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Published March 8, 2021 | Version v0.13.0
Software Open

PartSeg - segmentation and reconstruction tool for 3D microscopy images

Authors/Creators

  • 1. Centre of New Technologies, University of Warsaw, Warsaw, Poland; Institute of Informatics, University of Warsaw, Warsaw, Poland
  • 2. Nencki Institute of Experimental Biology, Polish Academy of Sciences, Warsaw, Poland
  • 3. Institute of Informatics, University of Warsaw, Warsaw, Poland

Contributors

  • 1. Centre of New Technologies, University of Warsaw, Warsaw, Poland; Faculty of Mathematics and Information Science, Warsaw University of Technology, Warsaw, Poland

Description

0.13.0
  • Add possibility of custom input widgets for algorithms
  • Switch to napari Colormaps instead of custom one
  • Add points visualization
  • Synchronization widget for builtin (View menu) napari viewer
  • Drop Python 3.6
Changes:
  • ec6404d2256fb1f46d45d197323ebcad78c679a5 Bump defusedxml from 0.7.0 to 0.7.1 in /requirements (#220)
  • f0a832e58659073d2ae968db1f8ba0532d7ea243 fix loading data
  • 9b18ab59d5387320459f181e981fd52c037ddd56 Bump requirements (#219)
  • 0fca4516dc79349654d78141cbfcc76fcb98fc00 minor fixes
  • 0a1d180636339742f037b17503a7a14ebc06cf84 fix bug in mask refresh when run in interactive mode
  • 81abfb64867f235a53de7b9e3b847ebc5c8643c6 allow float in manual threshold
  • b720c684a2606fabf3f9f9b7b8ea79549540494c Bump napari from 0.4.5 to 0.4.6 in /requirements (#212)
  • 99abd2670ea5f0ec1195b9a11b1193a216ab1cca fix colormap bug
  • 6c54f7ec66e83210cc9f9a3498523161769700e6 [pre-commit.ci] pre-commit autoupdate (#207)

  • f7e57ec55d5df095f540dfb978c9b544a6a4b018 pin runner os images in prerelease test <details><summary><b>See More</b></summary>

  • f00f4af5bf04676298090619192fb78fd5bba9b7 Merge remote-tracking branch 'origin-public/master' into develop

  • 65f6d0de3117a9461652a26c0356861fec433ee0 fixes for napari 0.4.6 release
  • 6e0697db46aa49588a6448fe3ca0393f1ef41c2c fixes for napari 0.4.6
  • 819e646750f1c36a93973948208d4e97ecb67f1f Move testing notebook and docs to tox (#206)
  • e64065c2dd89933bc40e831f245956a6c9bdc5bd block pydantic 1.8
  • 3a2256018bd9cac7d8edda2fd810bee7b53ebd6a Update order of recent opened files when use last files menu (#204)
  • 7b96c58dc7d6bf830a1bd9672e7dd04d343c18da Fix part of non code related fails in test (#203)
  • 7c85c1a026a74388daeb839f4b23f2adf76595b4 Allow to synchronize Napari viewer with PartSeg data update (#201)
  • f519bc1aa55f85ca7c4752a816c4eb44c2b3e84a add citation information
  • 9bda782a4b9c1c4fdad1a07cedec38dd93e7c902 fix minor bugs connected with blur and update parameters
  • 6672ac1933416bb43b1c23de20b19ed5369df1ea Load and visualize points from napari (#198)
  • 514bcd1bbcd5a625272a9324d78754ef291e490c Allow custom input widget for algorithm parameters (#195)
  • 63f245a9d6027945fdf84cecc30fe83d03a51973 fix read the docs
  • ef21462240efd936f5c1a4fb57d969eaec108410 fix history of opening files, save drop in history
  • 0157f12c88b0277fda6c91c13b5a016cde6f89ab Bump napari from 0.4.4 to 0.4.5 in /requirements (#190)
  • c8fd12b3ce1ad9441a12537427390400a17b5166 dellay wait_for_workers_to_quit import
  • 64abfc3556876d5e7c76b91adfddfbfe74478b2a [pre-commit.ci] pre-commit autoupdate (#188)
  • 6fc0a2f5a23722b87e32c0c7a37ce43feecf940f fix docs build
  • d793b15f8a5c357b6291289ec40c181cc54ecb81 small colormap related fix
  • 8d6201f637b9f66f1c3035a81163ef8e51304c82 Use napari colormaps instead of custom one (#186)
  • d298faf2dbb3461413cc54dcfc67d1adf359c797 Fix Readme.md (#171)
  • ac3e0aa6bca0b373a826a1bba6fc4834bfbbf7d2 add roi prefix RegisterEnum
  • 40e476401a6b1bb176d63c4fea130171589ad91c Fix Pyinstaller builds (#185)
  • 45b037a94060a64174f0b0599c656be22bf2e251 add AZURE_PIPELINES to pasenv in tox.ini
  • cd381a7397cdc9eb16df5b5cdfef3beb21b5e7fa Fix and clean CI configuration (#183)
  • 79222a1343b877a3f965113d33fbbd05fae438e9 [pre-commit.ci] pre-commit autoupdate (#182)
  • 1fa124df434852211afce128f12b9136f647026d Update bundle requirements (#179)
  • 928ec8c8d40479ddca4ab8cb1381730d41a4bcc6 bump PartSegData version
  • ef1df702cf5571f9ae0047cadc711ccb0f474deb update license information in zenodo
  • c6a3810cbd77f008f7e9a1241632972145485823 Bump napari from 0.4.2 to 0.4.3 in /requirements (#173)

This list of changes was auto generated.</details>

Files

4DNucleome/PartSeg-v0.13.0.zip

Files (7.1 MB)

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Additional details

Related works

Is supplement to
https://github.com/4DNucleome/PartSeg/tree/v0.13.0 (URL)