%global __brp_check_rpaths %{nil}
%global __requires_exclude ^libmpi
%global packname  SlimR
%global packver   1.0.7
%global rlibdir   /usr/local/lib/R/library

Name:             R-CRAN-%{packname}
Version:          1.0.7
Release:          1%{?dist}%{?buildtag}
Summary:          Marker-Based Package for Single-Cell and Spatial-Transcriptomic Annotation

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


BuildRequires:    R-devel >= 3.5
Requires:         R-core >= 3.5
BuildArch:        noarch
BuildRequires:    R-CRAN-cowplot 
BuildRequires:    R-CRAN-dplyr 
BuildRequires:    R-CRAN-ggplot2 
BuildRequires:    R-CRAN-patchwork 
BuildRequires:    R-CRAN-pheatmap 
BuildRequires:    R-CRAN-readxl 
BuildRequires:    R-CRAN-scales 
BuildRequires:    R-CRAN-Seurat 
BuildRequires:    R-CRAN-tidyr 
BuildRequires:    R-tools 
BuildRequires:    R-CRAN-tibble 
Requires:         R-CRAN-cowplot 
Requires:         R-CRAN-dplyr 
Requires:         R-CRAN-ggplot2 
Requires:         R-CRAN-patchwork 
Requires:         R-CRAN-pheatmap 
Requires:         R-CRAN-readxl 
Requires:         R-CRAN-scales 
Requires:         R-CRAN-Seurat 
Requires:         R-CRAN-tidyr 
Requires:         R-tools 
Requires:         R-CRAN-tibble 

%description
Annotating single-cell and spatial-transcriptomic (ST) data based on the
Marker dataset. It supports the creation of a unified marker list,
Markers_list, using sources including: the package's built-in curated
species-specific cell type and marker reference databases (e.g.,
'Cellmarker2', 'PanglaoDB', 'scIBD', 'TCellSI'), Seurat objects containing
cell label information, or user-provided Excel tables mapping cell types
to markers. Based on the Markers_list, 'SlimR' can calculate gene
expression of different cell types and predict annotation information and
calculate corresponding AUC by 'Celltype_Calculate()', and annotate it by
'Celltype_Annotation()', then verify it by 'Celltype_Verification()'. At
the same time, it can calculate gene expression corresponding to the cell
type to generate the corresponding annotation reference map for manual
annotation (e.g., 'Heatmap', 'Features plot', 'Combined plot'). For more
details see Kabacoff (2020, ISBN:9787115420572).

%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}