Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Update repic to 1.0.0 #50989

Merged
merged 1 commit into from
Sep 26, 2024
Merged

Update repic to 1.0.0 #50989

merged 1 commit into from
Sep 26, 2024

Conversation

BiocondaBot
Copy link
Collaborator

@BiocondaBot BiocondaBot commented Sep 26, 2024

Update repic: 0.2.11.0.0

install with bioconda Conda

Info Link or Description
Recipe recipes/repic (click to view/edit other files)
Summary REPIC - an ensemble learning approach to cryo-EM particle picking.
Home https://github.com/ccameron/REPIC
Releases https://github.com/ccameron/REPIC/tags
Recipe Maintainer(s) @ccameron
Author @ccameron

This pull request was automatically generated (see docs).

@BiocondaBot BiocondaBot added autobump Automatic Version Update new version labels Sep 26, 2024
Copy link

coderabbitai bot commented Sep 26, 2024

📝 Walkthrough

Walkthrough

The pull request updates the meta.yaml file for the repic package. It involves changing the version number from "0.2.1" to "1.0.0", updating the source URL to reflect the new version, and modifying the SHA256 checksum for the source archive to ensure integrity.

Changes

File Change Summary
recipes/repic/meta.yaml - Version updated from "0.2.1" to "1.0.0"
- Source URL updated from v0.2.1.zip to v1.0.0.zip
- SHA256 checksum updated from fd77f660... to 27bc27ce...

Possibly related PRs

  • Update gbintk to 1.0.0 #50974: The gbintk package's version was updated from "0.1.0" to "1.0.0", involving similar changes to the meta.yaml file, including version number and SHA256 checksum updates.

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
🪧 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.

Copy link

@coderabbitai coderabbitai bot left a comment

Choose a reason for hiding this comment

The reason will be displayed to describe this comment to others. Learn more.

Actionable comments posted: 1

📜 Review details

Configuration used: CodeRabbit UI
Review profile: CHILL

📥 Commits

Files that changed from the base of the PR and between 6ffd645 and 783b9f0.

📒 Files selected for processing (1)
  • recipes/repic/meta.yaml (1 hunks)
🧰 Additional context used
🪛 yamllint
recipes/repic/meta.yaml

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

(syntax)

🔇 Additional comments (3)
recipes/repic/meta.yaml (3)

1-1: Ignore yamllint error for Jinja2 syntax.

The yamllint tool reports a syntax error for the '%' character, but this is a false positive. The '%' is part of a Jinja2 template syntax, which is commonly used and valid in Conda recipes.

No action is required as this is expected behavior for Conda recipe files.

🧰 Tools
🪛 yamllint

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

(syntax)


9-9: SHA256 checksum update approved.

The SHA256 checksum has been updated, which is consistent with the new version of the package.

To ensure the integrity and authenticity of the package, please verify:

  1. The new checksum matches the one provided by the package author.
  2. The checksum corresponds to the correct version (1.0.0) of the package.

Run the following script to download the package and verify the checksum:


Line range hint 1-67: Overall changes are consistent and approved.

The version update has been consistently applied throughout the file, including the package metadata and source URL. The SHA256 checksum has been updated accordingly.

As this is a major version update (0.2.1 to 1.0.0), please ensure:

  1. All necessary changes have been made, including potential updates to dependencies or build instructions.
  2. The package documentation (https://repic.readthedocs.io/en/latest/) has been updated to reflect any changes in the new version.
  3. The release notes for version 1.0.0 have been reviewed for any breaking changes or new features that might require additional updates to the recipe.

Run the following script to check if there are any significant changes in the package requirements between versions:

Review the output to ensure that any changes in package requirements are reflected in the meta.yaml file.

✅ Verification successful

Version update verified and approved.

The install_requires dependencies remain consistent between versions 0.2.1 and 1.0.0. No additional changes to dependencies are necessary.

🏁 Scripts executed

The following scripts were executed for the analysis:

Script:

#!/bin/bash
# Description: Compare package requirements between versions

OLD_URL="https://raw.githubusercontent.com/ccameron/REPIC/v0.2.1/setup.py"
NEW_URL="https://raw.githubusercontent.com/ccameron/REPIC/v1.0.0/setup.py"

echo "Old version requirements:"
curl -s "$OLD_URL" | grep -A20 "install_requires"

echo -e "\nNew version requirements:"
curl -s "$NEW_URL" | grep -A20 "install_requires"

Length of output: 1502


Script:

#!/bin/bash
# Description: Extract install_requires from setup.py for versions 0.2.1 and 1.0.0 using ast-grep

OLD_URL="https://raw.githubusercontent.com/ccameron/REPIC/v0.2.1/setup.py"
NEW_URL="https://raw.githubusercontent.com/ccameron/REPIC/v1.0.0/setup.py"

echo "Old version install_requires:"
curl -s "$OLD_URL" | ast-grep --lang python --pattern 'install_requires = $_' --print '$_'

echo -e "\nNew version install_requires:"
curl -s "$NEW_URL" | ast-grep --lang python --pattern 'install_requires = $_' --print '$_'

Length of output: 981


Script:

#!/bin/bash
# Description: Extract install_requires from setup.py for versions 0.2.1 and 1.0.0 using rg

OLD_URL="https://raw.githubusercontent.com/ccameron/REPIC/v0.2.1/setup.py"
NEW_URL="https://raw.githubusercontent.com/ccameron/REPIC/v1.0.0/setup.py"

echo "Old version install_requires:"
curl -s "$OLD_URL" | rg -A20 "install_requires"

echo -e "\nNew version install_requires:"
curl -s "$NEW_URL" | rg -A20 "install_requires"

Length of output: 1322


Script:

#!/bin/bash
# Description: Extract REQUIRED dependencies from setup.py for versions 0.2.1 and 1.0.0 using rg

OLD_URL="https://raw.githubusercontent.com/ccameron/REPIC/v0.2.1/setup.py"
NEW_URL="https://raw.githubusercontent.com/ccameron/REPIC/v1.0.0/setup.py"

echo "Old version REQUIRED:"
curl -s "$OLD_URL" | rg "REQUIRED\s*=" -A10

echo -e "\nNew version REQUIRED:"
curl -s "$NEW_URL" | rg "REQUIRED\s*=" -A10

Length of output: 906

🧰 Tools
🪛 yamllint

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

(syntax)

@@ -1,12 +1,12 @@
{% set version = "0.2.1" %}
{% set version = "1.0.0" %}
Copy link

Choose a reason for hiding this comment

The reason will be displayed to describe this comment to others. Learn more.

💡 Codebase verification

Multiple references to version 0.2.1 found across the codebase.

Updating the version to 1.0.0 in recipes/repic/meta.yaml is a major change that may affect other parts of the project. Please address the following to ensure consistency and compatibility:

  • Update Dependencies: Review and update other meta.yaml files and configuration files that reference version 0.2.1 to align with the new version if necessary.
  • Check Compatibility: Ensure that dependent packages are compatible with version 1.0.0 and update their configurations accordingly.
  • Document Changes: Clearly document any breaking changes introduced in version 1.0.0 to assist developers in adapting to the new version.
🔗 Analysis chain

Version update to 1.0.0 approved.

The version has been correctly updated to 1.0.0 as per the PR objectives. This major version bump might indicate significant changes or breaking changes in the package.

To ensure compatibility, please verify:

  1. Any breaking changes are documented.
  2. Dependent packages are updated if necessary.

Run the following script to check for any mentions of the old version in other files:

🏁 Scripts executed

The following scripts were executed for the analysis:

Script:

#!/bin/bash
# Description: Check for mentions of the old version (0.2.1) in other files

rg --type yaml '0\.2\.1' --glob '!recipes/repic/meta.yaml'

Length of output: 1502


Script:

#!/bin/bash
# Description: Search for mentions of the old version (0.2.1) in all files excluding recipes/repic/meta.yaml

rg '0\.2\.1' --glob '!.git/*' --glob '!recipes/repic/meta.yaml'

Length of output: 10216

🧰 Tools
🪛 yamllint

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

(syntax)

@BiocondaBot
Copy link
Collaborator Author

No artifacts found on the most recent builds. Either the builds failed, the artifacts have been removed due to age, or the recipe was blacklisted/skipped.

2 similar comments
@BiocondaBot
Copy link
Collaborator Author

No artifacts found on the most recent builds. Either the builds failed, the artifacts have been removed due to age, or the recipe was blacklisted/skipped.

@BiocondaBot
Copy link
Collaborator Author

No artifacts found on the most recent builds. Either the builds failed, the artifacts have been removed due to age, or the recipe was blacklisted/skipped.

Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Labels
autobump Automatic Version Update new version
Projects
None yet
Development

Successfully merging this pull request may close these issues.

2 participants