v0.10.0

What's Changed

• add min_dist to umap parameters by @jo-mueller in #443
• translate images through translate instead of grid by @jo-mueller in #447
• Add option to plotter for layer export by @jo-mueller and @zoccoler in #420
• added escape for >2**16 labels by @jo-mueller in #449
• Insert row for label 0 (background) with NaNs for BBBC sample data by @zoccoler in #452
• drop 3.9 support by @jo-mueller in #453

Full Changelog: v0.9.0...v0.10.0

v0.9.0

What's Changed

• Restructuring plotter.py by @jo-mueller in #326
• Support multi layer clustering by @jo-mueller in #327
• Restructure reduction and clusterer by @jo-mueller in #328
• block signals during repopulation by @jo-mueller in #332
• Make npe2 compliant by @jo-mueller in #333
• share more functionality between Widgets by @jo-mueller in #334
• Update the table of contents in the README.md by @stefanhahmann in #337
• delete old qt code by @jo-mueller in #341
• keep feature selection upon layer change by @jo-mueller in #340
• assert correct coloring for labels layer by @jo-mueller in #338
• add biological sample data by @jo-mueller in #342
• Add data as propper sample data function by @jo-mueller in #343
• pass color values correctly to DirectLabelColormap by @jo-mueller in #344
• [pre-commit.ci] pre-commit autoupdate by @pre-commit-ci in #316
• trigger tests for all PRs by @jo-mueller in #348
• Support shapes by @jo-mueller in #349
• added more python versions and OS to CI tests by @jo-mueller in #356
• Escape errors on mixed layer selection by @jo-mueller in #353
• Fix NaN handling in algorithms by @jo-mueller in #361
• Fix feature sorting in combo-boxes by @jo-mueller in #359
• Handle nans correctly by @jo-mueller in #362
• Fix cluster memorization by @jo-mueller in #364
• Move layer check into base widget by @jo-mueller in #367
• gray out unsupported UI elements by @jo-mueller in #368
• Clean dependencies by @jo-mueller in #369
• Control coloring by @jo-mueller in #371
• expand tests by @jo-mueller in #374
• remove debug code in demo notebook by @jo-mueller in #377
• Make layer coloring more robust by @jo-mueller in #380
• add callback to changed frame by @jo-mueller in #339
• add test for multiscale data by @jo-mueller in #375
• Escape empty selection by @jo-mueller @zoccoler in #379
• Enable histogram by @jo-mueller in #387
• Add surface sample data by @jo-mueller in #391
• Support tracking data by @jo-mueller @stefanhahmann in #385
• remove tools-menu and skimage regionprops by @jo-mueller in #394
• added clustering and dimensionality reduction to NAP6 menus by @jo-mueller @stefanhahmann @zoccoler in #392
• Connect histogram optional features by @zoccoler in #390
• overhaul documentation by @jo-mueller in #389
• Modernize ci by @jo-mueller in #397
• Fix default color setting by @jo-mueller @zoccoler in #401
• extend algorithm subwidgets with links to docs by @jo-mueller in #403
• Delete _dock_widget.py by @jo-mueller in #402
• Make tracking features more verbose by @jo-mueller @zoccoler @stefanhahmann in #410
• Rename reset button by @jo-mueller @stefanhahmann in #412
• Add axes label text by @zoccoler in #413
• increase visibility of links by @jo-mueller in #414
• Delete old icons by @jo-mueller in #415
• V0.9.0 by @jo-mueller in #396
• Delete unused notebook by @jo-mueller in #416
• Fix sample data shapes by @zoccoler in #417
• Add link to docs to frontpage by @jo-mueller in #418
• Fix surface sample data by @jo-mueller in #419
• update tgmm gif by @jo-mueller in #429
• Make shape handling more general and add demo data by @jo-mueller in #424
• removed non-functional gif by @jo-mueller in #427
• Make cluster ids start at 1 by @jo-mueller in #423
• Fix tracks coloring by @jo-mueller in #432
• allow mixed selections by @jo-mueller in #422
• replace calls to _replot() by signal emission and fix plot clearing by @jo-mueller in #430
• rename bbbc007 dataset entry in napari by @jo-mueller in #435
• allow derived layers as input types by @jo-mueller in #438
• Fix dask layers by @jo-mueller in #437
• avoid tracking _version.py by @jo-mueller in #439
• Update doi badge by @jo-mueller in #440

Full Changelog: 0.8.1...v0.9.0

v0.9.0a3

What's Changed

• Restructuring plotter.py by @jo-mueller in #326
• Support multi layer clustering by @jo-mueller in #327
• Restructure reduction and clusterer by @jo-mueller in #328
• block signals during repopulation by @jo-mueller in #332
• Make npe2 compliant by @jo-mueller in #333
• share more functionality between Widgets by @jo-mueller in #334
• Update the table of contents in the README.md by @stefanhahmann in #337
• delete old qt code by @jo-mueller in #341
• keep feature selection upon layer change by @jo-mueller in #340
• assert correct coloring for labels layer by @jo-mueller in #338
• add biological sample data by @jo-mueller in #342
• Add data as propper sample data function by @jo-mueller in #343
• pass color values correctly to DirectLabelColormap by @jo-mueller in #344
• Add attribute for manual label opacity by @thorstenwagner in #346
• unpin numpy version by @Cryaaa in #345
• [pre-commit.ci] pre-commit autoupdate by @pre-commit-ci in #316
• trigger tests for all PRs by @jo-mueller in #348
• Support shapes by @jo-mueller in #349
• added more python versions and OS to CI tests by @jo-mueller in #356
• Escape errors on mixed layer selection by @jo-mueller in #353
• Fix NaN handling in algorithms by @jo-mueller in #361
• Fix feature sorting in combo-boxes by @jo-mueller in #359
• Handle nans correctly by @jo-mueller in #362
• Fix cluster memorization by @jo-mueller in #364
• Move layer check into base widget by @jo-mueller in #367
• gray out unsupported UI elements by @jo-mueller in #368
• Clean dependencies by @jo-mueller in #369
• Control coloring by @jo-mueller in #371
• expand tests by @jo-mueller in #374
• remove debug code in demo notebook by @jo-mueller in #377
• Make layer coloring more robust by @jo-mueller in #380
• add callback to changed frame by @jo-mueller in #339
• add test for multiscale data by @jo-mueller in #375
• Escape empty selection by @jo-mueller in #379
• Enable histogram by @jo-mueller in #387
• Add surface sample data by @jo-mueller in #391
• Support tracking data by @jo-mueller in #385
• remove tools-menu and skimage regionprops by @jo-mueller in #394
• added clustering and dimensionality reduction to NAP6 menus by @jo-mueller in #392
• Connect histogram optional features by @zoccoler in #390
• overhaul documentation by @jo-mueller in #389
• Modernize ci by @jo-mueller in #397
• Fix default color setting by @jo-mueller in #401
• extend algorithm subwidgets with links to docs by @jo-mueller in #403
• Delete _dock_widget.py by @jo-mueller in #402
• Make tracking features more verbose by @jo-mueller in #410
• Rename reset button by @jo-mueller in #412
• Add axes label text by @zoccoler in #413
• increase visibility of links by @jo-mueller in #414
• Delete old icons by @jo-mueller in #415
• V0.9.0 by @jo-mueller in #396
• Delete unused notebook by @jo-mueller in #416
• Fix sample data shapes by @zoccoler in #417
• Add link to docs to frontpage by @jo-mueller in #418
• Fix surface sample data by @jo-mueller in #419
• update tgmm gif by @jo-mueller in #429
• Make shape handling more general and add demo data by @jo-mueller in #424
• removed non-functional gif by @jo-mueller in #427
• Make cluster ids start at 1 by @jo-mueller in #423
• Fix tracks coloring by @jo-mueller in #432
• allow mixed selections by @jo-mueller in #422
• replace calls to _replot() by signal emission and fix plot clearing by @jo-mueller in #430
• rename bbbc007 dataset entry in napari by @jo-mueller in #435
• allow derived layers as input types by @jo-mueller in #438
• Fix dask layers by @jo-mueller in #437
• avoid tracking _version.py by @jo-mueller in #439

Full Changelog: 0.8.1...v0.9.0a3

v0.9.0a2

What's Changed

• Restructuring plotter.py by @jo-mueller in #326
• Support multi layer clustering by @jo-mueller in #327
• Restructure reduction and clusterer by @jo-mueller in #328
• block signals during repopulation by @jo-mueller in #332
• Make npe2 compliant by @jo-mueller in #333
• share more functionality between Widgets by @jo-mueller in #334
• Update the table of contents in the README.md by @stefanhahmann in #337
• delete old qt code by @jo-mueller in #341
• keep feature selection upon layer change by @jo-mueller in #340
• assert correct coloring for labels layer by @jo-mueller in #338
• add biological sample data by @jo-mueller in #342
• Add data as propper sample data function by @jo-mueller in #343
• pass color values correctly to DirectLabelColormap by @jo-mueller in #344
• Add attribute for manual label opacity by @thorstenwagner in #346
• unpin numpy version by @Cryaaa in #345
• [pre-commit.ci] pre-commit autoupdate by @pre-commit-ci in #316
• trigger tests for all PRs by @jo-mueller in #348
• Support shapes by @jo-mueller in #349
• added more python versions and OS to CI tests by @jo-mueller in #356
• Escape errors on mixed layer selection by @jo-mueller in #353
• Fix NaN handling in algorithms by @jo-mueller in #361
• Fix feature sorting in combo-boxes by @jo-mueller in #359
• Handle nans correctly by @jo-mueller in #362
• Fix cluster memorization by @jo-mueller in #364
• Move layer check into base widget by @jo-mueller in #367
• gray out unsupported UI elements by @jo-mueller in #368
• Clean dependencies by @jo-mueller in #369
• Control coloring by @jo-mueller in #371
• expand tests by @jo-mueller in #374
• remove debug code in demo notebook by @jo-mueller in #377
• Make layer coloring more robust by @jo-mueller in #380
• add callback to changed frame by @jo-mueller in #339
• add test for multiscale data by @jo-mueller in #375
• Escape empty selection by @jo-mueller in #379
• Enable histogram by @jo-mueller in #387
• Add surface sample data by @jo-mueller in #391
• Support tracking data by @jo-mueller in #385
• remove tools-menu and skimage regionprops by @jo-mueller in #394
• added clustering and dimensionality reduction to NAP6 menus by @jo-mueller in #392
• Connect histogram optional features by @zoccoler in #390
• overhaul documentation by @jo-mueller in #389
• Modernize ci by @jo-mueller in #397
• Fix default color setting by @jo-mueller in #401
• extend algorithm subwidgets with links to docs by @jo-mueller in #403
• Delete _dock_widget.py by @jo-mueller in #402
• Make tracking features more verbose by @jo-mueller in #410
• Rename reset button by @jo-mueller in #412
• Add axes label text by @zoccoler in #413
• increase visibility of links by @jo-mueller in #414
• Delete old icons by @jo-mueller in #415
• V0.9.0 by @jo-mueller in #396
• Delete unused notebook by @jo-mueller in #416
• Fix sample data shapes by @zoccoler in #417
• Add link to docs to frontpage by @jo-mueller in #418
• Fix surface sample data by @jo-mueller in #419
• update tgmm gif by @jo-mueller in #429
• Make shape handling more general and add demo data by @jo-mueller in #424
• removed non-functional gif by @jo-mueller in #427
• Make cluster ids start at 1 by @jo-mueller in #423
• Fix tracks coloring by @jo-mueller in #432
• allow mixed selections by @jo-mueller in #422
• replace calls to _replot() by signal emission and fix plot clearing by @jo-mueller in #430
• rename bbbc007 dataset entry in napari by @jo-mueller in #435
• allow derived layers as input types by @jo-mueller in #438
• Fix dask layers by @jo-mueller in #437

Full Changelog: 0.8.1...v0.9.0a2

General clusters-plotter overhaul

What's Changed

• Restructuring plotter.py by @jo-mueller in #326
• Support multi layer clustering by @jo-mueller in #327
• Restructure reduction and clusterer by @jo-mueller in #328
• block signals during repopulation by @jo-mueller in #332
• Make npe2 compliant by @jo-mueller in #333
• share more functionality between Widgets by @jo-mueller in #334
• Update the table of contents in the README.md by @stefanhahmann in #337
• delete old qt code by @jo-mueller in #341
• keep feature selection upon layer change by @jo-mueller in #340
• assert correct coloring for labels layer by @jo-mueller in #338
• add biological sample data by @jo-mueller in #342
• Add data as propper sample data function by @jo-mueller in #343
• pass color values correctly to DirectLabelColormap by @jo-mueller in #344
• Add attribute for manual label opacity by @thorstenwagner in #346
• unpin numpy version by @Cryaaa in #345
• [pre-commit.ci] pre-commit autoupdate by @pre-commit-ci in #316
• trigger tests for all PRs by @jo-mueller in #348
• Support shapes by @jo-mueller in #349
• added more python versions and OS to CI tests by @jo-mueller in #356
• Escape errors on mixed layer selection by @jo-mueller in #353
• Fix NaN handling in algorithms by @jo-mueller in #361
• Fix feature sorting in combo-boxes by @jo-mueller in #359
• Handle nans correctly by @jo-mueller in #362
• Fix cluster memorization by @jo-mueller in #364
• Move layer check into base widget by @jo-mueller in #367
• gray out unsupported UI elements by @jo-mueller in #368
• Clean dependencies by @jo-mueller in #369
• Control coloring by @jo-mueller in #371
• expand tests by @jo-mueller in #374
• remove debug code in demo notebook by @jo-mueller in #377
• Make layer coloring more robust by @jo-mueller in #380
• add callback to changed frame by @jo-mueller in #339
• add test for multiscale data by @jo-mueller in #375
• Escape empty selection by @jo-mueller in #379
• Enable histogram by @jo-mueller in #387
• Add surface sample data by @jo-mueller in #391
• Support tracking data by @jo-mueller in #385
• remove tools-menu and skimage regionprops by @jo-mueller in #394
• added clustering and dimensionality reduction to NAP6 menus by @jo-mueller in #392
• Connect histogram optional features by @zoccoler in #390
• overhaul documentation by @jo-mueller in #389
• Modernize ci by @jo-mueller in #397
• Fix default color setting by @jo-mueller in #401
• extend algorithm subwidgets with links to docs by @jo-mueller in #403
• Delete _dock_widget.py by @jo-mueller in #402
• Make tracking features more verbose by @jo-mueller in #410
• Rename reset button by @jo-mueller in #412
• Add axes label text by @zoccoler in #413
• increase visibility of links by @jo-mueller in #414
• Delete old icons by @jo-mueller in #415
• V0.9.0 by @jo-mueller in #396

Full Changelog: 0.8.1...v0.10.0

0.8.1

What's Changed

• Fix setting bin number manually by @zoccoler in #325
• Fix color future warning by @zoccoler in #308
• Bump version and automatic version determination by @tsmejkal in #336

New Contributors

• @tsmejkal made their first contribution in #336

Full Changelog: 0.8.0...0.8.1

0.8.0

What's Changed

Support for new napari layers:

• Add support for points layer by @jo-mueller in #256
• Add support for surface layer by @lazigu in #229

Bug Fixes:

• Added explicit dependencies by @jo-mueller in #274
• Fixed link to test badge by @jo-mueller in #278
• Convert max label to integer before using it as parameter for np.zeros by @stefanhahmann in #284
• Fix Tracking Layer by @stefanhahmann in #286
• Fixing the problem of accessing properties in image layers by @Cryaaa in #296
• Fix zooming problem by @thorstenwagner in #298
• Adding another small fix for future warning by @Cryaaa in #309
• Fix bug where some colormaps were not displayed in the historam by @zoccoler in #318
• Prefer loading features from features rather than properties by @jo-mueller in #319

Performance and Enhancements:

• Don't recalculate histogram if not necessary by @thorstenwagner in #282
• Speed-up generate cluster image by @thorstenwagner in #283
• More efficient multiple cluster selection by @thorstenwagner in #287
• Update full data only when data is changed by @thorstenwagner in #288
• Update method generate_cluster_tracks() by @stefanhahmann in #290
• Update axes limits when plotting by @thorstenwagner in #294
• Fix opacity adjustment and set it to low non-zero value by @zoccoler in #280
• Fix labels layer opacity setting and bug when viewer is closed from code by @zoccoler in #313
• Set up automatic deployment by @jo-mueller in #304

Documentation and Code Style:

• Add additional explanation regarding zero as a label by @stefanhahmann in #270
• [pre-commit.ci] pre-commit autoupdate by @pre-commit-ci in #252
• [pre-commit.ci] pre-commit autoupdate by @pre-commit-ci in #292
• [pre-commit.ci] pre-commit autoupdate by @pre-commit-ci in #293
• Add example dataset for tracking data. by @stefanhahmann in #300
• Adding example data and notebooks to load the data by @Cryaaa in #310
• Update doc layer types by @zoccoler in #311
• [pre-commit.ci] pre-commit autoupdate by @pre-commit-ci in #312

Tests:

• Add more tests for layers in 3 d/4 d by @zoccoler in #315

New Contributors

• @stefanhahmann made their first contribution in #270

Full Changelog: 0.7.3...0.8.0

0.7.3

What's Changed

• Make cluster image uint32 by @thorstenwagner in #259
• Remove features that contain inf by @zoccoler in #264

Full Changelog: 0.7.2...0.7.3

0.7.2

What's Changed

• Fix reset zoom by @thorstenwagner in #254

Full Changelog: 0.7.1...0.7.2

0.7.1

Bugfix:

• Incompatibility with pytorch on conda-forge/Windows (#248 )