Re: PBS abnormal after a failed node
Zhiliang Hu <[email protected]> Thu, 14 Aug 2008 13:39:44 -0500
| Newsgroups | gmane.science.biology.informatics.clusters |
|---|---|
| Message-ID | <[email protected]> |
I am picking up this problem after we have fixed all hardware problems: Symptom: Jobs submitted either hang in queue, or disappears without errors/results (If I ran the same job manually with 'mpirun', it works fine). (1) When I used "qsub -l nodes=7:ppn=2 ...", it complains "Not enough nodes available" while we do have 8 nodes including the head; all are reachable. (2) When I used "qsub -l nodes=6:ppn=2 ...", the job disappeared quickly from the queue but nothing came out of the run (no error, no results). I used 'tracejob' to look for problems but didn't get much out of it: In case of (1): ---------------- 08/13/2008 13:16:17 S Job Queued at request of [email protected], [email protected], job name = BLST255842058.sh, queue=default 08/13/2008 13:16:17 S Job Modified at request of [email protected] 08/13/2008 13:16:17 L Not enough nodes available 08/13/2008 13:16:17 S enqueuing into default, state 1 hop 1 08/13/2008 13:16:17 A queue=default In case of (2): ---------------- 08/13/2008 13:17:52 S enqueuing into default, state 1 hop 1 08/13/2008 13:17:52 S Job Queued at request of [email protected], [email protected], job name = BLST255842058.sh, queue=default 08/13/2008 13:17:52 S Job Modified at request of [email protected] 08/13/2008 13:17:52 L Job Run 08/13/2008 13:17:52 S Job Run at request of [email protected] 08/13/2008 13:17:52 A queue=default 08/13/2008 13:17:52 A user=zhu group=zhu jobname=BLST255842058.sh queue=default ctime=1218651472 qtime=1218651472 etime=1218651472 start=1218651472 exec_host=node001/1+node001/0 Resource_List.neednodes=6:ppn=2 Resource_List.nodect=6 Resource_List.nodes=6:ppn=2 08/13/2008 13:17:53 S Exit_status=1 resources_used.cput=00:00:00 resources_used.mem=0kb resources_used.vmem=73644kb resources_used.walltime=00:00:01 08/13/2008 13:17:53 A user=zhu group=zhu jobname=BLST255842058.sh queue=default ctime=1218651472 qtime=1218651472 etime=1218651472 start=1218651472 exec_host=node001/1+node001/0 Resource_List.neednodes=6:ppn=2 Resource_List.nodect=6 Resource_List.nodes=6:ppn=2 session=21827 end=1218651473 Exit_status=1 resources_used.cput=00:00:00 resources_used.mem=0kb resources_used.vmem=73644kb resources_used.walltime=00:00:01 ------ Does it say anything that I fail to understand relating to the problem? Or something more I should try? Thanks! Zhiliang