Difference between revisions of "Abel use old"
From mn/bio/cees-bioinf
(Added notes on cpu use) |
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| Line 7: | Line 7: | ||
Same, for 24 hrs | Same, for 24 hrs | ||
<pre>qlogin --account nn9244k --nodes 1 --ntasks-per-node 1 --time 24:00:00</pre> | <pre>qlogin --account nn9244k --nodes 1 --ntasks-per-node 1 --time 24:00:00</pre> | ||
| + | <br> NOTE you are''sharing the node with others'', do no use more than the number of cpus you asked for | ||
| − | + | NOTE a pipeline of unix commands may use one cpu per command: | |
| − | + | <pre>grep something somefile | sort | uniq -c</pre> | |
| − | + | This may use three cpus! | |
| − | NOTE a pipeline of unix commands may use one cpu per command: | ||
| − | <pre>grep something somefile | sort | uniq -c</pre> | ||
| − | This may use three cpus! | ||
<br>Getting a whole node with 16 CPUs and 64 GB RAM: | <br>Getting a whole node with 16 CPUs and 64 GB RAM: | ||
<pre>qlogin --account nn9244k --nodes 1 --ntasks-per-node 16 --time 24:00:00 | <pre>qlogin --account nn9244k --nodes 1 --ntasks-per-node 16 --time 24:00:00 | ||
</pre> | </pre> | ||
| − | Even though each node has 16 cpus, due to hyperthreading, you can run'''up to 32 processes '''simultaneously | + | Even though each node has 16 cpus, due to hyperthreading, you can run '''up to 32 processes '''simultaneously |
<br> | <br> | ||
| Line 32: | Line 30: | ||
<pre>/work/jobID.d | <pre>/work/jobID.d | ||
</pre> | </pre> | ||
| − | '''NOTE''' all data on this area is'''deleted''' once you log out | + | '''NOTE''' all data on this area is '''deleted''' once you log out |
<br> | <br> | ||
Revision as of 09:21, 13 December 2012
Get onto abel
ssh abel.uio.no
Getting a single cpu for 11 hrs
qlogin --account nn9244k --nodes 1 --ntasks-per-node 1
Same, for 24 hrs
qlogin --account nn9244k --nodes 1 --ntasks-per-node 1 --time 24:00:00
NOTE you aresharing the node with others, do no use more than the number of cpus you asked for
NOTE a pipeline of unix commands may use one cpu per command:
grep something somefile | sort | uniq -c
This may use three cpus!
Getting a whole node with 16 CPUs and 64 GB RAM:
qlogin --account nn9244k --nodes 1 --ntasks-per-node 16 --time 24:00:00
Even though each node has 16 cpus, due to hyperthreading, you can run up to 32 processes simultaneously
You have a large work area available as well:
echo $SCRATCH cd $SCRATCH
Using
squeue -u your username
will tell you the job ID, the work area is
/work/jobID.d
NOTE all data on this area is deleted once you log out
Quitting:
logout (or ctrl-d)
