[Swift-user] Running on Teraport

[Glen Hocky]

Also, i think you want the output of "which qsub to be the following"

[hockyg at tp-login2 ~]$ which qsub
/soft/torque-2.3.6-r1/bin/qsub


On Mon, Jun 22, 2009 at 2:31 PM, Glen Hocky <hockyg at uchicago.edu> wrote:

> You have to change your environment until typing "qstat" on the command
> line works.
> I'm guessing if you edit $HOME/.soft and put in the line
>
> +torque
>
> and then type
>
> resoft;source ~/.bashrc
>
> you'll be good to go
>
>
> On Mon, Jun 22, 2009 at 2:14 PM, Alex Moore <amoore2 at uchicago.edu> wrote:
>
>> 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
>> >> >>
>> >> >>
>> >> >
>> >> _______________________________________________
>> >> Swift-user mailing list
>> >> Swift-user at ci.uchicago.edu
>> >> http://mail.ci.uchicago.edu/mailman/listinfo/swift-user
>> >
>> >
>>
>
>
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