70 lines
1.1 KiB
Nix
70 lines
1.1 KiB
Nix
{
|
|
lib,
|
|
buildPythonPackage,
|
|
fetchFromGitHub,
|
|
swig,
|
|
cython,
|
|
matplotlib,
|
|
numpy,
|
|
pandas,
|
|
pysam,
|
|
setuptools,
|
|
pytestCheckHook,
|
|
nix-update-script,
|
|
}:
|
|
buildPythonPackage rec {
|
|
pname = "htseq";
|
|
version = "2.0.9";
|
|
pyproject = true;
|
|
|
|
src = fetchFromGitHub {
|
|
owner = "htseq";
|
|
repo = "htseq";
|
|
rev = "release_${version}";
|
|
hash = "sha256-i83BY7/p98/pfYzebolNW/6yNwtb2R5ARCSG3rAq2/M=";
|
|
};
|
|
|
|
nativeBuildInputs = [ swig ];
|
|
|
|
build-system = [
|
|
cython
|
|
numpy
|
|
pysam
|
|
setuptools
|
|
];
|
|
|
|
dependencies = [
|
|
numpy
|
|
pysam
|
|
];
|
|
|
|
optional-dependencies = {
|
|
htseq-qa = [ matplotlib ];
|
|
};
|
|
|
|
pythonImportsCheck = [ "HTSeq" ];
|
|
|
|
nativeCheckInputs = [
|
|
pandas
|
|
pytestCheckHook
|
|
] ++ optional-dependencies.htseq-qa;
|
|
|
|
preCheck = ''
|
|
rm -r src HTSeq
|
|
export PATH=$out/bin:$PATH
|
|
'';
|
|
|
|
passthru.updateScript = nix-update-script {
|
|
extraArgs = [
|
|
"--version-regex"
|
|
"release_(.+)"
|
|
];
|
|
};
|
|
|
|
meta = with lib; {
|
|
homepage = "https://htseq.readthedocs.io/";
|
|
description = "Framework to work with high-throughput sequencing data";
|
|
maintainers = with maintainers; [ unode ];
|
|
};
|
|
}
|