%global __brp_check_rpaths %{nil}
%global __requires_exclude ^libmpi
%global packname  gimap
%global packver   1.1.1
%global rlibdir   /usr/local/lib/R/library

Name:             R-CRAN-%{packname}
Version:          1.1.1
Release:          1%{?dist}%{?buildtag}
Summary:          Calculate Genetic Interactions for Paired CRISPR Targets

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-readr 
BuildRequires:    R-CRAN-dplyr 
BuildRequires:    R-CRAN-tidyr 
BuildRequires:    R-CRAN-rmarkdown 
BuildRequires:    R-CRAN-vroom 
BuildRequires:    R-CRAN-ggplot2 
BuildRequires:    R-CRAN-magrittr 
BuildRequires:    R-CRAN-pheatmap 
BuildRequires:    R-CRAN-purrr 
BuildRequires:    R-CRAN-janitor 
BuildRequires:    R-utils 
BuildRequires:    R-stats 
BuildRequires:    R-CRAN-stringr 
BuildRequires:    R-CRAN-httr 
BuildRequires:    R-CRAN-jsonlite 
BuildRequires:    R-CRAN-openssl 
Requires:         R-CRAN-readr 
Requires:         R-CRAN-dplyr 
Requires:         R-CRAN-tidyr 
Requires:         R-CRAN-rmarkdown 
Requires:         R-CRAN-vroom 
Requires:         R-CRAN-ggplot2 
Requires:         R-CRAN-magrittr 
Requires:         R-CRAN-pheatmap 
Requires:         R-CRAN-purrr 
Requires:         R-CRAN-janitor 
Requires:         R-utils 
Requires:         R-stats 
Requires:         R-CRAN-stringr 
Requires:         R-CRAN-httr 
Requires:         R-CRAN-jsonlite 
Requires:         R-CRAN-openssl 

%description
Helps find meaningful patterns in complex genetic experiments. First gimap
takes data from paired CRISPR (Clustered regularly interspaced short
palindromic repeats) screens that has been pre-processed to counts table
of paired gRNA (guide Ribonucleic Acid) reads. The input data will have
cell counts for how well cells grow (or don't grow) when different genes
or pairs of genes are disabled. The output of the 'gimap' package is
genetic interaction scores which are the distance between the observed
CRISPR score and the expected CRISPR score. The expected CRISPR scores are
what we expect for the CRISPR values to be for two unrelated genes. The
further away an observed CRISPR score is from its expected score the more
we suspect genetic interaction. The work in this package is based off of
original research from the Alice Berger lab at Fred Hutchinson Cancer
Center (2021) <doi:10.1016/j.celrep.2021.109597>.

%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}