[Wien] time difference among nodes
Luis Ogando
lcodacal at gmail.com
Mon Sep 28 13:58:09 CEST 2015
Dear Wien2k community,
I would like to thank so many hints !
The problem is solved ! The solution was one suggested by Lyudmila
Dobysheva : reboot the nodes. We will never know the origin of the problem,
but, honestly, I do not care !
"There are more things in heaven and earth, Horatio,
Than are dreamt of in your philosophy."
- *Hamlet* (1.5.167-8), Hamlet to Horatio
Shakespeare
I would like to thank you all again.
All the best,
Luis
2015-09-25 5:56 GMT-03:00 Pawel Lesniak <lesniak at ifmpan.poznan.pl>:
> Hello,
>
> I'd suggest trying three things.
>
> First of all - does your cluster allow running interactive jobs? If yes,
> than you should create an interactive job to run /bin/bash. I'm not
> familiar with PBS, but in SGE/OGE if you print cluster queues with "qstat
> -f" you'll see "I" in column qtype which means that given queue allows
> running interactive jobs. Using bash you should be able to run top on given
> node without SSH access.
>
> Regardless of success or failure you should be able to look at nodes
> statistics using "qhost" command. You should see at lease what is the
> current load, memory usage and swap usage. In SGE/OGE there's a switch "-j"
> to qhost which will also show you what jobs are currently running on each
> node. It's necessary to be able to see load of machine interactively
> instead of view at some point of time.
>
> The last concept is to prepare a job to run at the same time on the same
> node as Wien2K, consisting of several
> "ps auxww | grep ogando >> ${HOME}/ps.output; sleep 2"
> commands. It will give you some information on what's going on. Think of
> it as non-interactive top stored in text file.
>
>
> Best regards,
>
> Pawel Lesniak
>
>
> W dniu 23.09.2015 o 14:25, Luis Ogando pisze:
>
> 0K ! In this case, I will try it !
> Many thanks,
> Luis
>
>
> 2015-09-23 9:23 GMT-03:00 Laurence Marks <laurence.marks at gmail.com>:
>
>> Ganglia is web based, you don't need ssh. Please read the link I sent.
>>
>> ---
>> Professor Laurence Marks
>> Department of Materials Science and Engineering
>> Northwestern University
>> http://www.numis.northwestern.edu
>> Corrosion in 4D http://MURI4D.numis.northwestern.edu
>> Co-Editor, Acta Cryst A
>> "Research is to see what everybody else has seen, and to think what
>> nobody else has thought"
>> Albert Szent-Gyorgi
>> On Sep 23, 2015 07:21, "Luis Ogando" <lcodacal at gmail.com> wrote:
>>
>>> Hi,
>>>
>>> I can not access the nodes. SSH among them is forbidden ! We have to
>>> ask the administrators for anything !! It is the hell !!
>>> Of course, only the PBS jobs can "travel" among the nodes.
>>> All the best,
>>> Luis
>>>
>>>
>>> 2015-09-23 9:14 GMT-03:00 Laurence Marks <laurence.marks at gmail.com>:
>>>
>>>> Nooooooo!
>>>>
>>>> You should use ganglia yourself.
>>>>
>>>> ---
>>>> Professor Laurence Marks
>>>> Department of Materials Science and Engineering
>>>> Northwestern University
>>>> http://www.numis.northwestern.edu
>>>> Corrosion in 4D <http://MURI4D.numis.northwestern.edu>
>>>> http://MURI4D.numis.northwestern.edu
>>>> Co-Editor, Acta Cryst A
>>>> "Research is to see what everybody else has seen, and to think what
>>>> nobody else has thought"
>>>> Albert Szent-Gyorgi
>>>> On Sep 23, 2015 07:13, "Luis Ogando" < <lcodacal at gmail.com>
>>>> lcodacal at gmail.com> wrote:
>>>>
>>>>> Dear Prof. Marks,
>>>>>
>>>>> Thank you for your comment.
>>>>> I sent your suggestions to the administrators.
>>>>> All the best,
>>>>> Luis
>>>>>
>>>>>
>>>>> 2015-09-23 8:56 GMT-03:00 Laurence Marks < <laurence.marks at gmail.com>
>>>>> laurence.marks at gmail.com>:
>>>>>
>>>>>> It is hard to work this out remotely, particularly with unfriendly
>>>>>> sys_admin.
>>>>>>
>>>>>> I would find out if you have ganglia available, see
>>>>>> <http://techpubs.sgi.com/library/tpl/cgi-bin/getdoc.cgi/linux/bks/SGI_Admin/books/ICEX_Admin_Guide/sgi_html/ch05.html#Z1190844523tls>
>>>>>> http://techpubs.sgi.com/library/tpl/cgi-bin/getdoc.cgi/linux/bks/SGI_Admin/books/ICEX_Admin_Guide/sgi_html/ch05.html#Z1190844523tls
>>>>>> . This is much more useful than top. Try doing http://... to
>>>>>> relevant head or admin nodes.
>>>>>>
>>>>>> ---
>>>>>> Professor Laurence Marks
>>>>>> Department of Materials Science and Engineering
>>>>>> Northwestern University
>>>>>> <http://www.numis.northwestern.edu>http://www.numis.northwestern.edu
>>>>>> Corrosion in 4D <http://MURI4D.numis.northwestern.edu>
>>>>>> http://MURI4D.numis.northwestern.edu
>>>>>> Co-Editor, Acta Cryst A
>>>>>> "Research is to see what everybody else has seen, and to think what
>>>>>> nobody else has thought"
>>>>>> Albert Szent-Gyorgi
>>>>>> On Sep 23, 2015 06:31, "Luis Ogando" < <lcodacal at gmail.com>
>>>>>> lcodacal at gmail.com> wrote:
>>>>>>
>>>>>>> Dear Prof. Blaha and Lyudmila Dobysheva,
>>>>>>>
>>>>>>> Many thanks for your comments !
>>>>>>> Unfortunately, users have no privileges in the cluster. I will
>>>>>>> send your comments to the administrators and let's see what happens.
>>>>>>> Many thanks again,
>>>>>>> Luis
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>>
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>>>>>>
>>>>>
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