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Node gt matching teun#155

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TeunHuijben wants to merge 55 commits intomainroyerlab/ultrack:mainfrom node-gt-matching-teunroyerlab/ultrack:node-gt-matching-teunCopy head branch name to clipboard

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Commits

Commits on Jun 14, 2024

• added save_config function

  TeunHuijben

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Commits on Jun 15, 2024

• added volume attribute to node

  TeunHuijben

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Commits on Jun 21, 2024

• close_tracks_gaps now works for segments being a dask_array

  TeunHuijben

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• removed node._volume method, since precomputed area already exists

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Commits on Jul 11, 2024

• added UltrackArray class to utils/array.py

  TeunHuijben

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• ran pre-commit

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Commits on Jul 16, 2024

• added path to database as optional input parameter. If provided, the database is taken from the provided path. If not provided, the database is loaded from the path stored in config

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Commits on Jul 29, 2024

• adding frontier to database

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Commits on Jul 30, 2024

• hierarchy widget, work in progress

  TeunHuijben

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• added non-linear slider for uniform addition of volumes'

  TeunHuijben

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Commits on Jul 31, 2024

• added documentation to ultrack-array and HierarchyVizWidget

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Commits on Aug 1, 2024

• Update ultrack/widgets/ultrackwidget/ultrackwidget.py

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  TeunHuijben

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• Update ultrack/widgets/ultrackwidget/ultrackwidget.py

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  TeunHuijben

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  JoOkuma

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• Update ultrack/utils/array.py

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  TeunHuijben

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  JoOkuma

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• implementing Jordaos revisions

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• merged main to branch

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• revising PR

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• renaming functions in ultrack-array

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• reverting dirty history changes

  TeunHuijben

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• redid the changes lost in merge

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Commits on Aug 2, 2024

• added indexing test for ultrack-array

  TeunHuijben

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• added test for hierarchy widget

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Commits on Aug 16, 2024

• Merge branch 'main' into autotune

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Commits on Aug 19, 2024

• WIP basic autotuning implementation

  JoOkuma

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• removing in memory database

  JoOkuma

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• in memory DB

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Commits on Aug 31, 2024

• WIP database centric autotuning

  JoOkuma

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• fix db bug

  JoOkuma

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Commits on Sep 1, 2024

• added feature extraction during segmentation

  JoOkuma

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• added get_nodes_features functionality

  JoOkuma

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• added manual linking value to ultrack

  JoOkuma

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• improving documentation

  JoOkuma

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• examples of using node features

  JoOkuma

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• added CTC usage

  JoOkuma

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Commits on Sep 3, 2024

• adding ground-truth database

  JoOkuma

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• improving linking codebase

  JoOkuma

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• Merge branch 'autotune' into node-gt-matching

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• Merge branch 'main' into node-gt-matching

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Commits on Sep 4, 2024

• WIP auto memory GT linking

  JoOkuma

  committed
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• bad duplicated link code

  JoOkuma

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• WIP working version of ground-truth matching, missing documentation

  JoOkuma

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• bug fixing

  JoOkuma

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Commits on Oct 2, 2024

• Merge branch 'public-main' into node-gt-matching

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• addings docs gt matching

  JoOkuma

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Commits on Oct 3, 2024

• removed unnecessary prints

  JoOkuma

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Commits on Oct 6, 2024

• added image wrapper for feature computation

  JoOkuma

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Commits on Oct 7, 2024

• fix inverted EDT processing for dask arrays / non-binary masks

  JoOkuma

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• Merge branch 'fix-edt' into node-gt-matching

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• improved array apply, adding automatic output array creation

  JoOkuma

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• Merge branch 'improve-array-apply' into node-gt-matching

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• undoing wrong removal

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• Merge branch 'improve-array-apply' into node-gt-matching

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Commits on Oct 10, 2024

• enabling cell division into matching

  JoOkuma

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Commits on Oct 29, 2024

• Merge branch 'main' into node-gt-matching

  JoOkuma

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• merged ultrack-array into ultrackastra/node-gt-matching-teun

  

  Teun Huijben

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