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cds
mkdir my_rnaseq_course #this is where you'll be doing all the course exercises
cd my_rnaseq_course
cp -r /corral-repl/utexas/BioITeam/rnaseq_course_2015/tacc_exercise . #for this specific exercise
cd tacc_exercise |
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Make a commands file with the unix commands.
Expand title Hint Open an editor to create a file called commands
Use head command to print the first 10 lines.
Expand title Answer Code Block nano commands head genes.1 head genes.2 head genes.3 head genes.4 #ctrl+x to exit
Use launcher_creator.py to create a launcher to submit this job (command file).
Expand title Hint launcher_creator.py -h to see the options.
Expand title Answer Code Block launcher_creator.py -n exercise -t 01:00:00 -j commands -q development -a CCBBUT-2015-05-18
Submit the job.
Expand title Hint sbatch
Expand title Answer Code Block sbatch exercise.sgeslurm
Check the queue.
Expand title Answer Code Block showq -u <username>
Check the output files and log files.
Expand title Hint Look at <jobname>.o* file for output information
Look at <jobname>.e* file for log/error information
Expand title Answer Code Block less exercise.o* #q to exit less exercise.e* #q to exit
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