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@lguerard lguerard commented Jun 24, 2025

CZI files are still opened with the AutoStitch option enabled, even if off in the Bio-Formats configuration.

This PR disables this option in all cases.

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codecov bot commented Jun 24, 2025

Codecov Report

❌ Patch coverage is 3.57143% with 27 lines in your changes missing coverage. Please review.
✅ Project coverage is 25%. Comparing base (420eb59) to head (a6efb3f).
⚠️ Report is 20 commits behind head on devel.

Files with missing lines Patch % Lines
src/imcflibs/imagej/bioformats.py 4% 27 Missing ⚠️
Additional details and impacted files
@@         Coverage Diff          @@
##           devel   #105   +/-   ##
====================================
- Coverage     25%    25%   -0%     
====================================
  Files         25     25           
  Lines       1690   1703   +13     
====================================
+ Hits         421    422    +1     
- Misses      1269   1281   +12     

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lguerard added 2 commits June 24, 2025 11:24
That allows for a central place to change options instead of copy/paste
@ehrenfeu ehrenfeu added this to the 2.0.0 milestone Jan 14, 2026
@ehrenfeu ehrenfeu added the bug Something isn't working label Jan 14, 2026
@ehrenfeu ehrenfeu self-requested a review January 14, 2026 12:54
@ehrenfeu ehrenfeu moved this to In review in imcflibs Jan 14, 2026
@ehrenfeu ehrenfeu moved this from In review to In progress in imcflibs Jan 14, 2026
return out_file


def get_reader(path_to_file, setFlattenedResolutions=False):
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Add to release changelog #126

@ehrenfeu ehrenfeu moved this from In progress to In review in imcflibs Jan 14, 2026
@ehrenfeu ehrenfeu linked an issue Jan 14, 2026 that may be closed by this pull request
@ehrenfeu ehrenfeu merged commit 1c5a5fb into imcf:devel Jan 14, 2026
3 of 5 checks passed
@github-project-automation github-project-automation bot moved this from In review to Done in imcflibs Jan 14, 2026
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2 participants