Mailman 3 July 2013 - scikit-image

Re: Error in plot_matching.py example
by Johannes Schönberger 12 Jul '13

12 Jul '13

I guess you are in the root directory of the scikit-image git repository and hence the skimage folder is in your namespace. Either: cd doc/examples; python plot_matching.py or: make; python doc/examples/plot_matching.py Johannes Schönberger Am 11.07.2013 um 19:23 schrieb Ankit Agrawal <aaaagrawal(a)gmail.com>: > Hi Stefan, > > Till now, I was trying `python doc/examples/plot_matching.py` which still produces the error mentioned in the first post(Still wondering why?). However, since you mentioned 'same environment', I tried executing using execfile() and it worked. > > Regards, > Ankit Agrawal, > Communication and Signal Processing, > IIT Bombay. > > > On Fri, Jul 12, 2013 at 1:05 AM, Stéfan van der Walt <stefan(a)sun.ac.za> wrote: > Hi Ankit > > Your script fails at "from skimage import data" -- rather odd, given > that it succeeds when you try it by itself, don't you think? Are you > launching the script in the same environment? > > Stéfan > > -- > 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+unsubscribe(a)googlegroups.com. > For more options, visit https://groups.google.com/groups/opt_out. > > > > > -- > 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+unsubscribe(a)googlegroups.com. > For more options, visit https://groups.google.com/groups/opt_out. > >

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Re: Error in plot_matching.py example
by Ankit Agrawal 12 Jul '13

12 Jul '13

Hi Stefan, Till now, I was trying `python doc/examples/plot_matching.py` which still produces the error mentioned in the first post(Still wondering why?). However, since you mentioned 'same environment', I tried executing using execfile() and it worked. Regards, Ankit Agrawal, Communication and Signal Processing, IIT Bombay. On Fri, Jul 12, 2013 at 1:05 AM, Stéfan van der Walt <stefan(a)sun.ac.za>wrote: > Hi Ankit > > Your script fails at "from skimage import data" -- rather odd, given > that it succeeds when you try it by itself, don't you think? Are you > launching the script in the same environment? > > Stéfan > > -- > 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+unsubscribe(a)googlegroups.com. > For more options, visit https://groups.google.com/groups/opt_out. > > >

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Re: Error in plot_matching.py example
by Stéfan van der Walt 12 Jul '13

12 Jul '13

Hi Ankit Your script fails at "from skimage import data" -- rather odd, given that it succeeds when you try it by itself, don't you think? Are you launching the script in the same environment? Stéfan

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Re: Error in plot_matching.py example
by Ankit Agrawal 12 Jul '13

12 Jul '13

Hi Stefan, It returns the image correctly as expected : >>> from skimage import data >>> data.checkerboard() Image([[255, 255, 255, ..., 0, 0, 0], [255, 255, 255, ..., 0, 0, 0], [255, 255, 255, ..., 0, 0, 0], ..., [ 0, 0, 0, ..., 255, 255, 255], [ 0, 0, 0, ..., 255, 255, 255], [ 0, 0, 0, ..., 255, 255, 255]], dtype=uint8) Regards, Ankit Agrawal, Communication and Signal Processing, IIT Bombay. On Fri, Jul 12, 2013 at 12:59 AM, Stéfan van der Walt <stefan(a)sun.ac.za>wrote: > Hi Ankit > > On Thu, Jul 11, 2013 at 3:32 PM, Ankit Agrawal <aaaagrawal(a)gmail.com> > wrote: > > > "/usr/local/lib/python2.7/dist-packages/scikit_image-0.9dev-py2.7-linux-x86_64.egg/skimage/io/_plugins/plugin.py", > > line 47, in _scan_plugins > > name = cp.sections()[0] > > IndexError: list index out of range > > That's odd--the error is with your plugins, not with that specific > example. Can you try > > from skimage import data > data.checkerboard() > > ? > > Stéfan > > -- > 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+unsubscribe(a)googlegroups.com. > For more options, visit https://groups.google.com/groups/opt_out. > > >

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Error in plot_matching.py example
by Ankit Agrawal 12 Jul '13

12 Jul '13

Hi everyone, I am getting the following error while running plot_matching.py . ankit@ubuntu:/media/ankit/D/foss/scikit-image$ python doc/examples/plot_matching.py Traceback (most recent call last): File "doc/examples/plot_matching.py", line 28, in <module> from skimage import data File "/usr/local/lib/python2.7/dist-packages/scikit_image-0.9dev-py2.7-linux-x86_64.egg/skimage/data/__init__.py", line 11, in <module> from ..io import imread File "/usr/local/lib/python2.7/dist-packages/scikit_image-0.9dev-py2.7-linux-x86_64.egg/skimage/io/__init__.py", line 7, in <module> from ._plugins import use as use_plugin File "/usr/local/lib/python2.7/dist-packages/scikit_image-0.9dev-py2.7-linux-x86_64.egg/skimage/io/_plugins/__init__.py", line 1, in <module> from .plugin import * File "/usr/local/lib/python2.7/dist-packages/scikit_image-0.9dev-py2.7-linux-x86_64.egg/skimage/io/_plugins/plugin.py", line 65, in <module> _scan_plugins() File "/usr/local/lib/python2.7/dist-packages/scikit_image-0.9dev-py2.7-linux-x86_64.egg/skimage/io/_plugins/plugin.py", line 47, in _scan_plugins name = cp.sections()[0] IndexError: list index out of range Can you check and see if this error is reproducible with you? Thanks. Cheers, Ankit.

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New blog post on Fast Marching Method
by Chintak Sheth 11 Jul '13

11 Jul '13

Hi, I have written a new blog post about Fast Marching Method fro Image Inapinting something on which I am working on as part of my GSoC. Do check it out! Suggestion more than welcome! http://chintaksheth.wordpress.com/2013/07/09/fast-marching-method/ Thanks, Chintak

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Re: Qhull error
by Stéfan van der Walt 11 Jul '13

11 Jul '13

On Thu, Jul 11, 2013 at 12:32 PM, Chintak Sheth <chintaksheth(a)gmail.com> wrote: > First, I think we need to find why the dual nature, `convex_hull_image` > independently works fine but not from `regionprops`. Spot on. Thanks for following through!

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Re: Qhull error
by Chintak Sheth 11 Jul '13

11 Jul '13

Stefan, I concur. Juan, 0.9 might have been a more plausible value, since if I'm not mistaken it is "number of pixels in image / number of pixels in the convex hull". Convex hull image will have more number of pixels. ;) Couple of things: 1. This error seems to pop up for this specific case. In the sense, if you remove the 1 in the 1st row, `regionprops` computes the 'Solidity' perfectly. No need of padding as well. 2. The error comes up for all the three 'ConvexImage', 'ConvexArea' and 'Solidity' even with the padded image. Whereas, `convex_hull_image` computes it alright. So, specifically for this padded case there seems to be a problem with the way the array is being passed and not Delaunay. First, I think we need to find why the dual nature, `convex_hull_image` independently works fine but not from `regionprops`. Next and a probable way forward would be try/except, if an error occurs, then pad the image and again try/except. What do you'll think? Chintak

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Re: Weird imsave inverting behaviour
by Stéfan van der Walt 11 Jul '13

11 Jul '13

On Thu, Jul 11, 2013 at 11:45 AM, Juan Nunez-Iglesias <jni.soma(a)gmail.com> wrote: > I'd be interested in tackling this, but a number of alternatives were > proposed, including my io.png.read() and Johannes's plugin registry thingy, > with no clear decision on which way to go... We can refactor the current infrastructure without changing the API--that would be a good start. Stéfan

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Re: Qhull error
by Stéfan van der Walt 11 Jul '13

11 Jul '13

I think this might be either a bug in Delaunay or the data provided to it, so it would be great to get to the bottom of it, instead of just hiding bad behaviour. Stéfan

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