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{
lib,
stdenv,
fetchPypi,
python,
numpy_1,
pythonAtLeast,
pythonOlder,
buildPythonPackage,
writeTextFile,
# build-system
cython,
gfortran,
meson-python,
mesonEmulatorHook,
pkg-config,
xcbuild,
# native dependencies
blas,
lapack,
# Reverse dependency
sage,
# tests
hypothesis,
pytest-xdist,
pytestCheckHook,
setuptools,
typing-extensions,
}:
assert (!blas.isILP64) && (!lapack.isILP64);
let
cfg = writeTextFile {
name = "site.cfg";
text = lib.generators.toINI { } {
${blas.implementation} = {
include_dirs = "${lib.getDev blas}/include:${lib.getDev lapack}/include";
library_dirs = "${blas}/lib:${lapack}/lib";
runtime_library_dirs = "${blas}/lib:${lapack}/lib";
libraries = "lapack,lapacke,blas,cblas";
};
lapack = {
include_dirs = "${lib.getDev lapack}/include";
library_dirs = "${lapack}/lib";
runtime_library_dirs = "${lapack}/lib";
};
blas = {
include_dirs = "${lib.getDev blas}/include";
library_dirs = "${blas}/lib";
runtime_library_dirs = "${blas}/lib";
};
};
};
in
buildPythonPackage rec {
pname = "numpy";
version = "1.26.4";
pyproject = true;
disabled = pythonOlder "3.9" || pythonAtLeast "3.13";
src = fetchPypi {
inherit pname version;
extension = "tar.gz";
hash = "sha256-KgKrqe0S5KxOs+qUIcQgMBoMZGDZgw10qd+H76SRIBA=";
};
patches =
[
# Disable `numpy/core/tests/test_umath.py::TestComplexFunctions::test_loss_of_precision[complex256]`
# on x86_64-darwin because it fails under Rosetta 2 due to issues with trig functions and
# 80-bit long double complex numbers.
./disable-failing-long-double-test-Rosetta-2.patch
]
# We patch cpython/distutils to fix https://bugs.python.org/issue1222585
# Patching of numpy.distutils is needed to prevent it from undoing the
# patch to distutils.
++ lib.optionals python.hasDistutilsCxxPatch [ ./numpy-distutils-C++.patch ];
postPatch = ''
# fails with multiple errors because we are not using the pinned setuptools version
# see https://github.com/numpy/numpy/blob/v1.25.0/pyproject.toml#L7
# error: option --single-version-externally-managed not recognized
# TypeError: dist must be a Distribution instance
rm numpy/core/tests/test_cython.py
patchShebangs numpy/_build_utils/*.py
# remove needless reference to full Python path stored in built wheel
substituteInPlace numpy/meson.build \
--replace 'py.full_path()' "'python'"
substituteInPlace pyproject.toml \
--replace-fail "meson-python>=0.15.0,<0.16.0" "meson-python"
'';
nativeBuildInputs =
[
cython
gfortran
meson-python
pkg-config
]
++ lib.optionals (stdenv.isDarwin) [ xcbuild.xcrun ]
++ lib.optionals (!stdenv.buildPlatform.canExecute stdenv.hostPlatform) [ mesonEmulatorHook ];
buildInputs = [
blas
lapack
];
# Causes `error: argument unused during compilation: '-fno-strict-overflow'` due to `-Werror`.
hardeningDisable = lib.optionals stdenv.cc.isClang [ "strictoverflow" ];
# we default openblas to build with 64 threads
# if a machine has more than 64 threads, it will segfault
# see https://github.com/OpenMathLib/OpenBLAS/issues/2993
preConfigure = ''
sed -i 's/-faltivec//' numpy/distutils/system_info.py
export OMP_NUM_THREADS=$((NIX_BUILD_CORES > 64 ? 64 : NIX_BUILD_CORES))
'';
# HACK: copy mesonEmulatorHook's flags to the variable used by meson-python
postConfigure = ''
mesonFlags="$mesonFlags ''${mesonFlagsArray[@]}"
'';
preBuild = ''
ln -s ${cfg} site.cfg
'';
enableParallelBuilding = true;
nativeCheckInputs = [
pytest-xdist
pytestCheckHook
hypothesis
setuptools
typing-extensions
];
preCheck = ''
cd "$out"
'';
# https://github.com/numpy/numpy/blob/a277f6210739c11028f281b8495faf7da298dbef/numpy/_pytesttester.py#L180
pytestFlagsArray = [
"-m"
"not\\ slow" # fast test suite
];
# https://github.com/numpy/numpy/issues/24548
disabledTests =
lib.optionals stdenv.isi686 [
"test_new_policy" # AssertionError: assert False
"test_identityless_reduction_huge_array" # ValueError: Maximum allowed dimension exceeded
"test_float_remainder_overflow" # AssertionError: FloatingPointError not raised by divmod
"test_int" # AssertionError: selectedintkind(19): expected 16 but got -1
]
++ lib.optionals stdenv.isAarch32 [
"test_impossible_feature_enable" # AssertionError: Failed to generate error
"test_features" # AssertionError: Failure Detection
"test_new_policy" # AssertionError: assert False
"test_identityless_reduction_huge_array" # ValueError: Maximum allowed dimension exceeded
"test_unary_spurious_fpexception" # AssertionError: Got warnings: [<warnings.WarningMessage object at 0xd1197430>]
"test_int" # AssertionError: selectedintkind(19): expected 16 but got -1
"test_real" # AssertionError: selectedrealkind(16): expected 10 but got -1
"test_quad_precision" # AssertionError: selectedrealkind(32): expected 16 but got -1
"test_big_arrays" # ValueError: array is too big; `arr.size * arr.dtype.itemsize` is larger tha...
"test_multinomial_pvals_float32" # Failed: DID NOT RAISE <class 'ValueError'>
]
++ lib.optionals stdenv.isAarch64 [
"test_big_arrays" # OOM on a 16G machine
]
++ lib.optionals (stdenv.isDarwin && stdenv.isx86_64) [
# can fail on virtualized machines confused over their cpu identity
"test_dispatcher"
];
passthru = {
# just for backwards compatibility
blas = blas.provider;
blasImplementation = blas.implementation;
inherit cfg;
coreIncludeDir = "${numpy_1}/${python.sitePackages}/numpy/core/include";
tests = {
inherit sage;
};
};
# Disable test
# - test_large_file_support: takes a long time and can cause the machine to run out of disk space
env.NOSE_EXCLUDE = "test_large_file_support";
meta = {
changelog = "https://github.com/numpy/numpy/releases/tag/v${version}";
description = "Scientific tools for Python";
mainProgram = "f2py";
homepage = "https://numpy.org/";
license = lib.licenses.bsd3;
};
}
|
