bioconda / bioconda-recipes

Conda recipes for the bioconda channel.
https://bioconda.github.io
MIT License
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Update nanoqc to 0.10.0 #51685

Closed BiocondaBot closed 4 days ago

BiocondaBot commented 5 days ago

Update nanoqc: 0.9.40.10.0

install with bioconda Conda

Info Link or Description
Recipe recipes/nanoqc (click to view/edit other files)
Summary Create fastQC-like plots for Oxford Nanopore sequencing data
Home https://github.com/wdecoster/nanoQC
Releases https://pypi.org/pypi/nanoQC/json

This pull request was automatically generated (see docs).

coderabbitai[bot] commented 5 days ago
📝 Walkthrough ## Walkthrough The pull request involves an update to the `nanoqc` package, specifically changing its version from `0.9.4` to `0.10.0`. Along with the version update, the source URL has been modified to direct to the new version's tarball, ensuring that the correct package is retrieved. Additionally, the SHA256 checksum has been updated to reflect the integrity of the new package version. No alterations have been made to the package structure, dependencies, or any other metadata beyond these changes. ## Possibly related PRs - **#50977**: Updates the version and SHA256 checksum in the `meta.yaml` file for the `biobb_structure_checking` package. - **#51094**: Updates the version and SHA256 checksum in the `meta.yaml` file for the `metabolabpy` package. - **#51271**: Updates the version and SHA256 checksum in the `meta.yaml` file for the `sequali` package. - **#51275**: Updates the version and SHA256 checksum in the `meta.yaml` file for the `nanomotif` package. - **#51429**: Updates the version and SHA256 checksum in the `meta.yaml` file for the `nanomotif` package.

📜 Recent review details **Configuration used: CodeRabbit UI** **Review profile: CHILL**
📥 Commits Files that changed from the base of the PR and between fe8fc74b7eba5d0b7f30fe86ff9c3a1b40277aa3 and 598e3cc34667d73903742d3c2d0c998699d838f2.
📒 Files selected for processing (1) * recipes/nanoqc/meta.yaml (1 hunks)
🧰 Additional context used
🪛 yamllint
recipes/nanoqc/meta.yaml
[error] 1-1: syntax error: found character '%' that cannot start any token (syntax)
🔇 Additional comments (3)
recipes/nanoqc/meta.yaml (3)
Line range hint `13-14`: **Build number correctly reset.** The build number is properly reset to 0 for the new version, which follows conda-forge best practices.
🧰 Tools
🪛 yamllint
[error] 1-1: syntax error: found character '%' that cannot start any token (syntax)
--- Line range hint `19-25`: **Verify dependency compatibility.** The dependencies look reasonable, but let's verify if the new version has any new requirements or version constraints.
🧰 Tools
🪛 yamllint
[error] 1-1: syntax error: found character '%' that cannot start any token (syntax)
--- `1-1`: **Version update looks consistent.** The version update to 0.10.0 is properly reflected in both the version variable and source URL. The SHA256 checksum has been updated accordingly. Let's verify the SHA256 checksum matches the upstream source: Also applies to: 8-9
✅ Verification successful **SHA256 checksum verification successful** The SHA256 checksum in meta.yaml (5e55b8b244ce7cfb0673fc804f5a0c16dcfc4a03f9aaf84c75b8117d3c3817a6) matches exactly with the official package digest from PyPI. The version update and its corresponding checksum are correctly implemented.
🏁 Scripts executed The following scripts were executed for the analysis: Script: ```shell #!/bin/bash # Description: Verify the SHA256 checksum of the source package # Download the package and compute its checksum curl -sL https://pypi.io/packages/source/n/nanoqc/nanoQC-0.10.0.tar.gz | sha256sum ``` Length of output: 161 --- Script: ```shell #!/bin/bash # Let's verify the package metadata and checksum using GitHub CLI gh api \ -H "Accept: application/vnd.github+json" \ -H "X-GitHub-Api-Version: 2022-11-28" \ /repos/wdecoster/nanoQC/releases/tags/0.10.0 # Also check the meta.yaml content to compare cat recipes/nanoqc/meta.yaml ``` Length of output: 1001 --- Script: ```shell #!/bin/bash # Let's verify the package information from PyPI curl -s https://pypi.org/pypi/nanoQC/0.10.0/json | jq -r '.urls[] | select(.packagetype=="sdist") | .digests.sha256' ``` Length of output: 183
🧰 Tools
🪛 yamllint
[error] 1-1: syntax error: found character '%' that cannot start any token (syntax)
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mencian commented 4 days ago

@BiocondaBot please fetch artifacts

BiocondaBot commented 4 days ago

Package(s) built are ready for inspection:

Arch Package Zip File / Repodata CI Instructions
noarch nanoqc-0.10.0-pyhdfd78af_0.tar.bz2 LinuxArtifacts.zip Azure
showYou may also use conda to install after downloading and extracting the zip file. From the LinuxArtifacts directory: conda install -c ./packages <package name>

Docker image(s) built:

Package Tag CI Install with docker
nanoqc 0.10.0--pyhdfd78af_0 Azure
showImages for Azure are in the LinuxArtifacts zip file above.gzip -dc LinuxArtifacts/images/nanoqc:0.10.0--pyhdfd78af_0.tar.gz \| docker load