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{ lib
, fetchPypi
, fetchpatch
, buildPythonPackage
, pythonOlder
, blosc2
, bzip2
, c-blosc
, cython
, hdf5
, lzo
, numpy
, numexpr
, packaging
, sphinx
# Test inputs
, python
, pytest
, py-cpuinfo
}:
buildPythonPackage rec {
pname = "tables";
version = "3.8.0";
disabled = pythonOlder "3.8";
src = fetchPypi {
inherit pname version;
hash = "sha256-NPP6I2bOILGPHfVzp3wdJzBs4fKkHZ+e/2IbUZLqh4g=";
};
patches = [
(fetchpatch {
name = "numpy-1.25-compatibility.patch";
url = "https://github.com/PyTables/PyTables/commit/337792561e5924124efd20d6fea6bbbd2428b2aa.patch";
hash = "sha256-pz3A/jTPWXXlzr+Yl5PRUvdSAinebFsoExfek4RUHkc=";
})
];
nativeBuildInputs = [
blosc2
cython
sphinx
];
buildInputs = [
bzip2
c-blosc
hdf5
lzo
];
propagatedBuildInputs = [
blosc2
py-cpuinfo
numpy
numexpr
packaging # uses packaging.version at runtime
];
# When doing `make distclean`, ignore docs
postPatch = ''
substituteInPlace Makefile --replace "src doc" "src"
# Force test suite to error when unittest runner fails
substituteInPlace tables/tests/test_suite.py \
--replace "return 0" "assert result.wasSuccessful(); return 0" \
--replace "return 1" "assert result.wasSuccessful(); return 1"
substituteInPlace requirements.txt \
--replace "cython>=0.29.21" "" \
--replace "blosc2~=2.0.0" "blosc2"
'';
# Regenerate C code with Cython
preBuild = ''
make distclean
'';
setupPyBuildFlags = [
"--hdf5=${lib.getDev hdf5}"
"--lzo=${lib.getDev lzo}"
"--bzip2=${lib.getDev bzip2}"
"--blosc=${lib.getDev c-blosc}"
];
nativeCheckInputs = [
pytest
];
preCheck = ''
cd ..
'';
# Runs the light (yet comprehensive) subset of the test suite.
# The whole "heavy" test suite supposedly takes ~4 hours to run.
checkPhase = ''
runHook preCheck
${python.interpreter} -m tables.tests.test_all
runHook postCheck
'';
pythonImportsCheck = [ "tables" ];
meta = with lib; {
description = "Hierarchical datasets for Python";
homepage = "https://www.pytables.org/";
changelog = "https://github.com/PyTables/PyTables/releases/tag/v${version}";
license = licenses.bsd2;
maintainers = with maintainers; [ drewrisinger ];
};
}
|