%global __brp_check_rpaths %{nil}
%global packname  bootComb
%global packver   1.1.2
%global rlibdir   /usr/local/lib/R/library

Name:             R-CRAN-%{packname}
Version:          1.1.2
Release:          1%{?dist}%{?buildtag}
Summary:          Combine Parameter Estimates via Parametric Bootstrap

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
BuildArch:        noarch
BuildRequires:    R-CRAN-MASS >= 7.3.54
Requires:         R-CRAN-MASS >= 7.3.54

%description
Propagate uncertainty from several estimates when combining these
estimates via a function. This is done by using the parametric bootstrap
to simulate values from the distribution of each estimate to build up an
empirical distribution of the combined parameter. Finally either the
percentile method is used or the highest density interval is chosen to
derive a confidence interval for the combined parameter with the desired
coverage. Gaussian copulas are used for when parameters are assumed to be
dependent / correlated. References: Davison and Hinkley
(1997,ISBN:0-521-57471-4) for the parametric bootstrap and percentile
method, Gelman et al. (2014,ISBN:978-1-4398-4095-5) for the highest
density interval, Stockdale et al. (2020)<doi:10.1016/j.jhep.2020.04.008>
for an example of combining conditional prevalences.

%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}