File R-phoenics.spec of Package R-phoenics

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File R-phoenics.spec of Package R-phoenics

# Automatically generated by CRAN2OBS
# 
# Spec file for package phoenics 
# 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) 2024 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 
# license for the pristine package is not an Open Source License, in which 
# 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  phoenics 
%global rlibdir   %{_libdir}/R/library 
 
Name:           R-%{packname} 
Version:        0.3 
Release:        0 
Summary:        Pathways Longitudinal and Differential Analysis in Metabolomics 
Group:          Development/Libraries/Other 
License:        GPL-3 
URL:            http://cran.r-project.org/web/packages/%{packname} 
Source:         phoenics_0.3.tar.gz 
Requires:       R-base 
Requires:	R-lme4
Requires:	R-blme
Requires:	R-tibble
Requires:	R-FactoMineR
Requires:	R-factoextra
Requires:	R-tidyr
Requires:	R-ggplot2
Requires:	R-abind
Requires:	R-dendextend
Requires:	R-ggpubr
Requires:	R-reshape2
Requires:	R-ggrepel
Requires:	R-car
Requires:	R-DT
Requires:	R-ellipse
Requires:	R-emmeans
Requires:	R-flashClust
Requires:	R-leaps
Requires:	R-multcompView
Requires:	R-scatterplot3d
Requires:	R-minqa
Requires:	R-nloptr
Requires:	R-Rcpp
Requires:	R-RcppEigen
Requires:	R-fansi
Requires:	R-lifecycle
Requires:	R-magrittr
Requires:	R-pillar
Requires:	R-pkgconfig
Requires:	R-rlang
Requires:	R-vctrs
Requires:	R-cli
Requires:	R-dplyr
Requires:	R-glue
Requires:	R-purrr
Requires:	R-stringr
Requires:	R-tidyselect
Requires:	R-cpp11
Requires:	R-carData
Requires:	R-pbkrtest
Requires:	R-quantreg
Requires:	R-scales
Requires:	R-viridis
Requires:	R-generics
Requires:	R-R6
Requires:	R-htmltools
Requires:	R-htmlwidgets
Requires:	R-httpuv
Requires:	R-jsonlite
Requires:	R-crosstalk
Requires:	R-jquerylib
Requires:	R-promises
Requires:	R-estimability
Requires:	R-numDeriv
Requires:	R-mvtnorm
Requires:	R-gtable
Requires:	R-isoband
Requires:	R-withr
Requires:	R-ggsci
Requires:	R-cowplot
Requires:	R-ggsignif
Requires:	R-gridExtra
Requires:	R-polynom
Requires:	R-rstatix
Requires:	R-utf8
Requires:	R-plyr
Requires:	R-stringi
Requires:	R-lazyeval
Requires:	R-base64enc
Requires:	R-digest
Requires:	R-fastmap
Requires:	R-knitr
Requires:	R-rmarkdown
Requires:	R-yaml
Requires:	R-later
Requires:	R-broom
Requires:	R-doBy
Requires:	R-SparseM
Requires:	R-MatrixModels
Requires:	R-corrplot
Requires:	R-farver
Requires:	R-labeling
Requires:	R-munsell
Requires:	R-RColorBrewer
Requires:	R-viridisLite
Requires:	R-backports
Requires:	R-Deriv
Requires:	R-modelr
Requires:	R-microbenchmark
Requires:	R-evaluate
Requires:	R-highr
Requires:	R-xfun
Requires:	R-colorspace
Requires:	R-bslib
Requires:	R-fontawesome
Requires:	R-tinytex
Requires:	R-cachem
Requires:	R-memoise
Requires:	R-mime
Requires:	R-sass
Requires:	R-fs
Requires:	R-rappdirs
 
# %%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-lme4
BuildRequires: 	R-blme
BuildRequires: 	R-tibble
BuildRequires: 	R-FactoMineR
BuildRequires: 	R-factoextra
BuildRequires: 	R-tidyr
BuildRequires: 	R-ggplot2
BuildRequires: 	R-abind
BuildRequires: 	R-dendextend
BuildRequires: 	R-ggpubr
BuildRequires: 	R-reshape2
BuildRequires: 	R-ggrepel
BuildRequires: 	R-car
BuildRequires: 	R-DT
BuildRequires: 	R-ellipse
BuildRequires: 	R-emmeans
BuildRequires: 	R-flashClust
BuildRequires: 	R-leaps
BuildRequires: 	R-multcompView
BuildRequires: 	R-scatterplot3d
BuildRequires: 	R-minqa
BuildRequires: 	R-nloptr
BuildRequires: 	R-Rcpp-devel
BuildRequires: 	R-RcppEigen-devel
BuildRequires: 	R-fansi
BuildRequires: 	R-lifecycle
BuildRequires: 	R-magrittr
BuildRequires: 	R-pillar
BuildRequires: 	R-pkgconfig
BuildRequires: 	R-rlang
BuildRequires: 	R-vctrs
BuildRequires: 	R-cli
BuildRequires: 	R-dplyr
BuildRequires: 	R-glue
BuildRequires: 	R-purrr
BuildRequires: 	R-stringr
BuildRequires: 	R-tidyselect
BuildRequires: 	R-cpp11-devel
BuildRequires: 	R-carData
BuildRequires: 	R-pbkrtest
BuildRequires: 	R-quantreg
BuildRequires: 	R-scales
BuildRequires: 	R-viridis
BuildRequires: 	R-generics
BuildRequires: 	R-R6
BuildRequires: 	R-htmltools
BuildRequires: 	R-htmlwidgets
BuildRequires: 	R-httpuv
BuildRequires: 	R-jsonlite
BuildRequires: 	R-crosstalk
BuildRequires: 	R-jquerylib
BuildRequires: 	R-promises
BuildRequires: 	R-estimability
BuildRequires: 	R-numDeriv
BuildRequires: 	R-mvtnorm
BuildRequires: 	R-gtable
BuildRequires: 	R-isoband
BuildRequires: 	R-withr
BuildRequires: 	R-ggsci
BuildRequires: 	R-cowplot
BuildRequires: 	R-ggsignif
BuildRequires: 	R-gridExtra
BuildRequires: 	R-polynom
BuildRequires: 	R-rstatix
BuildRequires: 	R-utf8
BuildRequires: 	R-plyr
BuildRequires: 	R-stringi
BuildRequires: 	R-lazyeval
BuildRequires: 	R-base64enc
BuildRequires: 	R-digest
BuildRequires: 	R-fastmap
BuildRequires: 	R-knitr
BuildRequires: 	R-rmarkdown
BuildRequires: 	R-yaml
BuildRequires: 	R-later
BuildRequires: 	R-broom
BuildRequires: 	R-doBy
BuildRequires: 	R-SparseM
BuildRequires: 	R-MatrixModels
BuildRequires: 	R-corrplot
BuildRequires: 	R-farver
BuildRequires: 	R-labeling
BuildRequires: 	R-munsell
BuildRequires: 	R-RColorBrewer
BuildRequires: 	R-viridisLite
BuildRequires: 	R-backports
BuildRequires: 	R-Deriv
BuildRequires: 	R-modelr
BuildRequires: 	R-microbenchmark
BuildRequires: 	R-evaluate
BuildRequires: 	R-highr
BuildRequires: 	R-xfun
BuildRequires: 	R-colorspace
BuildRequires: 	R-bslib
BuildRequires: 	R-fontawesome
BuildRequires: 	R-tinytex
BuildRequires: 	R-cachem
BuildRequires: 	R-memoise
BuildRequires: 	R-mime
BuildRequires: 	R-sass
BuildRequires: 	R-fs
BuildRequires: 	R-rappdirs
 
Suggests:	R-KEGGREST
%description 
Perform a differential analysis at pathway level based on metabolite 
quantifications and information on pathway metabolite composition. The 
method is based on a Principal Component Analysis step and on a linear 
mixed model. Automatic query of metabolic pathways is also implemented. 
 
%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} 
%{rlibdir}/%{packname}/CITATION
%doc %{rlibdir}/%{packname}/DESCRIPTION
%{rlibdir}/%{packname}/INDEX
%{rlibdir}/%{packname}/Meta
%{rlibdir}/%{packname}/NAMESPACE
%doc %{rlibdir}/%{packname}/NEWS.md
%{rlibdir}/%{packname}/R
%{rlibdir}/%{packname}/adddata
%{rlibdir}/%{packname}/data
%doc %{rlibdir}/%{packname}/help
%doc %{rlibdir}/%{packname}/html
 
%changelog

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File R-phoenics.spec of Package R-phoenics

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