Merge pull request #825 from ahojnnes/coverage

MRG: Increase test coverage

TODO.txt

@@ -1,3 +1,8 @@
+Version 0.11
+------------
+* Remove deprecated `reverse_map` parameter of `skimage.transform.warp`
+
+
 Version 0.10
 ------------
 * Remove deprecated functions in `skimage.filter.rank.*`
@@ -14,3 +19,6 @@ Version 0.10
 * Remove deprecated `skimage.color.is_gray` and `skimage.color.is_rgb`
   functions
 * Enable doctests of experimental `skimage.feature.brief`
+* Remove deprecated `skimage.segmentation.visualize_boundaries`
+* Remove deprecated `skimage.morphology.greyscale_*`
+* Remove deprecated `skimage.exposure.equalize`

skimage/exposure/exposure.py

@@ -263,7 +263,7 @@ def adjust_gamma(image, gamma=1, gain=1):
     dtype = image.dtype.type
 
     if gamma < 0:
-        return "Gamma should be a non-negative real number"
+        raise ValueError("Gamma should be a non-negative real number.")
 
     scale = float(dtype_limits(image, True)[1] - dtype_limits(image, True)[0])
 

skimage/exposure/tests/test_exposure.py

@@ -2,7 +2,7 @@ import warnings
 
 import numpy as np
 from numpy.testing import assert_array_almost_equal as assert_close
-from numpy.testing import assert_array_equal
+from numpy.testing import assert_array_equal, assert_raises
 import skimage
 from skimage import data
 from skimage import exposure
@@ -230,6 +230,11 @@ def test_adjust_gamma_greater_one():
     assert_array_equal(result, expected)
 
 
+def test_adjust_gamma_neggative():
+    image = np.arange(0, 255, 4, np.uint8).reshape(8,8)
+    assert_raises(ValueError, exposure.adjust_gamma, image, -1)
+
+
 # Test Logarithmic Correction
 # ===========================
 
@@ -336,3 +341,8 @@ def test_adjust_inv_sigmoid_cutoff_half():
 
     result = exposure.adjust_sigmoid(image, 0.5, 10, True)
     assert_array_equal(result, expected)
+
+
+def test_neggative():
+    image = np.arange(-10, 245, 4).reshape(8, 8).astype(np.double)
+    assert_raises(ValueError, exposure.adjust_gamma, image)

skimage/feature/_daisy.py

@@ -94,15 +94,15 @@ def daisy(img, step=4, radius=15, rings=3, histograms=8, orientations=8,
     '''
 
     # Validate image format.
-    if img.ndim > 2:
+    if img.ndim != 2:
         raise ValueError('Only grey-level images are supported.')
-    if img.dtype.kind != 'f':
+
-        img = img_as_float(img)
+    img = img_as_float(img)
 
     # Validate parameters.
     if sigmas is not None and ring_radii is not None \
             and len(sigmas) - 1 != len(ring_radii):
-        raise ValueError('len(sigmas)-1 != len(ring_radii)')
+        raise ValueError('`len(sigmas)-1 != len(ring_radii)`')
     if ring_radii is not None:
         rings = len(ring_radii)
         radius = ring_radii[-1]

skimage/feature/_greycomatrix.py

@@ -1,226 +0,0 @@
-"""
-Compute grey level co-occurrence matrices (GLCMs) and associated
-properties to characterize image textures.
-"""
-
-import numpy as np
-
-from ._texture import _glcm_loop
-
-
-def greycomatrix(image, distances, angles, levels=256, symmetric=False,
-                 normed=False):
-    """Calculate the grey-level co-occurrence matrix.
-
-    A grey level co-occurence matrix is a histogram of co-occuring
-    greyscale values at a given offset over an image.
-
-    Parameters
-    ----------
-    image : array_like of uint8
-        Integer typed input image. The image will be cast to uint8, so
-        the maximum value must be less than 256.
-    distances : array_like
-        List of pixel pair distance offsets.
-    angles : array_like
-        List of pixel pair angles in radians.
-    levels : int, optional
-        The input image should contain integers in [0, levels-1],
-        where levels indicate the number of grey-levels counted
-        (typically 256 for an 8-bit image). The maximum value is
-        256.
-    symmetric : bool, optional
-        If True, the output matrix `P[:, :, d, theta]` is symmetric. This
-        is accomplished by ignoring the order of value pairs, so both
-        (i, j) and (j, i) are accumulated when (i, j) is encountered
-        for a given offset. The default is False.
-    normed : bool, optional
-        If True, normalize each matrix `P[:, :, d, theta]` by dividing
-        by the total number of accumulated co-occurrences for the given
-        offset. The elements of the resulting matrix sum to 1. The
-        default is False.
-
-    Returns
-    -------
-    P : 4-D ndarray
-        The grey-level co-occurrence histogram. The value
-        `P[i,j,d,theta]` is the number of times that grey-level `j`
-        occurs at a distance `d` and at an angle `theta` from
-        grey-level `i`. If `normed` is `False`, the output is of
-        type uint32, otherwise it is float64.
-
-    References
-    ----------
-    .. [1] The GLCM Tutorial Home Page,
-           http://www.fp.ucalgary.ca/mhallbey/tutorial.htm
-    .. [2] Pattern Recognition Engineering, Morton Nadler & Eric P.
-           Smith
-    .. [3] Wikipedia, http://en.wikipedia.org/wiki/Co-occurrence_matrix
-
-
-    Examples
-    --------
-    Compute 2 GLCMs: One for a 1-pixel offset to the right, and one
-    for a 1-pixel offset upwards.
-
-    >>> image = np.array([[0, 0, 1, 1],
-    ...                   [0, 0, 1, 1],
-    ...                   [0, 2, 2, 2],
-    ...                   [2, 2, 3, 3]], dtype=np.uint8)
-    >>> result = greycomatrix(image, [1], [0, np.pi/2], levels=4)
-    >>> result[:, :, 0, 0]
-    array([[2, 2, 1, 0],
-           [0, 2, 0, 0],
-           [0, 0, 3, 1],
-           [0, 0, 0, 1]], dtype=uint32)
-    >>> result[:, :, 0, 1]
-    array([[3, 0, 2, 0],
-           [0, 2, 2, 0],
-           [0, 0, 1, 2],
-           [0, 0, 0, 0]], dtype=uint32)
-
-    """
-
-    assert levels <= 256
-    image = np.ascontiguousarray(image)
-    assert image.ndim == 2
-    assert image.min() >= 0
-    assert image.max() < levels
-    image = image.astype(np.uint8)
-    distances = np.ascontiguousarray(distances, dtype=np.float64)
-    angles = np.ascontiguousarray(angles, dtype=np.float64)
-    assert distances.ndim == 1
-    assert angles.ndim == 1
-
-    P = np.zeros((levels, levels, len(distances), len(angles)),
-                 dtype=np.uint32, order='C')
-
-    # count co-occurences
-    _glcm_loop(image, distances, angles, levels, P)
-
-    # make each GLMC symmetric
-    if symmetric:
-        Pt = np.transpose(P, (1, 0, 2, 3))
-        P = P + Pt
-
-    # normalize each GLMC
-    if normed:
-        P = P.astype(np.float64)
-        glcm_sums = np.apply_over_axes(np.sum, P, axes=(0, 1))
-        glcm_sums[glcm_sums == 0] = 1
-        P /= glcm_sums
-
-    return P
-
-
-def greycoprops(P, prop='contrast'):
-    """Calculate texture properties of a GLCM.
-
-    Compute a feature of a grey level co-occurrence matrix to serve as
-    a compact summary of the matrix. The properties are computed as
-    follows:
-
-    - 'contrast': :math:`\\sum_{i,j=0}^{levels-1} P_{i,j}(i-j)^2`
-    - 'dissimilarity': :math:`\\sum_{i,j=0}^{levels-1}P_{i,j}|i-j|`
-    - 'homogeneity': :math:`\\sum_{i,j=0}^{levels-1}\\frac{P_{i,j}}{1+(i-j)^2}`
-    - 'ASM': :math:`\\sum_{i,j=0}^{levels-1} P_{i,j}^2`
-    - 'energy': :math:`\\sqrt{ASM}`
-    - 'correlation':
-        .. math:: \\sum_{i,j=0}^{levels-1} P_{i,j}\\left[\\frac{(i-\\mu_i) \\
-                  (j-\\mu_j)}{\\sqrt{(\\sigma_i^2)(\\sigma_j^2)}}\\right]
-
-
-    Parameters
-    ----------
-    P : ndarray
-        Input array. `P` is the grey-level co-occurrence histogram
-        for which to compute the specified property. The value
-        `P[i,j,d,theta]` is the number of times that grey-level j
-        occurs at a distance d and at an angle theta from
-        grey-level i.
-
-    prop : {'contrast', 'dissimilarity', 'homogeneity', 'energy', \
-            'correlation', 'ASM'}, optional
-        The property of the GLCM to compute. The default is 'contrast'.
-
-    Returns
-    -------
-    results : 2-D ndarray
-        2-dimensional array. `results[d, a]` is the property 'prop' for
-        the d'th distance and the a'th angle.
-
-    References
-    ----------
-    .. [1] The GLCM Tutorial Home Page,
-           http://www.fp.ucalgary.ca/mhallbey/tutorial.htm
-
-    Examples
-    --------
-    Compute the contrast for GLCMs with distances [1, 2] and angles
-    [0 degrees, 90 degrees]
-
-    >>> image = np.array([[0, 0, 1, 1],
-    ...                   [0, 0, 1, 1],
-    ...                   [0, 2, 2, 2],
-    ...                   [2, 2, 3, 3]], dtype=np.uint8)
-    >>> g = greycomatrix(image, [1, 2], [0, np.pi/2], levels=4,
-    ...                  normed=True, symmetric=True)
-    >>> contrast = greycoprops(g, 'contrast')
-    >>> contrast
-    array([[ 0.58333333,  1.        ],
-           [ 1.25      ,  2.75      ]])
-
-    """
-
-    assert P.ndim == 4
-    (num_level, num_level2, num_dist, num_angle) = P.shape
-    assert num_level == num_level2
-    assert num_dist > 0
-    assert num_angle > 0
-
-    # create weights for specified property
-    I, J = np.ogrid[0:num_level, 0:num_level]
-    if prop == 'contrast':
-        weights = (I - J)**2
-    elif prop == 'dissimilarity':
-        weights = np.abs(I - J)
-    elif prop == 'homogeneity':
-        weights = 1. / (1. + (I - J)**2)
-    elif prop in ['ASM', 'energy', 'correlation']:
-        pass
-    else:
-        raise ValueError('%s is an invalid property' % (prop))
-
-    # compute property for each GLCM
-    if prop == 'energy':
-        asm = np.apply_over_axes(np.sum, (P**2), axes=(0, 1))[0, 0]
-        results = np.sqrt(asm)
-    elif prop == 'ASM':
-        results = np.apply_over_axes(np.sum, (P**2), axes=(0, 1))[0, 0]
-    elif prop == 'correlation':
-        results = np.zeros((num_dist, num_angle), dtype=np.float64)
-        I = np.array(range(num_level)).reshape((num_level, 1, 1, 1))
-        J = np.array(range(num_level)).reshape((1, num_level, 1, 1))
-        diff_i = I - np.apply_over_axes(np.sum, (I * P), axes=(0, 1))[0, 0]
-        diff_j = J - np.apply_over_axes(np.sum, (J * P), axes=(0, 1))[0, 0]
-
-        std_i = np.sqrt(np.apply_over_axes(np.sum, (P * (diff_i)**2),
-                                           axes=(0, 1))[0, 0])
-        std_j = np.sqrt(np.apply_over_axes(np.sum, (P * (diff_j)**2),
-                                           axes=(0, 1))[0, 0])
-        cov = np.apply_over_axes(np.sum, (P * (diff_i * diff_j)),
-                                 axes=(0, 1))[0, 0]
-
-        # handle the special case of standard deviations near zero
-        mask_0 = std_i < 1e-15
-        mask_0[std_j < 1e-15] = True
-        results[mask_0] = 1
-
-        # handle the standard case
-        mask_1 = mask_0 == False
-        results[mask_1] = cov[mask_1] / (std_i[mask_1] * std_j[mask_1])
-    elif prop in ['contrast', 'dissimilarity', 'homogeneity']:
-        weights = weights.reshape((num_level, num_level, 1, 1))
-        results = np.apply_over_axes(np.sum, (P * weights), axes=(0, 1))[0, 0]
-
-    return results

skimage/feature/tests/test_corner.py

@@ -19,7 +19,11 @@ def test_square_image():
     assert len(results) == 57
 
     # Harris
-    results = peak_local_max(corner_harris(im))
+    results = peak_local_max(corner_harris(im, method='k'))
+    # interest at corner
+    assert len(results) == 1
+
+    results = peak_local_max(corner_harris(im, method='eps'))
     # interest at corner
     assert len(results) == 1
 
@@ -41,7 +45,9 @@ def test_noisy_square_image():
     assert results.any()
 
     # Harris
-    results = peak_local_max(corner_harris(im, sigma=1.5))
+    results = peak_local_max(corner_harris(im, sigma=1.5, method='k'))
+    assert len(results) == 1
+    results = peak_local_max(corner_harris(im, sigma=1.5, method='eps'))
     assert len(results) == 1
 
     # Shi-Tomasi
@@ -140,6 +146,10 @@ def test_corner_peaks():
     corners = corner_peaks(response, exclude_border=False, min_distance=0)
     assert len(corners) == 4
 
+    corners = corner_peaks(response, exclude_border=False, min_distance=0,
+                           indices=False)
+    assert np.sum(corners) == 4
+
 
 def test_blank_image_nans():
     """Some of the corner detectors had a weakness in terms of returning

skimage/feature/tests/test_daisy.py

@@ -45,8 +45,15 @@ def test_descs_shape():
     assert(descs.shape[1] == ceil((img.shape[1] - radius * 2) / float(step)))
 
 
+def test_daisy_sigmas_and_radii():
+    img = img_as_float(data.lena()[:64, :64].mean(axis=2))
+    sigmas = [1, 2, 3]
+    radii = [1, 2]
+    daisy(img, sigmas=sigmas, ring_radii=radii)
+
+
 def test_daisy_incompatible_sigmas_and_radii():
-    img = img_as_float(data.lena()[:128, :128].mean(axis=2))
+    img = img_as_float(data.lena()[:64, :64].mean(axis=2))
     sigmas = [1, 2]
     radii = [1, 2]
     assert_raises(ValueError, daisy, img, sigmas=sigmas, ring_radii=radii)

skimage/measure/tests/test_fit.py

@@ -44,7 +44,7 @@ def test_line_model_residuals():
     assert_equal(abs(model.residuals(np.array([[10, 0]]))), 10)
     model._params = (5, np.pi / 4)
     assert_equal(abs(model.residuals(np.array([[0, 0]]))), 5)
-    assert_equal(abs(model.residuals(np.array([[np.sqrt(50), 0]]))), 5)
+    assert_almost_equal(abs(model.residuals(np.array([[np.sqrt(50), 0]]))), 0)
 
 
 def test_line_model_under_determined():
@@ -127,7 +127,7 @@ def test_ellipse_model_estimate():
     assert_almost_equal(model0._params, model_est._params, 0)
 
 
-def test_line_model_residuals():
+def test_ellipse_model_residuals():
     model = EllipseModel()
     # vertical line through origin
     model._params = (0, 0, 10, 5, 0)

skimage/measure/tests/test_regionprops.py

@@ -345,6 +345,9 @@ def test_old_dict_interface():
 
     np.array([list(props.values()) for props in feats], np.float)
     assert_equal(len(feats[0]), 8)
+    def assign():
+        feats[0]['Area'] = 0
+    assert_raises(RuntimeError, assign)
 
 
 def test_label_sequence():
@@ -361,6 +364,13 @@ def test_pure_background():
     assert len(ps) == 0
 
 
+def test_invalid():
+    ps = regionprops(SAMPLE)
+    def get_intensity_image():
+        ps[0].intensity_image
+    assert_raises(AttributeError, get_intensity_image)
+
+
 if __name__ == "__main__":
     from numpy.testing import run_module_suite
     run_module_suite()

skimage/morphology/tests/test_grey.py

@@ -155,5 +155,15 @@ class TestDTypes():
         self._test_image(image)
 
 
+def test_inplace():
+    selem = np.ones((3, 3))
+    image = np.zeros((5, 5))
+    out = image
+
+    for f in (grey.erosion, grey.dilation,
+              grey.white_tophat, grey.black_tophat):
+        testing.assert_raises(NotImplementedError, f, image, selem, out=out)
+
+
 if __name__ == '__main__':
     testing.run_module_suite()

skimage/segmentation/tests/test_boundaries.py

@@ -0,0 +1,59 @@
+import numpy as np
+from numpy.testing import assert_array_equal
+from skimage.segmentation import find_boundaries, mark_boundaries
+
+
+def test_find_boundaries():
+    image = np.zeros((10, 10))
+    image[2:7, 2:7] = 1
+
+    ref = np.array([[0, 0, 0, 0, 0, 0, 0, 0, 0, 0],
+                    [0, 0, 0, 0, 0, 0, 0, 0, 0, 0],
+                    [0, 0, 1, 1, 1, 1, 1, 1, 0, 0],
+                    [0, 0, 1, 0, 0, 0, 0, 1, 0, 0],
+                    [0, 0, 1, 0, 0, 0, 0, 1, 0, 0],
+                    [0, 0, 1, 0, 0, 0, 0, 1, 0, 0],
+                    [0, 0, 1, 0, 0, 0, 0, 1, 0, 0],
+                    [0, 0, 1, 1, 1, 1, 1, 0, 0, 0],
+                    [0, 0, 0, 0, 0, 0, 0, 0, 0, 0],
+                    [0, 0, 0, 0, 0, 0, 0, 0, 0, 0]])
+
+    result = find_boundaries(image)
+    assert_array_equal(result, ref)
+
+
+def test_mark_boundaries():
+    image = np.zeros((10, 10))
+    label_image = np.zeros((10, 10))
+    label_image[2:7, 2:7] = 1
+
+    ref = np.array([[0, 0, 0, 0, 0, 0, 0, 0, 0, 0],
+                    [0, 0, 0, 0, 0, 0, 0, 0, 0, 0],
+                    [0, 0, 1, 1, 1, 1, 1, 1, 0, 0],
+                    [0, 0, 1, 0, 0, 0, 0, 1, 0, 0],
+                    [0, 0, 1, 0, 0, 0, 0, 1, 0, 0],
+                    [0, 0, 1, 0, 0, 0, 0, 1, 0, 0],
+                    [0, 0, 1, 0, 0, 0, 0, 1, 0, 0],
+                    [0, 0, 1, 1, 1, 1, 1, 0, 0, 0],
+                    [0, 0, 0, 0, 0, 0, 0, 0, 0, 0],
+                    [0, 0, 0, 0, 0, 0, 0, 0, 0, 0]])
+    result = mark_boundaries(image, label_image, color=(1, 1, 1)).mean(axis=2)
+    assert_array_equal(result, ref)
+
+    ref = np.array([[0, 0, 0, 0, 0, 0, 0, 0, 0, 0],
+                    [0, 0, 0, 0, 0, 0, 0, 0, 0, 0],
+                    [0, 0, 1, 1, 1, 1, 1, 1, 2, 0],
+                    [0, 0, 1, 2, 2, 2, 2, 1, 2, 0],
+                    [0, 0, 1, 2, 0, 0, 0, 1, 2, 0],
+                    [0, 0, 1, 2, 0, 0, 0, 1, 2, 0],
+                    [0, 0, 1, 2, 0, 0, 0, 1, 2, 0],
+                    [0, 0, 1, 1, 1, 1, 1, 2, 2, 0],
+                    [0, 0, 2, 2, 2, 2, 2, 2, 0, 0],
+                    [0, 0, 0, 0, 0, 0, 0, 0, 0, 0]])
+    result = mark_boundaries(image, label_image, color=(1, 1, 1),
+                             outline_color=(2, 2, 2)).mean(axis=2)
+    assert_array_equal(result, ref)
+
+
+if __name__ == "__main__":
+    np.testing.run_module_suite()

skimage/segmentation/tests/test_slic.py

@@ -1,7 +1,7 @@
 import itertools as it
 import warnings
 import numpy as np
-from numpy.testing import assert_equal, assert_array_equal
+from numpy.testing import assert_equal, assert_raises
 from skimage.segmentation import slic
 
 
@@ -21,10 +21,10 @@ def test_color_2d():
     # we expect 4 segments
     assert_equal(len(np.unique(seg)), 4)
     assert_equal(seg.shape, img.shape[:-1])
-    assert_array_equal(seg[:10, :10], 0)
+    assert_equal(seg[:10, :10], 0)
-    assert_array_equal(seg[10:, :10], 2)
+    assert_equal(seg[10:, :10], 2)
-    assert_array_equal(seg[:10, 10:], 1)
+    assert_equal(seg[:10, 10:], 1)
-    assert_array_equal(seg[10:, 10:], 3)
+    assert_equal(seg[10:, 10:], 3)
 
 
 def test_gray_2d():
@@ -41,10 +41,10 @@ def test_gray_2d():
 
     assert_equal(len(np.unique(seg)), 4)
     assert_equal(seg.shape, img.shape)
-    assert_array_equal(seg[:10, :10], 0)
+    assert_equal(seg[:10, :10], 0)
-    assert_array_equal(seg[10:, :10], 2)
+    assert_equal(seg[10:, :10], 2)
-    assert_array_equal(seg[:10, 10:], 1)
+    assert_equal(seg[:10, 10:], 1)
-    assert_array_equal(seg[10:, 10:], 3)
+    assert_equal(seg[10:, 10:], 3)
 
 
 def test_color_3d():
@@ -65,7 +65,7 @@ def test_color_3d():
 
     assert_equal(len(np.unique(seg)), 8)
     for s, c in zip(slices, range(8)):
-        assert_array_equal(seg[s], c)
+        assert_equal(seg[s], c)
 
 
 def test_gray_3d():
@@ -87,7 +87,7 @@ def test_gray_3d():
 
     assert_equal(len(np.unique(seg)), 8)
     for s, c in zip(slices, range(8)):
-        assert_array_equal(seg[s], c)
+        assert_equal(seg[s], c)
 
 
 def test_list_sigma():
@@ -118,6 +118,12 @@ def test_spacing():
     assert_equal(seg_spaced, result_spaced)
 
 
+def test_invalid_lab_conversion():
+    img = np.array([[1, 1, 1, 0, 0],
+                    [1, 1, 0, 0, 0]], np.float)
+    assert_raises(ValueError, slic, img, multichannel=True, convert2lab=True)
+
+
 
 if __name__ == '__main__':
     from numpy import testing

skimage/transform/__init__.py

@@ -5,6 +5,7 @@ from .radon_transform import radon, iradon, iradon_sart
 from .finite_radon_transform import frt2, ifrt2
 from .integral import integral_image, integrate
 from ._geometric import (warp, warp_coords, estimate_transform,
+                         matrix_transform,
                          SimilarityTransform, AffineTransform,
                          ProjectiveTransform, PolynomialTransform,
                          PiecewiseAffineTransform)
@@ -30,6 +31,7 @@ __all__ = ['hough_circle',
            'warp',
            'warp_coords',
            'estimate_transform',
+           'matrix_transform',
            'SimilarityTransform',
            'AffineTransform',
            'ProjectiveTransform',

skimage/transform/_geometric.py

@@ -1021,10 +1021,12 @@ def warp(image, inverse_map=None, map_args={}, output_shape=None, order=1,
     """
     # Backward API compatibility
     if reverse_map is not None:
+        warnings.warn('`reverse_map` parameter is deprecated and replaced by '
+                      'the `inverse_map` parameter.')
         inverse_map = reverse_map
 
-    if image.ndim < 2:
+    if image.ndim < 2 or image.ndim > 3:
-        raise ValueError("Input must have more than 1 dimension.")
+        raise ValueError("Input must have 2 or 3 dimensions.")
 
     orig_ndim = image.ndim
     image = np.atleast_3d(img_as_float(image))
@@ -1049,8 +1051,8 @@ def warp(image, inverse_map=None, map_args={}, output_shape=None, order=1,
         # inverse_map is the inverse of a homography
         elif (hasattr(inverse_map, '__name__')
               and inverse_map.__name__ == 'inverse'
-              and isinstance(get_bound_method_class(inverse_map),
+              and get_bound_method_class(inverse_map) \
-                             HOMOGRAPHY_TRANSFORMS)):
+                  in HOMOGRAPHY_TRANSFORMS):
             matrix = np.linalg.inv(six.get_method_self(inverse_map)._matrix)
 
         if matrix is not None:

skimage/transform/tests/test_geometric.py

@@ -1,7 +1,9 @@
 import numpy as np
-from numpy.testing import assert_equal, assert_array_almost_equal
+from numpy.testing import (assert_equal, assert_array_almost_equal,
+                           assert_raises)
 from skimage.transform._geometric import _stackcopy
-from skimage.transform import (estimate_transform,
+from skimage.transform._geometric import GeometricTransform
+from skimage.transform import (estimate_transform, matrix_transform,
                                SimilarityTransform, AffineTransform,
                                ProjectiveTransform, PolynomialTransform,
                                PiecewiseAffineTransform)
@@ -38,6 +40,18 @@ def test_stackcopy():
         assert_array_almost_equal(x[..., i], y)
 
 
+def test_estimate_transform():
+    for tform in ('similarity', 'affine', 'projective', 'polynomial'):
+        estimate_transform(tform, SRC[:2, :], DST[:2, :])
+    assert_raises(ValueError, estimate_transform, 'foobar',
+                  SRC[:2, :], DST[:2, :])
+
+
+def test_matrix_transform():
+    tform = AffineTransform(scale=(0.1, 0.5), rotation=2)
+    assert_equal(tform(SRC), matrix_transform(SRC, tform._matrix))
+
+
 def test_similarity_estimation():
     # exact solution
     tform = estimate_transform('similarity', SRC[:2, :], DST[:2, :])
@@ -74,6 +88,16 @@ def test_similarity_init():
     assert_array_almost_equal(tform2.rotation, rotation)
     assert_array_almost_equal(tform2.translation, translation)
 
+    # test special case for scale if rotation=0
+    scale = 0.1
+    rotation = 0
+    translation = (1, 1)
+    tform = SimilarityTransform(scale=scale, rotation=rotation,
+                                translation=translation)
+    assert_array_almost_equal(tform.scale, scale)
+    assert_array_almost_equal(tform.rotation, rotation)
+    assert_array_almost_equal(tform.translation, translation)
+
 
 def test_affine_estimation():
     # exact solution
@@ -165,15 +189,44 @@ def test_polynomial_default_order():
     assert_array_almost_equal(tform2._params, tform._params)
 
 
+def test_polynomial_inverse():
+    assert_raises(Exception, PolynomialTransform().inverse, 0)
+
+
 def test_union():
     tform1 = SimilarityTransform(scale=0.1, rotation=0.3)
     tform2 = SimilarityTransform(scale=0.1, rotation=0.9)
     tform3 = SimilarityTransform(scale=0.1 ** 2, rotation=0.3 + 0.9)
-
     tform = tform1 + tform2
-
     assert_array_almost_equal(tform._matrix, tform3._matrix)
 
+    tform1 = AffineTransform(scale=(0.1, 0.1), rotation=0.3)
+    tform2 = SimilarityTransform(scale=0.1, rotation=0.9)
+    tform3 = SimilarityTransform(scale=0.1 ** 2, rotation=0.3 + 0.9)
+    tform = tform1 + tform2
+    assert_array_almost_equal(tform._matrix, tform3._matrix)
+    assert tform.__class__ == ProjectiveTransform
+
+
+def test_geometric_tform():
+    tform = GeometricTransform()
+    assert_raises(NotImplementedError, tform, 0)
+    assert_raises(NotImplementedError, tform.inverse, 0)
+    assert_raises(NotImplementedError, tform.__add__, 0)
+
+
+def test_invalid_input():
+    assert_raises(ValueError, ProjectiveTransform, np.zeros((2, 3)))
+    assert_raises(ValueError, AffineTransform, np.zeros((2, 3)))
+    assert_raises(ValueError, SimilarityTransform, np.zeros((2, 3)))
+
+    assert_raises(ValueError, AffineTransform,
+                  matrix=np.zeros((2, 3)), scale=1)
+    assert_raises(ValueError, SimilarityTransform,
+                  matrix=np.zeros((2, 3)), scale=1)
+
+    assert_raises(ValueError, PolynomialTransform, np.zeros((3, 3)))
+
 
 if __name__ == "__main__":
     from numpy.testing import run_module_suite

skimage/transform/tests/test_warps.py

@@ -1,4 +1,5 @@
-from numpy.testing import assert_array_almost_equal, run_module_suite, assert_array_equal
+from numpy.testing import (assert_array_almost_equal, run_module_suite,
+                           assert_array_equal, assert_raises)
 import numpy as np
 from scipy.ndimage import map_coordinates
 
@@ -234,5 +235,18 @@ def test_downscale_local_mean():
     assert_array_equal(expected2, out2)
 
 
+def test_invalid():
+    assert_raises(ValueError, warp, np.ones((4, )), SimilarityTransform())
+    assert_raises(ValueError, warp, np.ones((4, 3, 3, 3)),
+                  SimilarityTransform())
+
+
+def test_inverse():
+    tform = SimilarityTransform(scale=0.5, rotation=0.1)
+    inverse_tform = SimilarityTransform(matrix=np.linalg.inv(tform._matrix))
+    image = np.arange(10 * 10).reshape(10, 10).astype(np.double)
+    assert_array_equal(warp(image, inverse_tform), warp(image, tform.inverse))
+
+
 if __name__ == "__main__":
     run_module_suite()