Hello!
I have soil and leaf samples from the plant. I run soil and leaf sequences separately and I was able run all commands to get leaf data. However, I’m stuck at dist.seqs command line for soil sample. I run/submit as a job(slrum)my commands line in the supercomputer of the university.
This is what I prefer to submit:
#!/bin/bash
#SBATCH --export=NONE # do not export current env to the job
#SBATCH --job-name=dist.seqs # job name
#SBATCH --time=21-00:00:00 # max job run time 21 days
#SBATCH --partition=xlong # partition used for jobs 21 days
#SBATCH --ntasks-per-node=1 # tasks (commands) per compute node
#SBATCH --cpus-per-task=48 # CPUs (threads) per command
#SBATCH --mem=360G # total memory per node
#SBATCH --output=dist.seqs.%x.%j # save stdout to file
#SBATCH --error=dist.seqs.%x.%j # save stderr to file
module load GCC/10.3.0
module load OpenMPI/4.1.1
module load Mothur/1.48.0
I submitted a batch job for dist.seqs(cutoff=0.03) for 21days and it didn’t completed and then I submitted cluster.split (taxlevel=4, cutoff=0.03), and it didn’t completed either.
Lastly, I submitted a job for split.abund (cutoff=9) for 21days, and it didn’t work.
Is anybody has any suggestions?
Thanks for all your help!