We tried doing that, and it fixed most of our issues, but not the SGE
ones. We're seeing very high CPU load on the sge_shepherd and sge_execd
processes. We were seeing high load on our sge_qmaster process until we
restarted.
-- Skylar Thompson ([email protected])
-- Genome Sciences Department, System Administrator
-- Foege Building S046, (206)-685-7354
-- University of Washington School of Medicine
On 07/12/12 07:59 AM, Adam Tygart wrote:
In my experience, a workaround to the leapsecond bug is to run
date -s "`date`"
on all of the hosts in the cluster. This caused all of the services
experiencing issues to calm down and return to normal without
restarting any services.
--
Adam Tygart
Beocat Sysadmin
On Thu, Jul 12, 2012 at 9:55 AM, Skylar Thompson
<[email protected]> wrote:
We've been seeing this issue too. It seemed to be correlated with the leap
second that got added on the 7th. RHEL6 has a bug that causes issues for
threaded applications. We're working on restarting all our sge_execd's, but
not all of them want to softstop properly.
See this knowledgebase article for more info:
https://access.redhat.com/knowledge/articles/15145
We're not totally certain this is the issue, but it's highly correlated in
time with the leap second.
-- Skylar Thompson ([email protected])
-- Genome Sciences Department, System Administrator
-- Foege Building S046, (206)-685-7354
-- University of Washington School of Medicine
On 07/12/12 07:50 AM, Michael Coffman wrote:
I am intermittently seeing the following on the command line when
attempting to run qrsh with out any options:
error: error running IJS server: "can't create tty_to_commlib thread:
timeout while waiting for thread start"
In addition, I have started to see the following in the
spool/qmaster/messages file (unrelated?):
07/11/2012 13:06:02|listen|serverA|E|commlib error: got read error
(closing "hostA/qstat/29971")
These appear to be 2 separate problems as one is qrsh and the other
appears to be qstat.
I am running sge6.2u5
qmaster is running on rhel5
clients are rhel5 and rhel6
The qrsh issue seems to happen much more frequently on the rhel6 system.
Thanks for any help in how to trouble shoot this.
--
-MichaelC
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