%global __brp_check_rpaths %{nil}
%global __requires_exclude ^libmpi
%global packname  OlinkAnalyze
%global packver   5.0.2
%global rlibdir   /usr/local/lib/R/library

Name:             R-CRAN-%{packname}
Version:          5.0.2
Release:          1%{?dist}%{?buildtag}
Summary:          Facilitate Analysis of Proteomic Data from Olink

License:          AGPL (>= 3)
URL:              https://cran.r-project.org/package=%{packname}
Source0:          %{url}&version=%{packver}#/%{packname}_%{packver}.tar.gz


BuildRequires:    R-devel >= 4.1.0
Requires:         R-core >= 4.1.0
BuildArch:        noarch
BuildRequires:    R-CRAN-cli >= 3.6.2
BuildRequires:    R-CRAN-arrow >= 14.0.0
BuildRequires:    R-CRAN-dplyr >= 1.2.0
BuildRequires:    R-CRAN-data.table 
BuildRequires:    R-CRAN-dbplyr 
BuildRequires:    R-CRAN-duckdb 
BuildRequires:    R-CRAN-forcats 
BuildRequires:    R-CRAN-ggplot2 
BuildRequires:    R-grDevices 
BuildRequires:    R-CRAN-rlang 
BuildRequires:    R-CRAN-stringr 
BuildRequires:    R-CRAN-tibble 
BuildRequires:    R-CRAN-tidyr 
Requires:         R-CRAN-cli >= 3.6.2
Requires:         R-CRAN-arrow >= 14.0.0
Requires:         R-CRAN-dplyr >= 1.2.0
Requires:         R-CRAN-data.table 
Requires:         R-CRAN-dbplyr 
Requires:         R-CRAN-duckdb 
Requires:         R-CRAN-forcats 
Requires:         R-CRAN-ggplot2 
Requires:         R-grDevices 
Requires:         R-CRAN-rlang 
Requires:         R-CRAN-stringr 
Requires:         R-CRAN-tibble 
Requires:         R-CRAN-tidyr 

%description
A collection of functions to facilitate analysis of proteomic data from
Olink, primarily NPX data that has been exported from Olink Software. The
functions also work on QUANT data from Olink by log- transforming the
QUANT data. The functions are focused on reading data, facilitating data
wrangling and quality control analysis, performing statistical analysis
and generating figures to visualize the results of the statistical
analysis. The goal of this package is to help users extract biological
insights from proteomic data run on the Olink platform.

%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}