🐛 Bug Fixes
Correct the axis which temporal merges are applied to in tracking model @msschwartz21 (#718)
Also adds a flag to make the image normalization layer in the tracking appearance head configurable
🧰 Maintenance
Update DNN dataset and Caliban models @msschwartz21 (#721)
- Update Dynamic Nuclear Net with addition of Hela CTC movies to version 1.1
- Update nuclear segmentation and tracking models after retraining on the updated dataset
General maintenance to make CI happy @rossbar (#719)
What
Some general maintenance to deal with failures cropping up from dependencies either updating or falling out-of-sync with one another
Documentation
- Force suppression of warnings from
nbsphinxwhich break doc tests. Note: nbsphinx breaks sphinx caching (hence the warning) - Add doc dependencies that nbsphinx needs but are not specified in their deps list
- Modify mocking to fix broken access of numpy features during doc build. This means the docs will no longer build without numpy installed
Linting
The newest version of ruff has checks for non-f-string based string formatting. I've silenced these for now - there are much more important issues than string formatting.
- Updated ruff configuration and invocation to match latest release.
Why
- General maintenance, keep CI green
Rm pins from doc dependencies. @rossbar (#708)
@msschwartz21 IIRC the motivation for many of the pins was issues with list rendering in the datasets and applications galleries. They seem to be resolved locally, if you could double-check the dock preview below and confirm these look as expected then I think we're good to go!
What
- Moving to latest versions of doc deps seems to resolve the issues that motivated the pins in the first place.
Why
- Software maintenance best-practices
CI: Update action versions and ruff incantation @rossbar (#707)
What
- Updates action versions and modifies the
ruffincantation to use the new flag now thatruff-formatexists
Why
- The inexorable march of time
Add SpotNet v1.1 @elaubsch (#706)
This PR adds SpotNet version 1.1, which adds Airlocalize to the set of spot detection methods used to create consensus annotations.
📚️ Documentation
DOC: Increase gallery thumbnail size @rossbar (#695)
What
- Minor cosmetic adjustments to increase the size of the thumbnails for the gallery. These values seem like a good balance for the RTD theme.
- Also fixes missing mesmer application thumbnail image
Why
- Improve gallery examples
Rm pins from doc dependencies. @rossbar (#708)
@msschwartz21 IIRC the motivation for many of the pins was issues with list rendering in the datasets and applications galleries. They seem to be resolved locally, if you could double-check the dock preview below and confirm these look as expected then I think we're good to go!
What
- Moving to latest versions of doc deps seems to resolve the issues that motivated the pins in the first place.
Why
- Software maintenance best-practices
