949cf964f585f46e343e5135eebd2ed267731bd6
max
  Wed Jan 13 14:57:48 2016 -0800
not cleaning ~/bin anymore because Hiram. refs #16616

diff --git src/browserbox/root/updateBrowser.sh src/browserbox/root/updateBrowser.sh
index e60f4ec..5956e4a 100755
--- src/browserbox/root/updateBrowser.sh
+++ src/browserbox/root/updateBrowser.sh
@@ -202,37 +202,30 @@
 touch /root/gbibSkipNextUpdate
 echo - Applying Ubuntu security updates
 unattended-upgrade -v
 rm -f /root/gbibSkipNextUpdate
 
 # The original GBiB image did not use the Ubuntu Virtualbox guest utils but the
 # ones from VirtualBox in /opt. Fix this now and switch to the Ubuntu guest
 # utilities, so they are updated automatically by the Ubuntu tools
 if apt-cache policy virtualbox-guest-dkms | grep "Installed: .none." > /dev/null; then
     echo - Updating VirtualBox Guest utilities
     apt-get install -y linux-headers-generic 
     apt-get install -y virtualbox-guest-dkms
     apt-get -y autoremove
     /etc/init.d/vboxadd start
 
-    # during 2015, a directory /home/browser/bin got created in the official image and filled with a copy of the user tools
-    # remove this directory now to avoid confusion
-    # this is unrelated to the virtualbox tools, but doing this now will make sure it is executed only once
-    shred -fzu -n1 /home/browser/bin/blat/*
-    rm -rf /home/browser/bin/blat
-    shred -fzu -n1 /home/browser/bin/*
-    rm -rf /home/browser/bin
 fi
 
 # install R for the gtex tracks
 if apt-cache policy r-base | grep "Installed: .none." > /dev/null; then
    echo - Installing R
    apt-get update
    apt-get --no-install-recommends install -y r-base-core
    apt-get -y autoremove
 fi
 
 echo
 echo - Updating the genome browser software via rsync:
 
 # CGI-BIN and HTDOCS:
 # the parameter "hgwdev" copies over only the beta/alpha CGIs from hgwdev