Add mikrokondo-tools #51618
Add mikrokondo-tools #51618
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added bioconda recipe for mikrokondo-tools
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@bioconda/core |
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Reposting for @mattheww95 to enable pings (courtesy of the BiocondaBot):
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📝 Walkthrough📝 Walkthrough📝 WalkthroughWalkthroughThe pull request introduces a new file, Possibly related PRs
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Actionable comments posted: 3
🧹 Outside diff range and nitpick comments (2)
recipes/mikrokondo-tools/meta.yaml (2)
26-30: Add version constraints for runtime dependenciesTo ensure reproducibility and prevent breaking changes, consider adding version constraints for runtime dependencies:
run: - python >=3.8 - - click - - requests - - jsonschema + - click >=8.0 + - requests >=2.0 + - jsonschema >=3.0
32-39: Consider adding more comprehensive testsWhile the current tests cover basic functionality, consider adding:
- Tests for specific CLI subcommands if available
- Tests for key package functionality
Would you like help generating additional test commands based on the package's functionality?
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Review profile: CHILL
📒 Files selected for processing (1)
- recipes/mikrokondo-tools/meta.yaml (1 hunks)
🧰 Additional context used
🪛 yamllint
recipes/mikrokondo-tools/meta.yaml
[error] 1-1: syntax error: found character '%' that cannot start any token
(syntax)
🔇 Additional comments (2)
recipes/mikrokondo-tools/meta.yaml (2)
1-6: Verify if using a release candidate version is intendedThe package version
0.0.1rc0indicates this is a release candidate. Consider if a stable release would be more appropriate for Bioconda distribution.🧰 Tools
🪛 yamllint
[error] 1-1: syntax error: found character '%' that cannot start any token
(syntax)
48-50: Verify maintainer GitHub usernamePlease ensure that the GitHub username 'mwells' is correct and that they have agreed to maintain this package.
recipes/mikrokondo-tools/meta.yaml
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This should be your github handle currently points to a Mike Wells (https://github.com/mwells)
Co-authored-by: coderabbitai[bot] <136622811+coderabbitai[bot]@users.noreply.github.com>
Co-authored-by: coderabbitai[bot] <136622811+coderabbitai[bot]@users.noreply.github.com>
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Actionable comments posted: 1
🧹 Outside diff range and nitpick comments (1)
recipes/mikrokondo-tools/meta.yaml (1)
21-30: Consider specifying version constraints for dependenciesWhile the Python version constraint is good, consider adding version constraints for other dependencies to ensure compatibility and reproducibility.
run: - python >=3.8 - - click - - requests - - jsonschema + - click >=8.0 + - requests >=2.0 + - jsonschema >=3.0
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📒 Files selected for processing (1)
- recipes/mikrokondo-tools/meta.yaml (1 hunks)
🧰 Additional context used
📓 Learnings (1)
recipes/mikrokondo-tools/meta.yaml (1)
Learnt from: rpetit3 PR: bioconda/bioconda-recipes#51618 File: recipes/mikrokondo-tools/meta.yaml:18-19 Timestamp: 2024-10-23T18:36:53.267Z Learning: In Bioconda recipes, the `run_exports` section is sometimes required in `meta.yaml` to pass linting, even for pure Python packages.
🪛 yamllint
recipes/mikrokondo-tools/meta.yaml
[error] 1-1: syntax error: found character '%' that cannot start any token
(syntax)
🔇 Additional comments (5)
recipes/mikrokondo-tools/meta.yaml (5)
12-19: Build configuration looks goodThe build configuration is well-structured with:
- Correct entry point definition
- Appropriate noarch specification
- Standard pip installation
- Required run_exports section for linting
32-39: Test configuration is comprehensiveGood test coverage with:
- Package import verification
- Dependency compatibility check
- CLI functionality test
48-50: Maintainer configuration is correctThe recipe maintainer is properly specified.
1-6: Verify package version availability on PyPIThe version
0.0.1rc0indicates this is a release candidate. Let's ensure this version is published and available.✅ Verification successful
Since the shell script output shows that version
0.0.1rc0exists on PyPI, I can now generate the final response.Version
0.0.1rc0is correctly specified and available on PyPIThe package version specified in the recipe matches the published version on PyPI, which ensures the recipe can be built successfully.
🏁 Scripts executed
The following scripts were executed for the analysis:
Script:
#!/bin/bash # Description: Verify package version exists on PyPI curl -s "https://pypi.org/pypi/mikrokondo-tools/json" | jq -r '.releases | keys[]' | grep "0.0.1rc0" || echo "Version not found on PyPI"Length of output: 107
🧰 Tools
🪛 yamllint
[error] 1-1: syntax error: found character '%' that cannot start any token
(syntax)
8-10: Verify SHA256 checksumLet's verify the provided SHA256 checksum matches the source package.
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@BiocondaBot please fetch artifacts |
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Package(s) built are ready for inspection:
Docker image(s) built:
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added bioconda recipe for mikrokondo-tools
Describe your pull request here
Please read the guidelines for Bioconda recipes before opening a pull request (PR).
General instructions
@BiocondaBot please add labelcommand.@bioconda/corein a comment.Instructions for avoiding API, ABI, and CLI breakage issues
Conda is able to record and lock (a.k.a. pin) dependency versions used at build time of other recipes.
This way, one can avoid that expectations of a downstream recipe with regards to API, ABI, or CLI are violated by later changes in the recipe.
If not already present in the meta.yaml, make sure to specify
run_exports(see here for the rationale and comprehensive explanation).Add a
run_exportssection like this:with
...being one of:{{ pin_subpackage("myrecipe", max_pin="x") }}{{ pin_subpackage("myrecipe", max_pin="x.x") }}{{ pin_subpackage("myrecipe", max_pin="x.x") }}(in such a case, please add a note that shortly mentions your evidence for that){{ pin_subpackage("myrecipe", max_pin="x.x.x") }}(in such a case, please add a note that shortly mentions your evidence for that){{ pin_subpackage("myrecipe", max_pin=None) }}while replacing
"myrecipe"with eithernameif aname|lowervariable is defined in your recipe or with the lowercase name of the package in quotes.Bot commands for PR management
Please use the following BiocondaBot commands:
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