File R-ibdsim2.spec of Package R-ibdsim2

# Automatically generated by CRAN2OBS
# 
# Spec file for package ibdsim2 
# 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. 
# 
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# 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 
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# published by the Open Source Initiative. 
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# Please submit bugfixes or comments via http://bugs.opensuse.org/ 
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%global packname  ibdsim2 
%global rlibdir   %{_libdir}/R/library 
 
Name:           R-%{packname} 
Version:        2.3.1 
Release:        0 
Summary:        Simulation of Chromosomal Regions Shared by Family Members 
Group:          Development/Libraries/Other 
License:        GPL-3 
URL:            http://cran.r-project.org/web/packages/%{packname} 
Source:         ibdsim2_2.3.1.tar.gz 
Requires:       R-base 
Requires:	R-pedtools
Requires:	R-ggplot2
Requires:	R-glue
Requires:	R-Rcpp
Requires:	R-ribd
Requires:	R-cli
Requires:	R-gtable
Requires:	R-isoband
Requires:	R-lifecycle
Requires:	R-rlang
Requires:	R-S7
Requires:	R-scales
Requires:	R-vctrs
Requires:	R-withr
Requires:	R-kinship2
Requires:	R-pedmut
Requires:	R-slam
Requires:	R-quadprog
Requires:	R-knitr
Requires:	R-lpSolve
Requires:	R-farver
Requires:	R-labeling
Requires:	R-R6
Requires:	R-RColorBrewer
Requires:	R-viridisLite
Requires:	R-evaluate
Requires:	R-highr
Requires:	R-xfun
Requires:	R-yaml
 
# %%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-pedtools
BuildRequires: 	R-ggplot2
BuildRequires: 	R-glue
BuildRequires: 	R-Rcpp-devel
BuildRequires: 	R-ribd
BuildRequires: 	R-cli
BuildRequires: 	R-gtable
BuildRequires: 	R-isoband
BuildRequires: 	R-lifecycle
BuildRequires: 	R-rlang
BuildRequires: 	R-S7
BuildRequires: 	R-scales
BuildRequires: 	R-vctrs
BuildRequires: 	R-withr
BuildRequires: 	R-kinship2
BuildRequires: 	R-pedmut
BuildRequires: 	R-slam
BuildRequires: 	R-quadprog
BuildRequires: 	R-knitr
BuildRequires: 	R-lpSolve
BuildRequires: 	R-farver
BuildRequires: 	R-labeling
BuildRequires: 	R-R6
BuildRequires: 	R-RColorBrewer
BuildRequires: 	R-viridisLite
BuildRequires: 	R-evaluate
BuildRequires: 	R-highr
BuildRequires: 	R-xfun
BuildRequires: 	R-yaml
BuildRequires:  gcc gcc-c++ gcc-fortran
 
Suggests:	R-lubridate
Suggests:	R-patchwork
Suggests:	R-shiny
Suggests:	R-shinyjs
Suggests:	R-shinyWidgets
Suggests:	R-testthat
Suggests:	R-zip
%description 
Simulation of segments shared identical-by-descent (IBD) by pedigree 
members. Using sex specific recombination rates along the human genome 
(Halldorsson et al. (2019) <doi:10.1126/science.aau1043>), phased 
chromosomes are simulated for all pedigree members. Applications 
include calculation of realised relatedness coefficients and IBD 
segment distributions. 'ibdsim2' is part of the 'pedsuite' collection 
of packages for pedigree analysis. A detailed presentation of the 
'pedsuite', including a separate chapter on 'ibdsim2', is available in 
the book 'Pedigree analysis in R' (Vigeland, 2021, ISBN:9780128244302). 
A 'Shiny' app for visualising and comparing IBD distributions is 
available at <https://magnusdv.shinyapps.io/ibdsim2-shiny/>. 
 
%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}/data
%doc %{rlibdir}/%{packname}/help
%doc %{rlibdir}/%{packname}/html
%{rlibdir}/%{packname}/libs
%{rlibdir}/%{packname}/shiny
 
%changelog