%global __brp_check_rpaths %{nil}
%global __requires_exclude ^libmpi
%global packname  lab2clean
%global packver   1.0.0
%global rlibdir   /usr/local/lib/R/library

Name:             R-CRAN-%{packname}
Version:          1.0.0
Release:          1%{?dist}%{?buildtag}
Summary:          Automation and Standardization of Cleaning Clinical Lab Data

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-data.table 
BuildRequires:    R-stats 
BuildRequires:    R-utils 
Requires:         R-CRAN-data.table 
Requires:         R-stats 
Requires:         R-utils 

%description
Navigating the shift of clinical laboratory data from primary everyday
clinical use to secondary research purposes presents a significant
challenge. Given the substantial time and expertise required for lab data
pre-processing and cleaning and the lack of all-in-one tools tailored for
this need, we developed our algorithm 'lab2clean' as an open-source
R-package. 'lab2clean' package is set to automate and standardize the
intricate process of cleaning clinical laboratory results. With a keen
focus on improving the data quality of laboratory result values, our goal
is to equip researchers with a straightforward, plug-and-play tool, making
it smoother for them to unlock the true potential of clinical laboratory
data in clinical research and clinical machine learning (ML) model
development. Version 1.0 of the algorithm is described in detail in 'Zayed
et al. (2024)' <doi:10.1186/s12911-024-02652-7>.

%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}