[torqueusers] pbs job running slow

Prakash Velayutham prakash.velayutham at cchmc.org
Mon Jul 13 21:35:57 MDT 2009


Hi,

I am not sure why you are seeing this difference. Without the actual  
code (nuwa.py) I can't think of a way to reproduce or debug it. I can  
confirm that the Torque scheduling happens as expected, so nothing  
wrong with the PBS directives themselves. Sorry.

Prakash

On Jul 13, 2009, at 11:15 PM, Abhishek Gupta wrote:

> Here is the script we are running. This is basically a test script  
> of the actual script to test the performance.
>
> #!/bin/bash
> #PBS -j oe
> #PBS -o qsub1.out
> #PBS -m ae
> ###PBS -M abhig at princeton.edu
> #PBS -l cput=36:0:0
> ###PBS -l mem=1GB
> #PBS -l nodes=node022
>
> date
> echo "start"
> export PATH=.:$PATH
>
> source /mnt/dayabay/trunk-source
> cd /mnt/dayabay/project/speedtest
>
> time nuwa.py -l4 -n100 -H 345788 -o test1.root -m FullChain >  
> test1.log
>
> echo "finish"
> date
>
>
> The command I run during interactively were
> # qsub -I run.sh
>
> This took us to node022 and then
> # run.sh
> run.sh is the name of the script I wrote above.
>
> When job was finished, I run exit.
>
> Abhi.
>
> Prakash Velayutham wrote:
>>
>> Send your job commands when you run them interactively and also  
>> send the contents of your batch file.
>>
>> Prakash
>>
>> On Jul 13, 2009, at 4:42 PM, abhig at Princeton.EDU wrote:
>>
>>> Hi Prakash,
>>> Thanks for your reply. I tried running job interactively and it  
>>> seems that it is running normal. But ssh based job is running  
>>> slow. Any further suggestion?
>>> Abhi.
>>>
>>>
>>>
>>> On Mon 13/07/09 4:06 PM , Prakash Velayutham prakash.velayutham at cchmc.org 
>>>  sent:
>>> What is the job? And what does your batch file look like?
>>>
>>> The best way to debug would be to use "qsub -I" and see if  
>>> interactive PBS job also runs slow compared to a direct SSH-based  
>>> job (job being the same). Then go from there.
>>>
>>> Prakash
>>>
>>> On Jul 13, 2009, at 3:55 PM, abhig at Princeton.EDU wrote:
>>>
>>>> Hi All,
>>>> The jobs with PBS are running very slow. Earlier I was thinking  
>>>> that it might be because of rcp so I tried configuring a node  
>>>> with usecp. The log file shows that it read the usecp parameter  
>>>> but the speed is still slow. Can someone suggest me anything? The  
>>>> same job running interactively take almost half the time.
>>>> Thanks,
>>>> Abhi.
>>>> _______________________________________________
>>>> torqueusers mailing list
>>>> torqueusers at supercluster.org
>>>> http://www.supercluster.org/mailman/listinfo/torqueusers
>>>
>>

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