8000 test: [Automatic] Constraints upgrades: `czifile`, `h5py`, `ipython`, `qtawesome`, `sentry-sdk`, `tifffile`, `traceback-with-variables` by Czaki · Pull Request #1247 · 4DNucleome/PartSeg · GitHub
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test: [Automatic] Constraints upgrades: czifile, h5py, ipython, qtawesome, sentry-sdk, tifffile, traceback-with-variables #1247

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Merged
merged 1 commit into from
Mar 10, 2025

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Czaki
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@Czaki Czaki commented Feb 24, 2025

This PR is automatically created and updated by PartSeg GitHub
action cron to keep bundle dependencies modules up to date.

The updated packages are:

  • czifile
  • debugpy
  • decorator
  • fsspec
  • h5py
  • ipython
  • ipython-pygments-lexers
  • jinja2
  • npe2
  • pytest
  • qtawesome
  • roman-numerals-py
  • rpds-py
  • scikit-image
  • sentry-sdk
  • setuptools
  • sphinx
  • tifffile
  • traceback-with-variables
  • typer

Summary by CodeRabbit

  • Chores
    • Updated numerous dependency versions across supported Python environments to improve stability, performance, and compatibility.
    • Introduced new packages that enhance tooling support (e.g., for improved syntax highlighting and documentation).
    • Replaced one dependency with an alternative to streamline functionality and bolster compatibility.

@Czaki Czaki added the skip check PR title skip spellcheking PR title label Feb 24, 2025
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sourcery-ai bot commented Feb 24, 2025

Reviewer's Guide by Sourcery

This pull request updates the constraint files for multiple Python versions and configurations. The constraint files are used to specify the versions of dependencies that should be used when installing the project. The updates include changes to the versions of czifile, decorator, h5py, npe2, roman-numerals-py, rpds-py, scikit-image, sentry-sdk, sphinx, tifffile, and traceback-with-variables.

No diagrams generated as the changes look simple and do not need a visual representation.

File-Level Changes

Change Details Files
Updated package versions in constraint files.
  • Updated czifile version.
  • Updated decorator version.
  • Updated h5py version.
  • Updated npe2 version.
  • Updated roman-numerals-py version.
  • Updated rpds-py version.
  • Updated scikit-image version.
  • Updated sentry-sdk version.
  • Updated sphinx version.
  • Updated tifffile version.
  • Updated traceback-with-variables version.
requirements/constraints_py3.10.txt
requirements/constraints_py3.10_pydantic_1.txt
requirements/constraints_py3.11.txt
requirements/constraints_py3.11_pydantic_1.txt
requirements/constraints_py3.12.txt
requirements/constraints_py3.12_docs.txt
requirements/constraints_py3.12_pydantic_1.txt
requirements/constraints_py3.9.txt
requirements/constraints_py3.9_pydantic_1.txt

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coderabbitai bot commented Feb 24, 2025

Walkthrough

This pull request updates numerous dependency version constraints across multiple requirements files for Python versions 3.9, 3.10, 3.11, and 3.12 (including pydantic and docs variants). The changes include version increments for packages such as czifile, decorator, h5py, npe2, sentry-sdk, tifffile, and traceback-with-variables. Additionally, in some files, rpds-py is replaced by roman-numerals-py and sphinx is updated, with extra dependency updates in the docs constraints file.

Changes

File(s) Change Summary
requirements/constraints_py3.10.txt
requirements/constraints_py3.10_pydantic_1.txt
Updated versions:
czifile: 2019.7.2 → 2019.7.2.1
decorator: 5.1.1 → 5.2.1
h5py: 3.12.1 → 3.13.0
npe2: 0.7.7 → 0.7.8
rpds-py: 0.22.3 → 0.23.1
scikit-image: 0.25.1 → 0.25.2
sentry-sdk: 2.21.0 → 2.22.0
tifffile: 2025.1.10 → 2025.2.18
traceback-with-variables: 2.1.1 → 2.2.0
requirements/constraints_py3.11.txt
requirements/constraints_py3.11_pydantic_1.txt
Same as py3.10 updates with additional modifications:
• Replace rpds-py with roman-numerals-py (3.1.0) alongside rpds-py update to 0.23.1
sphinx: 8.1.3 → 8.2.3
requirements/constraints_py3.12.txt
requirements/constraints_py3.12_pydantic_1.txt
Similar to py3.11 updates:
• Dependency version bumps with roman-numerals-py replacement and sphinx update (8.1.3 → 8.2.3)
requirements/constraints_py3.12_docs.txt Builds on the py3.12 changes and adds:
pydantic-settings: 2.7.1 → 2.8.1
sphinx-autodoc-typehints: 3.0.1 → 3.1.0
requirements/constraints_py3.9.txt
requirements/constraints_py3.9_pydantic_1.txt
Updated versions for a subset of dependencies:
czifile: 2019.7.2 → 2019.7.2.1
decorator: 5.1.1 → 5.2.1
h5py: 3.12.1 → 3.13.0
npe2: 0.7.7 → 0.7.8
rpds-py: 0.22.3 → 0.23.1
sentry-sdk: 2.21.0 → 2.22.0
traceback-with-variables: 2.1.1 → 2.2.0

Possibly related PRs

Poem

I'm a bunny with a hop so bright,
Updating dependencies with all my might.
From czifile to sentry-sdk I leap,
Keeping our code in bounds and deep!
With every version, a joyful tune 🎶
CodeRabbit celebrates under the moon!
🐇💻 Happy updates!


📜 Recent review details

Configuration used: CodeRabbit UI
Review profile: CHILL
Plan: Pro

📥 Commits

Reviewing files that changed from the base of the PR and between 6f1b8bc and 502b051.

📒 Files selected for processing (9)
  • requirements/constraints_py3.10.txt (11 hunks)
  • requirements/constraints_py3.10_pydantic_1.txt (11 hunks)
  • requirements/constraints_py3.11.txt (13 hunks)
  • requirements/constraints_py3.11_pydantic_1.txt (13 hunks)
  • requirements/constraints_py3.12.txt (13 hunks)
  • requirements/constraints_py3.12_docs.txt (11 hunks)
  • requirements/constraints_py3.12_pydantic_1.txt (13 hunks)
  • requirements/constraints_py3.9.txt (10 hunks)
  • requirements/constraints_py3.9_pydantic_1.txt (10 hunks)
🚧 Files skipped from review as they are similar to previous changes (9)
  • requirements/constraints_py3.9.txt
  • requirements/constraints_py3.9_pydantic_1.txt
  • requirements/constraints_py3.10.txt
  • requirements/constraints_py3.10_pydantic_1.txt
  • requirements/constraints_py3.12.txt
  • requirements/constraints_py3.12_docs.txt
  • requirements/constraints_py3.11_pydantic_1.txt
  • requirements/constraints_py3.11.txt
  • requirements/constraints_py3.12_pydantic_1.txt
⏰ Context from checks skipped due to timeout of 300000ms (27)
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  • GitHub Check: Base py3.9 / ubuntu-24.04 py 3.9 latest PyQt5
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Hey @Czaki - I've reviewed your changes and they look great!

Here's what I looked at during the review
  • 🟢 General issues: all looks good
  • 🟢 Security: all looks good
  • 🟢 Testing: all looks good
  • 🟢 Complexity: all looks good
  • 🟢 Documentation: all looks good

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Help me be more useful! Please click 👍 or 👎 on each comment and I'll use the feedback to improve your reviews.

@Czaki Czaki force-pushed the auto-dependency-upgrades branch from f43a947 to 6f1b8bc Compare March 3, 2025 08:19
@Czaki Czaki changed the title test: [Automatic] Constraints upgrades: czifile, h5py, sentry-sdk, tifffile, traceback-with-variables test: [Automatic] Constraints upgrades: czifile, h5py, ipython, qtawesome, sentry-sdk, tifffile, traceback-with-variables Mar 3, 2025
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codecov bot commented Mar 3, 2025

Codecov Report

All modified and coverable lines are covered by tests ✅

Project coverage is 93.15%. Comparing base (0664154) to head (502b051).
Report is 3 commits behind head on develop.

Additional details and impacted files
@@             Coverage Diff             @@
##           develop    #1247      +/-   ##
===========================================
- Coverage    93.16%   93.15%   -0.02%     
===========================================
  Files          210      210              
  Lines        33288    33288              
===========================================
- Hits         31014    31009       -5     
- Misses        2274     2279       +5     

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

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@Czaki Czaki force-pushed the auto-dependency-upgrades branch from 6f1b8bc to 502b051 Compare March 10, 2025 08:15
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@Czaki Czaki added this to the 0.16.1 milestone Mar 10, 2025
@Czaki Czaki merged commit 94e976f into develop Mar 10, 2025
59 checks passed
@Czaki Czaki deleted the auto-dependency-upgrades branch March 10, 2025 10:18
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