%global __brp_check_rpaths %{nil} %global __requires_exclude ^libmpi %global packname SPECK %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: Receptor Abundance Estimation using Reduced Rank Reconstruction and Clustered Thresholding License: GPL (>= 2) URL: https://cran.r-project.org/package=%{packname} Source0: %{url}&version=%{packver}#/%{packname}_%{packver}.tar.gz BuildRequires: R-devel >= 2.10 Requires: R-core >= 2.10 BuildArch: noarch BuildRequires: R-CRAN-Matrix >= 1.6.1.1 BuildRequires: R-CRAN-Ckmeans.1d.dp BuildRequires: R-CRAN-magrittr BuildRequires: R-CRAN-rsvd BuildRequires: R-CRAN-Seurat Requires: R-CRAN-Matrix >= 1.6.1.1 Requires: R-CRAN-Ckmeans.1d.dp Requires: R-CRAN-magrittr Requires: R-CRAN-rsvd Requires: R-CRAN-Seurat %description Surface Protein abundance Estimation using CKmeans-based clustered thresholding ('SPECK') is an unsupervised learning-based method that performs receptor abundance estimation for single cell RNA-sequencing data based on reduced rank reconstruction (RRR) and a clustered thresholding mechanism. Seurat's normalization method is described in: Hao et al., (2021) , Stuart et al., (2019) , Butler et al., (2018) and Satija et al., (2015) . Method for the RRR is further detailed in: Erichson et al., (2019) and Halko et al., (2009) . Clustering method is outlined in: Song et al., (2020) and Wang et al., (2011) . %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}