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annotate bin/ezip.sh @ 193:fff248a65e39

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works, although output not checked
author Henry S. Thompson <ht@inf.ed.ac.uk>
date Wed, 25 Sep 2024 13:52:42 +0100
parents 464d2dfb99c9
children
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
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Henry S. Thompson <ht@inf.ed.ac.uk>
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1 #!/bin/bash
Henry S. Thompson <ht@inf.ed.ac.uk>
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2 # Invoke this as e.g. sbatch -n 4 -c 32 --exclusive masterJob.sh ezip
Henry S. Thompson <ht@inf.ed.ac.uk>
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3 # run pigz -p 8 on extract_...tar files
Henry S. Thompson <ht@inf.ed.ac.uk>
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4 n=$SLURM_NTASKS
Henry S. Thompson <ht@inf.ed.ac.uk>
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5 c=$SLURM_CPUS_PER_TASK
Henry S. Thompson <ht@inf.ed.ac.uk>
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6 node=$SLURMD_NODENAME
Henry S. Thompson <ht@inf.ed.ac.uk>
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7 local=$SLURM_LOCALID
Henry S. Thompson <ht@inf.ed.ac.uk>
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8 proc=$SLURM_PROCID
Henry S. Thompson <ht@inf.ed.ac.uk>
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9 echo $(date) $node:$proc start
Henry S. Thompson <ht@inf.ed.ac.uk>
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10
Henry S. Thompson <ht@inf.ed.ac.uk>
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11 module load gnu-parallel
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12
Henry S. Thompson <ht@inf.ed.ac.uk>
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13 parallel --will-cite -j $c -n 1 'pigz -p 8 {}/orig/extracts/*.tar' < ezip/$proc.txt
Henry S. Thompson <ht@inf.ed.ac.uk>
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14
Henry S. Thompson <ht@inf.ed.ac.uk>
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15 echo $(date) $proc end
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16