error in job submission to ALCES HPC cluster
queue instance "byslot.q@node001.prv.kelvin.compute.estate" dropped because it is full
queue instance "byslot.q@node023.prv.kelvin.compute.estate" dropped because it is full
queue instance "byslot.q@node060.prv.kelvin.compute.estate" dropped because it is full
queue instance "byslot.q@node054.prv.kelvin.compute.estate" dropped because it is full
(no project) does not have the correct project to run in cluster queue "interactive.q"
cannot run in queue "bynode.q" because PE "smp-verbose" is not in pe list
(-l h_rt=259200,himem=false) cannot run in queue "smp01.prv.kelvin.compute.estate" because it offers only hf:himem=true
(-l h_rt=259200,himem=false) cannot run in queue "smp02.prv.kelvin.compute.estate" because it offers only hf:himem=true
cannot run in PE "smp-verbose" because it only offers 0 slots
Job Script is:
#!/bin/bash
#########################
#run_bbduk
#$ -N bbduk
#$ -o /mnt/scratch/users/3052/`enter code here`ITS
#$ -pe smp-verbose 20
module add BBTools/38.34
#$ -wd /mnt/scratch/users/3052/ITS
bbduk.sh in=Soil-10_S52_L001_R1_001.fastq in2=Soil-10_S52_L001_R2_001.fastq out=Soil-10_S52_L001_R1_001.trim.fastq out2=Soil-10_S52_L001_R2_001.trim.fastq ref=all_adapter.fa qtrim=rl trimq=20
bbduk.sh in=Soil-11_S42_L001_R1_001.fastq in2=Soil-11_S42_L001_R2_001.fastq out=Soil-11_S42_L001_R1_001.trim.fastq out2=Soil-11_S42_L001_R2_001.trim.fastq ref=all_adapter.fa qtrim=rl trimq=20
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Hello Bioinfonext!
We believe that this post does not fit the main topic of this site.
Not bioinformatics, the cluster error is quite clear - please read it well.
For this reason we have closed your question. This allows us to keep the site focused on the topics that the community can help with.
If you disagree please tell us why in a reply below, we'll be happy to talk about it.
Cheers!
Thanks, It is resolve by removing
#$ -pe smp-verbose 20from script and addingqsub -pe smp 8 myjob.sh