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# Make a new alignment directory for running these scripts mkdir -p $SCRATCH/core_ngs/alignment/bwa_script cd $SCRATCH/core_ngs/alignment/bwa_script ln -s -f ../fastq # Copy the alignment commands file and submit the batch job cp $CORENGS/tacc/aln_script.cmds . launcher_maker.py -n aln_script.cmds -t 2 -w 4 -a UT-2015-05-18 -v --reservation=CCBB sbatch aln_script.slurm --reservation=CCBB showq -u |
While we're waiting for the job to complete, lets look at the aln_script.cmds file.
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