57 lines
1.3 KiB
Nix
57 lines
1.3 KiB
Nix
{
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lib,
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buildPythonPackage,
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fetchPypi,
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pythonOlder,
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setuptools,
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numpy,
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}:
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buildPythonPackage rec {
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pname = "biopython";
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version = "1.83";
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pyproject = true;
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disabled = pythonOlder "3.9";
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src = fetchPypi {
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inherit pname version;
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hash = "sha256-eOa/t43mMDQDev01/nfLbgqeW2Jwa+z3in2SKxbtg/c=";
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};
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patches = [
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# cherry-picked from https://github.com/biopython/biopython/commit/3f9bda7ef44f533dadbaa0de29ac21929bc0b2f1
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# fixes SeqXMLIO parser to process all data. remove on next update
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./close_parser_on_time.patch
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];
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build-system = [ setuptools ];
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dependencies = [ numpy ];
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pythonImportsCheck = [ "Bio" ];
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checkPhase = ''
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runHook preCheck
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export HOME=$(mktemp -d)
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cd Tests
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python run_tests.py --offline
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runHook postCheck
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'';
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meta = {
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description = "Python library for bioinformatics";
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longDescription = ''
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Biopython is a set of freely available tools for biological computation
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written in Python by an international team of developers. It is a
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distributed collaborative effort to develop Python libraries and
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applications which address the needs of current and future work in
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bioinformatics.
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'';
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homepage = "https://biopython.org/wiki/Documentation";
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maintainers = with lib.maintainers; [ luispedro ];
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license = lib.licenses.bsd3;
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};
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}
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