57 lines
1.3 KiB
Nix
57 lines
1.3 KiB
Nix
{
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gevent,
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buildPythonPackage,
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fetchFromGitHub,
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hostname,
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pytest,
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pythonAtLeast,
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lib,
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stdenv,
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}:
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buildPythonPackage rec {
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pname = "ruffus";
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version = "2.8.4";
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format = "setuptools";
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src = fetchFromGitHub {
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owner = "cgat-developers";
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repo = "ruffus";
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rev = "v${version}";
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sha256 = "0fnzpchwwqsy5h18fs0n90s51w25n0dx0l74j0ka6lvhjl5sxn4c";
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};
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propagatedBuildInputs = [ gevent ];
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nativeCheckInputs = [
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hostname
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pytest
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];
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# tests very flaky & hang often on darwin
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doCheck = !stdenv.hostPlatform.isDarwin;
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checkPhase =
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# https://docs.python.org/3/whatsnew/3.13.html#re
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lib.optionalString (pythonAtLeast "3.13") ''
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substituteInPlace ruffus/test/test_ruffus_utility.py \
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--replace-fail re.error re.PatternError
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''
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# test files do indeed need to be executed separately
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+ ''
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pushd ruffus/test
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rm test_with_logger.py # spawns 500 processes
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for f in test_*.py ; do
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HOME=$TMPDIR pytest -v --disable-warnings $f
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done
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popd
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'';
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pythonImportsCheck = [ "ruffus" ];
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meta = with lib; {
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description = "Light-weight Python Computational Pipeline Management";
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homepage = "http://www.ruffus.org.uk";
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license = licenses.mit;
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maintainers = [ ];
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};
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}
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