%global __brp_check_rpaths %{nil} %global __requires_exclude ^libmpi %global packname aphylo %global packver 0.3-3 %global rlibdir /usr/local/lib/R/library Name: R-CRAN-%{packname} Version: 0.3.3 Release: 1%{?dist}%{?buildtag} Summary: Statistical Inference and Prediction of Annotations in Phylogenetic Trees License: MIT + file LICENSE URL: https://cran.r-project.org/package=%{packname} Source0: %{url}&version=%{packver}#/%{packname}_%{packver}.tar.gz BuildRequires: R-devel >= 3.5.0 Requires: R-core >= 3.5.0 BuildRequires: R-CRAN-ape >= 5.0 BuildRequires: R-CRAN-Rcpp >= 0.12.1 BuildRequires: R-CRAN-Matrix BuildRequires: R-methods BuildRequires: R-CRAN-coda BuildRequires: R-CRAN-fmcmc BuildRequires: R-utils BuildRequires: R-CRAN-MASS BuildRequires: R-CRAN-xml2 Requires: R-CRAN-ape >= 5.0 Requires: R-CRAN-Rcpp >= 0.12.1 Requires: R-CRAN-Matrix Requires: R-methods Requires: R-CRAN-coda Requires: R-CRAN-fmcmc Requires: R-utils Requires: R-CRAN-MASS Requires: R-CRAN-xml2 %description Implements a parsimonious evolutionary model to analyze and predict gene-functional annotations in phylogenetic trees as described in Vega Yon et al. (2021) <doi:10.1371/journal.pcbi.1007948>. Focusing on computational efficiency, 'aphylo' makes it possible to estimate pooled phylogenetic models, including thousands (hundreds) of annotations (trees) in the same run. The package also provides the tools for visualization of annotated phylogenies, calculation of posterior probabilities (prediction) and goodness-of-fit assessment featured in Vega Yon et al. (2021). %prep %setup -q -c -n %{packname} # fix end of executable files find -type f -executable -exec grep -Iq . {} \; -exec sed -i -e '$a\' {} \; # prevent binary stripping [ -d %{packname}/src ] && find %{packname}/src -type f -exec \ sed -i 's@/usr/bin/strip@/usr/bin/true@g' {} \; || true [ -d %{packname}/src ] && find %{packname}/src/Make* -type f -exec \ sed -i 's@-g0@@g' {} \; || true # don't allow local prefix in executable scripts find -type f -executable -exec sed -Ei 's@#!( )*/usr/local/bin@#!/usr/bin@g' {} \; %build %install mkdir -p %{buildroot}%{rlibdir} %{_bindir}/R CMD INSTALL -l %{buildroot}%{rlibdir} %{packname} test -d %{packname}/src && (cd %{packname}/src; rm -f *.o *.so) rm -f %{buildroot}%{rlibdir}/R.css # remove buildroot from installed files find %{buildroot}%{rlibdir} -type f -exec sed -i "s@%{buildroot}@@g" {} \; %files %{rlibdir}/%{packname}