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# ==========================================================================
#
# Copyright NumFOCUS
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# https://www.apache.org/licenses/LICENSE-2.0.txt
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
#
# ==========================================================================*/
import sys
import unittest
import datetime as dt
import itk
import numpy as np
class TestNumpyVnlMemoryviewInterface(unittest.TestCase):
"""This tests numpy array <-> ITK Scalar Image conversion."""
def setUp(self):
pass
def test_NumPyBridge_VnlVector(self):
"Try to convert a vnl vector into a Numpy array and back."
v1 = itk.vnl_vector[itk.F]()
v1.set_size(4)
v1.put(0, 1.3)
v1.put(1, 2)
v1.put(2, 4)
v1.put(3, 5)
arr = itk.PyVnl.F.GetArrayViewFromVnlVector(v1)
v2 = itk.PyVnl.F.GetVnlVectorFromArray(arr)
self.assertEqual(v1.size(), arr.shape[0])
self.assertEqual(v1.size(), v2.size())
# Compute difference between the original vector and numpy array view
diff = 0.0
for ii in range(0, v1.size()):
diff += abs(v1.get(ii) - arr[ii])
self.assertEqual(0, diff)
# Compute difference between the two vectors
diff = 0.0
for ii in range(0, v1.size()):
diff += abs(v1.get(ii) - v2.get(ii))
self.assertEqual(0, diff)
# Test view
v1.put(0, 1)
self.assertEqual(v1.get(0), arr[0])
# Test deep copy
arr_cp = itk.PyVnl.F.GetArrayFromVnlVector(v1)
self.assertEqual(v1.get(0), arr_cp[0])
v1.put(0, 0)
self.assertNotEqual(v1.get(0), arr_cp[0])
v2_cp = itk.PyVnl.F.GetVnlVectorFromArray(arr_cp)
arr_cp[0] = 2
self.assertNotEqual(v2_cp.get(0), arr_cp[0])
def test_NumPyBridge_VnlMatrix(self):
"Try to convert a vnl matrix into a Numpy array and back."
m1 = itk.vnl_matrix[itk.F]()
m1.set_size(2, 3)
m1.fill(0)
m1.put(1, 2, 1.3)
m1.put(1, 0, 2)
arr = itk.PyVnl.F.GetArrayViewFromVnlMatrix(m1)
m2 = itk.PyVnl.F.GetVnlMatrixFromArray(arr)
# Check that matrices have the same number of elements
self.assertEqual(m1.size(), m2.size())
self.assertEqual(m1.size(), arr.size)
# Check that the matrices axes dimensions have not been flipped or changed
self.assertEqual(m1.rows(), arr.shape[0])
self.assertEqual(m1.columns(), arr.shape[1])
self.assertEqual(m1.rows(), m2.rows())
self.assertEqual(m1.columns(), m2.columns())
# Compute any difference between the original matrix and the numpy array view
diff = 0.0
for ii in range(m1.rows()):
for jj in range(m1.cols()):
diff += abs(m1.get(ii, jj) - arr[ii, jj])
self.assertEqual(0, diff)
# Compute any difference between the two matrices
diff = 0.0
for ii in range(m1.rows()):
for jj in range(m1.cols()):
diff += abs(m1.get(ii, jj) - m2.get(ii, jj))
self.assertEqual(0, diff)
# Test view
m1.put(0, 0, 1)
self.assertEqual(m1.get(0, 0), arr[0, 0])
# Test deep copy
arr_cp = itk.PyVnl.F.GetArrayFromVnlMatrix(m1)
self.assertEqual(m1.get(0, 0), arr_cp[0, 0])
m1.put(0, 0, 2)
self.assertNotEqual(m1.get(0, 0), arr_cp[0, 0])
m2 = itk.PyVnl.F.GetVnlMatrixFromArray(arr_cp)
arr_cp[0, 0] = 2
self.assertNotEqual(m2.get(0, 0), arr_cp[0, 0])
# Check that the vnl matrix from a temporary itk Matrix is valid
itkm = itk.Matrix[itk.F, 3, 3]()
itkm.SetIdentity()
m3 = itkm.GetVnlMatrix()
del itkm
m3 = m3.as_matrix()
diff = 0.0
for ii in range(m3.rows()):
for jj in range(m3.cols()):
if ii == jj:
diff += abs(m3.get(ii, jj) - 1.0)
else:
diff += abs(m3.get(ii, jj))
self.assertEqual(0, diff)
# Check instantiations for more combinations of Matrix
for i in range(3, 5):
for j in range(3, 5):
itkm_f = itk.Matrix[itk.F, i, j]()
m3 = itkm_f.GetVnlMatrix()
itkm_d = itk.Matrix[itk.D, i, j]()
m3 = itkm_d.GetVnlMatrix()
if __name__ == "__main__":
unittest.main()
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