From 6bd5e6342687d09e28f375906f5697103756702e Mon Sep 17 00:00:00 2001
From: Andrea Dell'Amico <adellam@isti.cnr.it>
Date: Wed, 25 Jan 2017 15:04:47 +0100
Subject: [PATCH] library/roles/R/templates/update_r_packages.sh.j2: Fix the R
 updater script, it does not parses the repository URL correctly.

---
 R/templates/update_r_packages.sh.j2 | 3 +--
 1 file changed, 1 insertion(+), 2 deletions(-)

diff --git a/R/templates/update_r_packages.sh.j2 b/R/templates/update_r_packages.sh.j2
index c01efbb..1bc3d2d 100644
--- a/R/templates/update_r_packages.sh.j2
+++ b/R/templates/update_r_packages.sh.j2
@@ -153,7 +153,7 @@ function r_cran_pkgs() {
             is_mirror=$( echo $l | grep ':' )
             is_mirror_ret=$?
             if [ $is_mirror_ret -eq 0 ] ; then
-                mirror=$( echo $l | cut -d : -f 2 )
+                mirror=$( echo $l | cut -d : -f 2- )
             else
                 mirror=$R_CRAN_MIRROR
             fi
@@ -173,7 +173,6 @@ function r_github_pkgs() {
         logger "update_r_packages: Installing R packages from Github"
         for l in $( cat $R_PKGS_GITHUB ) ; do
             pkg=$( echo $l | cut -d "/" -f 2 )
-            user=$( echo $l | cut -d "/" -f 1 )
             if [ "$ACTION" == "upgrade" ] ; then
                 Rscript --slave --no-save --no-restore-history -e "require(devtools); require(methods); install_github('$l');"
             else