Hi,
I have copied Vladimir's sge.pm file to
-> /opt/vdt/./globus/lib/perl/Globus/GRAM/JobManager/sge.pm
-> /opt/vdt/./globus/setup/globus/sge.pm
Previous to this change I had this situation. When I submitted jobs
using globus-job-submit and check for its status I always got a PENDING
message although the job was running.
Now, when I submit a job and check for its status I got the correct
answer "ACTIVE".
Thanks Vladimir for your always useful support and Blair let me know how
your issue goes.
Regards and happy weekend ;-)
Vladimir Mencl wrote:
On 07/11/2008 11:35 AM, Jeff Porter wrote:
Hi Vladimir,
Could you or Graham forward me your sge.pm file? I remember
thinking the exact same thing as you (that this bug is obsolete) and
had tried just removing ".real" part. That ended up not working
correctly. I think the problem was that the globus job manager's
stdout/err would overwrite the job's stdout/err (this is from my
memory - I've not had the chance to look at this today). I think
this problem is a GT2-SGE mismatch and doesn't come into play with
GT4. So if you're only running GT4, then that additional code is
irrelevant and I also skip it in the VDT's sge.pm.
I do agree that your "-c" suggestion would be a good additional test.
Hi Jeff,
Please find attached my current sge.pm. It's based on the one I got
from Graham Jenkins, and differs only in minor customizations to the
local environment.
However, I am only running GT4 (and I expect so does Graham), so the
file may be irrelevant for a discussion on whether a problem with GT2
has been resolved....
Cheers,
Vladimir
thanks,
Jeff
On 7/10/08 3:19 PM, Vladimir Mencl wrote:
On 07/11/2008 02:06 AM, Blair Bethwaite wrote:
On Thu, Jul 10, 2008 at 11:45 PM, Yoshio Tanaka
<[EMAIL PROTECTED]> wrote:
Which version of the LeSC Globus-SGE adapter is included in VDT?
Good point Yoshio, I should have looked at that to begin with! The
headers in sge.pm on Komolongma say:
# Marko Krznaric
# London eScience Centre
# June 2003
#
# Contributions by David McBride
# London eScience Centre
# Oct 2003
#
# Contributions by Jeff Porter
# Lawrence Berkeley National Laboratory
# Sept 2007
Hi,
I'm also running an SGE cluster with GT4, and I don't get this
problem. I'm using a sge.pm I got from Graham Jenkins, and it does
not have the code fragment which appends ".real" to whatever
standard output and standard error are (lines 372-373).
The comment just above these lines refers to a streaming issue in
Globus: bug #1288,
http://bugzilla.globus.org/bugzilla/show_bug.cgi?id=1288
The bug is _ancient_ - dates from 2003, and is marked as resolved.
I would expect it's safe to commented these lines out.
Looking at the code itself, the code does not take into account that
stdout and stderr could be /dev/null, and should not change the file
name in that case.
In the "if" condition at the end of the line, it does check for a
block special file (-b), but it should also check for a character
special file with -c:
print (....) if (! -b $description->stdout() && ! -c
$description->stdout() );
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
and similarly for stderr.
I would thus recommend either fixing the code to also check for
character special files, or commenting these lines out completely.
Cheers,
Vladimir
