File R-GeneSelectR.spec of Package R-GeneSelectR

# Automatically generated by CRAN2OBS
# 
# Spec file for package GeneSelectR 
# This file is auto-generated using information in the package source, 
# esp. Description and Summary. Improvements in that area should be 
# discussed with upstream. 
# 
# Copyright (c) 2025 SUSE LINUX GmbH, Nuernberg, Germany. 
# 
# All modifications and additions to the file contributed by third parties 
# remain the property of their copyright owners, unless otherwise agreed 
# upon. The license for this file, and modifications and additions to the 
# file, is the same license as for the pristine package itself (unless the 
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# case the license is the MIT License). An "Open Source License" is a 
# license that conforms to the Open Source Definition (Version 1.9) 
# published by the Open Source Initiative. 
#  
# Please submit bugfixes or comments via http://bugs.opensuse.org/ 
# 
 
%global packname  GeneSelectR 
%global rlibdir   %{_libdir}/R/library 
 
Name:           R-%{packname} 
Version:        1.0.1 
Release:        0 
Summary:        'GeneSelectR' - Comprehensive Feature Selection Workflow for Bulk RNAseq Datasets 
Group:          Development/Libraries/Other 
License:        MIT + file LICENSE 
URL:            http://cran.r-project.org/web/packages/%{packname} 
Source:         GeneSelectR_1.0.1.tar.gz 
Requires:       R-base 
Requires:	R-cowplot
Requires:	R-dplyr
Requires:	R-ggplot2
Requires:	R-glue
Requires:	R-magrittr
Requires:	R-RColorBrewer
Requires:	R-reshape2
Requires:	R-reticulate
Requires:	R-rlang
Requires:	R-testthat
Requires:	R-tibble
Requires:	R-tidyr
Requires:	R-tmod
Requires:	R-gtable
Requires:	R-scales
Requires:	R-cli
Requires:	R-generics
Requires:	R-lifecycle
Requires:	R-pillar
Requires:	R-R6
Requires:	R-tidyselect
Requires:	R-vctrs
Requires:	R-isoband
Requires:	R-S7
Requires:	R-withr
Requires:	R-plyr
Requires:	R-Rcpp
Requires:	R-stringr
Requires:	R-RcppTOML
Requires:	R-here
Requires:	R-jsonlite
Requires:	R-png
Requires:	R-rappdirs
Requires:	R-brio
Requires:	R-callr
Requires:	R-desc
Requires:	R-digest
Requires:	R-evaluate
Requires:	R-pkgload
Requires:	R-praise
Requires:	R-processx
Requires:	R-ps
Requires:	R-waldo
Requires:	R-pkgconfig
Requires:	R-purrr
Requires:	R-cpp11
Requires:	R-beeswarm
Requires:	R-tagcloud
Requires:	R-XML
Requires:	R-plotwidgets
Requires:	R-gplots
Requires:	R-pheatmap
Requires:	R-ggrepel
Requires:	R-gtools
Requires:	R-caTools
Requires:	R-rprojroot
Requires:	R-utf8
Requires:	R-fs
Requires:	R-pkgbuild
Requires:	R-farver
Requires:	R-labeling
Requires:	R-viridisLite
Requires:	R-stringi
Requires:	R-diffobj
Requires:	R-bitops
Requires:	R-crayon
 
# %%if 0%%{?sle_version} > 120400 || 0%%{?is_opensuse} 
# # Three others commonly needed 
# BuildRequires:  tex(ae.sty) 
# BuildRequires:  tex(fancyvrb.sty) 
# BuildRequires:  tex(inconsolata.sty) 
# BuildRequires:  tex(natbib.sty) 
# %else 
# BuildRequires:  texlive 
# %endif 
# BuildRequires:  texinfo 
BuildRequires:  fdupes 
BuildRequires:  R-base 
BuildRequires: 	R-cowplot
BuildRequires: 	R-dplyr
BuildRequires: 	R-ggplot2
BuildRequires: 	R-glue
BuildRequires: 	R-magrittr
BuildRequires: 	R-RColorBrewer
BuildRequires: 	R-reshape2
BuildRequires: 	R-reticulate
BuildRequires: 	R-rlang
BuildRequires: 	R-testthat
BuildRequires: 	R-tibble
BuildRequires: 	R-tidyr
BuildRequires: 	R-tmod
BuildRequires: 	R-gtable
BuildRequires: 	R-scales
BuildRequires: 	R-cli
BuildRequires: 	R-generics
BuildRequires: 	R-lifecycle
BuildRequires: 	R-pillar
BuildRequires: 	R-R6
BuildRequires: 	R-tidyselect
BuildRequires: 	R-vctrs
BuildRequires: 	R-isoband
BuildRequires: 	R-S7
BuildRequires: 	R-withr
BuildRequires: 	R-plyr
BuildRequires: 	R-Rcpp-devel
BuildRequires: 	R-stringr
BuildRequires: 	R-RcppTOML-devel
BuildRequires: 	R-here
BuildRequires: 	R-jsonlite
BuildRequires: 	R-png
BuildRequires: 	R-rappdirs
BuildRequires: 	R-brio
BuildRequires: 	R-callr
BuildRequires: 	R-desc
BuildRequires: 	R-digest
BuildRequires: 	R-evaluate
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BuildRequires: 	R-pkgconfig
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BuildRequires: 	R-beeswarm
BuildRequires: 	R-tagcloud
BuildRequires: 	R-XML
BuildRequires: 	R-plotwidgets
BuildRequires: 	R-gplots
BuildRequires: 	R-pheatmap
BuildRequires: 	R-ggrepel
BuildRequires: 	R-gtools
BuildRequires: 	R-caTools
BuildRequires: 	R-rprojroot
BuildRequires: 	R-utf8
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BuildRequires: 	R-farver
BuildRequires: 	R-labeling
BuildRequires: 	R-viridisLite
BuildRequires: 	R-stringi
BuildRequires: 	R-diffobj
BuildRequires: 	R-bitops
BuildRequires: 	R-crayon
 
Suggests:	R-clusterProfiler
Suggests:	R-GO.db
Suggests:	R-knitr
Suggests:	R-rmarkdown
Suggests:	R-BiocManager
Suggests:	R-UpSetR
Suggests:	R-AnnotationHub
Suggests:	R-ensembldb
Suggests:	R-org.Hs.eg.db
%description 
The workflow is a versatile R package designed for comprehensive 
feature selection in bulk RNAseq datasets. Its key innovation lies in 
the seamless integration of the 'Python' 'scikit-learn' 
(<https://scikit-learn.org/stable/index.html>) machine learning 
framework with R-based bioinformatics tools. 'GeneSelectR' performs 
robust Machine Learning-driven (ML) feature selection while leveraging 
'Gene Ontology' (GO) enrichment analysis as described by Thomas PD et 
al. (2022) <doi:10.1002/pro.4218>, using 'clusterProfiler' (Wu et al., 
2021) <doi:10.1016/j.xinn.2021.100141> and semantic similarity analysis 
powered by 'simplifyEnrichment' (Gu, Huebschmann, 2021) 
<doi:10.1016/j.gpb.2022.04.008>. This combination of methodologies 
optimizes computational and biological insights for analyzing complex 
RNAseq datasets. 
 
%prep 
%setup -q -c -n %{packname} 
# the next line is needed, because we build without --clean in between two packages 
rm -rf ~/.R  
 
 
%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 
%fdupes -s %{buildroot}%{rlibdir} 
 
#%%check 
#%%{_bindir}/R CMD check %%{packname} 
 
%files 
%dir %{rlibdir}/%{packname} 
%doc %{rlibdir}/%{packname}/DESCRIPTION
%{rlibdir}/%{packname}/INDEX
%license %{rlibdir}/%{packname}/LICENSE
%{rlibdir}/%{packname}/Meta
%{rlibdir}/%{packname}/NAMESPACE
%{rlibdir}/%{packname}/R
%{rlibdir}/%{packname}/doc
%{rlibdir}/%{packname}/docker
%{rlibdir}/%{packname}/extras
%doc %{rlibdir}/%{packname}/help
%doc %{rlibdir}/%{packname}/html
%{rlibdir}/%{packname}/python
 
%changelog