7192fcfe49
Cherry-picked from Fedora:
1999f77f84
Amended to de-SPDX it.
Amended to package LICENSES_bundled.txt, proposed in:
https://src.fedoraproject.org/rpms/scipy/pull-request/35
Co-Authored-By: Miro Hrončok <miro@hroncok.cz>
285 lines
9.2 KiB
RPMSpec
285 lines
9.2 KiB
RPMSpec
%global __python3 /usr/bin/python3.12
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%global python3_pkgversion 3.12
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# Pythran is an optional build dependency.
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# When used, it makes some modules faster,
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# but it is usually not available soon enough for new major Python versions.
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%bcond_with pythran
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# The code is not safe to build with LTO
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%global _lto_cflags %{nil}
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# Set to pre-release version suffix if building pre-release, else %%{nil}
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%global rcver %{nil}
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%if 0%{?fedora} >= 33 || 0%{?rhel} >= 9
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%global blaslib flexiblas
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%global blasvar %{nil}
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%else
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%global blaslib openblas
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%global blasvar p
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%endif
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%global modname scipy
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Summary: Scientific Tools for Python
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Name: python%{python3_pkgversion}-scipy
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Version: 1.11.1
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Release: 1%{?dist}
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# BSD (3-Clause) -- whole package except:
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# BSD (2-Clause) -- scipy/_lib/_pep440.py
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# scipy/_lib/decorator.py
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# scipy/optimize/lbfgsb_src
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# scipy/special/_ellip_harm.pxd
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# MIT -- scipy/cluster/_optimal_leaf_ordering.pyx
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# scipy/io/_idl.py
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# scipy/linalg/_basic.py (in part)
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# scipy/optimize/_highs
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# scipy/optimize/_lbfgsb_py.py
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# scipy/optimize/_tnc.py
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# scipy/optimize/_trlib
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# scipy/optimize/tnc
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# scipy/special/Faddeeva.{cc,hh}
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# Boost -- scipy/_lib/boost_math
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# scipy/special/cephes
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# Boehm-GC (MIT) -- scipy/sparse/linalg/_dsolve/SuperLU
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# Qhull -- scipy/spatial/qhull_src
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# Public Domain -- scipy/odr/__odrpack.c
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License: BSD and MIT and Boost and Qhull and Public Domain
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Url: http://www.scipy.org/scipylib/index.html
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Source0: https://github.com/scipy/scipy/releases/download/v%{version}/scipy-%{version}.tar.gz
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# Fix build failure with Cython 3 when scipy is already installed
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Patch1: https://github.com/scipy/scipy/commit/3c89445b6439f3ce7bffc4cf11c6407c39faedc5.patch
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BuildRequires: %{blaslib}-devel
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BuildRequires: gcc-gfortran, gcc-c++
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BuildRequires: python%{python3_pkgversion}-pybind11-devel
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BuildRequires: python%{python3_pkgversion}-pybind11 >= 2.4.0
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BuildRequires: python%{python3_pkgversion}-numpy, python%{python3_pkgversion}-devel, python%{python3_pkgversion}-numpy-f2py
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BuildRequires: python%{python3_pkgversion}-rpm-macros
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BuildRequires: python%{python3_pkgversion}-setuptools
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BuildRequires: python%{python3_pkgversion}-Cython
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BuildRequires: python%{python3_pkgversion}-pytest
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%if %{with pythran}
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BuildRequires: pythran
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%endif
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Requires: python%{python3_pkgversion}-numpy, python%{python3_pkgversion}-f2py
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Provides: bundled(arpack) = 3.3.0
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Provides: bundled(biasedurn)
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Provides: bundled(boost-math)
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Provides: bundled(coin-or-HiGHS) = 1.2
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Provides: bundled(Faddeeva)
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Provides: bundled(id)
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Provides: bundled(l-bfgs-b) = 3.0
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Provides: bundled(LAPJVsp)
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Provides: bundled(python3-decorator) = 4.0.5
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Provides: bundled(python3-pep440)
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Provides: bundled(python3-pypocketfft) = bf2c431c21213b7c5e23c2f542009b0bd3ec1445
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Provides: bundled(qhull) = 2019.1
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Provides: bundled(SuperLU) = 5.2.0
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Provides: bundled(unuran) = 1.8.1
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%global _description %{expand:
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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 user-friendly and efficient
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numerical routines such as routines for numerical integration and
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optimization. Together, they run on all popular operating systems, are
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quick to install, and are free of charge. NumPy and SciPy are easy to
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use, but powerful enough to be depended upon by some of the world's
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leading scientists and engineers.}
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%description %_description
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%package -n python%{python3_pkgversion}-scipy-tests
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Summary: Scientific Tools for Python - test files
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Requires: python%{python3_pkgversion}-scipy = %{version}-%{release}
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Requires: python%{python3_pkgversion}-pytest
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%description -n python%{python3_pkgversion}-scipy-tests
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Scipy test files
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%prep
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%autosetup -p1 -n %{modname}-%{version}%{?rcver}
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cat > site.cfg << EOF
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[amd]
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library_dirs = %{_libdir}
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include_dirs = /usr/include/suitesparse
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amd_libs = amd
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[umfpack]
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library_dirs = %{_libdir}
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include_dirs = /usr/include/suitesparse
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umfpack_libs = umfpack
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[openblas]
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libraries = %{blaslib}%{blasvar}
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library_dirs = %{_libdir}
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EOF
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rm $(grep -rl '/\* Generated by Cython') PKG-INFO
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%build
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export SCIPY_USE_PYTHRAN=0%{?with_pythran}
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for PY in %{python3_pkgversion}; do
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# Adding -fallow-argument-mismatch workaround for https://github.com/scipy/scipy/issues/11611
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env CFLAGS="$RPM_OPT_FLAGS -lm" \
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FFLAGS="$RPM_OPT_FLAGS -fPIC -cpp" \
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LDFLAGS="%{__global_ldflags}" \
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%{_bindir}/python$PY setup.py config_fc \
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--fcompiler=gnu95 --noarch \
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build
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done
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%install
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export SCIPY_USE_PYTHRAN=0%{?with_pythran}
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%py3_install
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# Some files got ambiguous python shebangs, we fix them after everything else is done
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%py3_shebang_fix %{buildroot}%{python3_sitearch}
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%check
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# check against the reference BLAS/LAPACK
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export FLEXIBLAS=netlib
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# default test timeout
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TIMEOUT=500
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# https://github.com/scipy/scipy/issues/17912
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SKIP_ALL="\
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not TestDatasets and \
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not TestOde and \
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not TestComplexOde and \
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not TestVODECheckParameterUse and \
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not TestZVODECheckParameterUse and \
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not test_banded_ode_solvers and \
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not test_examples[True-complex64]"
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export PYTEST_ADDOPTS="-k '$SKIP_ALL'"
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# TestConstructUtils::test_concatenate_int32_overflow is flaky on aarch64
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%ifarch aarch64 ppc64le
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# https://bugzilla.redhat.com/show_bug.cgi?id=1959353
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export PYTEST_ADDOPTS="-k '$SKIP_ALL and \
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not test_solve_discrete_are and \
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not test_maxiter_worsening[lgmres] and \
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not test_concatenate_int32_overflow and \
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not test_expm_multiply_dtype'"
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TIMEOUT=1000
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%endif
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%ifarch s390x
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# https://bugzilla.redhat.com/show_bug.cgi?id=1959353
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export PYTEST_ADDOPTS="-k '$SKIP_ALL and \
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not test_solve_discrete_are and \
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not test_maxiter_worsening[lgmres] and \
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not TestInterop and \
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not TestSplder and \
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not test_dblint and \
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not TestUnivariateSpline and \
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not TestLSQBivariateSpline and \
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not TestPPoly and \
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not TestLevyStable and \
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not test_distance_transform_cdt05'"
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TIMEOUT=1000
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%endif
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%ifarch x86_64
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# skip also failing test_sygst for now
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export PYTEST_ADDOPTS="-k '$SKIP_ALL and \
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%{?rhel:not TestPPoly and \
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not TestLinprogIPSparse and \
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not test_axis_nan_policy_full and} \
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not test_sygst'"
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%endif
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%ifarch i686 armv7hl
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# skip also test_cython_api: https://bugzilla.redhat.com/show_bug.cgi?id=2068496
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# https://github.com/scipy/scipy/issues/17213
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export PYTEST_ADDOPTS="-k '$SKIP_ALL and \
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not test_sygst and \
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not test_cython_api and \
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not test_examples and \
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not test_shifts and \
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not test_mu and \
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not test_sum and \
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not test_svdp and \
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not test_resiliency_all_32 and \
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not test_resiliency_random[TestCSC-test_sum_dtype]'"
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%endif
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pushd %{buildroot}/%{python3_sitearch}
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# Ignoring the datasets tests as we don't have the optional pooch
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# dependency on RHEL.
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%{pytest} --ignore=scipy/datasets/tests/test_data.py scipy
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# Remove test remnants
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rm -rf gram{A,B}
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rm -rf scipy/.pytest_cache
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popd
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%files -n python%{python3_pkgversion}-scipy
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%license LICENSE.txt LICENSES_bundled.txt
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%{python3_sitearch}/scipy/
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%{python3_sitearch}/*.egg-info
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%exclude %{python3_sitearch}/scipy/*/tests/
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%exclude %{python3_sitearch}/scipy/*/*/tests/
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%exclude %{python3_sitearch}/scipy/*/*/*/tests/
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%exclude %{python3_sitearch}/scipy/*/*/*/*/tests/
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%files -n python%{python3_pkgversion}-scipy-tests
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%{python3_sitearch}/scipy/*/tests/
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%{python3_sitearch}/scipy/*/*/tests/
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%{python3_sitearch}/scipy/*/*/*/tests/
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%{python3_sitearch}/scipy/*/*/*/*/tests/
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%changelog
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* Thu Nov 09 2023 Charalampos Stratakis <cstratak@redhat.com> - 1.11.1-1
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- Initial package
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- Fedora contributions by:
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Antonio Trande <anto.trande@gmail.com>
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Bill Nottingham <notting@fedoraproject.org>
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Björn Esser <me@besser82.io>
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Charalampos Stratakis <cstratak@redhat.com>
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Christian Dersch <lupinix@mailbox.org>
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David Malcolm <dmalcolm@redhat.com>
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Deji Akingunola <deji@fedoraproject.org>
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Dennis Gilmore <dennis@ausil.us>
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Elliott Sales de Andrade <quantum.analyst@gmail.com>
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Ignacio Vazquez-Abrams <ivazquez@fedoraproject.org>
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Igor Gnatenko <ignatenkobrain@fedoraproject.org>
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Iñaki Úcar <iucar@fedoraproject.org>
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Jef Spaleta <jspaleta@fedoraproject.org>
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Jerry James <loganjerry@gmail.com>
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Jesse Keating <jkeating@fedoraproject.org>
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Jitka Plesnikova <jplesnik@redhat.com>
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Jonathan Wakely <jwakely@redhat.com>
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Jon Ciesla <limb@fedoraproject.org>
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Kalev Lember <klember@redhat.com>
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Kevin Fenzi <kevin@scrye.com>
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Lumir Balhar <lbalhar@redhat.com>
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Mamoru TASAKA <mtasaka@fedoraproject.org>
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Marcel Plch <mplch@redhat.com>
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Miro Hrončok <miro@hroncok.cz>
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Nikola Forró <nforro@redhat.com>
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Nils Philippsen <nils@redhat.com>
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Orion Poplawski <orion@cora.nwra.com>
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Pavel Šimovec <psimovec@redhat.com>
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Peter Robinson <pbrobinson@fedoraproject.org>
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Petr Viktorin <pviktori@redhat.com>
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Robert Kuska <rkuska@redhat.com>
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Than Ngo <than@redhat.com>
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Thomas Spura <thomas.spura@gmail.com>
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Tomas Tomecek <ttomecek@redhat.com>
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Toshio Kuratomi <toshio@fedoraproject.org>
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Troy Dawson <tdawson@fedoraproject.org>
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Yaakov Selkowitz <yselkowi@redhat.com>
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Zbigniew Jędrzejewski-Szmek <zbyszek@in.waw.pl>
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