df -h ### Show space availability in all directories df -h /directory ### Show disk space in /directory top ### Show resource utilization and job status, etc. htop ### Souped-up "top" ls -lhrt ### list the contents of a directory sorted from oldest to newest ### Is your command taking a very long time and you can't keep your computer open for hours? ### Just prepend your command with 'nohup' and append it with '&'. ### This will prevent the system from killing your job when your computer disconnects from ### the server. ### Here are a few toy examples nohup plink --vcf myvcf.vcf.gz --maf .05 & # Run plink nohup zgrep -v '#' myvcf.vcf.gz | bgzip -c > newVcfMinusHeader.vcf.gz &
ssh <uniquename>@statgen.colorado.edu ### Log into statgen a server at IBG (ask Jeff Lessem
### for an account if you don't already have one).
ssh <uniquename>@vieques.colorado.edu ### Once on statgen, then log into vieques from statgen.
### PBS batch system utilities qstat ### On PBS batch system shows status of submitted jobs watch qstat ### Refreshes “qstat” every second.
### Submit interactive pbs job in the short queue for 23 hours on 1 node with 22 CPUs ### Having 22 or 23 CPUs is helpful when you're running per-chromosome jobs. qsub -I -q short -l walltime=23:00:00 -l nodes=1:ppn=22
qdel <job number> ### Kill a PBS job qdel all ### Kill all your PBS jobs