[torquedev] Jobs killed because of EOF between running pbs_mom's

Toni L. Harbaugh-Blackford [Contr] harbaugh at ncifcrf.gov
Thu Jul 10 05:06:30 MDT 2008


On Thu, 10 Jul 2008, Chris Samuel wrote:

  > Hi all,
  > Occasionally we get users running jobs that do silly
  > things like writing tens-of-gigabyte error files to
  > the users home directory, over NFS, from multiple nodes
  > and jobs at the same time.
  > At that point our NFS server slows down, and for some
  > reason we then also see pbs_mom starting to hit trouble.
  > Connections between the pbs_mom's start to time out, and
  > we get paralle jobs getting killed off with errors like:
  > PBS: job killed: node 7 (tango035) requested job terminate, 'EOF'
  > (code 1099) - internal or network failure attempting to communicate with
  > sister MOM's
  > In reality the job should be allowed to continue running.
  > During the time period of the network storm we had around
  > 500-1000 jobs end, though it's hard to tell precisely how
  > many of those were caught by this problem.
  > Previously we were running with a patch that set the
  > pbs_tcp_timeout value to 60s (back up from its new default
  > of 20 seconds), but I'm thinking now of knocking it up
  > again to try and cope with this.
  > I'd *really* like a way to actually stop pbs_mom
  > from killing jobs across nodes at all when it gets
  > SISTER_EOF, and just retry..
  > Thoughts ?

Yes, I think retry would be better too, with a descriptive
log entry (including the job id) being made for at least the first


  > Chris
  > -- 
  > Christopher Samuel - (03) 9925 4751 - Systems Manager
  >  The Victorian Partnership for Advanced Computing
  >  P.O. Box 201, Carlton South, VIC 3053, Australia
  > VPAC is a not-for-profit Registered Research Agency
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Toni Harbaugh-Blackford, [Contractor]
System Administrator, Advanced Biomedical Computing Center
Advanced Technology Program, Bldg. 430/122
SAIC-Frederick, Inc. / NCI at Frederick
P.O. Box B, Frederick, MD 21702
Phone: 301/846-5798    Fax:  301/846-5762
Email: harbaugh at ncifcrf.gov

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