search

Nextomics / NextPolish2

Repeat-aware polishing genomes assembled using HiFi long reads
Other
63 stars 3 forks source link

job killed #10

Closed yeeus closed 1 year ago

yeeus commented 1 year ago

I used nextpolish2 to polish a few genomes several days ago. When I looked the log file today, I found this report in some jobs: /var/spool/slurm/d/job1113564/slurm_script: line 31: 37987 Killed nextPolish2 -t ${threads} -r ${mat_HiFi_mapping_file} ${mat_asm} $k21 $k31 -o ${mat_asm}.np2.fasta

and in the initial jobs which were run in the first few days, there was all right about the polishing process. Best wishes!

moold commented 1 year ago

This usually caused by RAM, so try to reduce threats to reduce RAM usage.

yeeus commented 1 year ago

Thanks! I will have a try!