%global __brp_check_rpaths %{nil}
%global __requires_exclude ^libmpi
%global packname  mixedbiastest
%global packver   1.1.0
%global rlibdir   /usr/local/lib/R/library

Name:             R-CRAN-%{packname}
Version:          1.1.0
Release:          1%{?dist}%{?buildtag}
Summary:          Bias Diagnostic for Linear Mixed Models

License:          GPL-3
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
BuildArch:        noarch
BuildRequires:    R-CRAN-lme4 
BuildRequires:    R-CRAN-Matrix 
BuildRequires:    R-CRAN-ggplot2 
BuildRequires:    R-CRAN-rlang 
Requires:         R-CRAN-lme4 
Requires:         R-CRAN-Matrix 
Requires:         R-CRAN-ggplot2 
Requires:         R-CRAN-rlang 

%description
Provides a function to perform bias diagnostics on linear mixed models
fitted with lmer() from the 'lme4' package. Compares an internal
random-effects alignment diagnostic with a fitted permutation reference
distribution, following Karl and Zimmerman (2021)
<doi:10.1016/j.jspi.2020.06.004>. Conditional response-refit simulations
separately record random-effects alignment and residual-weight
contributions to estimation error. Karl and Zimmerman (2020)
<doi:10.17632/tmynggddfm.1> provide R code for implementing the test using
'mvglmmRank' output. Development and review were assisted by 'GPT
o1-preview', 'GPT 5 Pro', and 'GPT6 Astra'; the author is responsible for
the code and its interpretation.

%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}