[GE users] Re: [DRMAA-WG] normal exit status causes drmaa_wifaborted

Daniel Templeton Dan.Templeton at Sun.COM
Thu Mar 29 18:38:21 BST 2007


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Tim,

Exit code 99 is for rescheduling.  Exit code 100 indicates an error that 
prevents the job from running, hence the aborted thing.  You can disable 
both of them using qmaster parameters.  See the sge_conf man page.

I'm a bit surprised that you're having trouble with exit codes over 
100.  See the following:

 > qsub -b y -sync y exit 18
Your job 257 ("exit 18") has been submitted
Job 257 exited with exit code 18.
 > qsub -b y -sync y exit 101
Your job 258 ("exit 101") has been submitted
Job 258 exited with exit code 101.
 > qsub -b y -sync y exit 248
Your job 259 ("exit 248") has been submitted
Job 259 exited with exit code 248.

qsub and DRMAA are the same source base, so if it works for qsub, it 
should work for DRMAA.  (qsub -sync y and DRMAA both call japi_wait().)

Daniel

Tim Harsch wrote:
> Thanks Rayson, as always, you're a great help!
>
> Well, I've narrowed down the problem.  I was worried that 
> Schedule::DRMAAc may not be working correctly, but now I'm not so 
> sure...  I think it may be specific to SGE.  I noticed that on page 
> 137 of the User's guide ( http://192.18.109.11/817-6117/817-6117.pdf 
> ), it lists exit code 99 as having specific meaning w.r.t. 
> rescheduling.  It got me wondering if other exit codes have specific 
> meaning, or are getting interpreted in some way I don't understand.  
> So I wrote the two attached scripts, output below.  As you can see: 
> exit codes below 100 work as expected, exit code 100 returns 
> wifaborted, and exit codes above 100 get mangled.  (NOTE: I was having 
> difficulty getting my previous method of using /bin/csh -c 'exit 100' 
> to work as expected and so switched to a simple perl wrapper script [ 
> also attached ] )
>
> I think a valid next step would be to write this script in the Java 
> binding and see what happens.
>
> [harsch1 at xber1 DRMAA_JavaTest]$ Test.pl
> Test.pl
> Sent script '/home/harsch1/tmp/DRMAA_JavaTest/exit_script.pl 1' to 
> grid with Job ID: '85064'
> Exited: 1
>  Exit value: 1
> Aborted: 0
> Signaled: 0
> Sent script '/home/harsch1/tmp/DRMAA_JavaTest/exit_script.pl 60' to 
> grid with Job ID: '85065'
> Exited: 1
>  Exit value: 60
> Aborted: 0
> Signaled: 0
> Sent script '/home/harsch1/tmp/DRMAA_JavaTest/exit_script.pl 80' to 
> grid with Job ID: '85066'
> Exited: 1
>  Exit value: 80
> Aborted: 0
> Signaled: 0
> Sent script '/home/harsch1/tmp/DRMAA_JavaTest/exit_script.pl 100' to 
> grid with Job ID: '85067'
> Exited: 0
> Aborted: 1
> Signaled: 0
> Sent script '/home/harsch1/tmp/DRMAA_JavaTest/exit_script.pl 1000' to 
> grid with Job ID: '85068'
> Exited: 1
>  Exit value: 232
> Aborted: 0
> Signaled: 0
> Sent script '/home/harsch1/tmp/DRMAA_JavaTest/exit_script.pl 10000' to 
> grid with Job ID: '85069'
> Exited: 1
>  Exit value: 16
> Aborted: 0
> Signaled: 0
>
>
> Thanks,
> Tim Harsch
>
> ----- Original Message ----- From: "Rayson Ho" <rayrayson at gmail.com>
> To: "DRMAA-WG" <drmaa-wg at gridforum.org>
> Sent: Wednesday, March 28, 2007 6:28 PM
> Subject: Re: [DRMAA-WG] normal exit status causes drmaa_wifaborted
>
>
>> It uses JNI (Java Native Interface):
>>
>> http://blogs.sun.com/templedf/entry/porting_the_drmaa_java_language
>>
>> Rayson
>>
>>
>>
>> On 3/28/07, Tim Harsch <harsch1 at llnl.gov> wrote:
>>> Daniel,
>>>    By what method does the Java binding, bind to the C binding ( 
>>> e.g. the
>>> perl binding uses SWIG... )
>>>
>>> I'm diving into the Perl binding now, but its been about 4 years 
>>> since I
>>> wrote it.... so it's gonna take me some time I think.
>>>
>>> PS It's really odd, the problem showed up in code I've put in 
>>> regular use
>>> for a long time, I know bugs just don't introduce themselves, but 
>>> this part
>>> of the binding worked fine, I haven't upraded SGE or Perl or recompiled
>>> Schedule::DRMAAc but the problem just appeared.  I'm thinking the 
>>> sysadmins
>>> ran up2date on my RH4 box and a dependency library to the C binding 
>>> changed.
>>> But, if your Java binding is actively using it, then it would rule that
>>> out...
>>>
>>>
>>> ----- Original Message -----
>>> From: "Daniel Templeton" <Dan.Templeton at Sun.COM>
>>> To: "Tim Harsch" <harsch1 at llnl.gov>
>>> Cc: "DRMAA-WG" <drmaa-wg at gridforum.org>
>>> Sent: Wednesday, March 28, 2007 10:48 AM
>>> Subject: Re: [DRMAA-WG] normal exit status causes drmaa_wifaborted
>>>
>>>
>>> > Tim,
>>> >
>>> > Looks like something localized to the Perl binding or your
>>> > configuration.  I did the same test on the Java language binding, 
>>> which
>>> > is also based on the C binding, and it worked fine for me.  Output
>>> > below, program attached.
>>> >
>>> > Could the problem be that you're sending the full command line as the
>>> > remote command and "1" as the args, instead of "csh" as the remote
>>> > command and "-c", "'exit 1'" as the args?  What is the meaning of
>>> > setting the args to "1"?
>>> >
>>> > ---
>>> >
>>> > % java -cp /sge/lib/drmaa.jar:. -d64 Test
>>> > Exited: true
>>> > Aborted: false
>>> > Signaled: false
>>> >
>>> > ---
>>> >
>>> > Daniel
>>> >
>>> > Tim Harsch wrote:
>>> >> I don't understand why causing a simple non-zero exit status is
>>> >> causing drmaa_wifaborted to be set.
>>> >>
>>> >> The easiest way for me to demo this is to change line 38 of
>>> >> t/08_posix_tests.t of the Schedule::DRMAAc CPAN module to be
>>> >> my $remote_cmd = "csh -c 'exit 1'";
>>> >>
>>> >> And then running "make test TEST_VERBOSE=1", which would produce:
>>> >> <SNIP>
>>> >> ok 12 - drmaa_wait says jobid did not change?
>>> >> #     Failed test (t/08_posix_tests.t at line 83)
>>> >> not ok 13 - drmaa_wait should say there is more info available in
>>> >> POSIX funcs
>>> >> ok 15 - drmaa_wifaborted error?
>>> >> #     Failed test (t/08_posix_tests.t at line 90)
>>> >> not ok 16 - normal job should not abort.
>>> >> ok 17 - drmaa_wifexited returned 3 of 3 args
>>> >> ok 18 - drmaa_wifexited error?
>>> >> #     Failed test (t/08_posix_tests.t at line 97)
>>> >> not ok 19 - normal job should exit.
>>> >> <SNIP>
>>> >>
>>> >> I've attached test 8 to this email, in case you want to see how the
>>> >> calls are made in Perl.
>>> >>
>>> >> Any ideas?
>>> >>
>>> >> Thanks,
>>> >> Tim Harsch
>>> >> 
>>> ------------------------------------------------------------------------ 
>>>
>>> >>
>>> >> --
>>> >>   drmaa-wg mailing list
>>> >>   drmaa-wg at ogf.org
>>> >>   http://www.ogf.org/mailman/listinfo/drmaa-wg
>>> >>
>>> >
>>> >
>>>
>>>
>>> -------------------------------------------------------------------------------- 
>>>
>>>
>>>
>>> > import org.ggf.drmaa.*;
>>> >
>>> > public class Test {
>>> > public static void main(String[] args) throws Exception {
>>> > Session s = SessionFactory.getFactory().getSession();
>>> > s.init("");
>>> > JobTemplate jt = s.createJobTemplate();
>>> > jt.setRemoteCommand("/usr/bin/csh");
>>> > jt.setArgs(new String[] {"-c", "'exit 1'"});
>>> > String job = s.runJob(jt);
>>> > JobInfo ji = s.wait(job, s.TIMEOUT_WAIT_FOREVER);
>>> > System.out.println("Exited: " + ji.hasExited());
>>> > System.out.println("Aborted: " + ji.wasAborted());
>>> > System.out.println("Signaled: " + ji.hasSignaled());
>>> > s.deleteJobTemplate(jt);
>>> > s.exit();
>>> > }
>>> > }
>>> >
>>> -- 
>>>  drmaa-wg mailing list
>>>  drmaa-wg at ogf.org
>>>  http://www.ogf.org/mailman/listinfo/drmaa-wg
>>>
>> -- 
>>  drmaa-wg mailing list
>>  drmaa-wg at ogf.org
>>  http://www.ogf.org/mailman/listinfo/drmaa-wg 
> ------------------------------------------------------------------------
>
> --
>   drmaa-wg mailing list
>   drmaa-wg at ogf.org
>   http://www.ogf.org/mailman/listinfo/drmaa-wg
>   

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