes
                     if isinstance(n.op, tensor.AllocEmpty)]) == 2
 

theano/tensor/tests/test_casting.py

@@ -16,7 +16,7 @@ class test_casting(unittest.TestCase):
                 x = type_fn()
                 f = function([x], op_fn(x))
 
-                xval = theano._asarray(numpy.random.rand(10) * 10,
+                xval = theano._asarray(np.random.rand(10) * 10,
                                        dtype=type_fn.dtype)
                 yval = f(xval)
                 assert (str(yval.dtype) ==
@@ -25,7 +25,7 @@ class test_casting(unittest.TestCase):
     def test_illegal(self):
         try:
             x = zmatrix()
-            function([x], cast(x, 'float64'))(numpy.ones((2, 3),
+            function([x], cast(x, 'float64'))(np.ones((2, 3),
                                                          dtype='complex128'))
         except TypeError:
             return
@@ -44,13 +44,13 @@ class test_casting(unittest.TestCase):
                                          _convert_to_float64]):
                 y = converter(x)
                 f = function([compile.In(x, strict=True)], y)
-                a = numpy.arange(10, dtype=type1)
+                a = np.arange(10, dtype=type1)
                 b = f(a)
-                self.assertTrue(numpy.all(b == numpy.arange(10, dtype=type2)))
+                self.assertTrue(np.all(b == np.arange(10, dtype=type2)))
 
     def test_convert_to_complex(self):
-        val64 = numpy.ones(3, dtype='complex64') + 0.5j
-        val128 = numpy.ones(3, dtype='complex128') + 0.5j
+        val64 = np.ones(3, dtype='complex64') + 0.5j
+        val128 = np.ones(3, dtype='complex128') + 0.5j
 
         vec64 = TensorType('complex64', (False, ))()
         vec128 = TensorType('complex128', (False, ))()
@@ -70,22 +70,22 @@ class test_casting(unittest.TestCase):
 
         # upcasting to complex128
         for t in ['int8', 'int16', 'int32', 'int64', 'float32', 'float64']:
-            a = theano.shared(numpy.ones(3, dtype=t))
-            b = theano.shared(numpy.ones(3, dtype='complex128'))
+            a = theano.shared(np.ones(3, dtype=t))
+            b = theano.shared(np.ones(3, dtype='complex128'))
             f = function([], basic._convert_to_complex128(a))
             assert a.type.values_eq_approx(b.get_value(), f())
 
         # upcasting to complex64
         for t in ['int8', 'int16', 'int32', 'int64', 'float32']:
-            a = theano.shared(numpy.ones(3, dtype=t))
-            b = theano.shared(numpy.ones(3, dtype='complex64'))
+            a = theano.shared(np.ones(3, dtype=t))
+            b = theano.shared(np.ones(3, dtype='complex64'))
             f = function([], basic._convert_to_complex64(a))
             assert a.type.values_eq_approx(b.get_value(), f())
 
         # downcast to complex64
         for t in ['float64']:
-            a = theano.shared(numpy.ones(3, dtype=t))
-            b = theano.shared(numpy.ones(3, dtype='complex64'))
+            a = theano.shared(np.ones(3, dtype=t))
+            b = theano.shared(np.ones(3, dtype='complex64'))
             f = function([], basic._convert_to_complex64(a))
             assert a.type.values_eq_approx(b.get_value(), f())
 
@@ -96,5 +96,5 @@ class test_casting(unittest.TestCase):
         inputs = [v0]
         outputs = [v1]
         f = function(inputs, outputs)
-        i = numpy.zeros((2, 2))
-        assert (f(i) == numpy.zeros((2, 2))).all()
+        i = np.zeros((2, 2))
+        assert (f(i) == np.zeros((2, 2))).all()

theano/tensor/tests/test_nlinalg.py

@@ -239,8 +239,8 @@ def test_det_shape():
 
 class test_diag(unittest.TestCase):
     """
-    Test that linalg.diag has the same behavior as np.diag.
-    np.diag has two behaviors:
+    Test that linalg.diag has the same behavior as numpy.diag.
+    numpy.diag has two behaviors:
     (1) when given a vector, it returns a matrix with that vector as the
     diagonal.
     (2) when given a matrix, returns a vector which is the diagonal of the

theano/tensor/type.py

@@ -2,7 +2,7 @@ from __future__ import absolute_import, print_function, division
 import logging
 import warnings
 
-import numpy
+import numpy as np
 
 import theano
 from theano import config
@@ -50,7 +50,7 @@ class TensorType(Type):
         self.broadcastable = tuple(bool(b) for b in broadcastable)
         self.dtype_specs()  # error checking is done there
         self.name = name
-        self.numpy_dtype = numpy.dtype(self.dtype)
+        self.numpy_dtype = np.dtype(self.dtype)
         self.sparse_grad = sparse_grad
         if sparse_grad:
             warnings.warn(
@@ -88,12 +88,12 @@ class TensorType(Type):
                 'maybe you are trying to call a function on a (possibly '
                 'shared) variable instead of a numeric array?')
 
-        if ((type(data) is numpy.ndarray) and
+        if ((type(data) is np.ndarray) and
                 (data.dtype == self.numpy_dtype)):
             if data.dtype.num != self.numpy_dtype.num:
                 data = theano._asarray(data, dtype=self.dtype)
             # -- now fall through to ndim check
-        elif ((type(data) is numpy.memmap) and
+        elif ((type(data) is np.memmap) and
               (data.dtype == self.numpy_dtype)):
             # numpy.memmap is a "safe" subclass of ndarray,
             # so we can use it whereever we expect a base ndarray.
@@ -103,7 +103,7 @@ class TensorType(Type):
         elif strict:
             # If any of the two conditions above was not met,
             # we raise a meaningful TypeError.
-            if not (type(data) is numpy.ndarray):
+            if not (type(data) is np.ndarray):
                 raise TypeError("%s expected a ndarray object." % self,
                                 data, type(data))
             if data.dtype != self.numpy_dtype:
@@ -118,7 +118,7 @@ class TensorType(Type):
                 # TODO: consider to pad shape with ones to make it consistent
                 # with self.broadcastable... like vector->row type thing
             else:
-                if isinstance(data, numpy.ndarray):
+                if isinstance(data, np.ndarray):
                     # Check if self.dtype can accurately represent data
                     # (do not try to convert the data)
                     up_dtype = scal.upcast(self.dtype, data.dtype)
@@ -150,7 +150,7 @@ class TensorType(Type):
                     converted_data = theano._asarray(data, self.dtype)
                     # We use the `values_eq` static function from TensorType
                     # to handle NaN values.
-                    if TensorType.values_eq(numpy.asarray(data),
+                    if TensorType.values_eq(np.asarray(data),
                                             converted_data,
                                             force_same_dtype=False):
                         data = converted_data
@@ -195,7 +195,7 @@ class TensorType(Type):
                                 " dimension.", data.shape, self.broadcastable)
             i += 1
         if (self.filter_checks_isfinite and
-                not numpy.all(numpy.isfinite(data))):
+                not np.all(np.isfinite(data))):
             raise ValueError("non-finite elements not allowed")
         return data
 
@@ -294,8 +294,8 @@ class TensorType(Type):
     @staticmethod
     def may_share_memory(a, b):
         # This is a method of TensorType, so both a and b should be ndarrays
-        if isinstance(a, numpy.ndarray) and isinstance(b, numpy.ndarray):
-            return numpy.may_share_memory(a, b)
+        if isinstance(a, np.ndarray) and isinstance(b, np.ndarray):
+            return np.may_share_memory(a, b)
         else:
             return False
 
@@ -308,14 +308,14 @@ class TensorType(Type):
         if force_same_dtype and a.dtype != b.dtype:
             return False
         a_eq_b = (a == b)
-        r = numpy.all(a_eq_b)
+        r = np.all(a_eq_b)
         if r:
             return True
         # maybe the trouble is that there are NaNs
-        a_missing = numpy.isnan(a)
+        a_missing = np.isnan(a)
         if a_missing.any():
-            b_missing = numpy.isnan(b)
-            return numpy.all(a_eq_b + (a_missing == b_missing))
+            b_missing = np.isnan(b)
+            return np.all(a_eq_b + (a_missing == b_missing))
         else:
             return False
 
@@ -553,7 +553,7 @@ class TensorType(Type):
         Create an numpy ndarray full of 0 values.
 
         """
-        return numpy.zeros(shape, dtype=self.dtype)
+        return np.zeros(shape, dtype=self.dtype)
 
     def get_shape_info(self, obj):
         """
@@ -601,9 +601,9 @@ class TensorType(Type):
 
         """
         if shape_info:
-            return numpy.prod(shape_info) * numpy.dtype(self.dtype).itemsize
+            return np.prod(shape_info) * np.dtype(self.dtype).itemsize
         else:  # a scalar
-            return numpy.dtype(self.dtype).itemsize
+            return np.dtype(self.dtype).itemsize
 theano.compile.ops.expandable_types += (TensorType,)
 
 
@@ -624,13 +624,13 @@ def values_eq_approx(a, b, allow_remove_inf=False, allow_remove_nan=False,
         Absolute tolerance, passed to _allclose.
 
     """
-    if isinstance(a, numpy.ndarray) and isinstance(b, numpy.ndarray):
+    if isinstance(a, np.ndarray) and isinstance(b, np.ndarray):
         if a.shape != b.shape:
             return False
         if a.dtype != b.dtype:
             return False
         if str(a.dtype) not in theano.tensor.continuous_dtypes:
-            return numpy.all(a == b)
+            return np.all(a == b)
         else:
             cmp = theano.tensor.basic._allclose(a, b, rtol=rtol, atol=atol)
             if cmp:
@@ -644,38 +644,38 @@ def values_eq_approx(a, b, allow_remove_inf=False, allow_remove_nan=False,
             # core recently, so it may not be available to everyone. Thus,
             # for now we use a home-made recipe, that should probably be
             # revisited in the future.
-            a_missing = numpy.isnan(a)
-            a_inf = numpy.isinf(a)
+            a_missing = np.isnan(a)
+            a_inf = np.isinf(a)
 
             if not (a_missing.any() or (allow_remove_inf and a_inf.any())):
                 # There are no missing values in a, thus this is not the
                 # reason why numpy.allclose(a, b) returned False.
                 _logger.info(
                     'numpy allclose failed for abs_err %f and rel_err %f',
-                    numpy.max(abs(a - b)),
-                    numpy.max(abs(a - b) / (abs(a) + abs(b))))
+                    np.max(abs(a - b)),
+                    np.max(abs(a - b) / (abs(a) + abs(b))))
                 return False
             # The following line is what numpy.allclose bases its decision
             # upon, according to its documentation.
             rtol = 1.0000000000000001e-05
             atol = 1e-8
-            cmp_elemwise = (numpy.absolute(a - b) <=
-                            (atol + rtol * numpy.absolute(b)))
+            cmp_elemwise = (np.absolute(a - b) <=
+                            (atol + rtol * np.absolute(b)))
             # Find places where both a and b have missing values.
-            both_missing = a_missing * numpy.isnan(b)
+            both_missing = a_missing * np.isnan(b)
 
             # Find places where both a and b have inf of the same sign.
-            both_inf = a_inf * numpy.isinf(b)
+            both_inf = a_inf * np.isinf(b)
 
             # cmp_elemwise is weird when we have inf and -inf.
             # set it to False
-            cmp_elemwise = numpy.where(
+            cmp_elemwise = np.where(
                 both_inf & cmp_elemwise,
                 a == b,
                 cmp_elemwise)
 
             # check the sign of the inf
-            both_inf = numpy.where(both_inf, (a == b), both_inf)
+            both_inf = np.where(both_inf, (a == b), both_inf)
 
             if allow_remove_inf:
                 both_inf += a_inf

theano/tensor/type_other.py

@@ -3,7 +3,7 @@ from __future__ import absolute_import, print_function, division
 # Slice type and Op. None Type and NoneConst.
 #
 
-import numpy
+import numpy as np
 
 import theano
 from theano.gof import Apply, Constant, Generic, Op, Type, hashtype
@@ -78,15 +78,15 @@ class SliceConstant(Constant):
     def __init__(self, type, data, name=None):
         assert isinstance(data, slice)
         # Numpy ndarray aren't hashable, so get rid of them.
-        if isinstance(data.start, numpy.ndarray):
+        if isinstance(data.start, np.ndarray):
             assert data.start.ndim == 0
             assert str(data.start.dtype) in theano.tensor.integer_dtypes
             data = slice(int(data.start), data.stop, data.step)
-        elif isinstance(data.stop, numpy.ndarray):
+        elif isinstance(data.stop, np.ndarray):
             assert data.stop.ndim == 0
             assert str(data.stop.dtype) in theano.tensor.integer_dtypes
             data = slice(data.start, int(data.stop), data.step)
-        elif isinstance(data.step, numpy.ndarray):
+        elif isinstance(data.step, np.ndarray):
             assert data.step.ndim == 0
             assert str(data.step.dtype) in theano.tensor.integer_dtypes
             data = slice(data.start, int(data.stop), data.step)

theano/tensor/utils.py

 from __future__ import absolute_import, print_function, division
-import numpy
+import numpy as np
 
 import theano
 from theano.compat import izip
@@ -23,7 +23,7 @@ def hash_from_ndarray(data):
     # too long hash, I call it again on the concatenation of all parts.
     if not data.flags["C_CONTIGUOUS"]:
         # hash_from_code needs a C-contiguous array.
-        data = numpy.ascontiguousarray(data)
+        data = np.ascontiguousarray(data)
     return hash_from_code(hash_from_code(data) +
                           hash_from_code(str(data.shape)) +
                           hash_from_code(str(data.strides)) +

theano/tensor/var.py

@@ -4,7 +4,7 @@ import copy
 import traceback as tb
 import warnings
 
-import numpy
+import numpy as np
 from six import integer_types
 from six.moves import xrange
 
@@ -462,7 +462,7 @@ class _tensor_py_operators(object):
 
         def check_bool(args_el):
             try:
-                if (isinstance(args_el, (numpy.bool_, bool)) or
+                if (isinstance(args_el, (np.bool_, bool)) or
                         args_el.dtype == 'bool'):
                     raise TypeError('TensorType does not support boolean '
                                     'mask for indexing such as tensor[x==0]. '
@@ -495,7 +495,7 @@ class _tensor_py_operators(object):
         elif len(ellipses) == 1:
             new_axes = sum(1
                            for index in args
-                           if index is numpy.newaxis)  # numpy.newaxis is None
+                           if index is np.newaxis)  # numpy.newaxis is None
             ellipsis_at = ellipses[0]
             args = list(args)
             args[ellipsis_at: ellipsis_at + 1] = (
@@ -503,7 +503,7 @@ class _tensor_py_operators(object):
 
         # Force input to be int64 datatype if input is an empty list or tuple
         # Else leave it as is if it is a real number
-        args = tuple([numpy.array(inp, dtype=numpy.int64)
+        args = tuple([np.array(inp, dtype=np.int64)
                       if(inp == [] or inp == ()) else inp for inp in args])
         # Convert python literals to theano constants
         args = theano.tensor.subtensor.make_constant(args)
@@ -515,7 +515,7 @@ class _tensor_py_operators(object):
         axis = None
         for i, arg in enumerate(args):
             try:
-                if arg is not numpy.newaxis:
+                if arg is not np.newaxis:
                     theano.tensor.subtensor.Subtensor.convert(arg)
             except theano.tensor.subtensor.AdvancedIndexingError:
                 if advanced:
@@ -532,14 +532,14 @@ class _tensor_py_operators(object):
                 all(isinstance(a, slice) and
                     equal_slices(a, slice(None)) for a in args[axis + 1:]) and
                 isinstance(args[axis],
-                           (numpy.ndarray, list,
+                           (np.ndarray, list,
                             TensorVariable, TensorConstant,
                             theano.tensor.sharedvar.TensorSharedVariable))):
                 return self.take(args[axis], axis)
             else:
                 return theano.tensor.subtensor.advanced_subtensor(self, *args)
         else:
-            if numpy.newaxis in args:
+            if np.newaxis in args:
                 # None (aka np.newaxis) in numpy indexing means to add a
                 # broadcastable dimension, which theano traditionally did with
                 # the dimshuffle op.  The following code converts numpy-style
@@ -550,7 +550,7 @@ class _tensor_py_operators(object):
                 pattern = []
                 new_args = []
                 for arg in args:
-                    if arg == numpy.newaxis:
+                    if arg == np.newaxis:
                         pattern.append('x')
                         new_args.append(slice(None, None, None))
                     else:
@@ -642,7 +642,7 @@ class _tensor_py_operators(object):
     def norm(self, L, axis=None, keepdims=False):
         if L == 0:
             raise NotImplementedError()
-        if numpy.isinf(L):
+        if np.isinf(L):
             raise NotImplementedError()
         # optimizations will/should catch cases like L=1, L=2
         y = theano.tensor.basic.pow(
@@ -862,7 +862,7 @@ class TensorConstantSignature(tuple):
             # (note that if there are NaN values in d1, this will return
             # False, which is why we do not bother with testing `other.has_nan`
             # here).
-            return (self.sum == other.sum) and numpy.all(d0 == d1)
+            return (self.sum == other.sum) and np.all(d0 == d1)
 
     def __hash__(self):
         t, d = self
@@ -880,25 +880,25 @@ class TensorConstantSignature(tuple):
             self._sum = self.no_nan.sum()
             # The following 2 lines are needede as in Python 3.3 with NumPy
             # 1.7.1, numpy.ndarray and numpy.memmap aren't hashable.
-            if type(self._sum) is numpy.memmap:
-                self._sum = numpy.asarray(self._sum).item()
+            if type(self._sum) is np.memmap:
+                self._sum = np.asarray(self._sum).item()
             if self.has_nan and self.no_nan.mask.all():
                 # In this case the sum is not properly computed by numpy.
                 self._sum = 0
-            if numpy.isinf(self._sum) or numpy.isnan(self._sum):
+            if np.isinf(self._sum) or np.isnan(self._sum):
                 # NaN may happen when there are both -inf and +inf values.
                 if self.has_nan:
                     # Filter both NaN and Inf values.
-                    mask = self.no_nan.mask + numpy.isinf(self[1])
+                    mask = self.no_nan.mask + np.isinf(self[1])
                 else:
                     # Filter only Inf values.
-                    mask = numpy.isinf(self[1])
+                    mask = np.isinf(self[1])
                 if mask.all():
                     self._sum = 0
                 else:
-                    self._sum = numpy.ma.masked_array(self[1], mask).sum()
+                    self._sum = np.ma.masked_array(self[1], mask).sum()
                 # At this point there should be no more NaN.
-                assert not numpy.isnan(self._sum)
+                assert not np.isnan(self._sum)
         return self._sum
     sum = property(_get_sum)
 
@@ -906,9 +906,9 @@ class TensorConstantSignature(tuple):
         try:
             return self._no_nan
         except AttributeError:
-            nan_mask = numpy.isnan(self[1])
+            nan_mask = np.isnan(self[1])
             if nan_mask.any():
-                self._no_nan = numpy.ma.masked_array(self[1], nan_mask)
+                self._no_nan = np.ma.masked_array(self[1], nan_mask)
                 self.has_nan = True
             else:
                 self._no_nan = self[1]
@@ -926,7 +926,7 @@ class TensorConstant(_tensor_py_operators, Constant):
     def __init__(self, type, data, name=None):
         Constant.__init__(self, type, data, name)
         self.tag.unique_value = None
-        if isinstance(data, numpy.ndarray) and data.ndim > 0:
+        if isinstance(data, np.ndarray) and data.ndim > 0:
             flat_data = data.ravel()
             if flat_data.shape[0]:
                 if (flat_data == flat_data[0]).all():
@@ -949,7 +949,7 @@ class TensorConstant(_tensor_py_operators, Constant):
     def equals(self, other):
         # Override Contant.equals to allow to compare with
         # numpy.ndarray, and python type.
-        if isinstance(other, (numpy.ndarray, int, float)):
+        if isinstance(other, (np.ndarray, int, float)):
             # Make a TensorConstant to be able to compare
             other = theano.tensor.basic.constant(other)
         return (isinstance(other, TensorConstant) and

theano/tensor/xlogx.py

 from __future__ import absolute_import, print_function, division
 
-import numpy
+import numpy as np
 
 from theano.tensor.elemwise import Elemwise
 from theano import scalar
@@ -15,7 +15,7 @@ class XlogX(scalar.UnaryScalarOp):
     def st_impl(x):
         if x == 0.0:
             return 0.0
-        return x * numpy.log(x)
+        return x * np.log(x)
 
     def impl(self, x):
         return XlogX.st_impl(x)
@@ -48,7 +48,7 @@ class XlogY0(scalar.BinaryScalarOp):
     def st_impl(x, y):
         if x == 0.0:
             return 0.0
-        return x * numpy.log(y)
+        return x * np.log(y)
 
     def impl(self, x, y):
         return XlogY0.st_impl(x, y)

theano/typed_list/basic.py

 from __future__ import absolute_import, print_function, division
 
-import numpy
+import numpy as np
 
 from .type import TypedListType
 import theano
@@ -500,7 +500,7 @@ class Index(Op):
         (out,) = outputs
         for y in range(len(x)):
             if node.inputs[0].ttype.values_eq(x[y], elem):
-                out[0] = numpy.asarray(y, dtype=theano.config.floatX)
+                out[0] = np.asarray(y, dtype=theano.config.floatX)
                 break
 
     def __str__(self):
@@ -530,7 +530,7 @@ class Count(Op):
         for y in range(len(x)):
             if node.inputs[0].ttype.values_eq(x[y], elem):
                 out[0] += 1
-        out[0] = numpy.asarray(out[0], dtype=theano.config.floatX)
+        out[0] = np.asarray(out[0], dtype=theano.config.floatX)
 
     def __str__(self):
         return self.__class__.__name__
@@ -565,7 +565,7 @@ class Length(Op):
 
     def perform(self, node, x, outputs):
         (out,) = outputs
-        out[0] = numpy.asarray(len(x[0]), 'int64')
+        out[0] = np.asarray(len(x[0]), 'int64')
 
     def __str__(self):
         return self.__class__.__name__

theano/typed_list/tests/test_basic.py

@@ -2,7 +2,7 @@ from __future__ import absolute_import, print_function, division
 import unittest
 
 from nose.plugins.skip import SkipTest
-import numpy
+import numpy as np
 
 import theano
 import theano.typed_list
@@ -24,7 +24,7 @@ except ImportError:
 
 # took from tensors/tests/test_basic.py
 def rand_ranged_matrix(minimum, maximum, shape):
-    return numpy.asarray(numpy.random.rand(*shape) * (maximum - minimum) +
+    return np.asarray(np.random.rand(*shape) * (maximum - minimum) +
                       minimum, dtype=theano.config.floatX)
 
 
@@ -34,8 +34,8 @@ def random_lil(shape, dtype, nnz):
     huge = 2 ** 30
     for k in range(nnz):
         # set non-zeros in random locations (row x, col y)
-        idx = numpy.random.randint(1, huge + 1, size=2) % shape
-        value = numpy.random.rand()
+        idx = np.random.randint(1, huge + 1, size=2) % shape
+        value = np.random.rand()
         # if dtype *int*, value will always be zeros!
         if dtype in theano.tensor.integer_dtypes:
             value = int(value * 100)
@@ -68,7 +68,7 @@ class test_get_item(unittest.TestCase):
 
         x = rand_ranged_matrix(-1000, 1000, [100, 101])
 
-        self.assertTrue(numpy.array_equal(f([x], slice(0, 1, 1)), [x]))
+        self.assertTrue(np.array_equal(f([x], slice(0, 1, 1)), [x]))
 
     def test_sanity_check_single(self):
 
@@ -84,8 +84,8 @@ class test_get_item(unittest.TestCase):
 
         x = rand_ranged_matrix(-1000, 1000, [100, 101])
 
-        self.assertTrue(numpy.array_equal(f([x],
-                                            numpy.asarray(0, dtype='int64')),
+        self.assertTrue(np.array_equal(f([x],
+                                         np.asarray(0, dtype='int64')),
                                        x))
 
     def test_interface(self):
@@ -100,8 +100,8 @@ class test_get_item(unittest.TestCase):
 
         x = rand_ranged_matrix(-1000, 1000, [100, 101])
 
-        self.assertTrue(numpy.array_equal(f([x],
-                                            numpy.asarray(0, dtype='int64')),
+        self.assertTrue(np.array_equal(f([x],
+                                         np.asarray(0, dtype='int64')),
                                        x))
 
         z = mySymbolicMatricesList[0]
@@ -109,7 +109,7 @@ class test_get_item(unittest.TestCase):
         f = theano.function([mySymbolicMatricesList],
                             z)
 
-        self.assertTrue(numpy.array_equal(f([x]), x))
+        self.assertTrue(np.array_equal(f([x]), x))
 
     def test_wrong_input(self):
         mySymbolicMatricesList = TypedListType(T.TensorType(
@@ -130,14 +130,14 @@ class test_get_item(unittest.TestCase):
 
         x = rand_ranged_matrix(-1000, 1000, [100, 101])
 
-        self.assertTrue(numpy.array_equal(f([x]), x))
+        self.assertTrue(np.array_equal(f([x]), x))
 
         z = GetItem()(mySymbolicMatricesList, slice(0, 1, 1))
 
         f = theano.function([mySymbolicMatricesList],
                             z)
 
-        self.assertTrue(numpy.array_equal(f([x]), [x]))
+        self.assertTrue(np.array_equal(f([x]), [x]))
 
 
 class test_append(unittest.TestCase):
@@ -156,7 +156,7 @@ class test_append(unittest.TestCase):
 
         y = rand_ranged_matrix(-1000, 1000, [100, 101])
 
-        self.assertTrue(numpy.array_equal(f([x], y), [x, y]))
+        self.assertTrue(np.array_equal(f([x], y), [x, y]))
 
     def test_sanity_check(self):
         mySymbolicMatricesList = TypedListType(T.TensorType(
@@ -171,7 +171,7 @@ class test_append(unittest.TestCase):
 
         y = rand_ranged_matrix(-1000, 1000, [100, 101])
 
-        self.assertTrue(numpy.array_equal(f([x], y), [x, y]))
+        self.assertTrue(np.array_equal(f([x], y), [x, y]))
 
     def test_interfaces(self):
         mySymbolicMatricesList = TypedListType(T.TensorType(
@@ -186,7 +186,7 @@ class test_append(unittest.TestCase):
 
         y = rand_ranged_matrix(-1000, 1000, [100, 101])
 
-        self.assertTrue(numpy.array_equal(f([x], y), [x, y]))
+        self.assertTrue(np.array_equal(f([x], y), [x, y]))
 
 
 class test_extend(unittest.TestCase):
@@ -206,7 +206,7 @@ class test_extend(unittest.TestCase):
 
         y = rand_ranged_matrix(-1000, 1000, [100, 101])
 
-        self.assertTrue(numpy.array_equal(f([x], [y]), [x, y]))
+        self.assertTrue(np.array_equal(f([x], [y]), [x, y]))
 
     def test_sanity_check(self):
         mySymbolicMatricesList1 = TypedListType(T.TensorType(
@@ -223,7 +223,7 @@ class test_extend(unittest.TestCase):
 
         y = rand_ranged_matrix(-1000, 1000, [100, 101])
 
-        self.assertTrue(numpy.array_equal(f([x], [y]), [x, y]))
+        self.assertTrue(np.array_equal(f([x], [y]), [x, y]))
 
     def test_interface(self):
         mySymbolicMatricesList1 = TypedListType(T.TensorType(
@@ -240,7 +240,7 @@ class test_extend(unittest.TestCase):
 
         y = rand_ranged_matrix(-1000, 1000, [100, 101])
 
-        self.assertTrue(numpy.array_equal(f([x], [y]), [x, y]))
+        self.assertTrue(np.array_equal(f([x], [y]), [x, y]))
 
 
 class test_insert(unittest.TestCase):
@@ -260,8 +260,8 @@ class test_insert(unittest.TestCase):
 
         y = rand_ranged_matrix(-1000, 1000, [100, 101])
 
-        self.assertTrue(numpy.array_equal(f([x],
-                                            numpy.asarray(1, dtype='int64'),
+        self.assertTrue(np.array_equal(f([x],
+                                         np.asarray(1, dtype='int64'),
                                          y),
                                        [x, y]))
 
@@ -279,7 +279,7 @@ class test_insert(unittest.TestCase):
 
         y = rand_ranged_matrix(-1000, 1000, [100, 101])
 
-        self.assertTrue(numpy.array_equal(f([x], numpy.asarray(1,
+        self.assertTrue(np.array_equal(f([x], np.asarray(1,
                         dtype='int64'), y), [x, y]))
 
     def test_interface(self):
@@ -296,8 +296,8 @@ class test_insert(unittest.TestCase):
 
         y = rand_ranged_matrix(-1000, 1000, [100, 101])
 
-        self.assertTrue(numpy.array_equal(f([x],
-                                            numpy.asarray(1, dtype='int64'),
+        self.assertTrue(np.array_equal(f([x],
+                                         np.asarray(1, dtype='int64'),
                                          y),
                                        [x, y]))
 
@@ -318,7 +318,7 @@ class test_remove(unittest.TestCase):
 
         y = rand_ranged_matrix(-1000, 1000, [100, 101])
 
-        self.assertTrue(numpy.array_equal(f([x, y], y), [x]))
+        self.assertTrue(np.array_equal(f([x, y], y), [x]))
 
     def test_sanity_check(self):
         mySymbolicMatricesList = TypedListType(T.TensorType(
@@ -333,7 +333,7 @@ class test_remove(unittest.TestCase):
 
         y = rand_ranged_matrix(-1000, 1000, [100, 101])
 
-        self.assertTrue(numpy.array_equal(f([x, y], y), [x]))
+        self.assertTrue(np.array_equal(f([x, y], y), [x]))
 
     def test_interface(self):
         mySymbolicMatricesList = TypedListType(T.TensorType(
@@ -348,7 +348,7 @@ class test_remove(unittest.TestCase):
 
         y = rand_ranged_matrix(-1000, 1000, [100, 101])
 
-        self.assertTrue(numpy.array_equal(f([x, y], y), [x]))
+        self.assertTrue(np.array_equal(f([x, y], y), [x]))
 
 
 class test_reverse(unittest.TestCase):
@@ -366,7 +366,7 @@ class test_reverse(unittest.TestCase):
 
         y = rand_ranged_matrix(-1000, 1000, [100, 101])
 
-        self.assertTrue(numpy.array_equal(f([x, y]), [y, x]))
+        self.assertTrue(np.array_equal(f([x, y]), [y, x]))
 
     def test_sanity_check(self):
         mySymbolicMatricesList = TypedListType(T.TensorType(
@@ -380,7 +380,7 @@ class test_reverse(unittest.TestCase):
 
         y = rand_ranged_matrix(-1000, 1000, [100, 101])
 
-        self.assertTrue(numpy.array_equal(f([x, y]), [y, x]))
+        self.assertTrue(np.array_equal(f([x, y]), [y, x]))
 
     def test_interface(self):
         mySymbolicMatricesList = TypedListType(T.TensorType(
@@ -394,7 +394,7 @@ class test_reverse(unittest.TestCase):
 
         y = rand_ranged_matrix(-1000, 1000, [100, 101])
 
-        self.assertTrue(numpy.array_equal(f([x, y]), [y, x]))
+        self.assertTrue(np.array_equal(f([x, y]), [y, x]))
 
 
 class test_index(unittest.TestCase):
@@ -570,10 +570,10 @@ class TestMakeList(unittest.TestCase):
         x = T.tensor3()
         y = T.tensor3()
 
-        A = numpy.cast[theano.config.floatX](numpy.random.rand(5, 3))
-        B = numpy.cast[theano.config.floatX](numpy.random.rand(7, 2))
-        X = numpy.cast[theano.config.floatX](numpy.random.rand(5, 6, 1))
-        Y = numpy.cast[theano.config.floatX](numpy.random.rand(1, 9, 3))
+        A = np.cast[theano.config.floatX](np.random.rand(5, 3))
+        B = np.cast[theano.config.floatX](np.random.rand(7, 2))
+        X = np.cast[theano.config.floatX](np.random.rand(5, 6, 1))
+        Y = np.cast[theano.config.floatX](np.random.rand(1, 9, 3))
 
         make_list((3., 4.))
         c = make_list((a, b))

theano/typed_list/tests/test_opt.py

 from __future__ import absolute_import, print_function, division
 import unittest
 
-import numpy
+import numpy as np
 
 import theano
 import theano.typed_list
@@ -14,7 +14,7 @@ from theano import In
 
 # took from tensors/tests/test_basic.py
 def rand_ranged_matrix(minimum, maximum, shape):
-    return numpy.asarray(numpy.random.rand(*shape) * (maximum - minimum) +
+    return np.asarray(np.random.rand(*shape) * (maximum - minimum) +
                       minimum, dtype=theano.config.floatX)
 
 
@@ -34,7 +34,7 @@ class test_inplace(unittest.TestCase):
 
         y = rand_ranged_matrix(-1000, 1000, [100, 101])
 
-        self.assertTrue(numpy.array_equal(f([x, y]), [y, x]))
+        self.assertTrue(np.array_equal(f([x, y]), [y, x]))
 
     def test_append_inplace(self):
         mySymbolicMatricesList = TypedListType(T.TensorType(
@@ -52,7 +52,7 @@ class test_inplace(unittest.TestCase):
 
         y = rand_ranged_matrix(-1000, 1000, [100, 101])
 
-        self.assertTrue(numpy.array_equal(f([x], y), [x, y]))
+        self.assertTrue(np.array_equal(f([x], y), [x, y]))
 
     def test_extend_inplace(self):
         mySymbolicMatricesList1 = TypedListType(T.TensorType(
@@ -72,7 +72,7 @@ class test_inplace(unittest.TestCase):
 
         y = rand_ranged_matrix(-1000, 1000, [100, 101])
 
-        self.assertTrue(numpy.array_equal(f([x], [y]), [x, y]))
+        self.assertTrue(np.array_equal(f([x], [y]), [x, y]))
 
     def test_insert_inplace(self):
         mySymbolicMatricesList = TypedListType(T.TensorType(
@@ -92,7 +92,7 @@ class test_inplace(unittest.TestCase):
 
         y = rand_ranged_matrix(-1000, 1000, [100, 101])
 
-        self.assertTrue(numpy.array_equal(f([x], numpy.asarray(1,
+        self.assertTrue(np.array_equal(f([x], np.asarray(1,
                         dtype='int64'), y), [x, y]))
 
     def test_remove_inplace(self):
@@ -110,7 +110,7 @@ class test_inplace(unittest.TestCase):
 
         y = rand_ranged_matrix(-1000, 1000, [100, 101])
 
-        self.assertTrue(numpy.array_equal(f([x, y], y), [x]))
+        self.assertTrue(np.array_equal(f([x, y], y), [x]))
 
 
 def test_constant_folding():

theano/typed_list/tests/test_type.py

 from __future__ import absolute_import, print_function, division
 import unittest
 
-import numpy
+import numpy as np
 
 import theano
 import theano.typed_list
@@ -12,7 +12,7 @@ from theano.tests import unittest_tools as utt
 
 # took from tensors/tests/test_basic.py
 def rand_ranged_matrix(minimum, maximum, shape):
-    return numpy.asarray(numpy.random.rand(*shape) * (maximum - minimum) +
+    return np.asarray(np.random.rand(*shape) * (maximum - minimum) +
                       minimum, dtype=theano.config.floatX)
 
 
@@ -84,7 +84,7 @@ class test_typed_list_type(unittest.TestCase):
 
         x = rand_ranged_matrix(-1000, 1000, [100, 100])
 
-        self.assertTrue(numpy.array_equal(myType.filter([x]), [x]))
+        self.assertTrue(np.array_equal(myType.filter([x]), [x]))
 
     def test_intern_filter(self):
         """
@@ -95,9 +95,9 @@ class test_typed_list_type(unittest.TestCase):
         myType = TypedListType(T.TensorType('float64',
                                             (False, False)))
 
-        x = numpy.asarray([[4, 5], [4, 5]], dtype='float32')
+        x = np.asarray([[4, 5], [4, 5]], dtype='float32')
 
-        self.assertTrue(numpy.array_equal(myType.filter([x]), [x]))
+        self.assertTrue(np.array_equal(myType.filter([x]), [x]))
 
     # Will fail for unknown reasons
     # under search
@@ -125,7 +125,7 @@ class test_typed_list_type(unittest.TestCase):
 
         x = rand_ranged_matrix(-1000, 1000, [100, 100])
 
-        self.assertTrue(numpy.array_equal(myType.filter([[x]]), [[x]]))
+        self.assertTrue(np.array_equal(myType.filter([[x]]), [[x]]))
 
     def test_comparison_different_depth(self):
         """