%global __brp_check_rpaths %{nil}
%global __requires_exclude ^libmpi
%global packname  rtransparency
%global packver   1.2.0
%global rlibdir   /usr/local/lib/R/library

Name:             R-CRAN-%{packname}
Version:          1.2.0
Release:          1%{?dist}%{?buildtag}
Summary:          Identifies Indicators of Transparency

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-dplyr >= 1.0.0
BuildRequires:    R-CRAN-purrr >= 1.0.0
BuildRequires:    R-CRAN-rlang >= 1.0.0
BuildRequires:    R-CRAN-magrittr 
BuildRequires:    R-CRAN-readr 
BuildRequires:    R-CRAN-stringi 
BuildRequires:    R-CRAN-stringr 
BuildRequires:    R-CRAN-tibble 
BuildRequires:    R-CRAN-xml2 
Requires:         R-CRAN-dplyr >= 1.0.0
Requires:         R-CRAN-purrr >= 1.0.0
Requires:         R-CRAN-rlang >= 1.0.0
Requires:         R-CRAN-magrittr 
Requires:         R-CRAN-readr 
Requires:         R-CRAN-stringi 
Requires:         R-CRAN-stringr 
Requires:         R-CRAN-tibble 
Requires:         R-CRAN-xml2 

%description
Use this package to identify indicators of transparency within the
published literature. It can identify and extract text related to
indicators of transparency from specifically formatted TXT files and from
PMC XML files (i.e. XML files downloaded from the PubMed Central). It
builds on the original 'rtransparent' tool of Serghiou et al. (2021)
<doi:10.1371/journal.pbio.3001107>.

%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}