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--- cluster:97 [2012/02/16 14:01]
hmeij
+++ cluster:97 [2012/02/16 14:07]
hmeij [Sample]
@@ Line 10: / Line 10: @@
 However, that queue may be a bottle neck (only 4 compute nodes in the ehwfd queue) or perhaps 230 GB is not enough (for 8 job slots).  So one alternative is the use of MYSANSCRATCH in your submit scripts.  MYSANSCRATCH refers to a directory made for you by the scheduler at location /sanscratch/JOBPID which is a Raid 5 filesystem of 5 TB provided by 5 disks.  IOZone suite was done in 2 hrs 45 mins (scenario: san.hp.out).
-For an example of using MYSANSCRATCH, consult this page
+For an example of using MYSANSCRATCH, look at the bottom of this page.  You will have to stage your data in the directory provided and copy the results back to your home directory when finished.  The scheduler will remove the directory.
 ==== IOZone ====
@@ Line 70: / Line 70: @@
   * [[http://greentail.wesleyan.edu:81/iozone/greentail/report_home|report_home]]
+==== Sample ====
+Using MYSANSCRATCH with gaussian jobs (you can use any queue but hp12 will be the fastest):
+<code>
+#!/bin/bash
+#BSUB -q hp12
+#BSUB -o out
+#BSUB -e err
+#BSUB -J test
+# job slots: change both lines, also inside gaussian.com
+#BSUB -n 8
+#BSUB -x
+# unique job scratch dirs
+MYSANSCRATCH=/sanscratch/$LSB_JOBID
+MYLOCALSCRATCH=/localscratch/$LSB_JOBID
+export MYSANSCRATCH MYLOCALSCRATCH
+# cd to remote working dir
+cd $MYSANSCRATCH
+pwd
+# environment
+export GAUSS_SCRDIR="$MYSANSCRATCH"
+export g09root="/share/apps/gaussian/g09root"
+. $g09root/g09/bsd/g09.profile
+# stage input data
+rm -rf ~/gaussian/err ~/gaussian/out*
+cp ~/gaussian/gaussian.com .
+# run
+time g09 < gaussian.com > gaussian.log
+# save results
+cp gaussian.log ~/gaussian/output.$LSB_JOBID
+</code>
 \\
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