File R-cooccur.spec of Package R-cooccur

# Automatically generated by CRAN2OBS
# 
# Spec file for package cooccur 
# 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 
# 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  cooccur 
%global rlibdir   %{_libdir}/R/library 
 
Name:           R-%{packname} 
Version:        1.3 
Release:        0 
Summary:        Probabilistic Species Co-Occurrence Analysis in R 
Group:          Development/Libraries/Other 
License:        GPL-2 
URL:            http://cran.r-project.org/web/packages/%{packname} 
Source:         cooccur_1.3.tar.gz 
Requires:       R-base 
Requires:	R-reshape2
Requires:	R-gmp
Requires:	R-ggplot2
Requires:	R-cli
Requires:	R-glue
Requires:	R-gtable
Requires:	R-isoband
Requires:	R-lifecycle
Requires:	R-rlang
Requires:	R-scales
Requires:	R-tibble
Requires:	R-vctrs
Requires:	R-withr
Requires:	R-plyr
Requires:	R-Rcpp
Requires:	R-stringr
Requires:	R-farver
Requires:	R-labeling
Requires:	R-R6
Requires:	R-RColorBrewer
Requires:	R-viridisLite
Requires:	R-magrittr
Requires:	R-stringi
Requires:	R-pillar
Requires:	R-pkgconfig
Requires:	R-utf8
 
# %%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-reshape2
BuildRequires: 	R-gmp
BuildRequires: 	R-ggplot2
BuildRequires: 	R-cli
BuildRequires: 	R-glue
BuildRequires: 	R-gtable
BuildRequires: 	R-isoband
BuildRequires: 	R-lifecycle
BuildRequires: 	R-rlang
BuildRequires: 	R-scales
BuildRequires: 	R-tibble
BuildRequires: 	R-vctrs
BuildRequires: 	R-withr
BuildRequires: 	R-plyr
BuildRequires: 	R-Rcpp-devel
BuildRequires: 	R-stringr
BuildRequires: 	R-farver
BuildRequires: 	R-labeling
BuildRequires: 	R-R6
BuildRequires: 	R-RColorBrewer
BuildRequires: 	R-viridisLite
BuildRequires: 	R-magrittr
BuildRequires: 	R-stringi
BuildRequires: 	R-pillar
BuildRequires: 	R-pkgconfig
BuildRequires: 	R-utf8
 
%description 
This R package applies the probabilistic model of species co-occurrence 
(Veech 2013) to a set of species distributed among a set of survey or 
sampling sites. The algorithm calculates the observed and expected 
frequencies of co-occurrence between each pair of species. The expected 
frequency is based on the distribution of each species being random and 
independent of the other species. The analysis returns the 
probabilities that a more extreme (either low or high) value of 
co-occurrence could have been obtained by chance. The package also 
includes functions for visualizing species co-occurrence results and 
preparing data for downstream analyses. 
 
%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
%{rlibdir}/%{packname}/R
%{rlibdir}/%{packname}/data
%doc %{rlibdir}/%{packname}/help
%doc %{rlibdir}/%{packname}/html
 
%changelog