Sync from SUSE:SLFO:Main python-scipy revision f1d5ed61112f27fc01c44c6800750656
This commit is contained in:
commit
ce8155ef5e
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.gitattributes
vendored
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.gitattributes
vendored
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## Default LFS
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||||||
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*.7z filter=lfs diff=lfs merge=lfs -text
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||||||
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*.bsp filter=lfs diff=lfs merge=lfs -text
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||||||
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*.bz2 filter=lfs diff=lfs merge=lfs -text
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||||||
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*.gem filter=lfs diff=lfs merge=lfs -text
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||||||
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*.gz filter=lfs diff=lfs merge=lfs -text
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||||||
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*.jar filter=lfs diff=lfs merge=lfs -text
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||||||
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*.lz filter=lfs diff=lfs merge=lfs -text
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||||||
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*.lzma filter=lfs diff=lfs merge=lfs -text
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||||||
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*.obscpio filter=lfs diff=lfs merge=lfs -text
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||||||
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*.oxt filter=lfs diff=lfs merge=lfs -text
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||||||
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*.pdf filter=lfs diff=lfs merge=lfs -text
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||||||
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*.png filter=lfs diff=lfs merge=lfs -text
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||||||
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*.rpm filter=lfs diff=lfs merge=lfs -text
|
||||||
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*.tbz filter=lfs diff=lfs merge=lfs -text
|
||||||
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*.tbz2 filter=lfs diff=lfs merge=lfs -text
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||||||
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*.tgz filter=lfs diff=lfs merge=lfs -text
|
||||||
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*.ttf filter=lfs diff=lfs merge=lfs -text
|
||||||
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*.txz filter=lfs diff=lfs merge=lfs -text
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||||||
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*.whl filter=lfs diff=lfs merge=lfs -text
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||||||
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*.xz filter=lfs diff=lfs merge=lfs -text
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||||||
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*.zip filter=lfs diff=lfs merge=lfs -text
|
||||||
|
*.zst filter=lfs diff=lfs merge=lfs -text
|
||||||
4
_multibuild
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4
_multibuild
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|||||||
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<multibuild>
|
||||||
|
<package>gnu-hpc</package>
|
||||||
|
<package>test</package>
|
||||||
|
</multibuild>
|
||||||
1867
python-scipy.changes
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1867
python-scipy.changes
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File diff suppressed because it is too large
Load Diff
338
python-scipy.spec
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python-scipy.spec
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|||||||
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#
|
||||||
|
# spec file
|
||||||
|
#
|
||||||
|
# Copyright (c) 2024 SUSE LLC
|
||||||
|
#
|
||||||
|
# All modifications and additions to the file contributed by third parties
|
||||||
|
# remain the property of their copyright owners, unless otherwise agreed
|
||||||
|
# upon. The license for this file, and modifications and additions to the
|
||||||
|
# file, is the same license as for the pristine package itself (unless the
|
||||||
|
# license for the pristine package is not an Open Source License, in which
|
||||||
|
# case the license is the MIT License). An "Open Source License" is a
|
||||||
|
# license that conforms to the Open Source Definition (Version 1.9)
|
||||||
|
# published by the Open Source Initiative.
|
||||||
|
|
||||||
|
# Please submit bugfixes or comments via https://bugs.opensuse.org/
|
||||||
|
#
|
||||||
|
|
||||||
|
|
||||||
|
%{?sle15_python_module_pythons}
|
||||||
|
%global flavor @BUILD_FLAVOR@%{nil}
|
||||||
|
%define _ver 1_11_4
|
||||||
|
%define shortname scipy
|
||||||
|
%define pname python-%{shortname}
|
||||||
|
%define hpc_upcase_trans_hyph() %(echo %{**} | tr [a-z] [A-Z] | tr '-' '_')
|
||||||
|
|
||||||
|
%if "%{flavor}" == ""
|
||||||
|
%bcond_with hpc
|
||||||
|
%ifarch armv6l s390 s390x m68k
|
||||||
|
%bcond_with openblas
|
||||||
|
%else
|
||||||
|
%if 0%{?sle_version} == 120200
|
||||||
|
%ifarch i586
|
||||||
|
%bcond_with openblas
|
||||||
|
%else
|
||||||
|
%bcond_without openblas
|
||||||
|
%endif
|
||||||
|
%else
|
||||||
|
%bcond_without openblas
|
||||||
|
%endif
|
||||||
|
%endif
|
||||||
|
%endif
|
||||||
|
|
||||||
|
%if "%{flavor}" == "test"
|
||||||
|
%bcond_with hpc
|
||||||
|
%bcond_without test
|
||||||
|
%define package_name %{pname}-test
|
||||||
|
%else
|
||||||
|
%define package_name %{pname}
|
||||||
|
%bcond_with test
|
||||||
|
%endif
|
||||||
|
|
||||||
|
%if "%{flavor}" == "gnu-hpc"
|
||||||
|
%define compiler_family gnu
|
||||||
|
%bcond_without hpc
|
||||||
|
%undefine c_f_ver
|
||||||
|
%endif
|
||||||
|
%if "%{flavor}" == "gnu7-hpc"
|
||||||
|
%define compiler_family gnu
|
||||||
|
%define c_f_ver 7
|
||||||
|
%bcond_without hpc
|
||||||
|
%endif
|
||||||
|
|
||||||
|
%{?with_hpc:%{hpc_requires}}
|
||||||
|
%bcond_with ringdisabled
|
||||||
|
%if %{without hpc}
|
||||||
|
# for file section
|
||||||
|
%define p_python_sitearch %{python_sitearch}
|
||||||
|
# for inside python_expand
|
||||||
|
%define p_python_sitearch_expand %{$python_sitearch}
|
||||||
|
%define p_prefix %{_prefix}
|
||||||
|
%define p_bindir %{_bindir}
|
||||||
|
%else
|
||||||
|
%{!?compiler_family:%global compiler_family gnu}
|
||||||
|
%{hpc_init -c %{compiler_family} %{?c_f_ver:-v %{c_f_ver}} %{?ext:-e %{ext}}}
|
||||||
|
%define package_name %{hpc_package_name %{_ver}}
|
||||||
|
# for file section
|
||||||
|
%define p_python_sitearch %{hpc_python_sitearch}
|
||||||
|
# for inside python_expand
|
||||||
|
%define p_python_sitearch_expand $($python -c "import sysconfig as s; print(s.get_paths(vars={'platbase':'%{hpc_prefix}','base':'%{hpc_prefix}'}).get('platlib'))")
|
||||||
|
%define p_prefix %{hpc_prefix}
|
||||||
|
%define p_bindir %{hpc_bindir}
|
||||||
|
# Magic for OBS Staging. Only build the flavors required by
|
||||||
|
# other packages in the ring.
|
||||||
|
%if %{with ringdisabled}
|
||||||
|
ExclusiveArch: do_not_build
|
||||||
|
%endif
|
||||||
|
%ifarch armv6l s390 s390x m68k i586
|
||||||
|
ExclusiveArch: do_not_build
|
||||||
|
%endif
|
||||||
|
%{hpc_modules_init openblas}
|
||||||
|
%endif
|
||||||
|
|
||||||
|
# TODO explore debundling Boost for standard and hpc
|
||||||
|
|
||||||
|
Name: %{package_name}
|
||||||
|
Version: 1.11.4
|
||||||
|
Release: 0
|
||||||
|
Summary: Scientific Tools for Python
|
||||||
|
License: BSD-3-Clause AND LGPL-2.0-or-later AND BSL-1.0
|
||||||
|
URL: https://www.scipy.org
|
||||||
|
Source0: https://files.pythonhosted.org/packages/source/s/scipy/scipy-%{version}.tar.gz
|
||||||
|
# Create with pooch: `python3 scipy-%{version}/scipy/datasets/_download_all.py scipy-datasets/scipy-data; tar czf scipy-datasets.tar.gz scipy-datasets`
|
||||||
|
Source1: scipy-datasets.tar.gz
|
||||||
|
BuildRequires: %{python_module Cython >= 0.29.32}
|
||||||
|
BuildRequires: %{python_module devel >= 3.8}
|
||||||
|
BuildRequires: %{python_module meson-python >= 0.9.0}
|
||||||
|
BuildRequires: %{python_module pip}
|
||||||
|
BuildRequires: %{python_module pybind11 >= 2.4.3}
|
||||||
|
BuildRequires: %{python_module pybind11-devel >= 2.4.3}
|
||||||
|
BuildRequires: %{python_module pythran >= 0.9.12}
|
||||||
|
BuildRequires: %{python_module wheel}
|
||||||
|
BuildRequires: fdupes
|
||||||
|
BuildRequires: meson >= 0.62.2
|
||||||
|
BuildRequires: pkg-config
|
||||||
|
BuildRequires: python-rpm-macros >= 20220911
|
||||||
|
%if %{with test}
|
||||||
|
BuildRequires: %{python_module pooch}
|
||||||
|
BuildRequires: %{python_module pytest-timeout}
|
||||||
|
BuildRequires: %{python_module pytest-xdist}
|
||||||
|
BuildRequires: %{python_module pytest}
|
||||||
|
BuildRequires: %{python_module scipy = %{version}}
|
||||||
|
BuildRequires: %{python_module threadpoolctl}
|
||||||
|
%endif
|
||||||
|
%if %{without hpc}
|
||||||
|
BuildRequires: %{python_module numpy-devel >= 1.18.5}
|
||||||
|
%if 0%{?sle_version} && 0%{?sle_version} <= 150600
|
||||||
|
# The default gcc on SLE15 is gcc7 we need something newer
|
||||||
|
BuildRequires: gcc10-c++
|
||||||
|
BuildRequires: gcc10-fortran
|
||||||
|
%else
|
||||||
|
BuildRequires: gcc-c++ >= 8
|
||||||
|
BuildRequires: gcc-fortran >= 8
|
||||||
|
%endif
|
||||||
|
Requires: python-numpy >= 1.18.5
|
||||||
|
Requires: python-pybind11 >= 2.4.3
|
||||||
|
Suggests: python-pooch
|
||||||
|
%if %{with openblas}
|
||||||
|
BuildRequires: openblas-devel
|
||||||
|
%else
|
||||||
|
BuildRequires: blas-devel
|
||||||
|
BuildRequires: lapack-devel
|
||||||
|
%endif
|
||||||
|
%else
|
||||||
|
BuildRequires: %{compiler_family}%{?c_f_ver}-compilers-hpc-macros-devel >= 1.3
|
||||||
|
BuildRequires: %{python_module numpy%{?hpc_ext}-%{compiler_family}%{?c_f_ver}-hpc-devel}
|
||||||
|
BuildRequires: libopenblas%{?hpc_ext}-%{compiler_family}%{?c_f_ver}-hpc-devel
|
||||||
|
BuildRequires: lua-lmod
|
||||||
|
BuildRequires: suse-hpc >= 0.3
|
||||||
|
Requires: libopenblas%{?hpc_ext}-%{compiler_family}%{?c_f_ver}-hpc
|
||||||
|
Requires: python-numpy%{?hpc_ext}-%{compiler_family}%{?c_f_ver}-hpc >= 1.18.5
|
||||||
|
%endif
|
||||||
|
%python_subpackages
|
||||||
|
|
||||||
|
%description
|
||||||
|
Scipy is open-source software for mathematics, science, and
|
||||||
|
engineering. The core library is NumPy which provides convenient and
|
||||||
|
fast N-dimensional array manipulation. The SciPy library is built to
|
||||||
|
work with NumPy arrays, and provides many numerical routines such as
|
||||||
|
for numerical integration and optimization.
|
||||||
|
|
||||||
|
%{?with_hpc:%{hpc_python_master_package -L -a }}
|
||||||
|
|
||||||
|
%prep
|
||||||
|
%autosetup -p1 -n scipy-%{version} -a1
|
||||||
|
sed -i '1{/env python/d}' scipy/sparse/linalg/_isolve/tests/test_gcrotmk.py
|
||||||
|
chmod a-x scipy/stats/tests/test_distributions.py
|
||||||
|
|
||||||
|
%ifarch i586
|
||||||
|
# Limit double floating point precision for x87, triggered by GCC 12.
|
||||||
|
%global optflags %(echo "%{optflags} -ffloat-store")
|
||||||
|
%endif
|
||||||
|
|
||||||
|
%if !%{with openblas}
|
||||||
|
# Edit the options file until we have a way to provide options to meson-python from command line or environment
|
||||||
|
# https://github.com/mesonbuild/meson-python/issues/230 https://github.com/mesonbuild/meson-python/issues/235
|
||||||
|
sed -i "s/option('blas', type: 'string', value: 'openblas'/option('blas', type: 'string', value: 'blas'/" meson_options.txt
|
||||||
|
sed -i "s/option('lapack', type: 'string', value: 'openblas'/option('lapack', type: 'string', value: 'lapack'/" meson_options.txt
|
||||||
|
%endif
|
||||||
|
|
||||||
|
%if !%{with test}
|
||||||
|
%build
|
||||||
|
%if 0%{?sle_version} && 0%{?sle_version} <= 150600
|
||||||
|
# We need gcc >= 8 for SLE15
|
||||||
|
export CC=gcc-10
|
||||||
|
export CXX=g++-10
|
||||||
|
export FC=gfortran-10
|
||||||
|
%endif
|
||||||
|
# makes sure that the cython and pythran commands from the correct flavor are in PATH
|
||||||
|
%python_flavored_alternatives
|
||||||
|
%{python_expand #
|
||||||
|
%if %{with hpc}
|
||||||
|
py_ver=%{$python_version}
|
||||||
|
%hpc_setup
|
||||||
|
module load $python-numpy
|
||||||
|
%endif
|
||||||
|
export CFLAGS="%{optflags} -fno-strict-aliasing"
|
||||||
|
%{$python_pyproject_wheel}
|
||||||
|
}
|
||||||
|
|
||||||
|
%install
|
||||||
|
%{python_expand #
|
||||||
|
%if %{with hpc}
|
||||||
|
%hpc_setup
|
||||||
|
module load $python-numpy
|
||||||
|
%endif
|
||||||
|
%{$python_pyproject_install --prefix %{p_prefix}}
|
||||||
|
# https://github.com/scipy/scipy/issues/16310, delete in order to avoid rpmlint errors
|
||||||
|
rm %{buildroot}%{p_python_sitearch_expand}/scipy/linalg/_blas_subroutines.h
|
||||||
|
rm %{buildroot}%{p_python_sitearch_expand}/scipy/linalg/_lapack_subroutines.h
|
||||||
|
rm %{buildroot}%{p_python_sitearch_expand}/scipy/special/_ufuncs_cxx_defs.h
|
||||||
|
rm %{buildroot}%{p_python_sitearch_expand}/scipy/special/_ufuncs_defs.h
|
||||||
|
%fdupes %{buildroot}%{p_python_sitearch_expand}
|
||||||
|
}
|
||||||
|
|
||||||
|
%if %{with hpc}
|
||||||
|
%define hpc_module_pname ${python_flavor}-%{shortname}
|
||||||
|
%{python_expand #
|
||||||
|
rm -rf %{buildroot}%{p_python_sitearch_expand}/scipy/{,core,distutils,f2py,fft,lib,linalg,ma,matrixlib,oldnumeric,polynomial,random,testing}/tests
|
||||||
|
%hpc_write_modules_files
|
||||||
|
#%%Module1.0#####################################################################
|
||||||
|
|
||||||
|
proc ModulesHelp { } {
|
||||||
|
|
||||||
|
puts stderr " "
|
||||||
|
puts stderr "This module loads the %{pname} library built with the %{compiler_family} compiler "
|
||||||
|
puts stderr "toolchain."
|
||||||
|
puts stderr "\nVersion %{version}\n"
|
||||||
|
|
||||||
|
}
|
||||||
|
module-whatis "Name: %{pname} built with %{compiler_family} toolchain."
|
||||||
|
module-whatis "Version: %{version}"
|
||||||
|
module-whatis "Category: python module"
|
||||||
|
module-whatis "Description: %{SUMMARY}"
|
||||||
|
module-whatis "URL %{url}"
|
||||||
|
|
||||||
|
set version %{version}
|
||||||
|
|
||||||
|
depends-on $python-numpy
|
||||||
|
|
||||||
|
prepend-path PYTHONPATH ${sitesearch_path}
|
||||||
|
|
||||||
|
setenv %{hpc_upcase_trans_hyph %{pname}}_DIR %{hpc_prefix}
|
||||||
|
setenv %{hpc_upcase_trans_hyph %{pname}}_BIN %{hpc_bindir}
|
||||||
|
|
||||||
|
family %{shortname}
|
||||||
|
EOF
|
||||||
|
}
|
||||||
|
%endif
|
||||||
|
%endif
|
||||||
|
|
||||||
|
%if %{with test}
|
||||||
|
%check
|
||||||
|
# pooch cache (extracted SOURCE1)
|
||||||
|
export XDG_CACHE_HOME=$PWD/scipy-datasets
|
||||||
|
# (occasional) precision errors
|
||||||
|
donttest="(TestLinprogIPSpecific and test_solver_select)"
|
||||||
|
donttest+=" or test_gh12922"
|
||||||
|
donttest+=" or (TestPeriodogram and test_nd_axis_m1)"
|
||||||
|
donttest+=" or (TestPeriodogram and test_nd_axis_0)"
|
||||||
|
donttest+=" or (TestPdist and test_pdist_jensenshannon_iris)"
|
||||||
|
donttest+=" or (test_rotation and test_align_vectors_single_vector)"
|
||||||
|
donttest+=" or (test_lobpcg and test_tolerance_float32)"
|
||||||
|
donttest+=" or (test_iterative and test_maxiter_worsening)"
|
||||||
|
donttest+=" or (test_resampling and test_bootstrap_alternative)"
|
||||||
|
%ifarch %ix86
|
||||||
|
donttest+=" or (test_solvers and test_solve_generalized_discrete_are)"
|
||||||
|
# Skip the following tests that fail with GCC 13 due to the excess precision change:
|
||||||
|
# https://gcc.gnu.org/gcc-13/porting_to.html#excess-precision
|
||||||
|
donttest+=" or (test_fitpack or test_fitpack2 or test_splint or test_integrate or test_boost)"
|
||||||
|
%endif
|
||||||
|
# fails on big endian
|
||||||
|
donttest+=" or (TestNoData and test_nodata)"
|
||||||
|
# oom
|
||||||
|
donttest+=" or (TestBSR and test_scalar_idx_dtype)"
|
||||||
|
# error while getting entropy
|
||||||
|
donttest+=" or (test_cont_basic and 500-200-ncf-arg74)"
|
||||||
|
# https://github.com/scipy/scipy/issues/16927
|
||||||
|
donttest+=" or (test_lobpcg and test_failure_to_run_iterations)"
|
||||||
|
%ifarch %ix86 %arm
|
||||||
|
# fails on 32bit
|
||||||
|
mark32bit="or xfail_on_32bit"
|
||||||
|
# precision errors
|
||||||
|
donttest+=" or (test_peak_finding and TestFindPeaksCwt and test_find_peaks_exact)"
|
||||||
|
donttest+=" or (test_peak_finding and TestFindPeaksCwt and test_find_peaks_withnoise)"
|
||||||
|
donttest+=" or (test_iterative and test_x0_equals_Mb and bicgstab)"
|
||||||
|
donttest+=" or (test_orthogonal and test_roots_gegenbauer)"
|
||||||
|
donttest+=" or (test_discrete_basic and test_rv_sample)"
|
||||||
|
donttest+=" or (test_distributions and TestLevyStable and nolan_samples and pct_range0-alpha_range0-beta_range0)"
|
||||||
|
donttest+=" or (test_distributions and TestLevyStable and test_location_scale and pdf)"
|
||||||
|
donttest+=" or (test_data and test_boost and (betainc or btdtr))"
|
||||||
|
donttest+=" or (test_mstats_basic and test_skewtest_2D_WithMask)"
|
||||||
|
%endif
|
||||||
|
%ifarch %ix86
|
||||||
|
# illegal instruction (?)
|
||||||
|
donttest+=" or (test_fftlog and test_fht_identity)"
|
||||||
|
%endif
|
||||||
|
%ifarch %arm
|
||||||
|
donttest+=" or (test_cython_api and eval_sh_chebyt)"
|
||||||
|
donttest+=" or (test_stats_boost_ufunc)"
|
||||||
|
%endif
|
||||||
|
|
||||||
|
%ifarch s390x
|
||||||
|
# gh#scipy/scipy#18878
|
||||||
|
donttest+=" or (test_distance_transform_cdt05)"
|
||||||
|
donttest+=" or (test_svd_maxiter)"
|
||||||
|
%endif
|
||||||
|
|
||||||
|
# not enough precison on 32 bits
|
||||||
|
if [ $(getconf LONG_BIT) -eq 32 ]; then
|
||||||
|
donttest+=" or (TestCheby1 and test_basic)"
|
||||||
|
fi
|
||||||
|
mv scipy scipy.dont-import-me
|
||||||
|
%pytest_arch --pyargs scipy -n auto -m "not (slow or xslow $mark32bit)" -k "not ($donttest)"
|
||||||
|
# prevent failing debuginfo extraction because we did not create anything for testing
|
||||||
|
touch debugsourcefiles.list
|
||||||
|
%endif
|
||||||
|
|
||||||
|
%if !%{with test}
|
||||||
|
%if %{with hpc}
|
||||||
|
%post
|
||||||
|
%{hpc_module_delete_if_default}
|
||||||
|
%endif
|
||||||
|
|
||||||
|
%files %{python_files}
|
||||||
|
%license LICENSE.txt
|
||||||
|
%{p_python_sitearch}/scipy/
|
||||||
|
%{p_python_sitearch}/scipy-%{version}*-info
|
||||||
|
|
||||||
|
%if %{with hpc}
|
||||||
|
%define hpc_module_pname %{python_flavor}-scipy
|
||||||
|
%{hpc_modules_files}
|
||||||
|
%{hpc_dirs}
|
||||||
|
%dir %{hpc_libdir}/python%{hpc_python_version}
|
||||||
|
%dir %{p_python_sitearch}
|
||||||
|
%endif
|
||||||
|
%endif
|
||||||
|
|
||||||
|
%changelog
|
||||||
BIN
scipy-1.11.4.tar.gz
(Stored with Git LFS)
Normal file
BIN
scipy-1.11.4.tar.gz
(Stored with Git LFS)
Normal file
Binary file not shown.
BIN
scipy-datasets.tar.gz
(Stored with Git LFS)
Normal file
BIN
scipy-datasets.tar.gz
(Stored with Git LFS)
Normal file
Binary file not shown.
Loading…
Reference in New Issue
Block a user