Full tutorial to learn hpc
srun --time=0:15:00 --mem=200 --pty /bin/bash
Notice how the computer names has change to something like `nodeXXX`
md5sum pilm103/work/*gz
ctrl+d to exit from the computing node.
Exercise: send md5sum to interactive
srun --time=0:5:00 --mem=200 md5sum pilm103/work/sample.fastq.gz
Download the script from here:
wget https://github.com/pilm-bioinformatics/core/raw/master/workshops/pilm103/run_test.slurm
It looks like that:
#!/bin/bash
#SBATCH -N 1
#SBATCH -c 1
#SBATCH --mem=200
#SBATCH -t 00:1:00
#SBATCH -J "init"
#SBATCH -e run.e
#SBATCH -o run.o
## SBATCH --mail-type=END,FAIL # this line is commented
## SBATCH --mail-user=you@mit.edu # this line is commented
sleep 60 # wait 60 seconds
md5sum pilm103/work/sample.fastq.gz
You can check that by typing cat run_test.slurm.
Exercise: send md5sum to queue
sbatch run_test.slurm
squeue -u lpantano