[gridengine users] openmpi jobs in sge and bash+modules
reuti at staff.uni-marburg.de
Wed Nov 23 15:10:36 UTC 2011
Am 23.11.2011 um 16:01 schrieb Prentice Bisbal:
> 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 the upgrade, either. The error seems harmless,
> and I haven't tracked it down yet, but the existence of that error
> message, harmless or not, is a problem, as users keep reporting it when
> they see it.
Interesting. Did the version of the bash change with the upgrade?
> On 11/23/2011 09:07 AM, Schmidt U. wrote:
>> 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: unexpected end of file
>> /bin/bash: error importing function definition for `module'/
>> I defined in global bashrc:
>> alias module='/usr/bin/modulecmd bash $*'
>> module load default_module/
>> So far I do not need additional settings in the job script file
>> concerning module environment, as well
>> /#$ -V/
>> is used.
>> The both lines/ /bin/bash:.../ in the err file have no effects, but
>> even new users are sometimes rattled.
>> Is anybody affected as well with this problem and found a solution to
>> eliminate these messages ?
>> users mailing list
>> users at gridengine.org
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