Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Bioimageio updates #235

Merged
merged 6 commits into from
Apr 1, 2025
Merged

Bioimageio updates #235

merged 6 commits into from
Apr 1, 2025

Conversation

k-dominik
Copy link
Collaborator

@k-dominik k-dominik commented Mar 18, 2025

  • updated submodules to bioimageio.spec 0.5.4.1 and bioimageio.core 0.8.0.
  • updated bioimageio.core requirement to 0.8.0.
  • Removed pin in requirements for bioimageio.spec (it's transitive through bioimageio.core).
  • Minor fixes for tests that were failing due to bioimagegio updates

Copy link

codecov bot commented Mar 18, 2025

Codecov Report

Attention: Patch coverage is 0% with 3 lines in your changes missing coverage. Please review.

Project coverage is 62.40%. Comparing base (15a0225) to head (c5b5b8b).
Report is 7 commits behind head on main.

Files with missing lines Patch % Lines
tiktorch/trainer.py 0.00% 3 Missing ⚠️
Additional details and impacted files
@@           Coverage Diff           @@
##             main     #235   +/-   ##
=======================================
  Coverage   62.40%   62.40%           
=======================================
  Files          47       47           
  Lines        2878     2878           
=======================================
  Hits         1796     1796           
  Misses       1082     1082           

☔ View full report in Codecov by Sentry.
📢 Have feedback on the report? Share it here.

🚀 New features to boost your workflow:
  • ❄️ Test Analytics: Detect flaky tests, report on failures, and find test suite problems.

@k-dominik k-dominik force-pushed the bioimageio-updates branch from e645d33 to 1ab6732 Compare March 18, 2025 10:39
@k-dominik k-dominik force-pushed the bioimageio-updates branch 3 times, most recently from 03b1a65 to 520747c Compare April 1, 2025 13:18
@k-dominik k-dominik marked this pull request as ready for review April 1, 2025 13:20
@k-dominik k-dominik force-pushed the bioimageio-updates branch from 6c10ebc to ff0430b Compare April 1, 2025 13:42
bioimageio has stricter checks now for models to be valid. One of them is that
all URLs have to be reachable. For the testmodel we use example.com which is
exempt from these checks.
Also normalize axis names everywhere for batch and channel.
@k-dominik k-dominik force-pushed the bioimageio-updates branch from ff0430b to ba4f0f1 Compare April 1, 2025 13:49
allows for testing without including the custom channel, and should likely
not be necessary anymore.
@k-dominik k-dominik merged commit 61d70a8 into main Apr 1, 2025
7 of 8 checks passed
@k-dominik k-dominik deleted the bioimageio-updates branch April 1, 2025 18:50
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Labels
None yet
Projects
None yet
Development

Successfully merging this pull request may close these issues.

1 participant