%global __brp_check_rpaths %{nil}
%global packname  miWQS
%global packver   0.4.4
%global rlibdir   /usr/local/lib/R/library

Name:             R-CRAN-%{packname}
Version:          0.4.4
Release:          1%{?dist}%{?buildtag}
Summary:          Multiple Imputation Using Weighted Quantile Sum Regression

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-MASS >= 7.3.49
BuildRequires:    R-CRAN-Hmisc >= 4.1.1
BuildRequires:    R-CRAN-survival >= 3.1.12
BuildRequires:    R-CRAN-ggplot2 >= 3.1.0
BuildRequires:    R-CRAN-condMVNorm >= 2015.2
BuildRequires:    R-CRAN-MCMCpack >= 1.4.4
BuildRequires:    R-CRAN-tmvtnorm >= 1.4.10
BuildRequires:    R-CRAN-glm2 >= 1.2.1
BuildRequires:    R-CRAN-Rsolnp >= 1.16
BuildRequires:    R-CRAN-invgamma >= 1.1
BuildRequires:    R-CRAN-truncnorm >= 1.0.8
BuildRequires:    R-CRAN-tmvmixnorm >= 1.0.2
BuildRequires:    R-CRAN-mvtnorm >= 1.0.10
BuildRequires:    R-CRAN-tidyr >= 1.0.0
BuildRequires:    R-CRAN-rlist >= 0.4.6.1
BuildRequires:    R-CRAN-purrr >= 0.3.2
BuildRequires:    R-CRAN-coda >= 0.19.2
BuildRequires:    R-CRAN-matrixNormal >= 0.0.0
BuildRequires:    R-methods 
BuildRequires:    R-parallel 
BuildRequires:    R-stats 
BuildRequires:    R-utils 
Requires:         R-CRAN-MASS >= 7.3.49
Requires:         R-CRAN-Hmisc >= 4.1.1
Requires:         R-CRAN-survival >= 3.1.12
Requires:         R-CRAN-ggplot2 >= 3.1.0
Requires:         R-CRAN-condMVNorm >= 2015.2
Requires:         R-CRAN-MCMCpack >= 1.4.4
Requires:         R-CRAN-tmvtnorm >= 1.4.10
Requires:         R-CRAN-glm2 >= 1.2.1
Requires:         R-CRAN-Rsolnp >= 1.16
Requires:         R-CRAN-invgamma >= 1.1
Requires:         R-CRAN-truncnorm >= 1.0.8
Requires:         R-CRAN-tmvmixnorm >= 1.0.2
Requires:         R-CRAN-mvtnorm >= 1.0.10
Requires:         R-CRAN-tidyr >= 1.0.0
Requires:         R-CRAN-rlist >= 0.4.6.1
Requires:         R-CRAN-purrr >= 0.3.2
Requires:         R-CRAN-coda >= 0.19.2
Requires:         R-CRAN-matrixNormal >= 0.0.0
Requires:         R-methods 
Requires:         R-parallel 
Requires:         R-stats 
Requires:         R-utils 

%description
The miWQS package handles the uncertainty due to below the detection limit
in a correlated component mixture problem.  Researchers want to determine
if a set/mixture of continuous and correlated components/chemicals is
associated with an outcome and if so, which components are important in
that mixture. These components share a common outcome but are
interval-censored between zero and low thresholds, or detection limits,
that may be different across the components. This package applies the
multiple imputation (MI) procedure to the weighted quantile sum regression
(WQS) methodology for continuous, binary, or count outcomes (Hargarten &
Wheeler (2020) <doi:10.1016/j.envres.2020.109466>). The imputation models
are: bootstrapping imputation (Lubin et.al (2004) <doi:10.1289/ehp.7199>),
univariate Bayesian imputation (Hargarten & Wheeler (2020)
<doi:10.1016/j.envres.2020.109466>), and multivariate Bayesian regression
imputation.

%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
# 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}