%global __brp_check_rpaths %{nil}
%global __requires_exclude ^libmpi
%global packname  protti
%global packver   0.9.1
%global rlibdir   /usr/local/lib/R/library

Name:             R-CRAN-%{packname}
Version:          0.9.1
Release:          1%{?dist}%{?buildtag}
Summary:          Bottom-Up Proteomics and LiP-MS Quality Control and Data Analysis Tools

License:          MIT + file LICENSE
URL:              https://cran.r-project.org/package=%{packname}
Source0:          %{url}&version=%{packver}#/%{packname}_%{packver}.tar.gz


BuildRequires:    R-devel >= 4.0
Requires:         R-core >= 4.0
BuildArch:        noarch
BuildRequires:    R-CRAN-rlang 
BuildRequires:    R-CRAN-dplyr 
BuildRequires:    R-CRAN-stringr 
BuildRequires:    R-CRAN-magrittr 
BuildRequires:    R-CRAN-data.table 
BuildRequires:    R-CRAN-janitor 
BuildRequires:    R-CRAN-progress 
BuildRequires:    R-CRAN-purrr 
BuildRequires:    R-CRAN-tidyr 
BuildRequires:    R-CRAN-ggplot2 
BuildRequires:    R-CRAN-forcats 
BuildRequires:    R-CRAN-tibble 
BuildRequires:    R-CRAN-plotly 
BuildRequires:    R-CRAN-ggrepel 
BuildRequires:    R-utils 
BuildRequires:    R-grDevices 
BuildRequires:    R-CRAN-curl 
BuildRequires:    R-CRAN-readr 
BuildRequires:    R-CRAN-lifecycle 
BuildRequires:    R-CRAN-httr 
BuildRequires:    R-methods 
BuildRequires:    R-CRAN-R.utils 
BuildRequires:    R-stats 
Requires:         R-CRAN-rlang 
Requires:         R-CRAN-dplyr 
Requires:         R-CRAN-stringr 
Requires:         R-CRAN-magrittr 
Requires:         R-CRAN-data.table 
Requires:         R-CRAN-janitor 
Requires:         R-CRAN-progress 
Requires:         R-CRAN-purrr 
Requires:         R-CRAN-tidyr 
Requires:         R-CRAN-ggplot2 
Requires:         R-CRAN-forcats 
Requires:         R-CRAN-tibble 
Requires:         R-CRAN-plotly 
Requires:         R-CRAN-ggrepel 
Requires:         R-utils 
Requires:         R-grDevices 
Requires:         R-CRAN-curl 
Requires:         R-CRAN-readr 
Requires:         R-CRAN-lifecycle 
Requires:         R-CRAN-httr 
Requires:         R-methods 
Requires:         R-CRAN-R.utils 
Requires:         R-stats 

%description
Useful functions and workflows for proteomics quality control and data
analysis of both limited proteolysis-coupled mass spectrometry (LiP-MS)
(Feng et. al. (2014) <doi:10.1038/nbt.2999>) and regular bottom-up
proteomics experiments. Data generated with search tools such as
'Spectronaut', 'MaxQuant' and 'Proteome Discover' can be easily used due
to flexibility of functions.

%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}