Published May 16, 2024
| Version v0.9.3
Software
Open
BIOP/qupath-extension-cellpose: Parallel object reader, normalization bugfix gpu disable option and more
Authors/Creators
- 1. EPFL - SV - PTECH - BIOP
- 2. @TheJacksonLaboratory
Description
Welcome to a new release with the following important changes
- Adds
useGPU( boolean )to the builder to disable GPU (Enabled by default) - Fixes a bug found and corrected by @tfehlmann where
ops were being re-created per image, which caused an error during image saving - Adds better error handling when no candidate files are present
- Adds
readResultsAsynchronously()to the builder, which allows the extension to read the resulting labeled images for each tile as cellpose processes them, potentially making the extension faster - Changes the logic for the
VirtualEnvironmentRunnerwhen using CONDA (Not available as such within the extension) as per a suggestion by @loicsauteur - Allows
pixelSize()to accept values smaller than the original pixel size in case you want to upsample your data before sending it to cellpose - Uses a new log parser in order to parlse omnipose and cellpose 3 logs when training
What's Changed
- Ensure that operations are the same when processing multiple images by @tfehlmann in https://github.com/BIOP/qupath-extension-cellpose/pull/44
- Bugfixes and update to Cellpose 3 logging by @lacan in https://github.com/BIOP/qupath-extension-cellpose/pull/46
New Contributors
- @tfehlmann made their first contribution in https://github.com/BIOP/qupath-extension-cellpose/pull/44
Full Changelog: https://github.com/BIOP/qupath-extension-cellpose/compare/v0.9.2...v0.9.3
Files
BIOP/qupath-extension-cellpose-v0.9.3.zip
Files
(2.6 MB)
| Name | Size | Download all |
|---|---|---|
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md5:25adfcbc30e9cefe05cd87bc5b78493c
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2.6 MB | Preview Download |
Additional details
Related works
- Is supplement to
- Software: https://github.com/BIOP/qupath-extension-cellpose/tree/v0.9.3 (URL)