%global __brp_check_rpaths %{nil}
%global __requires_exclude ^libmpi
%global packname  hlaR
%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:          Tools for HLA Data

License:          MIT + file LICENSE
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-devtools 
BuildRequires:    R-CRAN-tidyverse 
BuildRequires:    R-CRAN-dplyr 
BuildRequires:    R-CRAN-reshape2 
BuildRequires:    R-CRAN-schoolmath 
BuildRequires:    R-CRAN-tibble 
BuildRequires:    R-CRAN-tidyselect 
BuildRequires:    R-CRAN-stringr 
BuildRequires:    R-CRAN-purrr 
BuildRequires:    R-CRAN-tidyr 
BuildRequires:    R-utils 
BuildRequires:    R-CRAN-readr 
BuildRequires:    R-CRAN-janitor 
Requires:         R-CRAN-devtools 
Requires:         R-CRAN-tidyverse 
Requires:         R-CRAN-dplyr 
Requires:         R-CRAN-reshape2 
Requires:         R-CRAN-schoolmath 
Requires:         R-CRAN-tibble 
Requires:         R-CRAN-tidyselect 
Requires:         R-CRAN-stringr 
Requires:         R-CRAN-purrr 
Requires:         R-CRAN-tidyr 
Requires:         R-utils 
Requires:         R-CRAN-readr 
Requires:         R-CRAN-janitor 

%description
A streamlined tool for eplet analysis of donor and recipient HLA (human
leukocyte antigen) mismatch. Messy, low-resolution HLA typing data is
cleaned, and imputed to high-resolution using the NMDP (National Marrow
Donor Program) haplotype reference database
<https://haplostats.org/haplostats>. High resolution data is analyzed for
overall or single antigen eplet mismatch using a reference table
(currently supporting 'HLAMatchMaker' <http://www.epitopes.net> versions 2
and 3). Data can enter or exit the workflow at different points depending
on the user's aims and initial data quality.

%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}