changeset 12:e4000df38772 draft

Uploaded
author geert-vandeweyer
date Mon, 28 Jul 2014 09:49:10 -0400
parents 1850675b00d2
children 4a74b359e941
files run_cf0611.pl
diffstat 1 files changed, 10 insertions(+), 2 deletions(-) [+]
line wrap: on
line diff
--- a/run_cf0611.pl	Mon Jul 28 09:48:25 2014 -0400
+++ b/run_cf0611.pl	Mon Jul 28 09:49:10 2014 -0400
@@ -30,8 +30,16 @@
 my $partnerfile='';
 
 my $cwd = getcwd();
-my $scriptspath="$cwd/cf_scripts";
-my $cffile="$cwd/cf_v1.1.jar";
+my $scriptspath = $cffile = '';
+# Galaxy installer puts scripts and jar into a folder, which is available under the environment variable CF_PATH
+if (defined($ENV{'CF_PATH'}) && -d $ENV{'CF_PATH'}) {
+	$scriptspath = $ENV{'CF_PATH'}."/cf_scripts";
+	$cffile = $ENV{'CF_PATH'}."/cf_v1.1.jar";
+}
+else {
+	$scriptspath="$cwd/cf_scripts";
+	$cffile="$cwd/cf_v1.1.jar";
+}
 my $help='';