Sorry, below I meant to write:"Say I have an 16x1 1D array. I make 5 copies of it to get a 16x5 2D array..."
On Friday, December 16, 2016 at 11:13:20 AM UTC-7, Matteo wrote: > > I am very new to GLCM. > > I have some 1D array I would like to calculate dissimilarity in the > vertical direction, so I am trying to trick scikit-image by converting my > 1D array into 2D. > > Say I have an 16x5 2D array. I make 5 copies of it to get a 16x5 array. I > want to pass rows 0-4, then rows 5-9 and so on to run greycomatrix, by > just lookign at the vertical direction, append to output, and ultimately > calculate dissimilarity. > > Example array: > > x =np.array([7, 2, 0, 8, 8, 3, 2, 2, 0, 5, 3, 3, 4, 8, 7, 0]) > w=5 > s = np.array([x,]*w,dtype=np.uint8).transpose() > > > array([ > [7, 7, 7, 7, 7], > [2, 2, 2, 2, 2], > [0, 0, 0, 0, 0], > [8, 8, 8, 8, 8], > [8, 8, 8, 8, 8], > [3, 3, 3, 3, 3], > [2, 2, 2, 2, 2], > [2, 2, 2, 2, 2], > [0, 0, 0, 0, 0], > [5, 5, 5, 5, 5], > [3, 3, 3, 3, 3], > [3, 3, 3, 3, 3], > [4, 4, 4, 4, 4], > [8, 8, 8, 8, 8], > [7, 7, 7, 7, 7], > [0, 0, 0, 0, 0]], dtype=uint8) > > > Below I test rolling: > > > test = np.roll(s[:, :], -5) > test > > array([[2, 2, 2, 2, 2], > [0, 0, 0, 0, 0], > [8, 8, 8, 8, 8], > [8, 8, 8, 8, 8], > [3, 3, 3, 3, 3], > [2, 2, 2, 2, 2], > [2, 2, 2, 2, 2], > [0, 0, 0, 0, 0], > [5, 5, 5, 5, 5], > [3, 3, 3, 3, 3], > [3, 3, 3, 3, 3], > [4, 4, 4, 4, 4], > [8, 8, 8, 8, 8], > [7, 7, 7, 7, 7], > [0, 0, 0, 0, 0], > [7, 7, 7, 7, 7]], dtype=uint8) > > > > Now I roll and pass top 5 rows to greycomatrix: > > > levels = 9# this rolls the 2D array up one row at a time, each time > calculating GLCM on the top 5x5 elements > out = [] > counter = 0 > while counter < np.shape(s)[0]: > s = np.roll(s[:, :], -5) > glcm = greycomatrix(s[:5,:], [1], [np.pi/2], levels = levels, symmetric = > True, normed = True) > out.append(glcm) > counter +=1 > > > > But unfortunately output is a 5D array: > > > print np.shape(out) > (16, 9, 9, 1, 1) > > > > I tried to recast into a 4D array to pass to greycoprops in different ways, > but unsuccessfully. > > > With: > > out1 = np.array(out).reshape((16, 9, 9, 1)) > np.shape(out1) > (16, 9, 9, 1) > > diss = greycoprops(out1, 'dissimilarity') > > > I get this error: > > > --------------------------------------------------------------------------- > AssertionError Traceback (most recent call last) > <ipython-input-15-a88f05b0e3e2> in <module>() > ----> 1 diss = greycoprops(out1, 'dissimilarity') > 2 diss > > /Users/matteoniccoli/anaconda2/lib/python2.7/site-packages/skimage/feature > /texture.pyc in greycoprops(P, prop) > 187 > 188 (num_level, num_level2, num_dist, num_angle) = P.shape > --> 189 assert num_level == num_level2 > 190 assert num_dist > 0 > 191 assert num_angle > 0 > > AssertionError: > > > It may be that I do not really understand the shape of the output, and the > requirements of greycoprops. > > > print np.shape(np.array(out)) > print np.shape(np.array(out[0][:][:][:][:])) > print np.shape(np.array(out[:][0][:][:][:])) > print np.shape(np.array(out[:][:][0][:][:])) > print np.shape(np.array(out[:][:][:][0][:])) > print np.shape(np.array(out[:][:][:][:][0])) > > > (16, 9, 9, 1, 1) > (9, 9, 1, 1) > (9, 9, 1, 1) > (9, 9, 1, 1) > (9, 9, 1, 1) > (9, 9, 1, 1) > > > Can anybody suggest a way to make this work? > > > Thanks > > -- You received this message because you are subscribed to the Google Groups "scikit-image" group. To unsubscribe from this group and stop receiving emails from it, send an email to scikit-image+unsubscr...@googlegroups.com. To post to this group, send an email to scikit-image@googlegroups.com. To view this discussion on the web, visit https://groups.google.com/d/msgid/scikit-image/4f02799e-53fb-4a53-9031-c5c4b247310a%40googlegroups.com. For more options, visit https://groups.google.com/d/optout.
