%global __brp_check_rpaths %{nil}
%global __requires_exclude ^libmpi
%global packname  rcprd
%global packver   0.0.1
%global rlibdir   /usr/local/lib/R/library

Name:             R-CRAN-%{packname}
Version:          0.0.1
Release:          1%{?dist}%{?buildtag}
Summary:          Extraction and Management of Clinical Practice Research Datalink Data

License:          MIT + file LICENSE
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-data.table 
BuildRequires:    R-CRAN-dplyr 
BuildRequires:    R-CRAN-fastmatch 
BuildRequires:    R-CRAN-RSQLite 
BuildRequires:    R-CRAN-stringr 
Requires:         R-CRAN-data.table 
Requires:         R-CRAN-dplyr 
Requires:         R-CRAN-fastmatch 
Requires:         R-CRAN-RSQLite 
Requires:         R-CRAN-stringr 

%description
Simplify the process of extracting and processing Clinical Practice
Research Datalink (CPRD) data in order to build datasets ready for
statistical analysis. This process is difficult in 'R', as the raw data is
very large and cannot be read into the R workspace. 'rcprd' utilises
'RSQLite' to create 'SQLite' databases which are stored on the hard disk.
These are then queried to extract the required information for a cohort of
interest, and create datasets ready for statistical analysis. The
processes follow closely that from the 'rEHR' package, see Springate et
al., (2017) <doi:10.1371/journal.pone.0171784>.

%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}