Update bustools to 0.44.1 #51514
Update bustools to 0.44.1 #51514
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📝 Walkthrough📝 WalkthroughWalkthroughThe pull request involves an update to the Possibly related PRs
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Actionable comments posted: 1
🧹 Outside diff range and nitpick comments (1)
recipes/bustools/build.sh (1)
9-9: Prefer$(uname)over backticks for command substitutionIn bash scripting, using
$(command)for command substitution is generally preferred over backticks`command`, as it enhances readability and allows for easier nesting of commands.Apply this diff to implement the suggestion:
-if [[ `uname` == "Darwin" ]]; then +if [[ $(uname) == "Darwin" ]]; then
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📒 Files selected for processing (2)
- recipes/bustools/build.sh (1 hunks)
- recipes/bustools/meta.yaml (2 hunks)
🧰 Additional context used
🪛 yamllint
recipes/bustools/meta.yaml
[error] 1-1: syntax error: found character '%' that cannot start any token
(syntax)
🔇 Additional comments (8)
recipes/bustools/meta.yaml (8)
1-1: Version update looks good.The package version has been correctly updated to 0.44.1, which aligns with the PR objectives.
🧰 Tools
🪛 yamllint
[error] 1-1: syntax error: found character '%' that cannot start any token
(syntax)
30-30: Home URL formatting improvement.The addition of quotation marks around the home URL is a minor formatting improvement. The URL itself remains correct.
31-31: License field formatting improvement.The addition of single quotes around the license field is a minor formatting improvement. The license information itself remains correct.
36-37: Valuable additions of dev_url and doc_url.The new dev_url and doc_url fields provide useful links to the development repository and documentation, respectively. These additions enhance the package metadata and improve user accessibility to project resources.
43-45: Valuable additions to identifiers section.The new identifiers for biotools and DOI provide important cross-references to other bioinformatics resources. These additions enhance the discoverability and citability of the package.
1-1: Ignore yamllint false positive.The yamllint tool reports a syntax error for the '%' character at the beginning of the file. This is a false positive as the '%' is part of the Jinja2 template syntax, which is correctly used in Conda recipes. No changes are needed.
🧰 Tools
🪛 yamllint
[error] 1-1: syntax error: found character '%' that cannot start any token
(syntax)
Line range hint
1-45: Summary: All changes look good, PR is ready for merge.The updates to the meta.yaml file for bustools are consistent with the PR objectives:
- Version has been correctly updated to 0.44.1.
- SHA256 checksum has been updated for the new source tarball.
- Formatting improvements have been made to the home and license fields.
- Valuable additions include dev_url, doc_url, and new identifiers.
All changes have been reviewed and approved. The package metadata is now up-to-date and provides improved information for users. This PR is ready to be merged.
9-9: SHA256 checksum update looks correct.The SHA256 checksum has been updated to match the new source tarball for version 0.44.1. This is a necessary change to ensure the integrity of the downloaded source.
To verify the checksum, you can run the following script:
recipes/bustools/build.sh
Outdated
| @@ -1,10 +1,21 @@ | |||
| #!/bin/bash | |||
| set -euo pipefail | |||
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| export CPATH=$PREFIX/include | |||
| export INCLUDE_PATH=$PREFIX/include | |||
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Use CPATH instead of INCLUDE_PATH for include directories
The environment variable CPATH is recognized by compilers like GCC and Clang to specify additional include directories. INCLUDE_PATH is not commonly used by compilers and may not have the intended effect. To ensure that the compiler includes the necessary headers from $PREFIX/include, it's recommended to use CPATH.
Apply this diff to fix the issue:
-export INCLUDE_PATH=$PREFIX/include
+export CPATH=$PREFIX/include📝 Committable suggestion
‼️ IMPORTANT
Carefully review the code before committing. Ensure that it accurately replaces the highlighted code, contains no missing lines, and has no issues with indentation. Thoroughly test & benchmark the code to ensure it meets the requirements.
| export INCLUDE_PATH=$PREFIX/include | |
| export CPATH=$PREFIX/include |
Update
bustools: 0.44.0 → 0.44.1recipes/bustools(click to view/edit other files)Home | https://github.com/BUStools/bustools
Releases |https://github.com/BUStools/bustools/tags
Author |
@BUStoolsThis pull request was automatically generated (see docs).