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{
lib,
buildPythonPackage,
fetchPypi,
fetchpatch,
setuptools,
numpy,
}:
buildPythonPackage rec {
pname = "biopython";
version = "1.86";
pyproject = true;
src = fetchPypi {
inherit pname version;
hash = "sha256-k6ULWGpNLOxoqy+Z0D71g8V2HY+6VTXLjoHaeB0Nkv8=";
};
patches = [
# Numpy 2.4 compatibility
(fetchpatch {
url = "https://github.com/biopython/biopython/pull/5161.patch";
hash = "sha256-oN0nNlhvshIgNrmm+tIeCAJx1U/OqhdL4tj51DV2CHU=";
})
];
build-system = [ setuptools ];
dependencies = [ numpy ];
pythonImportsCheck = [ "Bio" ];
checkPhase = ''
runHook preCheck
export HOME=$(mktemp -d)
cd Tests
python run_tests.py --offline
runHook postCheck
'';
meta = {
description = "Python library for bioinformatics";
longDescription = ''
Biopython is a set of freely available tools for biological computation
written in Python by an international team of developers. It is a
distributed collaborative effort to develop Python libraries and
applications which address the needs of current and future work in
bioinformatics.
'';
homepage = "https://biopython.org/wiki/Documentation";
maintainers = with lib.maintainers; [ luispedro ];
license = lib.licenses.bsd3;
};
}
|
