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bioconda / bioconda-recipes

Conda recipes for the bioconda channel.
https://bioconda.github.io
MIT License
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Update Saccharis #51679

Closed AlexSCFraser closed 6 days ago

AlexSCFraser commented 6 days ago

Update 2.0.1.dev21 to build 3 to fix intermittent database download issue.

Please read the guidelines for Bioconda recipes before opening a pull request (PR).

General instructions

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_exports section like this:

build:
  run_exports:
    - ...

with ... being one of:

Case run_exports statement
semantic versioning {{ pin_subpackage("myrecipe", max_pin="x") }}
semantic versioning (0.x.x) {{ pin_subpackage("myrecipe", max_pin="x.x") }}
known breakage in minor versions {{ pin_subpackage("myrecipe", max_pin="x.x") }} (in such a case, please add a note that shortly mentions your evidence for that)
known breakage in patch versions {{ pin_subpackage("myrecipe", max_pin="x.x.x") }} (in such a case, please add a note that shortly mentions your evidence for that)
calendar versioning {{ pin_subpackage("myrecipe", max_pin=None) }}

while replacing "myrecipe" with either name if a name|lower variable is defined in your recipe or with the lowercase name of the package in quotes.

Bot commands for PR management

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coderabbitai[bot] commented 6 days ago
📝 Walkthrough
📝 Walkthrough ## Walkthrough The pull request introduces several modifications to the `meta.yaml` file for the SACCHARIS package. Key changes include an update to the version number to "2.0.1.dev21" and a new hash value, which has been altered from "327FCE45E7B50BF0C52064DA883CC4A21BCE183EBACF4C4A827FE2C5BE934CB3" to "B83DC6502A3AB136D1E5F43E4E66CD41A7B884C99B190B781691C56A6D71998F". The source URL has been updated to reference a new tarball, changing from `saccharis-2.0.1.dev21_2.tar.gz` to `saccharis-2.0.1.dev21_3.tar.gz`. Additionally, the build number has been incremented from 2 to 3, and a comment has been added regarding the inclusion of the `preserve_egg_dir` option due to previous entry point-related build errors. The requirements section has seen the removal of the `python-wget` dependency, while the Python version requirement has been updated to `>=3.8`, ensuring compatibility with newer versions. No changes were made to the core functionality or entry points of the package. ## Possibly related PRs - **#51314**: This PR updates the `meta.yaml` file for the SACCHARIS package, which is directly related to the changes made in the main PR that also modifies the `meta.yaml` for the SACCHARIS package. - **#51468**: This PR introduces the `r-saccharis` package, which is related to the SACCHARIS package mentioned in the main PR, as it focuses on rendering phylogenetic trees based on SACCHARIS output. ## Suggested labels `please review & merge` ## Suggested reviewers - bgruening - martin-g

📜 Recent review details **Configuration used: CodeRabbit UI** **Review profile: CHILL**
📥 Commits Files that changed from the base of the PR and between a8cf10452393b454f5dc2db703f97ce864852de1 and 32f9522ddf209edd108552f09d7559ad5886f9d3.
📒 Files selected for processing (1) * recipes/saccharis/meta.yaml (2 hunks)
🚧 Files skipped from review as they are similar to previous changes (1) * recipes/saccharis/meta.yaml
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AlexSCFraser commented 6 days ago

@BiocondaBot please add label