perf: autobump bio/dragmap/align

[snakedeploy-bot]

Automatic update of bio/dragmap/align.

Summary by CodeRabbit

• New Features

  • Introduced a new Conda environment specification file for Linux 64-bit systems, simplifying package installation for bioinformatics workflows.

• Updates

  • Updated key dependencies in the environment configuration file to ensure users benefit from the latest tools and improvements, enhancing functionality and compatibility for bioinformatics tasks.

[fgvieira]

Fails due to a Segmentation Fault, as reported in Illumina/DRAGMAP#47.

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📝 Walkthrough

📝 Walkthrough

Walkthrough

The recent updates introduce a new Conda environment specification file for Linux 64-bit systems, enhancing the setup for bioinformatics workflows. The environment.yaml has also been updated with version upgrades for key dependencies, focusing on maintaining compatibility and access to the latest features. Together, these changes streamline the environment creation process, ensuring that users have a comprehensive and up-to-date toolset for their analytical tasks.

Changes

Files	Change Summary
bio/dragmap/align/environment.linux-64.pin.txt	New file introduced for specifying a Conda environment with explicit package versions for reproducibility.
bio/dragmap/align/environment.yaml	Dependency versions updated: dragmap (1.2 → 1.3.0), samtools (1.14 → 1.20), picard (2.26 → 3.2.0), and snakemake-wrapper-utils (0.5.2 → 0.6.2).

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Actionable comments posted: 0

Review details

Configuration used: CodeRabbit UI
Review profile: ASSERTIVE

Commits

Files that changed from the base of the PR and between e2215f2 and 5fe9465.

Files selected for processing (2)

• bio/dragmap/align/environment.linux-64.pin.txt (1 hunks)
• bio/dragmap/align/environment.yaml (1 hunks)

Additional comments not posted (5)

bio/dragmap/align/environment.yaml (4)

6-6: Verify the impact of dragmap version update.

The update from dragmap version 1.2 to 1.3.0 may introduce new features or performance improvements. However, it could also be related to the reported segmentation fault issue. Ensure thorough testing and review of the changes in this version.

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7-7: Verify compatibility and performance impact of samtools update.

The update from samtools version 1.14 to 1.20 likely includes bug fixes and optimizations. Verify that this update does not introduce compatibility issues or affect performance negatively.

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9-9: Verify utility and compatibility of snakemake-wrapper-utils update.

The update from snakemake-wrapper-utils version 0.5.2 to 0.6.2 may introduce new utilities or improvements. Verify that these changes are compatible with existing workflows.

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8-8: Verify workflow impact of picard update.

The update from picard version 2.26 to 3.2.0 suggests substantial changes. Verify how these changes impact data manipulation and analysis workflows.

bio/dragmap/align/environment.linux-64.pin.txt (1)

1-120: Acknowledge the utility of explicit environment pinning.

The addition of environment.linux-64.pin.txt provides a locked environment setup, which is beneficial for ensuring reproducibility across different systems. This approach can help mitigate issues related to package version inconsistencies.