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bioconda / bioconda-recipes

Conda recipes for the bioconda channel.
https://bioconda.github.io
MIT License
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Update pbmarkdup to 1.1.0 #51782

Closed BiocondaBot closed 2 days ago

BiocondaBot commented 2 days ago

Update pbmarkdup: 1.0.3 → 1.1.0

install with bioconda Conda

Info Link or Description
Recipe recipes/pbmarkdup (click to view/edit other files)
Summary pbmarkdup - Mark duplicate reads from PacBio sequencing of an amplified library
Home https://github.com/PacificBiosciences/pbbioconda
Releases []()
Recipe Maintainer(s) @armintoepfer, @pb-dseifert
Author @PacificBiosciences

This pull request was automatically generated (see docs).

coderabbitai[bot] commented 2 days ago
📝 Walkthrough ## Walkthrough The pull request involves an update to the `meta.yaml` file for the `pbmarkdup` package. The version number has been changed from "1.0.3" to "1.1.0", indicating a new release of the package. Along with the version increment, the SHA256 checksum has also been updated from "96907ba4873f377c79b3c74128ae45307e75e7c42dd90b0ddf7fe8b4684b723a" to "a6bbcd71cce4a90202f5d7a7882f982e876212dbc237095418a72d0b7eea6e61". This checksum update is essential for ensuring the integrity and authenticity of the new package version. No other changes were made to the file structure, which includes the package metadata, source URL, and additional information. ## Possibly related PRs - #51724: Update pbaa version 1.1.0 - This PR updates the version and SHA256 checksum in the `meta.yaml` file, similar to the changes made in the main PR for the `pbmarkdup` package.
📜 Recent review details **Configuration used: CodeRabbit UI** **Review profile: CHILL**
📥 Commits Files that changed from the base of the PR and between 2290368c71c6304c260e706a8cbb7fa59db0c841 and b2791274ead90dfcc4c5a132e4dc3ce6b792f52c.
📒 Files selected for processing (1) * recipes/pbmarkdup/meta.yaml (1 hunks)
🔇 Additional comments (4)
recipes/pbmarkdup/meta.yaml (4) Line range hint `5-24`: **LGTM! Recipe structure and metadata remain unchanged** The package metadata, license, maintainers, and other configurations are properly maintained.
🧰 Tools
🪛 yamllint [error] 1-1: syntax error: found character '%' that cannot start any token (syntax)
--- Line range hint `25-35`: **LGTM! Build configuration is appropriate** The build configuration is correct: - Build number properly reset to 0 for the new version - Platform restrictions and skip-lints are maintained
🧰 Tools
🪛 yamllint [error] 1-1: syntax error: found character '%' that cannot start any token (syntax)
--- `2-2`: **Verify the existence of version 1.1.0** The version bump follows semantic versioning. Let's verify that this version exists in the upstream repository.
✅ Verification successful **Version 1.1.0 is correctly specified** The version bump to 1.1.0 is valid as this version exists as an official release (v1.1.0) in the PacificBiosciences/pbmarkdup repository.
🏁 Scripts executed The following scripts were executed for the analysis: Script: ```shell #!/bin/bash # Description: Verify that version 1.1.0 exists in the PacificBiosciences/pbmarkdup repository gh release view v1.1.0 --repo PacificBiosciences/pbmarkdup ``` Length of output: 588 --- Script: ```shell #!/bin/bash # Let's try a different approach to verify the release existence gh api repos/PacificBiosciences/pbmarkdup/releases | jq -r '.[].tag_name' ``` Length of output: 110
--- `3-3`: **Verify SHA256 checksum integrity** Let's verify that the SHA256 checksum matches the upstream binary file.

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jmattick commented 2 days ago

See https://github.com/bioconda/bioconda-recipes/pull/51783

mencian commented 2 days ago

Closing in favor of #51783.