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{ lib
, python
, buildPythonPackage
, fetchFromGitHub
, cython
, pybind11
, tiledb
, numpy
, wheel
, isPy3k
, setuptools-scm
, psutil
, pandas
}:
buildPythonPackage rec {
pname = "tiledb";
version = "0.26.2";
format = "setuptools";
src = fetchFromGitHub {
owner = "TileDB-Inc";
repo = "TileDB-Py";
rev = "refs/tags/${version}";
hash = "sha256-8c1l4zoD44SjaOUXlFUSho/y7oMNOEVM9ZlnRs1irV8=";
};
nativeBuildInputs = [
cython
pybind11
setuptools-scm
];
buildInputs = [
tiledb
];
propagatedBuildInputs = [
numpy
wheel # No idea why but it is listed
];
nativeCheckInputs = [
psutil
# optional
pandas
];
TILEDB_PATH = tiledb;
disabled = !isPy3k; # Not bothering with python2 anymore
postPatch = ''
# Hardcode path to shared object
substituteInPlace tiledb/__init__.py --replace \
'os.path.join(lib_dir, lib_name)' 'os.path.join("${tiledb}/lib", lib_name)'
# Disable failing test
substituteInPlace tiledb/tests/test_examples.py --replace \
"test_docs" "dont_test_docs"
# these tests don't always fail
substituteInPlace tiledb/tests/test_libtiledb.py --replace \
"test_varlen_write_int_subarray" "dont_test_varlen_write_int_subarray" \
--replace "test_memory_cleanup" "dont_test_memory_cleanup" \
--replace "test_ctx_thread_cleanup" "dont_test_ctx_thread_cleanup"
substituteInPlace tiledb/tests/test_metadata.py --replace \
"test_metadata_consecutive" "dont_test_metadata_consecutive"
'';
checkPhase = ''
pushd "$TMPDIR"
${python.interpreter} -m unittest tiledb.tests.all.suite_test
popd
'';
pythonImportsCheck = [ "tiledb" ];
meta = with lib; {
description = "Python interface to the TileDB storage manager";
homepage = "https://github.com/TileDB-Inc/TileDB-Py";
license = licenses.mit;
# tiledb/core.cc:556:30: error: ‘struct std::array<long unsigned int, 2>’ has no member named ‘second’
broken = true;
};
}
|
