Hoffman2:Job Submission Templates

Job submission templates

Submit job

• example script for submitting a single job

Submit job (tcsh)

• same as above, written for tcsh

Submit jobarray

• example script for submitting a jobarray with hard-coded array values

Submit jobarray (readarray)

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

To work with these example scripts

1. 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.
2. Put your script content at the bottom.
3. Submit directly to the job scheduler like this: qsub myscript.sh