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Update orthanq to 1.7.9 #51214

Merged
merged 3 commits into from
Oct 8, 2024
Merged

Update orthanq to 1.7.9 #51214

merged 3 commits into from
Oct 8, 2024

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Update orthanq: 1.7.81.7.9

install with bioconda Conda

Info Link or Description
Recipe recipes/orthanq (click to view/edit other files)
Summary Uncertainty aware HLA typing and general haplotype quantification
Home https://github.com/orthanq/orthanq
Releases https://github.com/orthanq/orthanq/tags
Author @orthanq

This pull request was automatically generated (see docs).

@BiocondaBot BiocondaBot added autobump Automatic Version Update new version labels Oct 7, 2024
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coderabbitai bot commented Oct 7, 2024

📝 Walkthrough
📝 Walkthrough

Walkthrough

The pull request introduces changes to the meta.yaml file for the orthanq package. The primary modification is the version increment from "1.7.8" to "1.7.9". Correspondingly, the source URL has been updated to reflect the new version, changing from https://github.com/orthanq/orthanq/archive/v1.7.8.tar.gz to https://github.com/orthanq/orthanq/archive/v1.7.9.tar.gz. Additionally, the SHA256 checksum for the source archive has been revised from bc4036a3d058263c8a49319573d1ef926e807a1d6b4bf845d09d686556c0d893 to 101f3b82aaae6bd6f50cce04cee14478236384677300e7441c88da08ca975554. No other aspects of the meta.yaml file have been altered in this update. Furthermore, the CircleCI configuration file .circleci/config.yml has been modified to change the resource class for the linux-aarch64 executor from arm.medium to arm.large, affecting resource allocation for various jobs defined in the configuration.

Possibly related PRs

  • upd orthologer to 3.4.2 #51128: The changes in this PR involve updating the version and SHA256 checksum in the meta.yaml file for the orthologer package, similar to the version and checksum updates in the main PR for the orthanq package.
  • Update orthofinder for 3.0.1b1 beta release #51202: This PR updates the meta.yaml file for the orthofinder package to a new version, reflecting a similar type of change as seen in the main PR for the orthanq package.

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mencian and others added 2 commits October 7, 2024 11:10
Signed-off-by: Martin Tzvetanov Grigorov <mgrigorov@apache.org>
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Actionable comments posted: 0

🧹 Outside diff range and nitpick comments (1)
.circleci/config.yml (1)

Line range hint 1-359: General observations on the CircleCI configuration

While reviewing the change, I noticed that the overall CircleCI configuration is well-structured and comprehensive. Here are some observations that might be helpful:

  1. Multiple executors and jobs are defined, covering various architectures (x86_64 and ARM) and operating systems (Linux and macOS).
  2. The configuration includes jobs for building, testing, and uploading packages, as well as bulk builds and nightly builds.
  3. There's good use of parameters and conditionals to handle different scenarios and platforms.
  4. The configuration leverages CircleCI features like workflows, matrix jobs, and scheduled triggers.

To further improve the configuration, consider:

  1. Documenting the purpose of each job and workflow in comments for easier maintenance.
  2. Evaluating if any jobs can be optimized or combined to reduce build times or simplify the configuration.
  3. Ensuring that all necessary environment variables and secrets are properly configured in the CircleCI project settings.

Would you like me to propose any specific improvements or optimizations to the CircleCI configuration?

📜 Review details

Configuration used: CodeRabbit UI
Review profile: CHILL

📥 Commits

Files that changed from the base of the PR and between a26c4e5 and c32d9dc.

📒 Files selected for processing (1)
  • .circleci/config.yml (1 hunks)
🧰 Additional context used
🔇 Additional comments (1)
.circleci/config.yml (1)

12-12: Resource class upgrade for linux-aarch64 executor

The resource class for the linux-aarch64 executor has been upgraded from arm.medium to arm.large. This change aligns with the PR objectives of updating the orthanq package, as it may require more resources for building and testing on ARM architecture.

Considerations:

  1. Performance: This upgrade should improve build and test performance for ARM64 Linux builds.
  2. Cost: The arm.large class will consume more CircleCI credits than arm.medium. Ensure this aligns with your budget and resource allocation strategy.
  3. Consistency: Consider if other executors (e.g., osx-arm64) also need a resource class upgrade for consistency across different architectures.

To ensure this change doesn't introduce any issues, please run the following verification steps:

  1. Trigger a test build on the linux-aarch64 executor to confirm improved performance.
  2. Monitor CircleCI credit usage for potential cost increases.
  3. Review build logs to ensure no unexpected behavior occurs with the larger resource class.
✅ Verification successful

Resource class upgrade verified successfully

The update to resource_class: arm.large on line 12 has been verified. There are no other resource_class definitions in .circleci/config.yml that require updating.

🏁 Scripts executed

The following scripts were executed for the analysis:

Script:

#!/bin/bash
# Verify if there are any other resource class definitions that might need updating
grep -n "resource_class:" .circleci/config.yml

Length of output: 122

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3 participants