%global __brp_check_rpaths %{nil}
%global __requires_exclude ^libmpi
%global packname  RobustLPA
%global packver   1.0.0
%global rlibdir   /usr/local/lib/R/library

Name:             R-CRAN-%{packname}
Version:          1.0.0
Release:          1%{?dist}%{?buildtag}
Summary:          Robust Latent Profile Analysis

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


BuildRequires:    R-devel >= 3.5
Requires:         R-core >= 3.5
BuildRequires:    R-CRAN-Rcpp 
BuildRequires:    R-CRAN-ggplot2 
BuildRequires:    R-stats 
BuildRequires:    R-CRAN-bayesplot 
BuildRequires:    R-CRAN-coda 
BuildRequires:    R-CRAN-RcppArmadillo 
Requires:         R-CRAN-Rcpp 
Requires:         R-CRAN-ggplot2 
Requires:         R-stats 
Requires:         R-CRAN-bayesplot 
Requires:         R-CRAN-coda 

%description
Provides a comprehensive toolset for estimating Latent Profile Analysis
(LPA) models that are robust to multivariate outliers and missing data. By
integrating a high-performance 'C++' engine via 'RcppArmadillo', it
reliably extracts latent profiles using both Expectation-Maximization (EM)
and Markov Chain Monte Carlo (MCMC) Bayesian estimation. The EM engine
implements a Full Information Maximum Likelihood (FIML) approach, Huber
weighting, and LASSO regularization with k-fold cross-validation for
optimal penalty tuning. The MCMC engine utilizes a Bayesian Lasso approach
with Laplace priors, the same Huber down-weighting available in the EM
engine, multiple chains (4 by default), and classic Gelman-Rubin/effective
sample size convergence diagnostics. It supports multiple geometric
variance-covariance models, along with functions for bootstrapped
likelihood ratio tests (BLRT), BCH auxiliary variable analysis, and
plotting. For methodological details on the Bootstrapped Likelihood Ratio
Test, see Nylund et al. (2007) <doi:10.1080/10705510701575396>. For robust
clustering methods, see Garcia-Escudero et al. (2010)
<doi:10.1007/s11634-010-0064-5>. For BCH auxiliary variable analysis, see
Bolck et al. (2004) <doi:10.1093/pan/mph001>.

%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}