Update galaxy_sequence_utils to 1.2.0

[BiocondaBot]

Update galaxy_sequence_utils: 1.1.5 → 1.2.0

Info	Link or Description
Recipe	recipes/galaxy_sequence_utils (click to view/edit other files)
Summary	Sequence Utilities from the Galaxy project
Home	https://github.com/galaxyproject/sequence_utils
Releases	https://pypi.org/pypi/galaxy_sequence_utils/json
Recipe Maintainer(s)	@nsoranzo

---

This pull request was automatically generated (see docs).

[coderabbitai]

📝 Walkthrough

📝 Walkthrough

Walkthrough

This pull request includes the removal of the build.sh file from the recipes/galaxy_sequence_utils directory, which was previously used to facilitate the installation of a Python package. Additionally, the meta.yaml file for the galaxy_sequence_utils package has been updated, with the version changing from 1.1.5 to 1.2.0 and the SHA256 checksum modified accordingly. The build number has been reset from 2 to 0, and the build script has been updated to utilize {{ PYTHON }} -m pip install . -vv --no-deps --no-build-isolation. The Python version requirement has been adjusted from <3.12 to >=3.8 in both the host and run requirements sections. A new test command, gx-fastq-groomer --help, has been added, while other test commands remain unchanged. An extra section has been introduced, specifying recipe-maintainers with a maintainer listed as nsoranzo.

Possibly related PRs

• Update sizemeup to 1.2.3 #51114: The sizemeup package's meta.yaml file is updated, which is related to the removal of the build.sh script in the main PR as both pertain to the sizemeup package's build process.
• add recipe for sizemeup #51033: The introduction of a new build.sh script for the sizemeup package in this PR indicates a direct connection to the removal of the build.sh script in the main PR, as both changes affect the build process of the same package.

---

📜 Recent review details

Configuration used: CodeRabbit UI
Review profile: CHILL

📥 Commits

Files that changed from the base of the PR and between 0dd1230 and 685e742.

📒 Files selected for processing (2)

• recipes/galaxy_sequence_utils/build.sh (0 hunks)
• recipes/galaxy_sequence_utils/meta.yaml (3 hunks)

💤 Files with no reviewable changes (1)

• recipes/galaxy_sequence_utils/build.sh

🧰 Additional context used

🔇 Additional comments (5)

recipes/galaxy_sequence_utils/meta.yaml (5)

2-3: Version and checksum update looks good.

The version has been correctly updated to 1.2.0, and the SHA256 checksum has been changed accordingly. This is consistent with the PR objectives.

---

16-16: Source URL update is correct.

The source URL has been updated to use the new version variable, ensuring that the correct package version will be downloaded.

---

21-22: Build script and number updates are appropriate.

The build script has been updated to use pip install, which is a more modern approach. The build number has been correctly reset to 0 for the new version. These changes align with best practices for conda recipes.

---

53-53: Test command and recipe maintainer additions are beneficial.

The addition of the gx-fastq-groomer --help test command enhances the package's testing coverage. The inclusion of 'nsoranzo' as a recipe maintainer improves the recipe's maintainability. These are positive improvements to the recipe.

Also applies to: 57-59

---

43-43: Verify the intention behind the Python version requirement change.

The Python version requirement has been changed from <3.12 to >=3.8. This allows for a broader range of Python versions but might impact compatibility with older Python versions.

Please confirm if this change is intentional and aligns with the package's compatibility requirements.

To check the package's Python compatibility, you can run:

Also applies to: 47-47

---

Thank you for using CodeRabbit. We offer it for free to the OSS community and would appreciate your support in helping us grow. If you find it useful, would you consider giving us a shout-out on your favorite social media?

❤️ Share

• X
• Mastodon
• Reddit
• LinkedIn

🪧 Tips

Chat

There are 3 ways to chat with CodeRabbit:

• Review comments: Directly reply to a review comment made by CodeRabbit. Example:
  • I pushed a fix in commit <commit_id>, please review it.
  • Generate unit testing code for this file.
  • Open a follow-up GitHub issue for this discussion.
• Files and specific lines of code (under the "Files changed" tab): Tag @coderabbitai in a new review comment at the desired location with your query. Examples:
  • @coderabbitai generate unit testing code for this file.
  • @coderabbitai modularize this function.
• PR comments: Tag @coderabbitai in a new PR comment to ask questions about the PR branch. For the best results, please provide a very specific query, as very limited context is provided in this mode. Examples:
  • @coderabbitai gather interesting stats about this repository and render them as a table. Additionally, render a pie chart showing the language distribution in the codebase.
  • @coderabbitai read src/utils.ts and generate unit testing code.
  • @coderabbitai read the files in the src/scheduler package and generate a class diagram using mermaid and a README in the markdown format.
  • @coderabbitai help me debug CodeRabbit configuration file.

Note: Be mindful of the bot's finite context window. It's strongly recommended to break down tasks such as reading entire modules into smaller chunks. For a focused discussion, use review comments to chat about specific files and their changes, instead of using the PR comments.

CodeRabbit Commands (Invoked using PR comments)

• @coderabbitai pause to pause the reviews on a PR.
• @coderabbitai resume to resume the paused reviews.
• @coderabbitai review to trigger an incremental review. This is useful when automatic reviews are disabled for the repository.
• @coderabbitai full review to do a full review from scratch and review all the files again.
• @coderabbitai summary to regenerate the summary of the PR.
• @coderabbitai resolve resolve all the CodeRabbit review comments.
• @coderabbitai configuration to show the current CodeRabbit configuration for the repository.
• @coderabbitai help to get help.

Other keywords and placeholders

• Add @coderabbitai ignore anywhere in the PR description to prevent this PR from being reviewed.
• Add @coderabbitai summary to generate the high-level summary at a specific location in the PR description.
• Add @coderabbitai anywhere in the PR title to generate the title automatically.

CodeRabbit Configuration File (.coderabbit.yaml)

• You can programmatically configure CodeRabbit by adding a .coderabbit.yaml file to the root of your repository.
• Please see the configuration documentation for more information.
• If your editor has YAML language server enabled, you can add the path at the top of this file to enable auto-completion and validation: # yaml-language-server: $schema=https://coderabbit.ai/integrations/schema.v2.json

Documentation and Community

• Visit our Documentation for detailed information on how to use CodeRabbit.
• Join our Discord Community to get help, request features, and share feedback.
• Follow us on X/Twitter for updates and announcements.