View source for PSYC 7102: Statistical-Genetics

= Homework =
[[Homework 6: Ancestry]]

= Command Line and Other Coding Resources =
[https://www.codecademy.com/learn/learn-the-command-line Code Academy]

[https://www.coursera.org/course/gencommand Coursera]

= Code Samples (Please add!) =
== Server management tools ==
 <syntaxhighlight lang="bash">
 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"
 </syntaxhighlight>


== Logging into vieques from home without using VPN ==
 <syntaxhighlight lang="bash">
 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.
 </syntaxhighlight>


PBS batch queuing (used on vieques and research computing)
 <syntaxhighlight lang="bash">
 ### 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
 </syntaxhighlight>