%global __brp_check_rpaths %{nil}
%global __requires_exclude ^libmpi
%global packname  EpiNow2
%global packver   1.6.0
%global rlibdir   /usr/local/lib/R/library

Name:             R-CRAN-%{packname}
Version:          1.6.0
Release:          1%{?dist}%{?buildtag}
Summary:          Estimate Real-Time Case Counts and Time-Varying Epidemiological Parameters

License:          MIT + file LICENSE
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
BuildRequires:    R-CRAN-RcppParallel >= 5.0.1
BuildRequires:    R-CRAN-rstan >= 2.26.0
BuildRequires:    R-CRAN-StanHeaders >= 2.26.0
BuildRequires:    R-CRAN-rstantools >= 2.2.0
BuildRequires:    R-CRAN-R.utils >= 2.0.0
BuildRequires:    R-CRAN-BH >= 1.66.0
BuildRequires:    R-CRAN-futile.logger >= 1.4
BuildRequires:    R-CRAN-rlang >= 0.4.7
BuildRequires:    R-CRAN-RcppEigen >= 0.3.3.3.0
BuildRequires:    R-CRAN-Rcpp >= 0.12.0
BuildRequires:    R-CRAN-checkmate 
BuildRequires:    R-CRAN-cli 
BuildRequires:    R-CRAN-data.table 
BuildRequires:    R-CRAN-ggplot2 
BuildRequires:    R-CRAN-lifecycle 
BuildRequires:    R-CRAN-lubridate 
BuildRequires:    R-methods 
BuildRequires:    R-CRAN-patchwork 
BuildRequires:    R-CRAN-posterior 
BuildRequires:    R-CRAN-purrr 
BuildRequires:    R-CRAN-runner 
BuildRequires:    R-CRAN-scales 
BuildRequires:    R-stats 
BuildRequires:    R-CRAN-truncnorm 
BuildRequires:    R-utils 
BuildRequires:    R-CRAN-rstantools
Requires:         R-CRAN-rstan >= 2.26.0
Requires:         R-CRAN-rstantools >= 2.2.0
Requires:         R-CRAN-R.utils >= 2.0.0
Requires:         R-CRAN-futile.logger >= 1.4
Requires:         R-CRAN-rlang >= 0.4.7
Requires:         R-CRAN-Rcpp >= 0.12.0
Requires:         R-CRAN-checkmate 
Requires:         R-CRAN-cli 
Requires:         R-CRAN-data.table 
Requires:         R-CRAN-ggplot2 
Requires:         R-CRAN-lifecycle 
Requires:         R-CRAN-lubridate 
Requires:         R-methods 
Requires:         R-CRAN-patchwork 
Requires:         R-CRAN-posterior 
Requires:         R-CRAN-purrr 
Requires:         R-CRAN-runner 
Requires:         R-CRAN-scales 
Requires:         R-stats 
Requires:         R-CRAN-truncnorm 
Requires:         R-utils 
Requires:         R-CRAN-rstantools

%description
Estimates the time-varying reproduction number, rate of spread, and
doubling time using a range of open-source tools (Abbott et al. (2020)
<doi:10.12688/wellcomeopenres.16006.1>), and current best practices
(Gostic et al. (2020) <doi:10.1101/2020.06.18.20134858>).  It aims to help
users avoid some of the limitations of naive implementations in a
framework that is informed by community feedback and is actively
supported.

%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}