Qsub -v EXPERIMENT=YourExperiment.01 lp_filter_tsv.sh 20090615_99999 run01 0.08įYI: this would be the correct syntax for the replacement (note the location of the single quotes). To run the script from the head node, you'd need to do something like: str Find the starting indices of substrings in a character vector Find the substring in. #Name of experiment whose data you want to accessĮXPERIMENT=$) Find the starting indices of substrings in a character vector. # The remaining sections are setup related and don't require # Arguments to the USER SCRIPT are accessible in the usual fashion # codes, set a RETURNCODE higher than 100. # If you need to set another return code, set the RETURNCODE # By default on successful completion the job will return 0 # eg: OUTDIR=$EXPERIMENT/Analysis/GridOut # to another location under your experiment folder # To change this path, set the OUTDIR variable in this section # folder under the Experiment directory i.e. # By default all terminal output is routed to the " Analysis " # eg: $EXPERIMENT/Data $EXPERIMENT/Analysis # Within this section you can access your experiment USER SCRIPT: Add the user script in this section. # your job is completed or fails you need to set the USER DIRECTIVE: If you want mail notifications when Matlab -nodisplay qsub -v EXPERIMENT=Dummy.01 script.sh args Hey eric, you need to set up your matlab script just like any normal matlab, then have your qsub script go to the directory and run the matlab script: Does anyone have a sample script I can look at? I'm trying to write a script for qsub to run a MATLAB m-file.
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