automatic import of R-CRAN-hwep

3 files changed, 96 insertions, 0 deletions

diff --git a/.gitignore b/.gitignore
index e69de29..faf2acb 100644
--- a/.gitignore
+++ b/.gitignore
@@ -0,0 +1 @@
+/hwep_2.0.0.tar.gz
diff --git a/R-CRAN-hwep.spec b/R-CRAN-hwep.spec
new file mode 100644
index 0000000..be5ddf4
--- /dev/null
+++ b/R-CRAN-hwep.spec
@@ -0,0 +1,94 @@
+%global __brp_check_rpaths %{nil}
+%global __requires_exclude ^libmpi
+%global packname  hwep
+%global packver   2.0.0
+%global rlibdir   /usr/local/lib/R/library
+
+Name:             R-CRAN-%{packname}
+Version:          2.0.0
+Release:          1%{?dist}%{?buildtag}
+Summary:          Hardy-Weinberg Equilibrium in Polyploids
+
+License:          GPL (>= 3)
+URL:              https://cran.r-project.org/package=%{packname}
+Source0:          %{url}&version=%{packver}#/%{packname}_%{packver}.tar.gz
+
+
+BuildRequires:    R-devel >= 3.4.0
+Requires:         R-core >= 3.4.0
+BuildRequires:    R-CRAN-RcppParallel >= 5.0.1
+BuildRequires:    R-CRAN-rstantools >= 2.2.0
+BuildRequires:    R-CRAN-rstan >= 2.18.1
+BuildRequires:    R-CRAN-StanHeaders >= 2.18.0
+BuildRequires:    R-CRAN-BH >= 1.66.0
+BuildRequires:    R-CRAN-RcppEigen >= 0.3.3.3.0
+BuildRequires:    R-CRAN-Rcpp >= 0.12.0
+BuildRequires:    R-CRAN-bridgesampling 
+BuildRequires:    R-CRAN-doFuture 
+BuildRequires:    R-CRAN-doRNG 
+BuildRequires:    R-CRAN-foreach 
+BuildRequires:    R-CRAN-future 
+BuildRequires:    R-CRAN-iterators 
+BuildRequires:    R-methods 
+BuildRequires:    R-CRAN-pracma 
+BuildRequires:    R-CRAN-tensr 
+BuildRequires:    R-CRAN-updog 
+BuildRequires:    R-CRAN-rstantools
+Requires:         R-CRAN-RcppParallel >= 5.0.1
+Requires:         R-CRAN-rstantools >= 2.2.0
+Requires:         R-CRAN-rstan >= 2.18.1
+Requires:         R-CRAN-Rcpp >= 0.12.0
+Requires:         R-CRAN-bridgesampling 
+Requires:         R-CRAN-doFuture 
+Requires:         R-CRAN-doRNG 
+Requires:         R-CRAN-foreach 
+Requires:         R-CRAN-future 
+Requires:         R-CRAN-iterators 
+Requires:         R-methods 
+Requires:         R-CRAN-pracma 
+Requires:         R-CRAN-tensr 
+Requires:         R-CRAN-updog 
+Requires:         R-CRAN-rstantools
+
+%description
+Inference concerning equilibrium and random mating in autopolyploids.
+Methods are available to test for equilibrium and random mating at any
+even ploidy level (>2) in the presence of double reduction at biallelic
+loci. For autopolyploid populations in equilibrium, methods are available
+to estimate the degree of double reduction. We also provide functions to
+calculate genotype frequencies at equilibrium, or after one or several
+rounds of random mating, given rates of double reduction. The main
+function is hwefit(). This material is based upon work supported by the
+National Science Foundation under Grant No. 2132247. The opinions,
+findings, and conclusions or recommendations expressed are those of the
+author and do not necessarily reflect the views of the National Science
+Foundation. For details of these methods, see Gerard (2022a)
+<doi:10.1111/biom.13722> and Gerard (2022b)
+<doi:10.1101/2022.08.11.503635>.
+
+%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}
diff --git a/sources b/sources
new file mode 100644
index 0000000..d31e1de
--- /dev/null
+++ b/sources
@@ -0,0 +1 @@
+3daf2ea8355bf2d163b1f49be214996d  hwep_2.0.0.tar.gz