[gridengine users] I can't run mpi jobs correctly

2011-11-23 Thread mahbube rustaee
Excuse me Mr. Reuti for your time and I 'm appreciate with your kindness. I compiled intel mpi openmpi-1.4.2 by --with-sge and it works via CLI correctly (openmpi integrate with sge). I modified PE mpifillamd such: pe_namempifillamd slots user_lists NONE

Re: [gridengine users] qacct in xml?

2011-11-23 Thread Reuti
Hi, Am 23.11.2011 um 08:37 schrieb Gerard Henry: hello all, for a home app, i need to get the stats of finished jobs. qacct -j jid gives me datas not easily usable, i'd prefer to have them in xml. But there is no -xml to qacct (or am i missing something?) the DRMAA way is not an

Re: [gridengine users] I can't run mpi jobs correctly

2011-11-23 Thread Reuti
Hi, Am 23.11.2011 um 09:07 schrieb mahbube rustaee: Excuse me Mr. Reuti for your time and I 'm appreciate with your kindness. I compiled intel mpi openmpi-1.4.2 by --with-sge and it works via CLI correctly (openmpi integrate with sge). I modified PE mpifillamd such: pe_name

Re: [gridengine users] SGE (univa 8.0.1) - anyone running SGE with Centrify active directory integration?

2011-11-23 Thread William Hay
On 22 November 2011 20:05, Chris Dagdigian d...@sonsorol.org wrote: Hi folks, I'm hands-on with a shiny new cluster running Univa's 8.0.1 release and am having some issues running jobs as a non-root user via an account that lives in Active Directory. The cluster is the standard sort of

Re: [gridengine users] can run mpi jobs , but some questions

2011-11-23 Thread Reuti
Hi, Am 23.11.2011 um 11:28 schrieb mahbube rustaee: Thank you very much Mr. Reuti. I can run mpi jobs with new open mpi compiled with option --with-sge. some questions: 1) job finished and output file was created , but job's state remain running for a little time. why? this is built in

[gridengine users] Job Conflict in shared queue

2011-11-23 Thread Lasse Knudsen
Greetings, I have an interesting problem between two of my user groups they both share a queue, and i dont want to split the queue. What happens is that some jobs from group_A cause some jobs from group_B to fail, they both use a specfic independent consumable, so i was thinking that it might be

Re: [gridengine users] SGE (univa 8.0.1) - anyone running SGE with Centrify active directory integration?

2011-11-23 Thread Chris Dagdigian
William Hay wrote: As others have pointed out community support for closed source versions is necessarily limited but nothing stops us from having a go. As Univa and Oracle diverge from the open source versions this will become harder though. Just wanted to mention on the list and in

[gridengine users] openmpi jobs in sge and bash+modules

2011-11-23 Thread Schmidt U.
Dear all, I know, the problem was discusses one or two years before, but I still have trouble to eliminate messages in.err file: I'm using SGE 6.2u5 and for every allocated node of an openmpi job the sge job's error file has two lines like this: //bin/bash: module: line 1: syntax error:

Re: [gridengine users] openmpi jobs in sge and bash+modules

2011-11-23 Thread Mazouzi
Hi, To eliminate this probelm, we use module like this in our cluster: 1/ the module must be visible in the PATH 2/ we use : #!/bin/bash -l at the begining of the script. 3/ we use -V to export env variables here is an example of an MPI-SGE script : #!/bin/bash -l#$ -q mpi.q#$ -V#$ -N

Re: [gridengine users] openmpi jobs in sge and bash+modules

2011-11-23 Thread Reuti
Am 23.11.2011 um 16:01 schrieb Prentice Bisbal: Schmidt, I've been having the same problem ever since I upgraded my cluster nodes to RHEL 6. A few weeks ago. My SGE installation was not touched during the upgrade, since it's on an NFS partition, and the head node was not touched during

Re: [gridengine users] qacct in xml?

2011-11-23 Thread Alex Chekholko
Hey Gerard, Here's an example very simple perl script that reads the accounting file, maybe it will help. http://stanford.edu/~chekh/sge_vmem.pl Regards, Alex On Nov 22, 2011, at 11:37 PM, Gerard Henry wrote: hello all, for a home app, i need to get the stats of finished jobs. qacct -j