[Swift-devel] RE: [Swift-user] Execution error

Yue, Chen - BMD yuechen at bsd.uchicago.edu
Thu Apr 30 17:57:40 CDT 2009 

Hi Mihael,
 
The error message is different after I change from gt2:PBS to gt2:gt2:PBS on TACC LoneStar. I attached the trace as following. I don't know if there is still setup problem. Thank you very much!
 
/////////////////////////
[yuechen at communicado PTMap2]$ swift PTMap2-unmod.swift -sites.file sites.xml -tc.file tc.data
Swift 0.9rc2 swift-r2860 cog-r2388
RunID: 20090430-1742-tfabq6q4
Progress:
Progress:  Stage in:1
Progress:  Stage in:1
Progress:  Stage in:1
Progress:  Submitting:1
Progress:  Submitted:1
Progress:  Active:1
Failed to transfer wrapper log from PTMap2-unmod-20090430-1742-tfabq6q4/info/r on TACC_LoneStar
Progress:  Active:1
Failed to transfer wrapper log from PTMap2-unmod-20090430-1742-tfabq6q4/info/t on TACC_LoneStar
Progress:  Stage in:1
Progress:  Active:1
Failed to transfer wrapper log from PTMap2-unmod-20090430-1742-tfabq6q4/info/v on TACC_LoneStar
Progress:  Failed:1
Execution failed:
        Exception in PTMap2:
Arguments: [e04.mzXML, ./seqs-ecolik12/fasta02, inputs-unmod.txt, parameters.txt]
Host: TACC_LoneStar
Directory: PTMap2-unmod-20090430-1742-tfabq6q4/jobs/v/PTMap2-v7baq5aj
stderr.txt:
stdout.txt:
----
Caused by:
        Cannot submit job
org.globus.cog.abstraction.impl.common.task.TaskSubmissionException: Cannot submit job
        at org.globus.cog.abstraction.impl.execution.gt2.JobSubmissionTaskHandler.submitSingleJob(JobSubmissionTaskHandler.java:145)
        at org.globus.cog.abstraction.impl.execution.gt2.JobSubmissionTaskHandler.submit(JobSubmissionTaskHandler.java:99)
        at org.globus.cog.abstraction.impl.common.AbstractTaskHandler.submit(AbstractTaskHandler.java:46)
        at org.globus.cog.abstraction.impl.common.task.ExecutionTaskHandler.submit(ExecutionTaskHandler.java:43)
        at org.globus.cog.abstraction.coaster.service.job.manager.WorkerManager.startWorker(WorkerManager.java:221)
        at org.globus.cog.abstraction.coaster.service.job.manager.WorkerManager.run(WorkerManager.java:145)
Caused by: org.globus.gram.GramException: The gatekeeper failed to find the requested service
        at org.globus.gram.Gram.checkHttpReply(Gram.java:137)
        at org.globus.gram.Gram.request(Gram.java:342)
        at org.globus.gram.GramJob.request(GramJob.java:262)
        at org.globus.cog.abstraction.impl.execution.gt2.JobSubmissionTaskHandler.submitSingleJob(JobSubmissionTaskHandler.java:133)
        ... 5 more
Cleaning up...
Shutting down service at https://129.114.50.32:35257
Got channel MetaChannel: 13391897 -> GSSSChannel-null(1)
- Done
////////////////////////
 
Chen, Yue

________________________________

From: Mihael Hategan [mailto:hategan at mcs.anl.gov]
Sent: Thu 4/30/2009 5:37 PM
To: Yue, Chen - BMD
Cc: Michael Wilde; swift-devel
Subject: RE: [Swift-devel] RE: [Swift-user] Execution error



On Thu, 2009-04-30 at 17:32 -0500, Yue, Chen - BMD wrote:
> Hi Michael,
> 
> I already have +osg-client-1.0.0-r1 in my .soft file. But I change it
> to +osg-client and tried again. "ranger" gave me the same error
> message. In the meantime, I tested one job on both Abe and Lonestar
> and they both gave me qsub error.

Can you try "gt2:gt2:PBS" instead of "gt2:PBS" on all sites?

>  I attached as following:
> 
> ////////////////////////////////////
> [yuechen at communicado PTMap2]$ swift PTMap2-unmod.swift -sites.file
> sites.xml -tc.file tc.data
> Swift 0.9rc2 swift-r2860 cog-r2388
> RunID: 20090430-1722-oncfdolb
> Progress:
> Progress:  Stage in:1
> Progress:  Stage in:1
> Progress:  Stage in:1
> Progress:  Submitting:1
> Progress:  Submitted:1
> Failed to transfer wrapper log from
> PTMap2-unmod-20090430-1722-oncfdolb/info/3 on TACC_LoneStar
> Progress:  Active:1
> Failed to transfer wrapper log from
> PTMap2-unmod-20090430-1722-oncfdolb/info/5 on TACC_LoneStar
> Progress:  Stage in:1
> Progress:  Active:1
> Failed to transfer wrapper log from
> PTMap2-unmod-20090430-1722-oncfdolb/info/7 on TACC_LoneStar
> Progress:  Failed:1
> Execution failed:
>         Exception in PTMap2:
> Arguments: [e04.mzXML, ./seqs-ecolik12/fasta02, inputs-unmod.txt,
> parameters.txt]
> Host: TACC_LoneStar
> Directory: PTMap2-unmod-20090430-1722-oncfdolb/jobs/7/PTMap2-7uagp5aj
> stderr.txt:
> stdout.txt:
> ----
> Caused by:
>         Cannot submit job: Could not submit job (qsub reported an exit
> code of -1). no error output
> org.globus.cog.abstraction.impl.common.task.TaskSubmissionException:
> Cannot submit job: Could not submit job (qsub reported an exit code of
> -1). no error output
>         at
> org.globus.cog.abstraction.impl.scheduler.common.AbstractJobSubmissionTaskHandler.submit(AbstractJobSubmissionTaskHandler.java:63)
>         at
> org.globus.cog.abstraction.impl.common.AbstractTaskHandler.submit(AbstractTaskHandler.java:46)
>         at
> org.globus.cog.abstraction.impl.common.task.ExecutionTaskHandler.submit(ExecutionTaskHandler.java:43)
>         at
> org.globus.cog.abstraction.coaster.service.job.manager.WorkerManager.startWorker(WorkerManager.java:221)
>         at
> org.globus.cog.abstraction.coaster.service.job.manager.WorkerManager.run(WorkerManager.java:145)
> Caused by:
> org.globus.cog.abstraction.impl.scheduler.common.ProcessException:
> Could not submit job (qsub reported an exit code of -1). no error
> output
>         at
> org.globus.cog.abstraction.impl.scheduler.common.AbstractExecutor.start(AbstractExecutor.java:94)
>         at
> org.globus.cog.abstraction.impl.scheduler.common.AbstractJobSubmissionTaskHandler.submit(AbstractJobSubmissionTaskHandler.java:53)
>         ... 4 more
> Cleaning up...
> Shutting down service at https://129.114.50.32:34704 <https://129.114.50.32:34704/> 
> Got channel MetaChannel: 2013263 -> GSSSChannel-null(1)
> - Done
> /////////////////////////////////////////
> 
> My sites.xml is at : /home/yuechen/PTMap2/sites.xml. I'm wondering if
> this still relates to my setup. Thanks!
> 
> Chen, Yue
> 
> 
>
>




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