[Swift-user] Montage wrapper error

[Mihael Hategan]

It may be useful for quickly reproducing it. You already know what I
need. Config files, input files, table files, and scripts if they
changed.

Mihael

On Tue, 2010-08-03 at 23:29 -0500, Jonathan Monette wrote:
> Ok.  Let me know if you need more of my input files or configurations.
> 
> On 8/3/10 11:20 PM, Mihael Hategan wrote:
> > Ok. I'll need to take a look at these.
> >
> > On Tue, 2010-08-03 at 23:15 -0500, Jonathan Monette wrote:
> >    
> >> with use.provider.staging=true i get
> >> Execution failed:
> >>       Exception in mProjectPP:
> >> Arguments: [-X, raw_dir/2mass-atlas-990214n-j1210091.fits,
> >> proj_dir/proj_2mass-atlas-990214n-j1210091.fits, template.hdr]
> >> Host: teraport
> >> Directory:
> >> m101_montage-20100803-2312-ex8oc5ff/jobs/y/mProjectPP-yt0gtrvjTODO: outs
> >> ----
> >>
> >> Caused by:
> >>       Job failed with an exit code of 254
> >>
> >> and with that line commented out i get a script printed to the screen
> >> saying it doesn't know what #!/BIN?BASH
> >>
> >> Execution failed:
> >>       Could not initialize shared directory on teraport
> >> Caused by:
> >>       org.globus.cog.abstraction.impl.file.FileResourceException:
> >> org.globus.cog.karajan.workflow.service.ProtocolException: Unknown
> >> command: #!/BIN/BASH
> >>
> >>
> >> On 8/3/10 11:04 PM, Mihael Hategan wrote:
> >>      
> >>> Eh. I'll see if I can fix those.
> >>>
> >>> Though if you are using coasters, and given that I do think I fixed the
> >>> existing issues, there is one more thing you could try:
> >>> in swift.properties, at the end, say use.provider.staging=true
> >>>
> >>> Mihael
> >>>
> >>> On Tue, 2010-08-03 at 22:59 -0500, Jonathan Monette wrote:
> >>>
> >>>        
> >>>> <pool handle="teraport">
> >>>> <execution provider="coaster" url="tp-login2.ci.uchicago.edu"
> >>>> jobmanager="ssh:pbs" />
> >>>> <filesystem provider="coaster" url="ssh://tp-login2.ci.uchicago.edu" />
> >>>> <profile namespace="globus" key="maxtime">3000</profile>
> >>>> <profile namespace="globus" key="workersPerNode">8</profile>
> >>>> <profile namespace="globus" key="slots">1</profile>
> >>>> <profile namespace="globus" key="nodeGranularity">1</profile>
> >>>> <profile namespace="globus" key="maxNodes">10</profile>
> >>>> <profile namespace="globus" key="queue">short</profile>
> >>>> <profile namespace="karajan" key="jobThrottle">0.7</profile>
> >>>> <profile namespace="karajan" key="initialScore">10000</profile>
> >>>> <filesystem provider="ssh" url="tp-login2.ci.uchicago.edu"/>
> >>>> <workdirectory>/home/jonmon/Library/swift/work/teraport</workdirectory>
> >>>> </pool>
> >>>>
> >>>> here is the new sites entry.  I tried running my code and got this error.
> >>>>
> >>>> class
> >>>> org.globus.cog.abstraction.impl.file.coaster.buffers.NIOChannelReadBuffer throws
> >>>> exception in doStuff. Fix it!
> >>>> java.lang.NullPointerException
> >>>>        at
> >>>> org.globus.cog.abstraction.impl.file.coaster.commands.PutFileCommand.dataRead(PutFileCommand.java:79)
> >>>>        at
> >>>> org.globus.cog.abstraction.impl.file.coaster.buffers.ReadBuffer.bufferRead(ReadBuffer.java:77)
> >>>>        at
> >>>> org.globus.cog.abstraction.impl.file.coaster.buffers.NIOChannelReadBuffer.doStuff(NIOChannelReadBuffer.java:36)
> >>>>        at
> >>>> org.globus.cog.abstraction.impl.file.coaster.buffers.Buffers.run(Buffers.java:122)
> >>>>
> >>>>
> >>>> On 8/3/10 10:55 PM, Mihael Hategan wrote:
> >>>>
> >>>>          
> >>>>> <filesystem provider="coaster" url="ssh://tp-login2.ci.uchicago.edu"  />
> >>>>>
> >>>>>
> >>>>>            
> >>>>
> >>>>          
> >>>
> >>>        
> >>      
> >
> >    
>