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Update runjob to 2.10.8 #49329

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Update runjob to 2.10.8 #49329

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Update runjob: 2.10.62.10.8

install with bioconda Conda

Info Link or Description
Recipe recipes/runjob (click to view/edit other files)
Summary Manage jobs or pipeline of bioinfomation.
Home https://github.com/yodeng/runjob
Releases https://github.com/yodeng/runjob/tags
Author @yodeng

This pull request was automatically generated (see docs).

@BiocondaBot BiocondaBot added autobump Automatic Version Update new version labels Jul 17, 2024
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coderabbitai bot commented Nov 11, 2024

📝 Walkthrough
📝 Walkthrough

Walkthrough

The pull request includes updates to the meta.yaml file for the runjob package. The version number has been incremented from "2.10.6" to "2.10.8". Along with the version change, the source URL has been updated to link to the new version's tarball, changing from https://github.com/yodeng/runjob/archive/v2.10.6.tar.gz to https://github.com/yodeng/runjob/archive/v2.10.8.tar.gz. Additionally, the SHA256 checksum has been modified to reflect the new version's source file, changing from bb87cc67abeafd3374d5668d2eacee5e64d0949205fac274b7b715e464680fbe to 0b7e57956ee6c5d231e4adccbd5e19857401cb22d83ab30619cc89cd7649b962. The build script now includes the --no-cache-dir option. The requirements section has been updated to include setuptools in the host requirements. No alterations were made to the build configuration, test commands, or the about section, which remain unchanged from the previous version.

Possibly related PRs

  • Update gottcha2 to 2.1.8.7 #51946: The gottcha2 PR includes the addition of the --no-cache-dir option in the installation script, similar to the change made in the main PR for the runjob package. Additionally, both PRs updated the setuptools requirement in the host section.

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Actionable comments posted: 0

🧹 Outside diff range and nitpick comments (2)
recipes/runjob/meta.yaml (2)

Line range hint 15-15: Consider refactoring batchcompute dependency installation

The current approach of installing batchcompute directly from PyPI URL in the build script is unusual. Consider moving it to the requirements section for better maintainability.

-  script: {{ PYTHON }} -m pip install -vvv --no-deps --no-build-isolation . https://pypi.io/packages/source/{{ bc[0] }}/{{ bc }}/{{ bc }}-{{ bcv }}.tar.gz
+  script: {{ PYTHON }} -m pip install -vvv --no-deps --no-build-isolation .

 requirements:
   host:
     - pip
     - python >=3.5
+    - batchcompute {{ bcv }}
🧰 Tools
🪛 yamllint

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

(syntax)


Line range hint 24-25: Consider updating minimum Python version requirement

Python 3.5 reached end-of-life in September 2020. Consider updating to a more recent version (e.g., >=3.7) for better security and feature support.

🧰 Tools
🪛 yamllint

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

(syntax)

📜 Review details

Configuration used: CodeRabbit UI
Review profile: CHILL

📥 Commits

Reviewing files that changed from the base of the PR and between c72c575 and 9703c95.

📒 Files selected for processing (1)
  • recipes/runjob/meta.yaml (2 hunks)
🧰 Additional context used
🪛 yamllint
recipes/runjob/meta.yaml

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

(syntax)

🔇 Additional comments (1)
recipes/runjob/meta.yaml (1)

1-1: Verify version update integrity

The version bump and checksum update need verification against the upstream repository.

Also applies to: 11-11

🧰 Tools
🪛 yamllint

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

(syntax)

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Actionable comments posted: 0

🧹 Outside diff range and nitpick comments (1)
recipes/runjob/meta.yaml (1)

28-28: Consider updating minimum Python version requirement

The current requirement of python >=3.5 seems outdated as Python 3.5 reached end-of-life in September 2020. Consider updating to a more recent minimum version (e.g., >=3.7).

📜 Review details

Configuration used: CodeRabbit UI
Review profile: CHILL

📥 Commits

Reviewing files that changed from the base of the PR and between 9703c95 and b8d0e2f.

📒 Files selected for processing (1)
  • recipes/runjob/meta.yaml (3 hunks)
🧰 Additional context used
🪛 yamllint
recipes/runjob/meta.yaml

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

(syntax)

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

16-16: LGTM! Good optimization for build.

The addition of --no-cache-dir is a good practice for reducing the size of the build environment.


26-26: LGTM! Required for Python package builds.

Adding setuptools to host requirements is correct as it's needed for building Python packages.


1-1: Verify version and checksum

Let's confirm the version exists and the checksum is correct.

Also applies to: 11-11

🧰 Tools
🪛 yamllint

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

(syntax)

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