Mailman 3 January 2016 - scikit-image

Re: template matching - ValueError: image must be 2d / 3d array
by Stéfan van der Walt 24 Jan '16

24 Jan '16

Hi Anurag On Sat, Jan 23, 2016 at 5:06 PM, Anurag <anurag.phadke(a)gmail.com> wrote: > full gist and Traceback at: > https://gist.github.com/anuragphadke/48b8565a6bcaa477daa5 Please provide your input images as well. Thanks Stéfan

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template matching - ValueError: image must be 2d / 3d array
by Anurag 24 Jan '16

24 Jan '16

Hello, I am trying to run Template Matching code as mentioned in http://scikit-image.org/docs/dev/auto_examples/plot_template.html, however, on trying to read an image from file, it returns the following error: ValueError: The parameter `image` must be a 2-or-3-dimensional array full gist and Traceback at: https://gist.github.com/anuragphadke/48b8565a6bcaa477daa5 Any tips on what I might be doing wrong here? tried converting image to grayscale etc. -- Twitter: @anuragphadke (https://twitter.com/#!/anuragphadke)

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New Contributor - Want to work on #1875 - Walker fails if a seed is surrounded by masked pixels
by Pradyumna Kumar N 22 Jan '16

22 Jan '16

Hi all, I am Pradyumna, pursuing my PhD at Colorado State University in the field of Computer Vision. I would like to contribute to scikit-image project. I already forked the project and I would like to work on #1875. I am in the process of reading the random walk paper. In the mean time, any pointers or help on #1875 would be appreciated. In the long run I would like to implement DTW routine if it is not already implemented.

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0.12 release
by Johannes Schönberger 22 Jan '16

22 Jan '16

Hi everyone, Seems like we are close to clearing the 0.12 milestone: https://github.com/scikit-image/scikit-image/pulls?q=is%3Aopen+is%3Apr+mile… It's been a while since we had a release and lots of great stuff has been merged in the mean time. I suggest to freeze any other PRs until we release 0.12. Maybe we can aim to release 0.12 in the next days? Cheers, Johannes

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Some advice on where to start and how to start.
by utkarsh gautam 21 Jan '16

21 Jan '16

Hey Everyone , I am Utkarsh Gautam, A second year undergrad at IITB .I have interest in machine learning and image processing hence would like to learn and contribute to scikit image. Some starting tips would be really helpful. Thanks.

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Converted image not displaying
by Abder-Rahman Ali 21 Jan '16

21 Jan '16

I'm trying to convert a color image to a grayscale image, as follows: from skimage import iofrom skimage.color import rgb2gray img = io.imread('baboon.png') img_grayscale = rgb2gray(img) io.imshow(img_grayscale) The code works fine, but the image does not get displayed, why is that? Thanks.

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Update of Requested features wiki
by Himanshu Mishra 15 Jan '16

15 Jan '16

Hey everyone ! I was going through the wiki page of the requested features : https://github.com/scikit-image/scikit-image/wiki/Requested-features and I found it very rich. But I believe it has not been updated for quite many months. So, I kindly request people from the core team to give it a look and at least strike-through the features that have already been implemented. Further, on the issue tracker, I like the idea of having a label of 'New Feature'. We can triage issues requesting new implementation with this (not 'enhancement'). This will further help sorting out those issues/PRs which are to be seen for updating the wiki and this saves everyone a lot of time. Waiting for an update. Thank you, Himanshu Mishra Github : OrkoHunter <https://github.com/OrkoHunter>

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Image Classification/Recognition
by PS 12 Jan '16

12 Jan '16

Hi, To begin with, thank you for working on scikit-image. I am a beginner in image processing and want to perform the following classification/recognition task: I have a set of 10,000 images (4k labeled and 6k unlabeled). It contains images of people, animals, nature, etc. From this set, I want to recognize all the images that have people in them. Can someone please point me to some resource/example showing how to perform such type of classification? Just in case, if you think scikit-image is not a good library to perform such type of task, can you please guide me to other python based library? Much thanks.

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Re: image segmentation error (tuple index out of range)
by Emmanuelle Gouillart 08 Jan '16

08 Jan '16

Done! https://github.com/scikit-image/scikit-image/issues/1867 On Thu, Jan 07, 2016 at 11:47:14PM -0800, StÃ©fan van der Walt wrote: > Hi, Emmanuelle > Please file a ticket so that we don't forget about this missing feature. > Thanks! > StÃ©fan > On Jan 8, 2016 09:44, "Emmanuelle Gouillart" <emmanuelle.gouillart(a)nsup.org> > wrote: > Hello Anurag, > my guess is that your image is an RGB image, so that its shape is > (n_rows, n_cols, 3). I could reproduce your problem using the RGB > astronaut image from scikit-image (data.astronaut()). ``threshold_otsu`` > is not very well adapted to RGB images because it mixes together the > color channels by first raveling all pixels. [Note for dev team: this > should be better documented, and we should look for a thresholding > algorithm compatible with RGB images] > Therefore ``image > thresh`` is a 3-D array (or 2-D color, you can try > imshow on this array). You can try determining the threshold value on a > grayscale image if it's possible for you, using the as_grey keyword > argument in io.imread. Or you can determine a threshold for each color > channel. > Cheers, > Emma > On Thu, Jan 07, 2016 at 09:04:48PM -0800, Anurag Phadke wrote: > > Hello, > > I am trying to run "image segmentation" on the attached image. Code at: > > https://gist.github.com/anuragphadke/7eb0e4398ef005632c6d > > However, on running the above script, i get the following error: > > Traceback (most recent call last): > > Â File "a.py", line 21, in <module> > > Â Â Â bw = closing(image > thresh, square(3)) > > Â File "/Library/Python/2.7/site-packages/skimage/morphology/misc.py", > line 37, > > in func_out > > Â Â Â return func(image, selem=selem, *args, **kwargs) > > Â File "/Library/Python/2.7/site-packages/skimage/morphology/grey.py", > line > > 122, in func_out > > Â Â Â out_temp = func(image, selem, out=out_temp, *args, **kwargs) > > Â File "/Library/Python/2.7/site-packages/skimage/morphology/grey.py", > line > > 349, in closing > > Â Â Â dilated = dilation(image, selem) > > Â File "/Library/Python/2.7/site-packages/skimage/morphology/misc.py", > line 37, > > in func_out > > Â Â Â return func(image, selem=selem, *args, **kwargs) > > Â File "/Library/Python/2.7/site-packages/skimage/morphology/grey.py", > line > > 251, in dilation > > Â Â Â nd.grey_dilation(image, footprint=selem, output=out) > > Â File "/usr/local/lib/python2.7/site-packages/scipy/ndimage/ > morphology.py", > > line 1295, in grey_dilation > > Â Â Â sz = footprint.shape[ii] > > IndexError: tuple index out of range > > Any idea what might be wrong here? I tried multiple images and multiple > file > > formats (jpg / png etc.) > > -anurag

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image segmentation error (tuple index out of range)
by Anurag Phadke 08 Jan '16

08 Jan '16

Hello, I am trying to run "image segmentation" on the attached image. Code at: https://gist.github.com/anuragphadke/7eb0e4398ef005632c6d However, on running the above script, i get the following error: Traceback (most recent call last): File "a.py", line 21, in <module> bw = closing(image > thresh, square(3)) File "/Library/Python/2.7/site-packages/skimage/morphology/misc.py", line 37, in func_out return func(image, selem=selem, *args, **kwargs) File "/Library/Python/2.7/site-packages/skimage/morphology/grey.py", line 122, in func_out out_temp = func(image, selem, out=out_temp, *args, **kwargs) File "/Library/Python/2.7/site-packages/skimage/morphology/grey.py", line 349, in closing dilated = dilation(image, selem) File "/Library/Python/2.7/site-packages/skimage/morphology/misc.py", line 37, in func_out return func(image, selem=selem, *args, **kwargs) File "/Library/Python/2.7/site-packages/skimage/morphology/grey.py", line 251, in dilation nd.grey_dilation(image, footprint=selem, output=out) File "/usr/local/lib/python2.7/site-packages/scipy/ndimage/morphology.py", line 1295, in grey_dilation sz = footprint.shape[ii] IndexError: tuple index out of range Any idea what might be wrong here? I tried multiple images and multiple file formats (jpg / png etc.) -anurag

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