Update sequali to 0.12.0

[BiocondaBot]

Update sequali: 0.11.1 → 0.12.0

Info	Link or Description
Recipe	recipes/sequali (click to view/edit other files)
Summary	Fast sequencing quality metrics
Home	https://github.com/rhpvorderman/sequali
Releases	https://pypi.org/pypi/sequali/json
Recipe Maintainer(s)	@rhpvorderman

---

This pull request was automatically generated (see docs).

[coderabbitai]

📝 Walkthrough

Walkthrough

The pull request includes modifications to the meta.yaml file for the sequali package. Key changes consist of incrementing the version number from 0.11.1 to 0.12.0. The SHA256 checksum associated with the source package has also been updated, changing from d528a9a6eceace4fa8f1ef29625954a759928e7bab02348ef8f92887442f9527 to 14ddcfbe91ab4e941c4e20f0e93e3ad83fba80aca40a3c3c499acd19ac0b9f3c. Additionally, the build number has been reset from 2 to 0. The rest of the file's structure, including package requirements, test commands, and other metadata, has not been altered.

Possibly related PRs

• Update seqfu to 1.22.2 #51047: Updates the meta.yaml file for the seqfu package, modifying the version and SHA256 checksum.
• Update sizemeup to 1.2.3 #51114: Changes the meta.yaml file for the sizemeup package, including updates to the version and SHA256 checksum.
• Update bactopia-py to 1.2.0 #51154: Updates the meta.yaml file for the bactopia-py package, reflecting changes to the version and SHA256 checksum.
• Update qtlseq to 2.2.5 #51172: Modifies the meta.yaml file for the qtlseq package, including updates to the version and SHA256 checksum.
• Update qtlseq to 2.2.6 #51191: Similar updates to the meta.yaml file for the qtlseq package, changing the version and SHA256 checksum.
• Update orthanq to 1.7.9 #51214: Updates the meta.yaml file for the orthanq package, with changes to the version and SHA256 checksum.
• Update vclean to 0.2.1 #51223: Modifies the meta.yaml file for the vclean package, including changes to the version and SHA256 checksum.
• Update bactopia-py to 1.2.1 #51226: Updates the meta.yaml file for the bactopia-py package, with changes to the version and SHA256 checksum.
• Update hybracter to 0.9.1 #51228: Changes the meta.yaml file for the hybracter package, including updates to the version and SHA256 checksum.
• Update civicpy to 3.1.2 #51252: Updates the meta.yaml file for the civicpy package, reflecting changes to the version and SHA256 checksum.

---

📜 Recent review details

Configuration used: CodeRabbit UI
Review profile: CHILL

📥 Commits

Files that changed from the base of the PR and between 4c7a9dc and d8383ed.

📒 Files selected for processing (1)

• recipes/sequali/meta.yaml (1 hunks)

🧰 Additional context used

🔇 Additional comments (5)

recipes/sequali/meta.yaml (5)

2-2: Version update looks good.

The version has been correctly updated from 0.11.1 to 0.12.0, which is consistent with the PR objective.

---

13-13: Build number reset is correct.

The build number has been appropriately reset to 0 for the new version. This is the correct practice when updating to a new version of the package.

---

Line range hint 1-62: Summary of changes and next steps

The update of sequali to version 0.12.0 looks good overall. The main changes (version update, SHA256 update, and build number reset) have been implemented correctly. To ensure the integrity and optimal functionality of the package, please:

1. Verify the SHA256 checksum using the provided script.
2. Check if any dependency versions need to be updated for compatibility with sequali 0.12.0.

Once these verifications are complete, the PR should be ready for merging.

🧰 Tools

🪛 yamllint

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

(syntax)

---

Line range hint 1-62: Consider verifying dependency versions.

While the core updates look good, it might be beneficial to verify if any of the package dependencies (e.g., pygal, tqdm, xopen) need updates to work optimally with sequali 0.12.0.

You can check the latest versions of the dependencies and compare them with the ones specified in the recipe:

#!/bin/bash
# Description: Check latest versions of dependencies

dependencies=("pygal" "tqdm" "xopen")

for dep in "${dependencies[@]}"; do
    latest_version=$(pip index versions $dep | grep -m1 "Available versions:" | awk '{print $NF}' | tr -d ',')
    specified_version=$(grep "$dep" recipes/sequali/meta.yaml | awk '{print $2}' | tr -d '>=')
    
    echo "$dep:"
    echo "  Latest version: $latest_version"
    echo "  Specified version: $specified_version"
    echo
done

🧰 Tools

🪛 yamllint

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

(syntax)

---

10-10: Verify the SHA256 checksum.

The SHA256 checksum has been updated. It's important to ensure that this new checksum is correct for version 0.12.0 of the sequali package.

To verify the checksum, you can run the following script:

---

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.