117 lines
3.9 KiB
RPMSpec
117 lines
3.9 KiB
RPMSpec
%global packname ape
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%global rlibdir %{_libdir}/R/library
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Name: R-%{packname}
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Version: 5.3
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Release: 4%{?dist}
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Summary: Analyses of Phylogenetics and Evolution
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License: GPLv2+
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URL: https://CRAN.R-project.org/package=%{packname}
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Source0: https://cran.r-project.org/src/contrib/%{packname}_%{version}.tar.gz
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# Here's the R view of the dependencies world:
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# Depends:
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# Imports: R-nlme, R-lattice, R-graphics, R-methods, R-stats, R-tools, R-utils, R-parallel, R-Rcpp >= 0.12.0
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# Suggests: R-gee, R-expm, R-igraph
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# LinkingTo:
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# Enhances:
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BuildRequires: R-devel
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BuildRequires: tex(latex)
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BuildRequires: R-nlme
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BuildRequires: R-lattice
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BuildRequires: R-graphics
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BuildRequires: R-methods
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BuildRequires: R-stats
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BuildRequires: R-tools
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BuildRequires: R-utils
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BuildRequires: R-parallel
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BuildRequires: R-Rcpp-devel >= 0.12.0
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BuildRequires: R-gee
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BuildRequires: R-expm
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BuildRequires: R-igraph
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%description
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Functions for reading, writing, plotting, and manipulating phylogenetic
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trees, analyses of comparative data in a phylogenetic framework, ancestral
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character analyses, analyses of diversification and macroevolution,
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computing distances from DNA sequences, reading and writing nucleotide
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sequences as well as importing from BioConductor, and several tools such
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as Mantel's test, generalized skyline plots, graphical exploration of
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phylogenetic data (alex, trex, kronoviz), estimation of absolute
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evolutionary rates and clock-like trees using mean path lengths and
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penalized likelihood, dating trees with non-contemporaneous sequences,
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translating DNA into AA sequences, and assessing sequence alignments.
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Phylogeny estimation can be done with the NJ, BIONJ, ME, MVR, SDM, and
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triangle methods, and several methods handling incomplete distance
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matrices (NJ*, BIONJ*, MVR*, and the corresponding triangle method). Some
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functions call external applications (PhyML, Clustal, T-Coffee, Muscle)
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whose results are returned into R.
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%prep
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%setup -q -c -n %{packname}
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%build
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%install
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mkdir -p %{buildroot}%{rlibdir}
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%{_bindir}/R CMD INSTALL -l %{buildroot}%{rlibdir} %{packname}
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test -d %{packname}/src && (cd %{packname}/src; rm -f *.o *.so)
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rm -f %{buildroot}%{rlibdir}/R.css
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%check
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%{_bindir}/R CMD check %{packname}
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%files
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%dir %{rlibdir}/%{packname}
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%doc %{rlibdir}/%{packname}/doc
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%doc %{rlibdir}/%{packname}/html
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%{rlibdir}/%{packname}/DESCRIPTION
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%doc %{rlibdir}/%{packname}/CITATION
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%doc %{rlibdir}/%{packname}/NEWS
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%{rlibdir}/%{packname}/INDEX
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%{rlibdir}/%{packname}/NAMESPACE
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%{rlibdir}/%{packname}/Meta
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%{rlibdir}/%{packname}/R
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%{rlibdir}/%{packname}/help
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%dir %{rlibdir}/%{packname}/libs
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%{rlibdir}/%{packname}/libs/%{packname}.so
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%{rlibdir}/%{packname}/data
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%changelog
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* Tue Jan 28 2020 Fedora Release Engineering <releng@fedoraproject.org> - 5.3-4
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- Rebuilt for https://fedoraproject.org/wiki/Fedora_32_Mass_Rebuild
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* Sun Aug 11 2019 Elliott Sales de Andrade <quantum.analyst@gmail.com> - 5.3-3
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- Remove explicit dependencies provided by automatic dependency generator
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* Wed Jul 24 2019 Fedora Release Engineering <releng@fedoraproject.org> - 5.3-2
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- Rebuilt for https://fedoraproject.org/wiki/Fedora_31_Mass_Rebuild
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* Sun Mar 17 2019 Elliott Sales de Andrade <quantum.analyst@gmail.com> - 5.3-1
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- Update to latest version
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* Thu Jan 31 2019 Fedora Release Engineering <releng@fedoraproject.org> - 5.2-2
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- Rebuilt for https://fedoraproject.org/wiki/Fedora_30_Mass_Rebuild
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* Tue Jan 22 2019 Elliott Sales de Andrade <quantum.analyst@gmail.com> - 5.2-1
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- Update to latest version
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- Re-enable build checks
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- Re-arrange to match latest template
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* Thu Jul 12 2018 Fedora Release Engineering <releng@fedoraproject.org> - 5.1-2
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- Rebuilt for https://fedoraproject.org/wiki/Fedora_29_Mass_Rebuild
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* Wed May 16 2018 Tom Callaway <spot@fedoraproject.org> - 5.1-1
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- update to 5.1, rebuild for R 3.5.0
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* Fri Mar 23 2018 Elliott Sales de Andrade <quantum.analyst@gmail.com> - 5.0-1
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- initial package for Fedora
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