using-slurm
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using-slurm [2013/05/31 13:13] – external edit 127.0.0.1 | using-slurm [2013/09/12 13:20] – [Batch job using local storage] aorth | ||
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< | < | ||
#SBATCH -p batch | #SBATCH -p batch | ||
+ | #SBATCH -J blastn | ||
#SBATCH -n 4 | #SBATCH -n 4 | ||
export BLASTDB=/ | export BLASTDB=/ | ||
+ | |||
+ | module load blast/ | ||
blastn -query ~/ | blastn -query ~/ | ||
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Submitted batch job 1082</ | Submitted batch job 1082</ | ||
+ | ==== Batch job using local storage ==== | ||
+ | Users' home directories are mounted over the network (on " | ||
+ | |||
+ | Instead, you can use a local " | ||
+ | |||
+ | < | ||
+ | #SBATCH -p batch | ||
+ | #SBATCH -n 4 | ||
+ | #SBATCH -J test | ||
+ | |||
+ | WORKDIR=/ | ||
+ | mkdir -p $WORKDIR | ||
+ | |||
+ | echo "Using $WORKDIR on $SLURMD_NODENAME" | ||
+ | echo | ||
+ | |||
+ | Trinity.pl --seqType fq --JM 10G --single AR1960BN.fastq --output $WORKDIR/ | ||
+ | |||
+ | All output is directed to '' | ||
==== Check queue status ==== | ==== Check queue status ==== | ||
< | < |
using-slurm.txt · Last modified: 2022/11/03 11:38 by jean-baka