[Fwd: Re: [Swift-devel] Problems with Swift trunk on abe]

[Michael Wilde]

Similar problems happen on Ranger.  I used an older Swift build 
initially, and it ran.

Then I updated to the latest, and I get the following similar failure:

RunID: 20091103-1016-khfn59yf
Progress:
Ex098
java.lang.NullPointerException
         at 
org.globus.cog.karajan.workflow.nodes.functions.Variable.function(Variable.java:38)
         at 
org.globus.cog.karajan.workflow.nodes.functions.AbstractFunction.post(AbstractFunction.java:45)
         at 
org.globus.cog.karajan.workflow.nodes.Sequential.startNext(Sequential.java:51)
...
edu.emory.mathcs.backport.java.util.concurrent.ThreadPoolExecutor$Worker.runTask(ThreadPoolExecutor.java:643)
         at 
edu.emory.mathcs.backport.java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:668)
         at java.lang.Thread.run(Thread.java:619)
Execution failed:
         Argument size mismatch. Got 1 names and 2 values
login3$

Im going try the bgp next. If it works there, we can leave this issue 
for after SC. Else, I'll need to resolve it.

- Mike

-------- Original Message --------
Subject: Re: [Swift-devel] Problems with Swift trunk on abe
Date: Tue, 03 Nov 2009 08:18:55 -0600
From: Michael Wilde <wilde at mcs.anl.gov>
To: swift-devel <swift-devel at ci.uchicago.edu>
References: <4AF03842.70300 at mcs.anl.gov>

Using the Swift build (and swift.properties) that works on communicado,
I still get the same failures on Abe.

I'm going to try a few other systems to see if the problem is widespread
or local to Abe.

- Mike


On 11/3/09 8:03 AM, Michael Wilde wrote:
> What seems like the a build of the same Swift & CoG svn revision is 
> working on communicado but giving strange and transient results on Abe.
> 
> A series of 5 runs of the same code (with .xml and .kml files left in 
> place) give the set of errors below.
> 
> I will try to use the release build on communicado, to see if this is 
> being caused by some Java compiler difference on Abe.
> 
> Suggestions welcome. Mihael, I can get you the logs - they are on abe in 
> ~wilde/run.58, along with the source: psim.basicex1.swift
> 
> - Mike
> 
> Output with a few progress and blank lines removed:
> 
> (full output is in: http://www.ci.uchicago.edu/~wilde/abe.swiftproblem.txt )
> 
> honest4$ ls
> 
> Protein.map*  Protein.map~*  etc  input@  logs/  psim.basicex1.swift* 
> sites.xml  t.swift*  t.swift~*  tc  tc~
> 
> honest4$ swift -tc.file tc -sites.file sites.xml psim.basicex1.swift
> 
> Swift svn swift-r3186 cog-r2572
> RunID: 20091103-0750-p7z85z61
> Execution failed:
>          Argument size mismatch. Got 5 names and 0 values
> 
> honest4$ swift -tc.file tc -sites.file sites.xml psim.basicex1.swift
> 
> Swift svn swift-r3186 cog-r2572
> RunID: 20091103-0751-sfxthnne
> Execution failed:
>          Argument size mismatch. Got 5 names and 0 values
> 
> honest4$ swift -tc.file tc -sites.file sites.xml psim.basicex1.swift
> 
> Swift svn swift-r3186 cog-r2572
> RunID: 20091103-0751-oxnhztrc
> Progress:
> Execution failed:
>          Argument size mismatch. Got 5 names and 0 values
> 
> honest4$ swift -tc.file tc -sites.file sites.xml psim.basicex1.swift
> 
> Swift svn swift-r3186 cog-r2572
> RunID: 20091103-0751-amtfuvq9
> Execution failed:
>          Variable not found: path
> 
> honest4$ swift -tc.file tc -sites.file sites.xml psim.basicex1.swift
> 
> Swift svn swift-r3186 cog-r2572
> RunID: 20091103-0751-b4sr44x2
> Execution failed:
>          Ex098
> org.globus.cog.karajan.workflow.KarajanRuntimeException: Invalid 
> identifier: [$, org.griphyn.vdl.mapping.DataNode identifier tag:benc at ci.uch\
> icago.edu,2008:swift:dataset:20091103-0751-b65c863d:720000000020 type 
> ProtGeo with no value at dataset=structure path=[1] (not closed)]
>          at 
> org.globus.cog.karajan.util.TypeUtil.toIdentifier(TypeUtil.java:286)
> ...
>          at java.lang.Thread.run(Thread.java:595)
> Variable not found: path
> honest4$
> 
> 
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