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Published June 17, 2020 | Version v0.11.0.beta1
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

0.11.0
  • Make sprawl algorithm name shorter
  • Unify capitalisation of measurement names
  • Add simple measurements to mask segmentation
  • Use napari as viewer
  • Add possibility to preview additional output of algorithms (In View menu)
  • Update names of available Algorithm and Measurement to be more descriptive.
Changes:
  • 96ccf55758f74cd991a6c678d92e05c98aba3b0f update changelog
  • f4a6b2f2ca3f20b066dc2330b47ce7c685ba62f5 upgrade requirements
  • 5aa46e7d5ff9069324aa5aa81376e5a07c4f2fe7 Introduce napari viewer to PartSeg (#69)
  • 29ff073c29b09d279cad725309efa3495e5fba18 Update name to be same as in paper
  • b4d7acae802fdb547eb71594b5361675164d4ce7 skip main window test on azure pipelines
  • c4a878e88b2a8ea506ecd4c8e00f56ecb7146bb7 change stack_gui_main to main_window, fix warniong for reload list
  • e5ce72668958eaadb96e5916fd023ba42066037f revert pytest-xvfb workaround
  • ee11979ef7ba14147528dc9e03534ee42448252b Fix plugins recognition, add PartSeg core plugins recognitions
  • 354244f1f09cce091caf82ee133fd7ac95351abf add additional checks to pre-commit

  • 21fc78b92bca607567939f6cb174f39a6ee57469 fix for Qt 5.15.0 <details><summary><b>See More</b></summary>

  • d7771b213007e9e44ef4f1e159c5258cbb2dbadf block pyqt 5.15.0.

  • e53ceb205d6e5ce98c78fb5882aae6857ae70b80 Feature/segmentation information (#60)
  • 5c108bc41e3afc57a4652720b01f5eb9e724aa0b do not use PySide 5.15.0 in CI
  • a29a3d28affb950dfcc3314e460712fdf2a1231c new version of PyVirtualDisplay breaks tests
  • c9895faf9947db234be480f0ac60af187734cc12 pyside related fix change exec to exec_
  • 9b9f638182b71b07dd5e5c9a587c6ad62fbea61b fix polygon problem with PySide2
  • 191f11795103f2d3208679b7266a16792fafd913 temporary suppress main_windows test on windows.
  • 8bc74302cf49cf54d20d2686428e169827a9b2dd Feature/simple mask measurement (#59)
  • 9bac6984d17b129cef4676071f2c6d67e444cfab fix LGTM warning of mixed imports
  • 2743c6fece10a8f78337a7b97a4c7744a9135d58 bump requirements
  • 561072b2b8c60ca65118a80dfddb268a10a8a21e delete obsolete install (covered by pyproject.toml)
  • 80dbb4d4446590afa44e4672a2a2c48d2bd34369 add information about calculation plan to excel file
  • 7f2b78c220142c7e8e57f55276eb664e9b108d69 fix bugs found by new version of flake8
  • 41e62dd46b39f25f43e7e33ea171c648c9e74217 refactor reporting code
  • 0e6482b1aa6cd98c6deec13a5103bd14d2802d7c bump requirements
  • f28092f9b42788e375977ec274615cd73b336397 pre-commit additional hooks (mainly single end line)
  • b6747e4d10f2902c4f263f05ebad6fb2fcf33044 Prevent report keyboard interruption.
  • 4d4a75ecbe3a942af73fac1e53c1bea927f887b5 Try to write result to next files on permission error
  • 2939f7194b924481056dfeeeb59abc393d82f848 introduce pre-commit with blake8 and flake checks
  • fbae00c2cf69c270f64f5bb00fa60a2630f7fc54 test image reader subclass
  • 7029120724b09365b45aefd8a406f7759156e4b6 shorten sparawl names
  • eb0c8560be0cef2e559cb13ea06455f56ed34a02 Bump numpy from 1.18.2 to 1.18.3
  • 489766155f2aff76e966c74246e384241ecbb236 reformat setup
  • 795ba8d5f00dd052782847252d2ec9aad54899e3 Unify formatting names of measurement

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

Files

4DNucleome/PartSeg-v0.11.0.beta1.zip

Files (3.3 MB)

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md5:4496c68c7ad1c76973f7647b6c5879a3
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Additional details

Related works

Is supplement to
https://github.com/4DNucleome/PartSeg/tree/v0.11.0.beta1 (URL)