[Swift-user] Running on Teraport

[Alex Moore]

I'm running swift on tp-login.ci.uchicago.edu, and I want to run it on
the cluster. I changed my swiftwork dir as Glen suggested so I now
have:

pool handle="localhost" >
   <gridftp url="local://localhost" />
   <execution provider="pbs" url="none"/>
   <workdirectory>/home/amoore2/Work</workdirectory>
   <profile namespace="karajan" key="jobThrottle">0</profile>
 </pool>

localhost   wormanalysis    /home/amoore2/work/run_wormanalysis.sh
INSTALLED    INTEL32::LINUX null

as my sites.xml and tc.dat files. I get the same error message:

Caused by:
Cannot submit job: java.io.IOException: qsub: not found

It also says that it "Failed to transfer wrapper log from
wormanalysis-......../info/9 on localhost" when I run the program

-Alex

On Mon, Jun 22, 2009 at 1:26 PM, Glen Hocky<hockyg at uchicago.edu> wrote:
> <pool handle="teraport" >
>   <profile namespace="globus" key="queue">fast</profile>
>   <profile namespace="globus" key="maxwalltime">01:00:00</profile>
>   <gridftp url="local://localhost" />
>   <execution provider="pbs" url="none" jobmanager="local:pbs" />
>   <workdirectory>/home/hockyg/swiftwork</workdirectory>
> </pool>
>
> change swiftwork dir
>
> On Mon, Jun 22, 2009 at 1:10 PM, Alex Moore <amoore2 at uchicago.edu> wrote:
>>
>> Thanks, that got it running. I get a different error message now though:
>>
>> Execution failed:
>> Exception in wormanalysis
>> Arguments: [home/amoore2/Work/Data/070326.tif,
>> home/amoore2/Work/Save/Ang-Def.0006.dat,
>> home/amoore2/Work/Save/Props.0006.dat]
>> Host: localhost
>> Directory:
>> wormanalysis-20090622-1303-7z3h1d62/jobs/0/wormanalysis-0mumlmcj
>> stderr.txt
>>
>> stdout.txt
>>
>> ----
>> Caused by:
>> Cannot submit job: java.io.IOException: qsub: not found
>>
>> The program loads an image file from my CI account as input and
>> outputs two .dat files to a directory on my CI account as well- I
>> don't know if it might be something in my code that is causing this.
>> Thanks.
>> -Alex
>>
>> On Mon, Jun 22, 2009 at 12:54 PM, Zhao Zhang<zhaozhang at uchicago.edu>
>> wrote:
>> > Hi, Alex
>> >
>> > # sitename   transformation   path   INSTALLED    platform    profiles
>> > pbs     wormanalysis    /home/amoore2/work/run_wormanalysis.sh
>> > INSTALLED    INTEL32::LINUX null
>> >
>> > change the "pbs" above to localhost.
>> > That "sitename" field should be the same as the <pool handle> in
>> > sites.xml
>> >
>> > best
>> > zhao
>> >
>> >
>> > Alex Moore wrote:
>> >>
>> >> Trying to run a job on Teraport. Logged into tp-login.ci.uchicago.edu.
>> >> Use the following entries for sites.xml and tc.dat:
>> >> ------
>> >>  <pool handle="localhost">
>> >>    <gridftp  url="local://localhost" />
>> >>    <execution provider="pbs" url="none" />
>> >>    <workdirectory >/var/tmp</workdirectory>
>> >>    <profile namespace="karajan" key="jobThrottle">0</profile>
>> >>  </pool>
>> >> ----------
>> >> # sitename   transformation   path   INSTALLED    platform    profiles
>> >> pbs     wormanalysis    /home/amoore2/work/run_wormanalysis.sh
>> >> INSTALLED    INTEL32::LINUX null
>> >> ----------
>> >>
>> >> My swift program call an app named wormanalysis that is on my ci
>> >> account. Runs fine locally. Mike Wilde said that changing the
>> >> "<execution provider="  to pbs instead of localhost should work. Got
>> >> the following error message:
>> >>
>> >> Execution failed:
>> >> Could no find any valid host for the task "Task( type=UNKNOWN,
>> >> identity=urn:cog-1245692325277)" with constraints {filenames=
>> >> [Ljava.lang.Sting;@15f98bd, trfqn=wormanalysis,
>> >> filecache=0rg.griphyn.vdl.karajan.lib.cache.CacheMapAdapter at 15f98f9,
>> >> tr=wormanalysis}
>> >>
>> >> Any help would be appreciated. Thanks.
>> >> -Alex
>> >> _______________________________________________
>> >> Swift-user mailing list
>> >> Swift-user at ci.uchicago.edu
>> >> http://mail.ci.uchicago.edu/mailman/listinfo/swift-user
>> >>
>> >>
>> >
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