Kimik

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Kimik's Quads

Kimik is a (by now) 137 nodes's cluster.

• Queues/jobs:

Each user can use up to 15 slots for jobs. There are 4 types of queues in it.

nanYar.short

         queue with 2 nodes that allows you to run jobs for only 1 hour.

nanYar

         queue from node kimik003.iciq.es to kimik045.iciq.es. For running mostly adf jobs (adf has preferences        
         because licenses are for kimik001 to kimik45 and kimik050) although you can run others one.

nanYar.l

         queue from node kimik046.iciq.es to kimik094.iciq.es. Send all kind of (installed) jobs, so for  
         Gaussian or others please use these queue instead of nanYar (unless there are many free nodes on  
         nanYar queue).

nanYar.quad

          For "Quad Core 2" nodes.
          Right now, mainly for running Gaussian jobs, as you cannot get a good perfomance with Jaguar jobs.

• How to submit calculations

     Use the qs command. If you type the command “qs” you get a help menu that shows you how to use the 
     command.
     The name of the job in the queue system is that of the input file starting from the end (up to 10 
     letters).
     In qs you can choose queues, there are three in the cluster:
     short queue (s): two machines: “kimik 001” and “kimik 002” in which jobs can last up to one hour, after      
     which the system kills the jobs.
     normal queue (n): it accepts ADF jobs and it goes from nodes 003 to 045. It has no time restrictions.
     L-queue (l): goes from nodes 046 to 094, it does not allow ADF calculations and has no time restrictions.

• How to kill jobs

     Use the command qdel and the job identifier.

• How to check the state of a queue

     Use qstat command or go to the webpage: kimik.iciq.es/ganglia

• How to print from kimik

     Laserjet printer: command lpr. The queues are:
     bn1c: prints on one page (1 side, vertically)
     bn1c2: prints two pages on one side horizontally (booklet style)
     bn1ch: prints one page on one side horizontally
     bn2c1: prints on two pages (both sides) vertically  
     bn2c2: prints two pages on both sides (horizontally, booklet style)
     bn2ch: prints one page on both sides horizontally
     Hp printer: command lpr. The queue is called “petita”
     Hp color printer: command lpr. The queue is called “color”

• How to look at you quota/file server space

The $HOME of each user has a quota of 23 GB.

There is softquota, that will announce by a message that you are close to exceed the quota limit.

After reaching the maximum, the user will not be able to write in the $HOME until deleting/compressing some files. That also affects the calculations, if there is not enough space to write the output, they will unfortunately die.

To look at your quota go to your $HOME (cd /home/username/) and use the keywords:

du -s -B MB

that will give your quota in Megabytes.

There are several ways to compress files, you might want to use: gzip -9 filename