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

Tue Nov 3 11:24:43 CST 2009

I'll let you know as soon as I have something. In the mean-time, you
probably don't need to run more tests.

On Tue, 2009-11-03 at 11:15 -0600, Michael Wilde wrote:
> Im running the Swift test battery on Ranger and Abe.
> 
> Tests on Abe just got this, which is similar to what I was seeing:
> 
> ...
> Running test 0024-compound at Tue Nov 3 11:11:33 CST 2009
> Swift svn swift-r3186 cog-r2572
> 
> RunID: 20091103-1111-as1yb7s3
> Progress:
> Execution failed:
> 	First argument must be an identifier or a list of identifiers
> SWIFT RETURN CODE NON-ZERO - test 0024-compound.swift
> ...
> 
> ---
> 
> Ranger passed all syntax tests but is hanging on 001-echo. Not sure why yet.
> 
> I'll keep trying to zero in on something small thats reproducble.
> 0024-compound might be a good starting point.
> 
> Let me know if you need something specific from me, or have suggestions 
> on what to try, where.
> 
> Thanks,
> 
> Mike
> 
> 
> 
> 
> 
> On 11/3/09 11:05 AM, Mihael Hategan wrote:
> > Thanks. I'm looking into it.
> > 
> > On Tue, 2009-11-03 at 10:19 -0600, Michael Wilde wrote:
> >> 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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> >>> Swift-devel at ci.uchicago.edu
> >>> http://mail.ci.uchicago.edu/mailman/listinfo/swift-devel
> >> _______________________________________________
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> > 