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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vendored
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## Default LFS
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*.7z filter=lfs diff=lfs merge=lfs -text
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*.bsp filter=lfs diff=lfs merge=lfs -text
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*.bz2 filter=lfs diff=lfs merge=lfs -text
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*.gem filter=lfs diff=lfs merge=lfs -text
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*.gz filter=lfs diff=lfs merge=lfs -text
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*.jar filter=lfs diff=lfs merge=lfs -text
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*.lz filter=lfs diff=lfs merge=lfs -text
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*.lzma filter=lfs diff=lfs merge=lfs -text
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*.obscpio filter=lfs diff=lfs merge=lfs -text
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||||
*.oxt filter=lfs diff=lfs merge=lfs -text
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||||
*.pdf filter=lfs diff=lfs merge=lfs -text
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*.png filter=lfs diff=lfs merge=lfs -text
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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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*.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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*.whl filter=lfs diff=lfs merge=lfs -text
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*.xz filter=lfs diff=lfs merge=lfs -text
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*.zip filter=lfs diff=lfs merge=lfs -text
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*.zst filter=lfs diff=lfs merge=lfs -text
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4
_multibuild
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_multibuild
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<multibuild>
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<package>gnu-hpc</package>
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<package>test</package>
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</multibuild>
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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
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#
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# Copyright (c) 2024 SUSE LLC
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#
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# All modifications and additions to the file contributed by third parties
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||||
# remain the property of their copyright owners, unless otherwise agreed
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# upon. The license for this file, and modifications and additions to the
|
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# 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.
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||||
|
||||
# Please submit bugfixes or comments via https://bugs.opensuse.org/
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#
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||||
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%{?sle15_python_module_pythons}
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%global flavor @BUILD_FLAVOR@%{nil}
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%define _ver 1_11_4
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%define shortname scipy
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%define pname python-%{shortname}
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%define hpc_upcase_trans_hyph() %(echo %{**} | tr [a-z] [A-Z] | tr '-' '_')
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|
||||
%if "%{flavor}" == ""
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%bcond_with hpc
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%ifarch armv6l s390 s390x m68k
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%bcond_with openblas
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%else
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%if 0%{?sle_version} == 120200
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%ifarch i586
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%bcond_with openblas
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%else
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%bcond_without openblas
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%endif
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%else
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%bcond_without openblas
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%endif
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%endif
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%endif
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||||
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%if "%{flavor}" == "test"
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%bcond_with hpc
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%bcond_without test
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%define package_name %{pname}-test
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%else
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%define package_name %{pname}
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%bcond_with test
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%endif
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%if "%{flavor}" == "gnu-hpc"
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%define compiler_family gnu
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%bcond_without hpc
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%undefine c_f_ver
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%endif
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%if "%{flavor}" == "gnu7-hpc"
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%define compiler_family gnu
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%define c_f_ver 7
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%bcond_without hpc
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%endif
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%{?with_hpc:%{hpc_requires}}
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%bcond_with ringdisabled
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%if %{without hpc}
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# for file section
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%define p_python_sitearch %{python_sitearch}
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# for inside python_expand
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%define p_python_sitearch_expand %{$python_sitearch}
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%define p_prefix %{_prefix}
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%define p_bindir %{_bindir}
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%else
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%{!?compiler_family:%global compiler_family gnu}
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%{hpc_init -c %{compiler_family} %{?c_f_ver:-v %{c_f_ver}} %{?ext:-e %{ext}}}
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%define package_name %{hpc_package_name %{_ver}}
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# for file section
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%define p_python_sitearch %{hpc_python_sitearch}
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# for inside python_expand
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%define p_python_sitearch_expand $($python -c "import sysconfig as s; print(s.get_paths(vars={'platbase':'%{hpc_prefix}','base':'%{hpc_prefix}'}).get('platlib'))")
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%define p_prefix %{hpc_prefix}
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%define p_bindir %{hpc_bindir}
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# Magic for OBS Staging. Only build the flavors required by
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# other packages in the ring.
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%if %{with ringdisabled}
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ExclusiveArch: do_not_build
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%endif
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%ifarch armv6l s390 s390x m68k i586
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ExclusiveArch: do_not_build
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%endif
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%{hpc_modules_init openblas}
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%endif
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# TODO explore debundling Boost for standard and hpc
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Name: %{package_name}
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Version: 1.11.4
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Release: 0
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Summary: Scientific Tools for Python
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License: BSD-3-Clause AND LGPL-2.0-or-later AND BSL-1.0
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URL: https://www.scipy.org
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Source0: https://files.pythonhosted.org/packages/source/s/scipy/scipy-%{version}.tar.gz
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# Create with pooch: `python3 scipy-%{version}/scipy/datasets/_download_all.py scipy-datasets/scipy-data; tar czf scipy-datasets.tar.gz scipy-datasets`
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Source1: scipy-datasets.tar.gz
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BuildRequires: %{python_module Cython >= 0.29.32}
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BuildRequires: %{python_module devel >= 3.8}
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BuildRequires: %{python_module meson-python >= 0.9.0}
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||||
BuildRequires: %{python_module pip}
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BuildRequires: %{python_module pybind11 >= 2.4.3}
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BuildRequires: %{python_module pybind11-devel >= 2.4.3}
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||||
BuildRequires: %{python_module pythran >= 0.9.12}
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BuildRequires: %{python_module wheel}
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BuildRequires: fdupes
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BuildRequires: meson >= 0.62.2
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BuildRequires: pkg-config
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BuildRequires: python-rpm-macros >= 20220911
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%if %{with test}
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BuildRequires: %{python_module pooch}
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BuildRequires: %{python_module pytest-timeout}
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BuildRequires: %{python_module pytest-xdist}
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BuildRequires: %{python_module pytest}
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BuildRequires: %{python_module scipy = %{version}}
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BuildRequires: %{python_module threadpoolctl}
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%endif
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%if %{without hpc}
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BuildRequires: %{python_module numpy-devel >= 1.18.5}
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%if 0%{?sle_version} && 0%{?sle_version} <= 150600
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||||
# The default gcc on SLE15 is gcc7 we need something newer
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BuildRequires: gcc10-c++
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BuildRequires: gcc10-fortran
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%else
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BuildRequires: gcc-c++ >= 8
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BuildRequires: gcc-fortran >= 8
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%endif
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Requires: python-numpy >= 1.18.5
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Requires: python-pybind11 >= 2.4.3
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Suggests: python-pooch
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%if %{with openblas}
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BuildRequires: openblas-devel
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%else
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BuildRequires: blas-devel
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BuildRequires: lapack-devel
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%endif
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%else
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BuildRequires: %{compiler_family}%{?c_f_ver}-compilers-hpc-macros-devel >= 1.3
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BuildRequires: %{python_module numpy%{?hpc_ext}-%{compiler_family}%{?c_f_ver}-hpc-devel}
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BuildRequires: libopenblas%{?hpc_ext}-%{compiler_family}%{?c_f_ver}-hpc-devel
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BuildRequires: lua-lmod
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BuildRequires: suse-hpc >= 0.3
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Requires: libopenblas%{?hpc_ext}-%{compiler_family}%{?c_f_ver}-hpc
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Requires: python-numpy%{?hpc_ext}-%{compiler_family}%{?c_f_ver}-hpc >= 1.18.5
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%endif
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%python_subpackages
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%description
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Scipy is open-source software for mathematics, science, and
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engineering. The core library is NumPy which provides convenient and
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fast N-dimensional array manipulation. The SciPy library is built to
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work with NumPy arrays, and provides many numerical routines such as
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for numerical integration and optimization.
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||||
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||||
%{?with_hpc:%{hpc_python_master_package -L -a }}
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||||
%prep
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%autosetup -p1 -n scipy-%{version} -a1
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sed -i '1{/env python/d}' scipy/sparse/linalg/_isolve/tests/test_gcrotmk.py
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chmod a-x scipy/stats/tests/test_distributions.py
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%ifarch i586
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||||
# Limit double floating point precision for x87, triggered by GCC 12.
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%global optflags %(echo "%{optflags} -ffloat-store")
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%endif
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||||
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||||
%if !%{with openblas}
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||||
# Edit the options file until we have a way to provide options to meson-python from command line or environment
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# https://github.com/mesonbuild/meson-python/issues/230 https://github.com/mesonbuild/meson-python/issues/235
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sed -i "s/option('blas', type: 'string', value: 'openblas'/option('blas', type: 'string', value: 'blas'/" meson_options.txt
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sed -i "s/option('lapack', type: 'string', value: 'openblas'/option('lapack', type: 'string', value: 'lapack'/" meson_options.txt
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%endif
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||||
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||||
%if !%{with test}
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||||
%build
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||||
%if 0%{?sle_version} && 0%{?sle_version} <= 150600
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# We need gcc >= 8 for SLE15
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export CC=gcc-10
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export CXX=g++-10
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export FC=gfortran-10
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%endif
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||||
# makes sure that the cython and pythran commands from the correct flavor are in PATH
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||||
%python_flavored_alternatives
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%{python_expand #
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%if %{with hpc}
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py_ver=%{$python_version}
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%hpc_setup
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module load $python-numpy
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%endif
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||||
export CFLAGS="%{optflags} -fno-strict-aliasing"
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||||
%{$python_pyproject_wheel}
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||||
}
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||||
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||||
%install
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||||
%{python_expand #
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%if %{with hpc}
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%hpc_setup
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module load $python-numpy
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%endif
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||||
%{$python_pyproject_install --prefix %{p_prefix}}
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||||
# https://github.com/scipy/scipy/issues/16310, delete in order to avoid rpmlint errors
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||||
rm %{buildroot}%{p_python_sitearch_expand}/scipy/linalg/_blas_subroutines.h
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||||
rm %{buildroot}%{p_python_sitearch_expand}/scipy/linalg/_lapack_subroutines.h
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||||
rm %{buildroot}%{p_python_sitearch_expand}/scipy/special/_ufuncs_cxx_defs.h
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||||
rm %{buildroot}%{p_python_sitearch_expand}/scipy/special/_ufuncs_defs.h
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||||
%fdupes %{buildroot}%{p_python_sitearch_expand}
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||||
}
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||||
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||||
%if %{with hpc}
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||||
%define hpc_module_pname ${python_flavor}-%{shortname}
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||||
%{python_expand #
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||||
rm -rf %{buildroot}%{p_python_sitearch_expand}/scipy/{,core,distutils,f2py,fft,lib,linalg,ma,matrixlib,oldnumeric,polynomial,random,testing}/tests
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||||
%hpc_write_modules_files
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||||
#%%Module1.0#####################################################################
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||||
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||||
proc ModulesHelp { } {
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||||
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||||
puts stderr " "
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||||
puts stderr "This module loads the %{pname} library built with the %{compiler_family} compiler "
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||||
puts stderr "toolchain."
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||||
puts stderr "\nVersion %{version}\n"
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||||
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||||
}
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||||
module-whatis "Name: %{pname} built with %{compiler_family} toolchain."
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||||
module-whatis "Version: %{version}"
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||||
module-whatis "Category: python module"
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||||
module-whatis "Description: %{SUMMARY}"
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||||
module-whatis "URL %{url}"
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||||
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||||
set version %{version}
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||||
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||||
depends-on $python-numpy
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||||
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||||
prepend-path PYTHONPATH ${sitesearch_path}
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||||
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||||
setenv %{hpc_upcase_trans_hyph %{pname}}_DIR %{hpc_prefix}
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||||
setenv %{hpc_upcase_trans_hyph %{pname}}_BIN %{hpc_bindir}
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||||
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||||
family %{shortname}
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||||
EOF
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||||
}
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||||
%endif
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||||
%endif
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||||
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||||
%if %{with test}
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||||
%check
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||||
# pooch cache (extracted SOURCE1)
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||||
export XDG_CACHE_HOME=$PWD/scipy-datasets
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||||
# (occasional) precision errors
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||||
donttest="(TestLinprogIPSpecific and test_solver_select)"
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||||
donttest+=" or test_gh12922"
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||||
donttest+=" or (TestPeriodogram and test_nd_axis_m1)"
|
||||
donttest+=" or (TestPeriodogram and test_nd_axis_0)"
|
||||
donttest+=" or (TestPdist and test_pdist_jensenshannon_iris)"
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||||
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
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||||
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
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||||
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.
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