Typically error and output files are given as pbs directives in the qsub script or as command line options to the qsub script like so: #! /bin/bash #PBS -q queue_name #PBS -A account_name #PBS -l nodes=12:ppn=12 #PBS -l walltime=18:00:00 #PBS -e /mypath/error.txt #PBS -o /mypath/output.txt or as a command line option to qsub like so: … Read more
Launch your qsub jobs, using the -N option to give them arbitrary names (job1, job2, etc): qsub -N job1 -cwd ./job1_script qsub -N job2 -cwd ./job2_script qsub -N job3 -cwd ./job3_script Launch your script and tell it to wait until the jobs named job1, job2 and job3 are finished before it starts: qsub -hold_jid job1,job2,job3 … Read more
Using the qsub -v option is the proper way: qsub -v par_name=par_value[,par_name=par_value…] script.sh par_name can be used as variable in the shell script.