%global modname nipy
%global _docdir_fmt %{name}
Name: python-%{modname}
Version: 0.4.2
Release: 7%{?dist}
Summary: Neuroimaging in Python FMRI analysis package
License: BSD
URL: http://nipy.org/nipy
Source0: https://github.com/nipy/nipy/archive/%{version}/%{modname}-%{version}.tar.gz
BuildRequires: git-core
BuildRequires: gcc
BuildRequires: lapack-devel blas-devel atlas-devel
%description
Neuroimaging tools for Python.
The aim of NIPY is to produce a platform-independent Python environment for the
analysis of functional brain imaging data using an open development model.
%package -n python3-%{modname}
Summary: %{summary}
%{?python_provide:%python_provide python3-%{modname}}
BuildRequires: python3-devel python3-setuptools
BuildRequires: python3-numpy python3-scipy python3-nibabel python3-sympy
BuildRequires: python3-Cython
# Test deps
BuildRequires: python3-nose
BuildRequires: python3-six
BuildRequires: python3-transforms3d
BuildRequires: nipy-data
Requires: python3-configobj
Requires: python3-numpy
Requires: python3-scipy
Requires: python3-nibabel
Requires: python3-sympy
Requires: python3-six
Requires: python3-transforms3d
Requires: python3-matplotlib
Suggests: nipy-data
%description -n python3-%{modname}
Neuroimaging tools for Python.
The aim of NIPY is to produce a platform-independent Python environment for the
analysis of functional brain imaging data using an open development model.
Python 3 version.
%prep
%autosetup -n %{modname}-%{version} -p1 -Sgit
# Hard fix for bundled libs
find -type f -name '*.py' -exec sed -i \
-e "s/from \.*externals.six/from six/" \
-e "s/from nipy.externals.six/from six/" \
-e "s/from nipy.externals import six/import six/" \
-e "s/from nipy.externals.argparse/from argparse/" \
-e "s/import nipy.externals.argparse as argparse/import argparse/" \
-e "s/from \.*externals.transforms3d/from transforms3d/" \
{} ';'
find scripts/ -type f -exec sed -i \
-e "s/from nipy.externals.argparse/from argparse/" \
-e "s/import nipy.externals.argparse as argparse/import argparse/" \
{} ';'
sed -i -e "/config.add_subpackage(.externals.)/d" nipy/setup.py
rm -vrf nipy/externals/
rm -rf lib/lapack_lite/
find examples -type f -name '*.py' -exec sed -i '1{\@^#!/usr/bin/env python@d}' {} ';'
%build
export NIPY_EXTERNAL_LAPACK=1
%py3_build
%install
export NIPY_EXTERNAL_LAPACK=1
%py3_install
find %{buildroot}%{python3_sitearch} -name '*.so' -exec chmod 755 {} ';'
find %{buildroot}%{python3_sitearch}/%{modname}/ -name '*.py' -type f > tmp
while read lib
do
sed -i '1{\@^#!/usr/bin/env python@d}' $lib
done < tmp
rm -f tmp
%check
TESTING_DATA=( \
nipy/testing/functional.nii.gz \
nipy/modalities/fmri/tests/spm_hrfs.mat \
nipy/modalities/fmri/tests/spm_dmtx.npz \
nipy/testing/anatomical.nii.gz \
nipy/algorithms/statistics/models/tests/test_data.bin \
nipy/algorithms/diagnostics/tests/data/tsdiff_results.mat \
nipy/modalities/fmri/tests/spm_bases.mat \
nipy/labs/spatial_models/tests/some_blobs.nii \
nipy/modalities/fmri/tests/cond_test1.txt \
nipy/modalities/fmri/tests/dct_5.txt \
nipy/modalities/fmri/tests/dct_10.txt \
nipy/modalities/fmri/tests/dct_100.txt \
)
# It seems like this is checking some internals of sympy that were changed:
%global skip_tests test_implemented_function
%ifarch s390x
# https://bugzilla.redhat.com/show_bug.cgi?id=1605792#c14
%global skip_tests %{skip_tests} -e test_mahalanobis2 -e test_2D -e test_agreement -e test_spectral_decomposition
%endif
pushd build/lib.*-%{python3_version}
for i in ${TESTING_DATA[@]}
do
mkdir -p ./${i%/*}/
cp -a ../../$i ./$i
done
PATH="%{buildroot}%{_bindir}:$PATH" nosetests-%{python3_version} -v %{?skip_tests:-e %{skip_tests}}
popd
%files -n python3-%{modname}
%license LICENSE
%doc README.rst AUTHOR THANKS examples
%{_bindir}/nipy_3dto4d
%{_bindir}/nipy_4d_realign
%{_bindir}/nipy_4dto3d
%{_bindir}/nipy_diagnose
%{_bindir}/nipy_tsdiffana
%{python3_sitearch}/%{modname}*
%changelog
* Tue May 26 2020 Miro Hrončok <mhroncok@redhat.com> - 0.4.2-7
- Rebuilt for Python 3.9
* Thu Jan 30 2020 Fedora Release Engineering <releng@fedoraproject.org> - 0.4.2-6
- Rebuilt for https://fedoraproject.org/wiki/Fedora_32_Mass_Rebuild
* Thu Oct 03 2019 Miro Hrončok <mhroncok@redhat.com> - 0.4.2-5
- Rebuilt for Python 3.8.0rc1 (#1748018)
* Mon Aug 19 2019 Miro Hrončok <mhroncok@redhat.com> - 0.4.2-4
- Rebuilt for Python 3.8
* Fri Jul 26 2019 Fedora Release Engineering <releng@fedoraproject.org> - 0.4.2-3
- Rebuilt for https://fedoraproject.org/wiki/Fedora_31_Mass_Rebuild
* Sat Feb 02 2019 Fedora Release Engineering <releng@fedoraproject.org> - 0.4.2-2
- Rebuilt for https://fedoraproject.org/wiki/Fedora_30_Mass_Rebuild
* Tue Aug 14 2018 Miro Hrončok <mhroncok@redhat.com> - 0.4.2-1
- Update to 0.4.2
- Remove python2 subpackage
* Sat Jul 14 2018 Fedora Release Engineering <releng@fedoraproject.org> - 0.4.1-7
- Rebuilt for https://fedoraproject.org/wiki/Fedora_29_Mass_Rebuild
* Tue Jun 19 2018 Miro Hrončok <mhroncok@redhat.com> - 0.4.1-6
- Rebuilt for Python 3.7
* Mon Mar 26 2018 Iryna Shcherbina <ishcherb@redhat.com> - 0.4.1-5
- Update Python 2 dependency declarations to new packaging standards
(See https://fedoraproject.org/wiki/FinalizingFedoraSwitchtoPython3)
* Fri Feb 09 2018 Fedora Release Engineering <releng@fedoraproject.org> - 0.4.1-4
- Rebuilt for https://fedoraproject.org/wiki/Fedora_28_Mass_Rebuild
* Thu Aug 03 2017 Fedora Release Engineering <releng@fedoraproject.org> - 0.4.1-3
- Rebuilt for https://fedoraproject.org/wiki/Fedora_27_Binutils_Mass_Rebuild
* Thu Jul 27 2017 Fedora Release Engineering <releng@fedoraproject.org> - 0.4.1-2
- Rebuilt for https://fedoraproject.org/wiki/Fedora_27_Mass_Rebuild
* Sun Feb 12 2017 Zbigniew Jędrzejewski-Szmek <zbyszek@in.waw.pl> - 0.4.1-1
- Update to latest version
* Sat Feb 11 2017 Fedora Release Engineering <releng@fedoraproject.org> - 0.4.0-8
- Rebuilt for https://fedoraproject.org/wiki/Fedora_26_Mass_Rebuild
* Mon Dec 19 2016 Miro Hrončok <mhroncok@redhat.com> - 0.4.0-7
- Rebuild for Python 3.6
* Sat Oct 15 2016 Peter Robinson <pbrobinson@fedoraproject.org> - 0.4.0-6
- rebuilt for matplotlib-2.0.0
* Tue Jul 19 2016 Fedora Release Engineering <rel-eng@lists.fedoraproject.org> - 0.4.0-5
- https://fedoraproject.org/wiki/Changes/Automatic_Provides_for_Python_RPM_Packages
* Thu Feb 04 2016 Fedora Release Engineering <releng@fedoraproject.org> - 0.4.0-4
- Rebuilt for https://fedoraproject.org/wiki/Fedora_24_Mass_Rebuild
* Sun Nov 29 2015 Igor Gnatenko <i.gnatenko.brain@gmail.com> - 0.4.0-3
- Use one directory for building
* Sat Nov 28 2015 Igor Gnatenko <i.gnatenko.brain@gmail.com> - 0.4.0-2
- Do not use obsolete py3dir
- Have only one binary
* Sun Nov 01 2015 Igor Gnatenko <i.gnatenko.brain@gmail.com> - 0.4.0-1
- Initial package