Releases | Open Source Science

napari-ndev - v0.11.8

First release after transferring to ndev-kit/napari-ndev

- Python
Published by TimMonko 11 months ago

This release occurs after a cleaning of the .git with git-filter-repo. Mostly, docs were removed from history as were some of the larger binaries I committed from a time period of naivety. This will be the last release from TimMonko, before transferring to ndev-kit.

- Python
Published by TimMonko 11 months ago

napari-ndev - v0.11.6

What's Changed

Fix release workflow and add OIDC token permissions by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/178
Fix token permissions by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/179
remove extra upload step by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/180
Remove Codecov token from workflow by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/181
action copy edit by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/182
add github templates by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/183

Full Changelog: https://github.com/TimMonko/napari-ndev/compare/v0.11.5...v0.11.6

- Python
Published by TimMonko about 1 year ago

napari-ndev - v0.11.6a2

What's Changed

remove extra upload step by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/180

Full Changelog: https://github.com/TimMonko/napari-ndev/compare/v0.11.6a1...v0.11.6a2

- Python
Published by TimMonko about 1 year ago

napari-ndev - v0.11.6a1

What's Changed

Fix token permissions by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/179

Full Changelog: https://github.com/TimMonko/napari-ndev/compare/v0.11.6a...v0.11.6a1

- Python
Published by TimMonko about 1 year ago

napari-ndev - v0.11.6a

What's Changed

Fix release workflow and add OIDC token permissions by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/178

Full Changelog: https://github.com/TimMonko/napari-ndev/compare/v0.11.5...v0.11.6a

- Python
Published by TimMonko about 1 year ago

napari-ndev - v0.11.5 - Update Github actions

What's Changed

add prereleases action cron job and fail template by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/173
Reusable tox test workflow by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/174
Check test serialization by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/175
Re-link coverage to tests by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/176
Separate test and release workflows by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/177

Full Changelog: https://github.com/TimMonko/napari-ndev/compare/v0.11.4...v0.11.5

- Python
Published by TimMonko about 1 year ago

napari-ndev - v0.11.4

What's Changed

Change dependences to pin breaking bioio and change pyqt version by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/171

Full Changelog: https://github.com/TimMonko/napari-ndev/compare/v0.11.3...v0.11.4

- Python
Published by TimMonko over 1 year ago

napari-ndev - v0.11.3

What's Changed

This release improves handling of shapes layer for saving, and will now default to saving shapes with the dimensions of the 'current file', instead of relying on the active image selection or the bottom of the layer list. However, it does fall back to previous behavior. Second, this release cleans up the preferred reader implementation code, pins zarr<3, and adds support for pngs (that was already there, but problematically).

remove unused natural sort key method from UtilitiesContainer by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/164
Use image file to calculate shape-to-labels dims rather than viewer layers by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/165
Add tests for rescaling layers and retrieving dimensions for shape layers by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/168
Add version label to nDevContainer widget by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/169
Implement preferred reader for PNG files by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/170

Full Changelog: https://github.com/TimMonko/napari-ndev/compare/v0.11.2...v0.11.3

- Python
Published by TimMonko over 1 year ago

napari-ndev - v0.11.2

What's Changed

add zarr FSStore compatability monkey patch for zarr>=3.0 by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/163

Full Changelog: https://github.com/TimMonko/napari-ndev/compare/v0.11.1...v0.11.2

- Python
Published by TimMonko over 1 year ago

napari-ndev - v0.11.1

What's Changed

Update dependencies in pyproject.toml by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/160
Update README.md by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/161
Drop napari[all] from dependencies to allow any backend by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/162

Full Changelog: https://github.com/TimMonko/napari-ndev/compare/v0.11.0...v0.11.1

- Python
Published by TimMonko over 1 year ago

napari-ndev - v0.11.0.post1 - Update install strategy

What's Changed

Update dependencies in pyproject.toml by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/160
Tries to fix some dependencies issues on user computers. Makes czi/lif install baseline (for now)

Full Changelog: https://github.com/TimMonko/napari-ndev/compare/v0.11.0...v0.11.0.post1

- Python
Published by TimMonko over 1 year ago

napari-ndev - v0.11.0

What's Changed

Despite this being just 3 PRs, I wanted to set this as a new major release. This release adds global, saved settings to the plugin. It moves out some options from things like Image Utilities into the settigns. Furthermore, it makes significant effort to clean up the UI, especially Image Utilities again. It also adds easy export of figures/screenshots from the viewer. The goal is to make publication ready figures, easy! I am submitting PRs to core napari that will hopefully be available in 0.6.0 that will improve this even farther.

Fix broken logo change by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/157
Settings, Scene Handling and UI changes by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/158
Add figure / screenshot export to utilities by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/159

Full Changelog: https://github.com/TimMonko/napari-ndev/compare/v0.10.1...v0.11.0

- Python
Published by TimMonko over 1 year ago

napari-ndev - v0.10.1.post1

What's Changed

Fix broken logo change by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/157

Full Changelog: https://github.com/TimMonko/napari-ndev/compare/v0.10.1...v0.10.1.post1

- Python
Published by TimMonko over 1 year ago

napari-ndev - v0.10.1

What's Changed

Overall layout fix for nDev app by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/152
Fix logo path by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/153
Switch all neuralDev descriptions to nDev by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/154
Add multithreading to Workflow Widget by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/155
Add viewer capabality to workflow widget by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/156

Full Changelog: https://github.com/TimMonko/napari-ndev/compare/v0.10.0...v0.10.1

- Python
Published by TimMonko over 1 year ago

napari-ndev - v0.10.0 - nDev main App

What's Changed

Fix groupandagg_func string inputs breaking column names by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/148
add classifier name to predicted layer in apoc viewer widget by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/147
Update [dev] dependency by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/149
Add nDev app by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/150

Full Changelog: https://github.com/TimMonko/napari-ndev/compare/v0.9.12...v0.10.0

- Python
Published by TimMonko over 1 year ago

napari-ndev - v0.9.12

What's Changed

Add leading zeroes to measure_props by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/139
Reconnect APOC widget tabs to native by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/140
- Fixes GUI not updating for viewer connected events in v0.9.11 despite underlying class values updating.

Full Changelog: https://github.com/TimMonko/napari-ndev/compare/v0.9.11...v0.9.12

- Python
Published by TimMonko over 1 year ago

napari-ndev - v0.9.11

What's Changed

Put channel name at beginning of layer name for reader by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/134
APOC Widget layout improvements by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/138
Improve PlateMapper leading 0s and init by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/137

Full Changelog: https://github.com/TimMonko/napari-ndev/compare/v0.9.10...v0.9.11

- Python
Published by TimMonko over 1 year ago

napari-ndev - v0.9.10

What's Changed

Use nImage for image/file handling throughout the code, instead of BioImage by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/130
Allow creation of .cl file from magicgui widget, if one doesn't exist by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/131

Full Changelog: https://github.com/TimMonko/napari-ndev/compare/v0.9.9...v0.9.10

- Python
Published by TimMonko over 1 year ago

napari-ndev - v0.9.9

What's Changed

Establish reader for nImage as bioio-ome-tiff if compatible, overriding default by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/126

Full Changelog: https://github.com/TimMonko/napari-ndev/compare/v0.9.8...v0.9.9

- Python
Published by TimMonko over 1 year ago

napari-ndev - v0.9.8 - add ImageSet dataclass for image_overview

What's Changed

Image overview update - ImageSet dataclass by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/123
add back dict support for image overview by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/125

Full Changelog: https://github.com/TimMonko/napari-ndev/compare/v0.9.7...v0.9.8

- Python
Published by TimMonko over 1 year ago

napari-ndev - v0.9.7 - UV support and updated image_overview

What's Changed

Switch setup.cfg info entirely to pyproject.toml by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/118
Add tool support via uv by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/119
Update image_overview by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/120
Add wrapping to image overview for only one image set by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/122

Full Changelog: https://github.com/TimMonko/napari-ndev/compare/v0.9.6...v0.9.7

- Python
Published by TimMonko over 1 year ago

napari-ndev - v0.9.6 - Bump for conda-forge

What's Changed

Tried to update tox testing to include macos, but still failing at present. Tried to clean up testing otherwise. A recent release of ngff-zarr also broke bioio, so this pins less than that version.

Add tox testing for macos by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/100
Revert "Add tox testing for macos" by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/101
add dependabot to github actions by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/103
Create CODEOFCONDUCT.md by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/105
ci(dependabot): bump codecov/codecov-action from 2 to 4 in the actions group by @dependabot in https://github.com/TimMonko/napari-ndev/pull/104
Change to aganders tox run by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/106
use setup-miniconda for github actions by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/107
ci(dependabot): bump conda-incubator/setup-miniconda from 2 to 3 in the actions group by @dependabot in https://github.com/TimMonko/napari-ndev/pull/109
lazy import all gpu-dependent funs by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/110
ci(dependabot): bump codecov/codecov-action from 4 to 5 in the actions group by @dependabot in https://github.com/TimMonko/napari-ndev/pull/115
Pin ngff-zarr<0.10.0 by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/116

New Contributors

@dependabot made their first contribution in https://github.com/TimMonko/napari-ndev/pull/104

Full Changelog: https://github.com/TimMonko/napari-ndev/compare/v0.9.5...v0.9.6

- Python
Published by TimMonko over 1 year ago

napari-ndev - v0.9.5 - Release for I2K Workshop

What's Changed

I2k workshop docs - update distribution by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/99
I2k workshop docs - easy ML by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/97
I2k workshop docs - manifest update by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/98
Update MANIFEST.in to exclude docs by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/96
I2k workshop docs - setup tutorial by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/92
I2k workshop docs - now with example pipeline tutorial by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/93
I2k workshop docs - update index and readme by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/94
I2k workshop docs - add downloads and workflow tutorial by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/95

Docs will continued to be updated, but will automatically update the main branch sufficiently for the purpose of the workshop

Full Changelog: https://github.com/TimMonko/napari-ndev/compare/v0.9.1...v0.9.2 Full Changelog: https://github.com/TimMonko/napari-ndev/compare/v0.9.2...v0.9.3 Full Changelog: https://github.com/TimMonko/napari-ndev/compare/v0.9.3...v0.9.4 Full Changelog: https://github.com/TimMonko/napari-ndev/compare/v0.9.4...v0.9.5

- Python
Published by TimMonko over 1 year ago

napari-ndev - v0.9.4 - I2K Workshop Release

What's Changed

I2k workshop docs - easy ML by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/97
I2k workshop docs - manifest update by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/98
Update MANIFEST.in to exclude docs by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/96
I2k workshop docs - setup tutorial by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/92
I2k workshop docs - now with example pipeline tutorial by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/93
I2k workshop docs - update index and readme by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/94
I2k workshop docs - add downloads and workflow tutorial by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/95

Docs will continued to be updated, but will automatically update the main branch sufficiently for the purpose of the workshop

Full Changelog: https://github.com/TimMonko/napari-ndev/compare/v0.9.1...v0.9.2 Full Changelog: https://github.com/TimMonko/napari-ndev/compare/v0.9.2...v0.9.3 Full Changelog: https://github.com/TimMonko/napari-ndev/compare/v0.9.3...v0.9.4

- Python
Published by TimMonko over 1 year ago

napari-ndev - v0.9.3 - Release for I2K workshop

What's Changed

Update MANIFEST.in to exclude docs by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/96
I2k workshop docs - setup tutorial by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/92
I2k workshop docs - now with example pipeline tutorial by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/93
I2k workshop docs - update index and readme by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/94
I2k workshop docs - add downloads and workflow tutorial by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/95
I2k workshop docs - easy ML by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/96

Docs will continued to be updated, but will automatically update the main branch sufficiently for the purpose of the workshop

Full Changelog: https://github.com/TimMonko/napari-ndev/compare/v0.9.1...v0.9.2 Full Changelog: https://github.com/TimMonko/napari-ndev/compare/v0.9.2...v0.9.3

- Python
Published by TimMonko over 1 year ago

napari-ndev - v0.9.2 - Release for I2K workshop

What's Changed

I2k workshop docs - setup tutorial by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/92
I2k workshop docs - now with example pipeline tutorial by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/93
I2k workshop docs - update index and readme by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/94
I2k workshop docs - add downloads and workflow tutorial by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/95

Docs will continued to be updated, but will automatically update the main branch sufficiently for the purpose of the workshop

Full Changelog: https://github.com/TimMonko/napari-ndev/compare/v0.9.1...v0.9.2

- Python
Published by TimMonko over 1 year ago

napari-ndev - v0.9.1

What's Changed

Measure container pivot and fix region issue by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/89

Full Changelog: https://github.com/TimMonko/napari-ndev/compare/v0.9.0...v0.9.1

- Python
Published by TimMonko over 1 year ago

napari-ndev - v0.9.0

What's Changed

nImage class on top of bioimage for convenience functions by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/86
add multi-label support to measure container by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/87
new revamped image utilities widget by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/88

Full Changelog: https://github.com/TimMonko/napari-ndev/compare/v0.8.4...v0.9.0

- Python
Published by TimMonko over 1 year ago

napari-ndev - v0.8.4

What's Changed

add reader to napari-ndev by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/85

Full Changelog: https://github.com/TimMonko/napari-ndev/compare/v0.8.3...v0.8.4

- Python
Published by TimMonko over 1 year ago

napari-ndev - v0.8.3

What's Changed

add support for Python 3.12 by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/73
create widgets module and move files by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/77
Clarify license and deps by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/78
remove aicsimageio entirely switch to napari-bioio along with bioio changes by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/83
Update testanddeploy.yml by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/84

Full Changelog: https://github.com/TimMonko/napari-ndev/compare/v0.8.2...v0.8.3

- Python
Published by TimMonko over 1 year ago

napari-ndev - v0.8.2

What's Changed

Update measure container and add a new test by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/66
Add more examples, including Measure Widget usage by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/67

Release matches BINA (Bioimaging North America) Presentation/Poster in September 2024.

Full Changelog: https://github.com/TimMonko/napari-ndev/compare/v0.8.1...v0.8.2

- Python
Published by TimMonko almost 2 years ago

napari-ndev - v0.8.1

What's Changed

Exclude /docs and /_tests from source distribution by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/61
Exclude /docs and /_tests from distribution by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/62
Workflow widget update by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/63
Add morphology functions and tests by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/64
Image Utilities Example by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/65

Full Changelog: https://github.com/TimMonko/napari-ndev/compare/v0.8.0...v0.8.1

- Python
Published by TimMonko almost 2 years ago

napari-ndev - v0.8.0

What's Changed

This is probably the biggest release and update to the plugin so far. There is now documentation/docstrings for all classes and function. And now a website for this documentation that will automatically be updated as new code gets released.

In addition there is an entirely new widget in the form of Measure Widget! Select a label and measure it with scikit-image regionprops(), optionally add any number of intensity channels. Use regex to get information from either the id_string (filename, typically) or from scene information!) Later, go to the grouping tab and count and group aggregate functions based on identifiers of interest.

There is also now an overhaul of image utilities, attempting to incorporate bioio and phase out aicsimageio. This widget now shifts "open next" to "select next" to allow more graceful concatenation of images without viewing.

Major

Add measure_container aka Measure Widget by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/52
Ruff linting by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/53
Getting codecov hooked back up by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/54
Mkdocs by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/55
Image utilities update by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/59
Groupby measure widget by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/60

Minor

Update deploy_docs.yml by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/56
Update deploy_docs.yml by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/57
Trying to fix build permissions for docs by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/58

Full Changelog: https://github.com/TimMonko/napari-ndev/compare/v0.7.1...v0.8.0

- Python
Published by TimMonko almost 2 years ago

napari-ndev - v0.7.1

What's Changed

Image utility changes by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/50
Apoc fixes by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/51
Update tests to not depend on viewer and fix tests after removal of old widget attributes
Updates APOC container with many features, and integreates custom feature widget

Full Changelog: https://github.com/TimMonko/napari-ndev/compare/v0.7.0...v0.7.1

- Python
Published by TimMonko almost 2 years ago

napari-ndev - v0.7.0

What's Changed

Optimizations in library load time by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/46
Large Refactor of Utilities by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/47
Tabbing and plugin changes by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/48
Combine RescaleBy into ImageUtilities and deprecate the former
Image overview, a way to get easy png overviews of images and labels by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/49

Full Changelog: https://github.com/TimMonko/napari-ndev/compare/v0.6.7...v0.7.0

- Python
Published by TimMonko almost 2 years ago

napari-ndev - v0.6.7

What's Changed

Ometif to ometiff by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/45
Remove macos tox tests
Fix test failing in v0.6.6
Bump for pypi

Full Changelog: https://github.com/TimMonko/napari-ndev/compare/v0.6.6...v0.6.7

- Python
Published by TimMonko about 2 years ago

napari-ndev - v0.6.6

What's Changed

Update utilitiescontainer.py to add scene extraction by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/43
convert from .tif to .tiff for naming by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/44

Full Changelog: https://github.com/TimMonko/napari-ndev/compare/v0.6.5...v0.6.6

- Python
Published by TimMonko about 2 years ago

napari-ndev - v0.6.5

What's Changed

Update test resources to have smaller files to fit onto pypi
Create jekyll-gh-pages.yml by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/42 But this does not seem to work

Full Changelog: https://github.com/TimMonko/napari-ndev/compare/v0.6.4...v0.6.5

- Python
Published by TimMonko about 2 years ago

napari-ndev - v0.6.4

What's Changed

Workflow refactor by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/40
add PlateMapper class by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/41
add helper functions

Full Changelog: https://github.com/TimMonko/napari-ndev/compare/v0.6.3...v0.6.4

- Python
Published by TimMonko about 2 years ago

napari-ndev - v0.6.3

What's Changed

fix image concatenation in Image Utilities, pushed to main
update pytest skip for tox to increase codecov by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/39

Full Changelog: https://github.com/TimMonko/napari-ndev/compare/v0.6.2...v0.6.3

- Python
Published by TimMonko over 2 years ago

napari-ndev - v0.6.2

What's Changed

Tests rescale by by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/37
Memory clean up and exception handling by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/38
Logging of batch info and progress by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/38
Adds batch_predict tests by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/38

Full Changelog: https://github.com/TimMonko/napari-ndev/compare/v0.6.1...v0.6.2

- Python
Published by TimMonko over 2 years ago

napari-ndev - v0.6.1

Full Changelog: https://github.com/TimMonko/napari-ndev/compare/v0.6.0...v0.6.1 * Saves labels now always as np.int32 instead of allowing OS to determine, sometimes problematically as np.int64, which is incompatible with aicsimageio OmeTiffWriter

- Python
Published by TimMonko over 2 years ago

napari-ndev - v0.6.0

What's Changed

Refactor and docs by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/34
Adds ability to do napari layer training and prediction with APOC in the Batch APOC widget by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/34
fix filename in utilities widget by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/35
Rgb2 by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/36
- Makes working with RGB images possible in the Image Utilities Widget

Making this a new version integer because I'm proud of the work I've done in the past week. Hoping to step back from this a bit and focus on analysis, so this will help me feel accomplished.

Full Changelog: https://github.com/TimMonko/napari-ndev/compare/v0.5.4...v0.6.0

- Python
Published by TimMonko over 2 years ago

napari-ndev - v0.5.4

What's Changed

change table widget to popout by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/31
add beginning tests for apoc_container by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/32
progress bars and tooltips by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/33

Full Changelog: https://github.com/TimMonko/napari-ndev/compare/v0.5.3...v0.5.4

- Python
Published by TimMonko over 2 years ago

napari-ndev - v0.5.3a

What's Changed

change table widget to popout by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/31

Full Changelog: https://github.com/TimMonko/napari-ndev/compare/v0.5.3...v0.5.3a

- Python
Published by TimMonko over 2 years ago

napari-ndev - v0.5.3

What's Changed

add classifier table and open widget button by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/30

Full Changelog: https://github.com/TimMonko/napari-ndev/compare/v0.5.2...v0.5.3

- Python
Published by TimMonko over 2 years ago

napari-ndev - v0.5.2 - Adds Batch APOC training and feature string widgets

What's Changed

Apoc container widget by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/29

Full Changelog: https://github.com/TimMonko/napari-ndev/compare/v0.5.1...v0.5.2

- Python
Published by TimMonko over 2 years ago

napari-ndev - v0.5.1 - Fix saving Shapes as Labels

Full Changelog: https://github.com/TimMonko/napari-ndev/compare/v0.5.0...v0.5.1 * Update Image Utilities Widget to correctly grab the dimensions for save Shapes as Labels.

- Python
Published by TimMonko over 2 years ago

napari-ndev - Add Utilities Container Widget

What's Changed

Add Utilities Container Widget by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/28 This adds a more versatile widget for opening files, saving layers, and managing metadata.

Full Changelog: https://github.com/TimMonko/napari-ndev/compare/v0.4.2...v0.5.0

- Python
Published by TimMonko over 2 years ago

napari-ndev - v0.4.2

What's Changed

rescale_by now can inherit scale from an open layer by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/27

Full Changelog: https://github.com/TimMonko/napari-ndev/compare/0.4.0...v0.4.2

- Python
Published by TimMonko over 2 years ago

napari-ndev - Bump for pypi

What's Changed

Shapes for annotation saver by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/24
rescale widget addition by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/26
update save suffixes to try to reduce redundancy by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/25

Full Changelog: https://github.com/TimMonko/napari-ndev/compare/v0.3.1...v0.4.1

- Python
Published by TimMonko over 2 years ago

napari-ndev - 0.4.0

What's Changed

Shapes for annotation saver by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/24
rescale widget addition by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/26
update save suffixes to try to reduce redundancy by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/25

Full Changelog: https://github.com/TimMonko/napari-ndev/compare/v0.3.1...0.4.0

- Python
Published by TimMonko over 2 years ago

napari-ndev - Small changes to underlying functions

What's Changed

Workflow channel fix and cropping fix by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/23
This might not actually be a fix, and I edited out the "fix" conflict. This is from months ago, so it's a lesson to have better testing (or any testing, for that matter)

Full Changelog: https://github.com/TimMonko/napari-ndev/compare/v0.3.0...v0.3.1

- Python
Published by TimMonko over 2 years ago

napari-ndev - New website/documentation

What's Changed

Docs by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/21
See https://timmonko.github.io/napari-ndev

Future

Include examples and tutorial documentation for users

Full Changelog: https://github.com/TimMonko/napari-ndev/compare/v0.2.1...v0.3.0

- Python
Published by TimMonko about 3 years ago

napari-ndev - Scene Selection in Utilities Widget

What's Changed

Scene select by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/19

Full Changelog: https://github.com/TimMonko/napari-ndev/compare/v0.2.0...v0.2.1

- Python
Published by TimMonko about 3 years ago

napari-ndev - Batch Utilities Widget

What's Changed

Updates ReadMe to be more informative overall and include blurbs about each widget.
Adds batch_utilities widget to easily crop, slice, and select channels of images in batch by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/18
Bugfixes to other widgets by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/17

Full Changelog: https://github.com/TimMonko/napari-ndev/compare/v0.1.1...v0.2.0

- Python
Published by TimMonko about 3 years ago

napari-ndev - v0.1.1

What's Changed

Update _widget.py by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/14
- Add ability to keep original images with workflow widget
- Adds setting location of classifier directory for training widget

Full Changelog: https://github.com/TimMonko/napari-ndev/compare/v0.1.0...v0.1.1

- Python
Published by TimMonko over 3 years ago

napari-ndev - v0.1.0 add Batch widget for napari-workflow

What's Changed

acquire metadata of input images, requiring aicsimage, to save output images with appropriate metadata (like physical pixel size and image dims) by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/9
refactor and organize code by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/10
add batch widget for napari-workflow @TimMonko in https://github.com/TimMonko/napari-ndev/pull/10

Full Changelog: https://github.com/TimMonko/napari-ndev/compare/v0.0.5...v0.1.0

- Python
Published by TimMonko over 3 years ago

napari-ndev - v0.0.5 Batch APOC Training and Prediction Widget

What's Changed

change label layer to int32 before save for Batch Annotation widget by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/6
- fixes bug on Mac since by default labels generated are int64, which is incompatible with AICSImage.save
Batch training and prediction widgets by @TimMonko in https://github.com/TimMonko/napari-ndev/pull/7
- utilizes accelerated pixel and object classifier

Full Changelog: https://github.com/TimMonko/napari-ndev/compare/v0.0.4...v0.0.5

- Python
Published by TimMonko over 3 years ago

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