#!/bin/bash -l

PKGNAME=testing
VERSION=default

UDBUILD_HOME=$WORKDIR/sw
PKG_LIST='
	WideLM rpud permGPU magma gputools cudaBayesregData cudaBayesreg
	CARramps
'

vpkg_devrequire udbuild r/3.1.1 r-cran/20140905
init_udbuildenv r-addon cuda/6.5

#Sometimes R doesn't properly use CPPFLAGS which is set by VALET, fix that here:
CPATH=$CUDA_PREFIX/include:$CPATH
LIBRARY_PATH=$CUDA_PREFIX/lib64:$CUDA_PREFIX/lib64/stubs:$LIBRARY_PATH

#CRAN_MIRROR='http://cran.cs.wwu.edu/'
CRAN_MIRROR='http://lib.stat.cmu.edu/R/CRAN/'

quote() { printf '"%s", ' "$@" | sed 's/, $/\n/'; }

R -q --no-save <<EOT
	.libPaths()
	options(repos=structure(c(CRAN="$CRAN_MIRROR")))
	for ( pkg in c( `quote $PKG_LIST` ) ) {
		print(pkg)
		install.packages(pkg, dependencies=TRUE)
	}

	warnings()
EOT