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@@ -0,0 +1 @@ +/bctpy-0.6.0.tar.gz diff --git a/python-bctpy.spec b/python-bctpy.spec new file mode 100644 index 0000000..65243f3 --- /dev/null +++ b/python-bctpy.spec @@ -0,0 +1,300 @@ +%global _empty_manifest_terminate_build 0 +Name: python-bctpy +Version: 0.6.0 +Release: 1 +Summary: Brain Connectivity Toolbox for Python +License: Visuddhimagga Sutta; GPLv3+ +URL: https://github.com/aestrivex/bctpy +Source0: https://mirrors.nju.edu.cn/pypi/web/packages/fa/45/5dd7980f7dc614e6afd6585938ea191d0aa9287df9b24324b6fd06d853ee/bctpy-0.6.0.tar.gz +BuildArch: noarch + + +%description +# Brain Connectivity Toolbox for Python version 0.6.0 + +Author: Roan LaPlante <rlaplant@nmr.mgh.harvard.edu> + +Tested against python 2.7 and 3.9. + +## Copyright information + +This program strictly observes the tenets of fundamentalist Theravada Mahasi +style Buddhism. Any use of this program in violation of these aforementioned +tenets or in violation of the principles described in the Visuddhimagga Sutta +is strictly prohibited and punishable by extensive Mahayana style practice. +By being or not being mindful of the immediate present moment sensations +involved in the use of this program, you confer your acceptance of these terms +and conditions. + +Note that the observation of the tenets of fundamentalist Theravada Mahasi +style Buddhism and the Visuddhimagga Sutta is optional as long as the terms and +conditions of the GNU GPLv3+ are upheld. + +## Packages used + +BCTPY is written in pure python and requires only `scipy` and `numpy`. `scipy` is required for a couple of functions for its statistical and linear algebra +packages which have some features not available in `numpy` alone. If you don't +have `scipy`, most functions that do not need `scipy` functionality will still work. + +Note that graphs must be passed in as `numpy.array` rather than `numpy.matrix`. Other constraints/edge cases of the adjacency matrices (e.g. self-loops, negative weights) behave similarly to the matlab functions. + +A small number of functions also depend on networkx. This notably includes Network-Based Statistic, a nonparametric test for differences in undirected weighted graphs from different populations. Ideally this dependency should be removed in the future. + +Nosetests is used for the test suite. The test suite is not complete. + +## About `bctpy` and other authors + +BCT is a matlab toolbox with many graph theoretical measures off of which `bctpy` +is based. I did not write BCT (apart from small bugfixes I have submitted) +and a quality of life improvements that I have taken liberties to add. +With few exceptions, `bctpy` is a direct translation of matlab code to python. + +`bctpy` should be considered beta software, with BCT being the gold standard by +comparison. I did my best to test all functionality in `bctpy`, but much of it is +arcane math that flies over the head of this humble programmer. There *are* +bugs lurking in `bctpy`, the question is not whether but how many. If you locate +bugs, please consider submitting pull requests. + +Many thanks to Stefan Fuertinger for his assistance tracking down a number of +bugs. Stefan Fuertinger has a similar software package dealing with brain +network functionality at http://research.mssm.edu/simonyanlab/analytical-tools/ + +Many thanks to Chris Barnes for his assistance in documenting a number of issues and facilitating a number of test cases. + +Credit for writing BCT (the matlab version) goes to the following list of +authors, especially Olaf Sporns and Mika Rubinov. + +- Olaf Sporns +- Mikail Rubinov +- Yusuke Adachi +- Andrea Avena +- Danielle Bassett +- Richard Betzel +- Joaquin Goni +- Alexandros Goulas +- Patric Hagmann +- Christopher Honey +- Martijn van den Heuvel +- Rolf Kotter +- Jonathan Power +- Murray Shanahan +- Andrew Zalesky + +In order to be a bit more compact I have removed the accreditations from the +docstrings each functions. This does not in any way mean that I wish to take +credit from the individual contributions. I have moved these accreditations +to the credits file. + + + + +%package -n python3-bctpy +Summary: Brain Connectivity Toolbox for Python +Provides: python-bctpy +BuildRequires: python3-devel +BuildRequires: python3-setuptools +BuildRequires: python3-pip +%description -n python3-bctpy +# Brain Connectivity Toolbox for Python version 0.6.0 + +Author: Roan LaPlante <rlaplant@nmr.mgh.harvard.edu> + +Tested against python 2.7 and 3.9. + +## Copyright information + +This program strictly observes the tenets of fundamentalist Theravada Mahasi +style Buddhism. Any use of this program in violation of these aforementioned +tenets or in violation of the principles described in the Visuddhimagga Sutta +is strictly prohibited and punishable by extensive Mahayana style practice. +By being or not being mindful of the immediate present moment sensations +involved in the use of this program, you confer your acceptance of these terms +and conditions. + +Note that the observation of the tenets of fundamentalist Theravada Mahasi +style Buddhism and the Visuddhimagga Sutta is optional as long as the terms and +conditions of the GNU GPLv3+ are upheld. + +## Packages used + +BCTPY is written in pure python and requires only `scipy` and `numpy`. `scipy` is required for a couple of functions for its statistical and linear algebra +packages which have some features not available in `numpy` alone. If you don't +have `scipy`, most functions that do not need `scipy` functionality will still work. + +Note that graphs must be passed in as `numpy.array` rather than `numpy.matrix`. Other constraints/edge cases of the adjacency matrices (e.g. self-loops, negative weights) behave similarly to the matlab functions. + +A small number of functions also depend on networkx. This notably includes Network-Based Statistic, a nonparametric test for differences in undirected weighted graphs from different populations. Ideally this dependency should be removed in the future. + +Nosetests is used for the test suite. The test suite is not complete. + +## About `bctpy` and other authors + +BCT is a matlab toolbox with many graph theoretical measures off of which `bctpy` +is based. I did not write BCT (apart from small bugfixes I have submitted) +and a quality of life improvements that I have taken liberties to add. +With few exceptions, `bctpy` is a direct translation of matlab code to python. + +`bctpy` should be considered beta software, with BCT being the gold standard by +comparison. I did my best to test all functionality in `bctpy`, but much of it is +arcane math that flies over the head of this humble programmer. There *are* +bugs lurking in `bctpy`, the question is not whether but how many. If you locate +bugs, please consider submitting pull requests. + +Many thanks to Stefan Fuertinger for his assistance tracking down a number of +bugs. Stefan Fuertinger has a similar software package dealing with brain +network functionality at http://research.mssm.edu/simonyanlab/analytical-tools/ + +Many thanks to Chris Barnes for his assistance in documenting a number of issues and facilitating a number of test cases. + +Credit for writing BCT (the matlab version) goes to the following list of +authors, especially Olaf Sporns and Mika Rubinov. + +- Olaf Sporns +- Mikail Rubinov +- Yusuke Adachi +- Andrea Avena +- Danielle Bassett +- Richard Betzel +- Joaquin Goni +- Alexandros Goulas +- Patric Hagmann +- Christopher Honey +- Martijn van den Heuvel +- Rolf Kotter +- Jonathan Power +- Murray Shanahan +- Andrew Zalesky + +In order to be a bit more compact I have removed the accreditations from the +docstrings each functions. This does not in any way mean that I wish to take +credit from the individual contributions. I have moved these accreditations +to the credits file. + + + + +%package help +Summary: Development documents and examples for bctpy +Provides: python3-bctpy-doc +%description help +# Brain Connectivity Toolbox for Python version 0.6.0 + +Author: Roan LaPlante <rlaplant@nmr.mgh.harvard.edu> + +Tested against python 2.7 and 3.9. + +## Copyright information + +This program strictly observes the tenets of fundamentalist Theravada Mahasi +style Buddhism. Any use of this program in violation of these aforementioned +tenets or in violation of the principles described in the Visuddhimagga Sutta +is strictly prohibited and punishable by extensive Mahayana style practice. +By being or not being mindful of the immediate present moment sensations +involved in the use of this program, you confer your acceptance of these terms +and conditions. + +Note that the observation of the tenets of fundamentalist Theravada Mahasi +style Buddhism and the Visuddhimagga Sutta is optional as long as the terms and +conditions of the GNU GPLv3+ are upheld. + +## Packages used + +BCTPY is written in pure python and requires only `scipy` and `numpy`. `scipy` is required for a couple of functions for its statistical and linear algebra +packages which have some features not available in `numpy` alone. If you don't +have `scipy`, most functions that do not need `scipy` functionality will still work. + +Note that graphs must be passed in as `numpy.array` rather than `numpy.matrix`. Other constraints/edge cases of the adjacency matrices (e.g. self-loops, negative weights) behave similarly to the matlab functions. + +A small number of functions also depend on networkx. This notably includes Network-Based Statistic, a nonparametric test for differences in undirected weighted graphs from different populations. Ideally this dependency should be removed in the future. + +Nosetests is used for the test suite. The test suite is not complete. + +## About `bctpy` and other authors + +BCT is a matlab toolbox with many graph theoretical measures off of which `bctpy` +is based. I did not write BCT (apart from small bugfixes I have submitted) +and a quality of life improvements that I have taken liberties to add. +With few exceptions, `bctpy` is a direct translation of matlab code to python. + +`bctpy` should be considered beta software, with BCT being the gold standard by +comparison. I did my best to test all functionality in `bctpy`, but much of it is +arcane math that flies over the head of this humble programmer. There *are* +bugs lurking in `bctpy`, the question is not whether but how many. If you locate +bugs, please consider submitting pull requests. + +Many thanks to Stefan Fuertinger for his assistance tracking down a number of +bugs. Stefan Fuertinger has a similar software package dealing with brain +network functionality at http://research.mssm.edu/simonyanlab/analytical-tools/ + +Many thanks to Chris Barnes for his assistance in documenting a number of issues and facilitating a number of test cases. + +Credit for writing BCT (the matlab version) goes to the following list of +authors, especially Olaf Sporns and Mika Rubinov. + +- Olaf Sporns +- Mikail Rubinov +- Yusuke Adachi +- Andrea Avena +- Danielle Bassett +- Richard Betzel +- Joaquin Goni +- Alexandros Goulas +- Patric Hagmann +- Christopher Honey +- Martijn van den Heuvel +- Rolf Kotter +- Jonathan Power +- Murray Shanahan +- Andrew Zalesky + +In order to be a bit more compact I have removed the accreditations from the +docstrings each functions. This does not in any way mean that I wish to take +credit from the individual contributions. I have moved these accreditations +to the credits file. + + + + +%prep +%autosetup -n bctpy-0.6.0 + +%build +%py3_build + +%install +%py3_install +install -d -m755 %{buildroot}/%{_pkgdocdir} +if [ -d doc ]; then cp -arf doc %{buildroot}/%{_pkgdocdir}; fi +if [ -d docs ]; then cp -arf docs %{buildroot}/%{_pkgdocdir}; fi +if [ -d example ]; then cp -arf example %{buildroot}/%{_pkgdocdir}; fi +if [ -d examples ]; then cp -arf examples %{buildroot}/%{_pkgdocdir}; fi +pushd %{buildroot} +if [ -d usr/lib ]; then + find usr/lib -type f -printf "/%h/%f\n" >> filelist.lst +fi +if [ -d usr/lib64 ]; then + find usr/lib64 -type f -printf "/%h/%f\n" >> filelist.lst +fi +if [ -d usr/bin ]; then + find usr/bin -type f -printf "/%h/%f\n" >> filelist.lst +fi +if [ -d usr/sbin ]; then + find usr/sbin -type f -printf "/%h/%f\n" >> filelist.lst +fi +touch doclist.lst +if [ -d usr/share/man ]; then + find usr/share/man -type f -printf "/%h/%f.gz\n" >> doclist.lst +fi +popd +mv %{buildroot}/filelist.lst . +mv %{buildroot}/doclist.lst . + +%files -n python3-bctpy -f filelist.lst +%dir %{python3_sitelib}/* + +%files help -f doclist.lst +%{_docdir}/* + +%changelog +* Thu May 18 2023 Python_Bot <Python_Bot@openeuler.org> - 0.6.0-1 +- Package Spec generated @@ -0,0 +1 @@ +186c1c83e2290f7df5abe7d957a3a463 bctpy-0.6.0.tar.gz |