Hoffman2:Job Submission Templates: Difference between revisions

Revision as of 22:51, 14 November 2017

Submit job example (tcsh) same as above, written for tcsh Submit jobarray example

example script for submitting a jobarray with an array read in from a file, e.g. 'subjects.txt'

To work with these example scripts:

Edit the "preamble" content at the top to adjust the memory (h_data) and run time (h_rt). You can also adjust the number of cores: 2 cores is '-pe shared 2'. I recommend 2, 4, or 8 for this value. Be aware that the number of cores is a multiplier for the RAM. h_data=4G and 2 cores is 8G total.
Put your script content at the bottom.
Submit directly to the job scheduler like this: qsub myscript.sh

@@ Line 1: / Line 1: @@
-===[[Hoffman2:Submit_job_example|Submit job example]]===
+'''[[Hoffman2:Submit_job_example|Submit job example]]'''
 *example script for submitting a single job
-*[[Hoffman2:Submit_job_example_(tcsh)|Submit job example (tcsh)]]
+'''[[Hoffman2:Submit_job_example_(tcsh)|Submit job example (tcsh)]]'''
-**same as above, written for tcsh
+same as above, written for tcsh
-*Submit jobarray example
+'''[[Hoffman2:Submit_jobarray_example|Submit jobarray example]]'''
-**example script for submitting a jobarray with hard-coded array values
+*example script for submitting a jobarray with hard-coded array values
-*Submit jobarray example (readarray)
+'''[[Hoffman2:Submit_jobarray_example_(readarray)|Submit jobarray example (readarray)]]'''
-**example script for submitting a jobarray with an array read in from a file, e.g. 'subjects.txt'
+*example script for submitting a jobarray with an array read in from a file, e.g. 'subjects.txt'
 To work with these example scripts: