%global __brp_check_rpaths %{nil}
%global packname  TESS
%global packver   2.1.2
%global rlibdir   /usr/local/lib/R/library

Name:             R-CRAN-%{packname}
Version:          2.1.2
Release:          1%{?dist}%{?buildtag}
Summary:          Diversification Rate Estimation and Fast Simulation of Reconstructed Phylogenetic Trees under Tree-Wide Time-Heterogeneous Birth-Death Processes Including Mass-Extinction Events

License:          GPL-3
URL:              https://cran.r-project.org/package=%{packname}
Source0:          %{url}&version=%{packver}#/%{packname}_%{packver}.tar.gz


BuildRequires:    R-devel
Requires:         R-core
BuildRequires:    R-CRAN-Rcpp >= 0.11.0
BuildRequires:    R-CRAN-ape 
BuildRequires:    R-CRAN-coda 
BuildRequires:    R-CRAN-deSolve 
BuildRequires:    R-methods 
Requires:         R-CRAN-Rcpp >= 0.11.0
Requires:         R-CRAN-ape 
Requires:         R-CRAN-coda 
Requires:         R-CRAN-deSolve 
Requires:         R-methods 

%description
Simulation of reconstructed phylogenetic trees under tree-wide
time-heterogeneous birth-death processes and estimation of diversification
parameters under the same model. Speciation and extinction rates can be
any function of time and mass-extinction events at specific times can be
provided. Trees can be simulated either conditioned on the number of
species, the time of the process, or both. Additionally, the likelihood
equations are implemented for convenience and can be used for Maximum
Likelihood (ML) estimation and Bayesian inference.

%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}