8000 test: [Automatic] Constraints upgrades: `sympy`, `tifffile` by Czaki · Pull Request #1177 · 4DNucleome/PartSeg · GitHub
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test: [Automatic] Constraints upgrades: sympy, tifffile #1177

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Merged
merged 1 commit into from
Aug 13, 2024

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Czaki
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@Czaki Czaki commented Aug 12, 2024

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

The updated packages are:

  • lxml
  • numpydoc
  • pyinstaller
  • pyinstaller-hooks-contrib
  • sympy
  • tifffile
  • zipp

Summary by CodeRabbit

  • Chores
    • Updated multiple dependencies across various requirements files to their latest versions, including lxml, numpydoc, pyinstaller, sympy, tifffile, and zipp.
    • Introduced pathlib2 in the Python 3.8 requirements.
    • These updates aim to enhance compatibility, security, and performance without impacting the application's core functionality.

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coderabbitai bot commented Aug 12, 2024

Walkthrough

The recent updates focus on incrementing the version numbers of various Python package dependencies across multiple configuration files. These changes primarily enhance compatibility, introduce new features, and address potential security vulnerabilities without altering the core logic or functionality of the application.

Changes

Files Change Summary
requirements/constraints_py3.10.txt, requirements/constraints_py3.10_pydantic_1.txt, requirements/constraints_py3.11.txt, requirements/constraints_py3.11_docs.txt, requirements/constraints_py3.11_pydantic_1.txt, requirements/constraints_py3.12.txt, requirements/constraints_py3.12_pydantic_1.txt, requirements/constraints_py3.9.txt, requirements/constraints_py3.9_pydantic_1.txt Upgraded multiple packages: lxml (5.2.2 to 5.3.0), numpydoc (1.7.0 to 1.8.0), pyinstaller (6.9.0 to 6.10.0), pyinstaller-hooks-contrib (2024.7 to 2024.8), sympy (1.13.1 to 1.13.2), tifffile (2024.7.24 to 2024.8.10), and zipp (3.19.2 to 3.20.0).
requirements/constraints_py3.8.txt, requirements/constraints_py3.8_pydantic_1.txt Similar upgrades as above plus introduction of pathlib2 (2.3.7.post1) in requirements/constraints_py3.8.txt.

Sequence Diagram(s)

sequenceDiagram
    participant User
    participant Application
    participant PackageRepo

    User->>Application: Request for updates
    Application->>PackageRepo: Check for updates
    PackageRepo-->>Application: Provide updated package versions
    Application-->>User: Notify about updated packages
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With version upgrades, we hop with glee,
New features and fixes, as bright as can be!
Dependencies fresh, our project will thrive,
Thanks to the changes, we feel so alive! 🌼


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Actionable comments posted: 0

Review details

Configuration used: CodeRabbit UI
Review profile: CHILL

Commits

Files that changed from the base of the PR and between a3b22eb and f5c9665.

Files selected for processing (11)
  • requirements/constraints_py3.10.txt (5 hunks)
  • requirements/constraints_py3.10_pydantic_1.txt (5 hunks)
  • requirements/constraints_py3.11.txt (5 hunks)
  • requirements/constraints_py3.11_docs.txt (3 hunks)
  • requirements/constraints_py3.11_pydantic_1.txt (5 hunks)
  • requirements/constraints_py3.12.txt (4 hunks)
  • requirements/constraints_py3.12_pydantic_1.txt (4 hunks)
  • requirements/constraints_py3.8.txt (6 hunks)
  • requirements/constraints_py3.8_pydantic_1.txt (6 hunks)
  • requirements/constraints_py3.9.txt (5 hunks)
  • requirements/constraints_py3.9_pydantic_1.txt (5 hunks)
Files skipped from review due to trivial changes (7)
  • requirements/constraints_py3.10.txt
  • requirements/constraints_py3.10_pydantic_1.txt
  • requirements/constraints_py3.11.txt
  • requirements/constraints_py3.11_docs.txt
  • requirements/constraints_py3.12.txt
  • requirements/constraints_py3.8.txt
  • requirements/constraints_py3.9_pydantic_1.txt
Additional comments not posted (26)
requirements/constraints_py3.12_pydantic_1.txt (6)

134-134: Upgrade lxml to version 5.3.0.

The update from 5.2.2 to 5.3.0 may include performance improvements and bug fixes. Ensure compatibility with other dependencies.


194-194: Upgrade numpydoc to version 1.8.0.

The update from 1.7.0 to 1.8.0 likely introduces enhancements or new features for documentation generation.


286-286: Upgrade pyinstaller to version 6.10.0.

The update from 6.9.0 to 6.10.0 may offer new capabilities or bug fixes. Verify compatibility with build processes.


288-288: Upgrade pyinstaller-hooks-contrib to version 2024.8.

The update from 2024.7 to 2024.8 suggests adjustments to hooks used by PyInstaller. Ensure that custom hooks are still compatible.


430-430: Upgrade sympy to version 1.13.2.

The update from 1.13.1 to 1.13.2 may include important updates for mathematical operations.


434-434: Upgrade tifffile to version 2024.8.10.

The update from 2024.7.24 to 2024.8.10 may include bug fixes or new features for TIFF file handling.

requirements/constraints_py3.11_pydantic_1.txt (7)

136-136: Upgrade lxml to version 5.3.0.

The update from 5.2.2 to 5.3.0 may include performance improvements and bug fixes. Ensure compatibility with other dependencies.


196-196: Upgrade numpydoc to version 1.8.0.

The update from 1.7.0 to 1.8.0 likely introduces enhancements or new features for documentation generation.


288-288: Upgrade pyinstaller to version 6.10.0.

The update from 6.9.0 to 6.10.0 may offer new capabilities or bug fixes. Verify compatibility with build processes.


290-290: Upgrade pyinstaller-hooks-contrib to version 2024.8.

The update from 2024.7 to 2024.8 suggests adjustments to hooks used by PyInstaller. Ensure that custom hooks are still compatible.


433-433: Upgrade sympy to version 1.13.2.

The update from 1.13.1 to 1.13.2 may include important updates for mathematical operations.


437-437: Upgrade tifffile to version 2024.8.10.

The update from 2024.7.24 to 2024.8.10 may include bug fixes or new features for TIFF file handling.


501-501: Upgrade zipp to version 3.20.0.

The update from 3.19.2 to 3.20.0 may enhance functionality related to file handling.

requirements/constraints_py3.9.txt (7)

148-148: Upgrade lxml to version 5.3.0.

The update from 5.2.2 to 5.3.0 may include performance improvements and bug fixes. Ensure compatibility with other dependencies.


208-208: Upgrade numpydoc to version 1.8.0.

The update from 1.7.0 to 1.8.0 likely introduces enhancements or new features for documentation generation.


301-301: Upgrade pyinstaller to version 6.10.0.

The update from 6.9.0 to 6.10.0 may offer new capabilities or bug fixes. Verify compatibility with build processes.


303-303: Upgrade pyinstaller-hooks-contrib to version 2024.8.

The update from 2024.7 to 2024.8 suggests adjustments to hooks used by PyInstaller. Ensure that custom hooks are still compatible.


447-447: Upgrade sympy to version 1.13.2.

The update from 1.13.1 to 1.13.2 may include important updates for mathematical operations.


451-451: Upgrade tifffile to version 2024.8.10.

The update from 2024.7.24 to 2024.8.10 may include bug fixes or new features for TIFF file handling.


523-523: Upgrade zipp to version 3.20.0.

The update from 3.19.2 to 3.20.0 may enhance functionality related to file handling.

requirements/constraints_py3.8_pydantic_1.txt (6)

309-309: Verify compatibility with pyinstaller-hooks-contrib 2024.8.

The update from version 2024.7 to 2024.8 may introduce new features or changes. Ensure that the codebase is compatible with this version.

Verification successful

No direct compatibility issues found with pyinstaller-hooks-contrib 2024.8.

The package is listed in multiple constraint files, but there are no direct code references, indicating it is likely used in the build process. Ensure that the build and packaging processes are tested to confirm compatibility.

Scripts executed

The following scripts were executed for the analysis:

Script:

#!/bin/bash
# Description: Verify compatibility with `pyinstaller-hooks-contrib` 2024.8.

# Test: Search for `pyinstaller-hooks-contrib` usage in the codebase. Expect: No compatibility issues.
rg --type python 'pyinstaller-hooks-contrib'

Length of output: 75


Script:

#!/bin/bash
# Description: Verify compatibility with `pyinstaller-hooks-contrib` 2024.8.

# Test: Search for `pyinstaller-hooks-contrib` usage in the codebase. Expect: No compatibility issues.
rg 'pyinstaller-hooks-contrib'

Length of output: 2581


146-146: Verify compatibility with lxml 5.3.0.

The update from version 5.2.2 to 5.3.0 may introduce new features or changes. Ensure that the codebase is compatible with this version.


527-527: Verify compatibility with zipp 3.20.0.

The update from version 3.19.2 to 3.20.0 may introduce new features or changes. Ensure that the codebase is compatible with this version.

Verification successful

No direct usage of zipp found in the codebase.

The zipp package is not directly referenced in the Python files, suggesting that the update to version 3.20.0 is unlikely to introduce compatibility issues. However, if zipp is a transitive dependency, consider verifying its compatibility with other dependencies.

Scripts executed

The following scripts were executed for the analysis:

Script:

#!/bin/bash
# Description: Verify compatibility with `zipp` 3.20.0.

# Test: Search for `zipp` usage in the codebase. Expect: No compatibility issues.
rg --type python 'zipp'

Length of output: 54


Script:

#!/bin/bash
# Description: Verify compatibility with `zipp` 3.20.0.

# Test: Search for `zipp` usage in the codebase. Expect: No compatibility issues.
rg --type py 'zipp'

Length of output: 19


307-307: Verify compatibility with pyinstaller 6.10.0.

The update from version 6.9.0 to 6.10.0 may introduce new features or changes. Ensure that the codebase is compatible with this version.


455-455: Verify compatibility with sympy 1.13.2.

The update from version 1.13.1 to 1.13.2 may introduce new features or changes. Ensure that the codebase is compatible with this version.


244-245: Verify integration of pathlib2 2.3.7.post1.

The addition of pathlib2 is intended to support compatibility. Ensure that its usage is correctly integrated without conflicts.

@Czaki Czaki added the skip check PR title skip spellcheking PR title label Aug 12, 2024
@Czaki Czaki added this to the 0.15.4 milestone Aug 12, 2024
@Czaki Czaki merged commit 1efd3f0 into develop Aug 13, 2024
55 of 57 checks passed
@Czaki Czaki deleted the auto-dependency-upgrades branch August 13, 2024 06:42
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