Mailman 3 July 2019 - scikit-image

PyConDE 2019
by Lars Grueter 20 Sep '19

20 Sep '19

Hello, I'm thinking about attending PyConDE in Berlin [1] this October and am interested if scikit-image will have a presence/talks there or if there will be a chance to meet anyone from our community. :) Best regards, Lars [1] https://de.pycon.org/

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NumPyDoc validation
by Juan Nunez-Iglesias 13 Sep '19

13 Sep '19

Hi all! There is a thread on the NumPy mailing list discussing a linter that pandas uses for numpydoc docstrings. It sounds super useful and I think we should adopt it. =) https://mail.python.org/pipermail/numpy-discussion/2019-July/079843.html <https://mail.python.org/pipermail/numpy-discussion/2019-July/079843.html> Gaël additionally proposes that this should be pushed to napoleon, a Sphinx now-built-in extension that supports the numpydoc standard. Perhaps we should move to napoleon also. Waiting to hear your thoughts, will propose a PR if people are on board. Juan.

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Is my program appropriate for Scikit-Image?
by Devin Crowley 22 Jul '19

22 Jul '19

I am a developer at Johns Hopkins University's Neurodata Lab and am writing a pure-python package called ARDENT that does fairly sophisticated 3D image registration. The core algorithm is based on this paper that our group produced in 2005, which has over 1200 citations and has become a standard in the field of medical image registration: Computing Large Deformation Metric Mappings via Geodesic Flows of Diffeomorphisms, available at https://link.springer.com/article/10.1023/B:VISI.0000043755.93987.aa ARDENT works across multiple modalities (images generated by different methods, e.g. fMRI, light microscopy, etc.), and although it has convenient presets written with neuroscience applications in mind, it is fully general to all manner of image registration tasks. I would ideally like to start a conversation but I have a few specific questions. -- Do you think Scikit-Image is the place for a program like the one I have described? -- Would it make more sense for our package to be incorporated into an existing Scikit-Image framework like the Transform module or included as an insular, standalone component? It seems like there is some functional overlap with Transform.estimate_transform so I suspect this might be the most logical place for ARDENT. -- Would Scikit-Image would be comfortable with PyTorch as a dependency or as an optional dependency? The core LDDMM implementation that does ARDENT's heavy lifting utilizes PyTorch for GPU acceleration, but it could feasibly be rewritten without PyTorch. Thank you very much, Devin Crowley JHU Research Assistant

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Interested to work on scikit image projects
by Rajarshi Roychoudhury 03 Jul '19

03 Jul '19

Hello, I am Rajarshi Roychoudhury currently studying in Jadavpur University,India. I have been using scikit image for the last several months and also studying it's codebase. I am interested to contribute in these open source projects. Can you tell me from where I can start. Regards,

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