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bioconda / bioconda-recipes

Conda recipes for the bioconda channel.
https://bioconda.github.io
MIT License
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Add cell2cell #51744

Closed nilchia closed 2 days ago

nilchia commented 3 days ago

This PR adds cell2cell package required by liana+

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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@BiocondaBot please update Merge the master branch into a PR.
@BiocondaBot please add label Add the please review & merge label.
@BiocondaBot please fetch artifacts Post links to CI-built packages/containers.
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bgruening commented 2 days ago

scanpy 1.9.8 has requirement seaborn>=0.13.0, but you have seaborn 0.11.2.

Oo, this is not fun.

nilchia commented 2 days ago

Yes :( Why doesn't it complain when installing from pip?

nilchia commented 2 days ago

@BiocondaBot please fetch artifacts

BiocondaBot commented 2 days ago

Package(s) built are ready for inspection:

Arch Package Zip File / Repodata CI Instructions
linux-64 cell2cell-0.7.4-py38h4ac6f70_0.tar.bz2 linux-64.zip GitHub Actions
showYou may also use conda to install after downloading and extracting the zip file. conda install -c ./packages <package name>
coderabbitai[bot] commented 2 days ago
📝 Walkthrough ## Walkthrough The pull request introduces a new `meta.yaml` file for the `cell2cell` package, which outlines the package's metadata and configuration for installation. Key details include the package name set to "cell2cell" and the version specified as "0.7.4". The source section provides a URL for downloading the package from PyPI, along with a SHA256 checksum for integrity verification. The build section specifies an installation script using Python's pip, indicating no dependencies or build isolation are required. The requirements section categorizes dependencies into build, host, and run, detailing the necessary components, including a C++ compiler and specific Python libraries. The test section outlines commands for verifying the installation and lists required imports. Additionally, the about section contains information about the project, such as its homepage, summary, licensing details, and a reference to the license file. The extra section identifies the recipe maintainers for the package. ## Possibly related PRs - #51326: The `meta.yaml` file for the `seqspec` package also defines package metadata, including name, version, source URL, and requirements, similar to the changes made in the `cell2cell` package's `meta.yaml`. - #51349: The `meta.yaml` file for the `meta` package introduces a new package with similar structural elements, including package name, version, source URL, and requirements, paralleling the changes in the `cell2cell` package's `meta.yaml`. - #51643: The `meta.yaml` for the `svtopovz` package includes package configuration details such as name, version, source URL, and requirements, which aligns with the modifications made in the `cell2cell` package's `meta.yaml`. ## Suggested labels `please review & merge`

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