Update flexi-formatter to 0.0.4

[BiocondaBot]

Update flexi-formatter: 0.0.2 → 0.0.4

Info	Link or Description
Recipe	recipes/flexi-formatter (click to view/edit other files)
Summary	Moving flexiplex barcode and UMI to bam tags
Home	https://github.com/VIB-CCB-BioIT/flexiplex_tag_formatter
Releases	https://pypi.org/pypi/flexi_formatter/json
Recipe Maintainer(s)	@ljwharbers

---

This pull request was automatically generated (see docs).

[coderabbitai]

📝 Walkthrough

Walkthrough

The pull request introduces updates to the meta.yaml file for the flexi-formatter package. The version number is incremented from "0.0.2" to "0.0.4". In conjunction with this version update, the SHA256 checksum for the source tarball has been modified to reflect the new version. Additionally, the source URL has been adjusted to include the updated version number within its path. No other structural or content changes have been made to the meta.yaml file beyond these updates.

Possibly related PRs

• Update ont-modkit to 0.4.1 #51025: The ont-modkit PR updates the meta.yaml file similarly by incrementing the version number and updating the SHA256 checksum.
• Update agfusion to 1.4.3 #51041: The agfusion PR also modifies the meta.yaml file to update the version and SHA256 checksum, reflecting a similar type of change.
• Update mhcflurry to 2.1.4 #51097: The mhcflurry PR updates the meta.yaml file with a new version number and SHA256 checksum, paralleling the changes in the main PR.
• Update versionix to 0.99.0 #51204: The versionix PR updates the version and SHA256 checksum in the meta.yaml file, akin to the changes made in the main PR.
• Update vclean to 0.2.1 #51223: The vclean PR similarly updates the version and SHA256 checksum in the meta.yaml file.
• Update pgscatalog-utils to 1.4.0 #51234: The pgscatalog-utils PR modifies the meta.yaml file to update the version and SHA256 checksum, similar to the main PR.
• Update mgnify-pipelines-toolkit to 0.1.7 #51237: The mgnify-pipelines-toolkit PR updates the version and SHA256 checksum in the meta.yaml file, reflecting the same type of changes.
• Update nanomotif to 0.4.14 #51275: The nanomotif PR updates the version and SHA256 checksum in the meta.yaml file, similar to the main PR.
• Update resistify to 0.4.0 #51372: The resistify PR updates the version and SHA256 checksum in the meta.yaml file, paralleling the changes in the main PR.

---

📜 Recent review details

Configuration used: CodeRabbit UI
Review profile: CHILL

📥 Commits

Files that changed from the base of the PR and between b8a6a96 and 4c5aadb.

📒 Files selected for processing (1)

• recipes/flexi-formatter/meta.yaml (1 hunks)

🧰 Additional context used

🔇 Additional comments (4)

recipes/flexi-formatter/meta.yaml (4)

2-2: Version update looks good.

The version has been correctly updated from "0.0.2" to "0.0.4", which aligns with the PR objective.

---

Line range hint 1-54: Overall, the changes look good and align with the PR objectives.

The version update to 0.0.4 and the corresponding SHA256 checksum update have been correctly implemented. The source URL will automatically use the new version. No other changes were necessary for this update.

To ensure the integrity and correctness of the update, please:

1. Verify the SHA256 checksum as suggested earlier.
2. Review the package's dependencies to ensure they are still compatible with the new version.
3. Consider running the package's tests to confirm everything works as expected with the new version.

🧰 Tools

🪛 yamllint

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

(syntax)

---

9-9: Source URL update is correct, consider reviewing dependencies.

The source URL correctly uses the {{ version }} variable, ensuring it points to the new version 0.0.4.

Please verify if any dependencies need updates with this new version. You can check the package's release notes or requirements file for any changes. Here's a script to fetch the package's setup.py or pyproject.toml file for review:

✅ Verification successful

Source URL update is correct, no dependencies to update.

🏁 Scripts executed

The following scripts were executed for the analysis:

Script:

#!/bin/bash
# Description: Fetch and display the package's setup.py or pyproject.toml file

VERSION="0.0.4"
PACKAGE_NAME="flexi-formatter"
URL="https://pypi.io/packages/source/${PACKAGE_NAME:0:1}/${PACKAGE_NAME}/flexi_formatter-${VERSION}.tar.gz"

# Download and extract the package
curl -L -o package.tar.gz "$URL"
tar -xzf package.tar.gz

# Check for setup.py or pyproject.toml and display its content
if [ -f "flexi_formatter-${VERSION}/setup.py" ]; then
    echo "Contents of setup.py:"
    cat "flexi_formatter-${VERSION}/setup.py"
elif [ -f "flexi_formatter-${VERSION}/pyproject.toml" ]; then
    echo "Contents of pyproject.toml:"
    cat "flexi_formatter-${VERSION}/pyproject.toml"
else
    echo "Neither setup.py nor pyproject.toml found in the package."
fi

# Clean up
rm -rf "flexi_formatter-${VERSION}" package.tar.gz

Length of output: 1039

---

10-10: SHA256 checksum update looks correct, but verification is recommended.

The SHA256 checksum has been updated, which is necessary for the new version. The format and length of the new checksum appear valid.

To ensure the integrity of the package, please verify that this checksum corresponds to the correct source package for version 0.0.4. You can use the following script to download the package and verify its checksum:

---

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.

[coderabbitai]

📝 Walkthrough

Walkthrough

The pull request updates the meta.yaml file for the flexi-formatter package. The version number has been incremented from "0.0.2" to "0.0.4". In addition to the version update, the SHA256 checksum for the source tarball has also been modified to correspond with the new version. The previous checksum c3a054fe1b8a3f9ccb307559ef125236d3f6f134dd35be4f3862e8b136ebd8bd has been replaced with the new checksum 7adbacfdd190397470fa2af9db8b130fb8786f1177dbb411feada60d6a33ae2d. There are no other changes to the structure or content of the meta.yaml file.

Possibly related PRs

• Update ont-modkit to 0.4.1 #51025: The ont-modkit PR updates the version and SHA256 checksum in its meta.yaml, similar to the changes made in the flexi-formatter PR.
• Update agfusion to 1.4.3 #51041: The agfusion PR also updates the version and SHA256 checksum in its meta.yaml, reflecting a similar type of change as seen in the main PR.
• Update metabolabpy to 0.9.53 #51094: The metabolabpy PR updates the version and SHA256 checksum in its meta.yaml, paralleling the changes in the main PR.
• Update mhcflurry to 2.1.4 #51097: The mhcflurry PR updates the version and SHA256 checksum in its meta.yaml, which is consistent with the updates in the main PR.
• Update piper to 0.14.3 #51113: The piper PR updates the version and SHA256 checksum in its meta.yaml, similar to the changes in the main PR.
• Update versionix to 0.99.0 #51204: The versionix PR updates the version and SHA256 checksum in its meta.yaml, reflecting the same type of changes as in the main PR.
• Update vclean to 0.2.1 #51223: The vclean PR updates the version and SHA256 checksum in its meta.yaml, consistent with the updates in the main PR.
• Update nanomotif to 0.4.14 #51275: The nanomotif PR updates the version and SHA256 checksum in its meta.yaml, paralleling the changes in the main PR.
• Update resistify to 0.4.0 #51372: The resistify PR updates the version and SHA256 checksum in its meta.yaml, similar to the changes made in the main PR.
• update cosigt to v0.1.2 #51391: The cosigt PR updates the version and SHA256 checksum in its meta.yaml, reflecting a similar type of change as seen in the main PR.

---

📜 Recent review details

Configuration used: CodeRabbit UI
Review profile: CHILL

📥 Commits

Files that changed from the base of the PR and between b8a6a96 and 4c5aadb.

📒 Files selected for processing (1)

• recipes/flexi-formatter/meta.yaml (1 hunks)

🧰 Additional context used

🔇 Additional comments (3)

recipes/flexi-formatter/meta.yaml (3)

2-2: Version update looks good.

The version has been correctly updated from 0.0.2 to 0.0.4, which aligns with the PR objectives.

---

Line range hint 1-54: Verify if any other updates are necessary.

While the version and SHA256 checksum have been updated correctly, it's good practice to verify if the new version (0.0.4) introduces any changes that might require updates to the recipe, such as:

1. New dependencies
2. Changes in build requirements
3. New entry points or commands
4. Updates to the package description or metadata

Please check the changelog or release notes for version 0.0.4 to ensure no other updates are necessary.

To assist with this verification, you can run the following script to check for any changes in the setup.py file between versions:

This script will show any differences in the setup.py file between versions, which might indicate necessary changes to the recipe.

✅ Verification successful

Verification Complete: No Additional Updates Required.
The setup.py files for versions 0.0.2 and 0.0.4 are identical, indicating no new dependencies or build changes are introduced in version 0.0.4. All necessary updates to the recipe, including the version number and SHA256 checksum, have been correctly applied.

🏁 Scripts executed

The following scripts were executed for the analysis:

Script:

#!/bin/bash
# Description: Compare setup.py files between versions

# Download both versions
curl -sL https://pypi.io/packages/source/f/flexi-formatter/flexi_formatter-0.0.2.tar.gz -o flexi_formatter-0.0.2.tar.gz
curl -sL https://pypi.io/packages/source/f/flexi-formatter/flexi_formatter-0.0.4.tar.gz -o flexi_formatter-0.0.4.tar.gz

# Extract setup.py from both versions
tar -xzf flexi_formatter-0.0.2.tar.gz flexi_formatter-0.0.2/setup.py
tar -xzf flexi_formatter-0.0.4.tar.gz flexi_formatter-0.0.4/setup.py

# Compare setup.py files
echo "Differences in setup.py between versions 0.0.2 and 0.0.4:"
diff flexi_formatter-0.0.2/setup.py flexi_formatter-0.0.4/setup.py

# Clean up
rm -rf flexi_formatter-0.0.2.tar.gz flexi_formatter-0.0.4.tar.gz flexi_formatter-0.0.2 flexi_formatter-0.0.4

Length of output: 690

🧰 Tools

🪛 yamllint

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

(syntax)

---

10-10: SHA256 checksum updated, please verify.

The SHA256 checksum has been updated, which is necessary for the new version. However, it's crucial to verify that this checksum is correct for version 0.0.4 of the package.

To verify the SHA256 checksum, you can run the following script:

Please run this script and ensure that the calculated SHA256 matches the one in the recipe.

---

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.