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[biobb_analysis] update 5.0.0 #51431

Merged
merged 1 commit into from
Oct 16, 2024
Merged

[biobb_analysis] update 5.0.0 #51431

merged 1 commit into from
Oct 16, 2024

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PauAndrio
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Describe your pull request here


Please read the guidelines for Bioconda recipes before opening a pull request (PR).

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coderabbitai bot commented Oct 16, 2024

📝 Walkthrough

Walkthrough

This pull request updates the meta.yaml file for the biobb_analysis package. The version of the package is incremented from 4.2.0 to 5.0.0, accompanied by a corresponding update to the SHA256 checksum for the source tarball. The Python version requirement is raised from >=3.8 to >=3.9, ensuring compatibility with newer Python versions. Additionally, the dependency on biobb_common is updated from ==4.2.0 to ==5.0.0, reflecting the need for the latest version of that package. The ambertools dependency is modified from >=22.0 to >=22.5, while the gromacs dependency remains unchanged at >=2022.2. The updates also extend to both the host and run requirements sections, maintaining consistency across the package's dependencies. Overall, the structure of the meta.yaml file remains unchanged, with no modifications to the test imports or the about section.

Possibly related PRs

  • [biobb_common] update 5.0.0 #51335: This PR updates the biobb_common package to version 5.0.0, which is directly related to the main PR that also updates the dependency on biobb_common from ==4.2.0 to ==5.0.0.

Suggested labels

autobump, new version

Suggested reviewers

  • gbayarri
  • mencian
  • adamhospital

📜 Recent review details

Configuration used: CodeRabbit UI
Review profile: CHILL

📥 Commits

Files that changed from the base of the PR and between 45cff42 and 0802103.

📒 Files selected for processing (1)
  • recipes/biobb_analysis/meta.yaml (2 hunks)
🧰 Additional context used
🔇 Additional comments (6)
recipes/biobb_analysis/meta.yaml (6)

23-23: biobb_common dependency update approved.

The biobb_common dependency has been updated from 4.2.0 to 5.0.0, aligning with the major version update of biobb_analysis. The exact version pinning (==) is maintained, which is good for reproducibility. This change is consistent across both host and run requirements.

Also applies to: 28-28


25-25: ambertools dependency update approved.

The minimum required version of ambertools has been increased from 22.0 to 22.5. This change is consistent across both host and run requirements. The use of >= allows for compatibility with future versions.

To verify compatibility with the new ambertools version:

#!/bin/bash
# Check for any mentions of ambertools version requirements or compatibility notes
rg -i "ambertools|amber tools" README.md CHANGELOG.md

Also applies to: 30-30


Line range hint 1-30: Summary of changes and final recommendations.

The updates in this PR are consistent with a major version update (5.0.0) for biobb_analysis. Key changes include:

  1. Updated package version to 5.0.0
  2. Increased minimum Python version to 3.9
  3. Updated biobb_common dependency to 5.0.0
  4. Increased minimum ambertools version to 22.5

All changes appear to be consistent and appropriate. However, to ensure a smooth transition for users, please consider the following recommendations:

  1. Update the package's documentation to reflect these changes, especially the increased Python version requirement.
  2. If not already done, create release notes or update the changelog to detail any breaking changes or new features in this major version update.
  3. Consider testing the package with the latest versions of its dependencies to ensure full compatibility.

To verify documentation updates:

#!/bin/bash
# Check for recent changes in documentation files
git diff HEAD~1 -- README.md CHANGELOG.md docs/
🧰 Tools
🪛 yamllint

[error] 1-1: syntax error: found character '%' that cannot start any token

(syntax)


21-21: Python version requirement update approved.

The minimum required Python version has been increased from 3.8 to 3.9. This change is consistent across both host and run requirements. However, it may break compatibility for users still using Python 3.8.

Ensure this change is documented:

#!/bin/bash
# Check if the Python version change is mentioned in README or CHANGELOG
rg -i "python 3.9|python version|compatibility" README.md CHANGELOG.md

Also applies to: 27-27


10-10: SHA256 checksum update approved.

The SHA256 checksum has been updated, which is necessary for the new version. This ensures the integrity of the downloaded package.

To verify the checksum:

#!/bin/bash
# Extract the URL and checksum from meta.yaml
URL=$(rg -o 'url: (.*)' meta.yaml | cut -d' ' -f2)
CHECKSUM=$(rg -o 'sha256: (.*)' meta.yaml | cut -d' ' -f2)

# Download the package and verify the checksum
curl -sL "$URL" | sha256sum | grep -q "$CHECKSUM" && echo "Checksum verified" || echo "Checksum mismatch"

2-2: Version update to 5.0.0 approved.

The version update from 4.2.0 to 5.0.0 is consistent with the PR title. As this is a major version update, ensure that any breaking changes are properly documented and communicated to users.

To verify if there's a changelog or release notes for this version:


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