Mailman 3 June 2010 - scikit-image

Color spaces
by Chris Ball 30 Jun '10

30 Jun '10

Hi, Some time ago, there was a thread about what color spaces to include in scikits.image: http://groups.google.com/group/scikits-image/browse_thread/thread/4b4e69fd0… I wonder if you would be interested in seeing more color space conversions being added to the colorconv.py module, or if you are deliberately keeping it simple? For instance, I would like to add conversions to and from CIE LAB, and to allow alternative white points. I'm also interested in seeing conversions to and from human cone LMS spaces available somewhere for SciPy users. I'm not sure whether or not this kind of thing would be appropriate for scikits.image. I thought I should first post a short message about this before starting anything. I'm aware that the SciPy image sandbox used to contain more conversions, probably in a slightly confusing way (e.g.http://projects.scipy.org/scipy/browser/trunk/Lib/sandbox/image/ color.py?rev=1698). Anyway, please let me know what you think. Thanks, Chris

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Re: New build system
by Stéfan van der Walt 16 Jun '10

16 Jun '10

The binary is a compressed script that gets unpacked upon execution. Quite clever! Regards Stefan On Jun 16, 2010 10:50 AM, "Ralf Gommers" <ralf.gommers(a)googlemail.com> wrote: 2010/6/10 Stéfan van der Walt <stefan(a)sun.ac.za> > > On 9 June 2010 18:07, S. Chris Colbert <sccolbert(a)gmail.com> wrote: > > Considering that we are... Looks good, I really like the bento.info format. And the new name. I'm a bit puzzled about the binary code inside the bentomaker file, what's going on there? It builds fine, so no reason to merge it into your master branch soon I think. Cheers, Ralf

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New build system
by Stéfan van der Walt 16 Jun '10

16 Jun '10

Hi all, David Cournapeau's Bento build system (a replacement for distutils) is maturing nicely. I'd like to switch to it eventually, but for now I've simply put all the necessary changes in the 'bento' branch. Bento is entirely self-contained, so just check out the branch and do: make bento It keeps track of changes to C files, so incremental builds work. Commands are provided for generating the docs, running tests, etc. Let me know what you think. Regards Stéfan

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Problems with PIL/imread
by Stéfan van der Walt 08 Jun '10

08 Jun '10

Hi all, Has anybody else seen the behaviour described in http://github.com/stefanv/scikits.image/issues/#issue/2 ? I'd like to pin down the problem, but can't reproduce it on my machine. Also, I've added 'imshow' to the PIL plugin, available for review/testing here: http://github.com/stefanv/scikits.image/tree/io Regards Stéfan

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License for parts of CellProfiler changed to BSD to allow incorporation into SciPy
by Vebjorn Ljosa 03 Jun '10

03 Jun '10

We have changed the license of some parts of CellProfiler from GNU GPL to BSD. It has previously been proposed [1] that some of the image processing code in CellProfiler be merged into SciPy, and the license change makes this possible. The CellProfiler SVN repository is at https://svn.broadinstitute.org/CellProfiler/trunk/CellProfiler/. The file LICENSE [2] contains a list of BSD-licensed subdirectories as well as other license details. The rest of CellProfiler continues to be licensed under the GNU GPL. The BSD-licensed subdirectories are: * CellProfiler/cpmath [3]: image processing algorithms * CellProfiler/utilities [4]: contains a Java bridge, making it possible to call Java functions from Python * bioformats [5]: wrapper that uses the Java bridge to have Bioformats [6] read or write an image file Good luck with the upcoming scikits.image sprint. I don't think anyone from the CellProfiler team will be able to take part in the sprint this time, but don't hesitate to ask on the cellprofiler-dev(a)broadinstitute.org mailing list. Thanks, Vebjorn [1] http://stefanv.github.com/scikits.image/contribute.html [2] https://svn.broadinstitute.org/CellProfiler/trunk/CellProfiler/LICENSE [3] https://svn.broadinstitute.org/CellProfiler/trunk/CellProfiler/cellprofiler… [4] https://svn.broadinstitute.org/CellProfiler/trunk/CellProfiler/cellprofiler… [5] https://svn.broadinstitute.org/CellProfiler/trunk/CellProfiler/bioformats/ [6] http://www.loci.wisc.edu/software/bio-formats -- Vebjorn Ljosa, PhD Computational Biologist Broad Institute of MIT and Harvard

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scikit-image June 2010