%global __brp_check_rpaths %{nil}
%global __requires_exclude ^libmpi
%global packname  admix
%global packver   2.3.3
%global rlibdir   /usr/local/lib/R/library

Name:             R-CRAN-%{packname}
Version:          2.3.3
Release:          1%{?dist}%{?buildtag}
Summary:          Package Admix for Admixture (aka Contamination) Models

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


BuildRequires:    R-devel >= 2.10
Requires:         R-core >= 2.10
BuildRequires:    R-base 
BuildRequires:    R-CRAN-cubature 
BuildRequires:    R-CRAN-EnvStats 
BuildRequires:    R-CRAN-fdrtool 
BuildRequires:    R-graphics 
BuildRequires:    R-CRAN-Iso 
BuildRequires:    R-CRAN-MASS 
BuildRequires:    R-CRAN-orthopolynom 
BuildRequires:    R-CRAN-pracma 
BuildRequires:    R-CRAN-Rcpp 
BuildRequires:    R-CRAN-Rdpack 
BuildRequires:    R-stats 
BuildRequires:    R-utils 
Requires:         R-base 
Requires:         R-CRAN-cubature 
Requires:         R-CRAN-EnvStats 
Requires:         R-CRAN-fdrtool 
Requires:         R-graphics 
Requires:         R-CRAN-Iso 
Requires:         R-CRAN-MASS 
Requires:         R-CRAN-orthopolynom 
Requires:         R-CRAN-pracma 
Requires:         R-CRAN-Rcpp 
Requires:         R-CRAN-Rdpack 
Requires:         R-stats 
Requires:         R-utils 

%description
Implements techniques to estimate the unknown quantities related to
two-component admixture models, where the two components can belong to any
distribution (note that in the case of multinomial mixtures, the two
components must belong to the same family). Estimation methods depend on
the assumptions made on the unknown component density; see Bordes and
Vandekerkhove (2010) <doi:10.3103/S1066530710010023>, Patra and Sen (2016)
<doi:10.1111/rssb.12148>, and Milhaud, Pommeret, Salhi, Vandekerkhove
(2024) <doi:10.3150/23-BEJ1593>. In practice, one can estimate both the
mixture weight and the unknown component density in a wide variety of
frameworks. On top of that, hypothesis tests can be performed in one and
two-sample contexts to test the unknown component density (see Milhaud,
Pommeret, Salhi and Vandekerkhove (2022) <doi:10.1016/j.jspi.2021.05.010>,
and Milhaud, Pommeret, Salhi, Vandekerkhove (2024)
<doi:10.3150/23-BEJ1593>). Finally, clustering of unknown mixture
components is also feasible in a K-sample setting (see Milhaud, Pommeret,
Salhi, Vandekerkhove (2024) <https://jmlr.org/papers/v25/23-0914.html>).

%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}