I am using a software called Mothur to process some DNA data.
So first I qrsh onto a node of a cluster.
I write a batch script for Mothur and submit it in the command line like this...
This runs fine.
However, when I qsub the job like this...
qsub -cwd submit_mothur.sh
where submit_mothur.sh looks like...
The job stalls at the same point in the DNA processing every time.
I will be processing 50 such DNA files separately; I would like to submit them all at once with a qsub script rather than open 50 different terminals to process each one in an interactive session.
The RAM needed is 214 MB. The file size is 218 MB.
Thanks in advance.