[Swift-user] Block task failed: Connection to worker lost

[Mihael Hategan]

Hi Jonathan,

I fixed this in GIT. Yadu, can you compile the latest GIT please?

Mihael

On Thu, 2014-12-04 at 18:33 +0000, Ozik, Jonathan wrote:
> Hi Yadu,
> 
> I’ve tried running with trunk and am getting a strange Java error this time:
> No method: getProperty in java.lang.System with parameter types[class java.lang.String]
> swiftscript:java @ repast, line: 267
> 
> at org.griphyn.vdl.karajan.lib.swiftscript.Java.getMethod(Java.java:192)
> at org.griphyn.vdl.karajan.lib.swiftscript.Java.function(Java.java:162)
> at org.griphyn.vdl.karajan.lib.SwiftFunction.runBody(SwiftFunction.java:77)
> at org.globus.cog.karajan.compiled.nodes.InternalFunction.run(InternalFunction.java:175)
> at org.globus.cog.karajan.compiled.nodes.CompoundNode.runChild(CompoundNode.java:110)
> at org.globus.cog.karajan.compiled.nodes.InternalFunction.run(InternalFunction.java:165)
> at org.globus.cog.karajan.compiled.nodes.CompoundNode.runChild(CompoundNode.java:110)
> at org.globus.cog.karajan.compiled.nodes.InternalFunction.run(InternalFunction.java:165)
> at org.globus.cog.karajan.compiled.nodes.CompoundNode.runChild(CompoundNode.java:110)
> at org.globus.cog.karajan.compiled.nodes.Sequential.run(Sequential.java:41)
> at org.globus.cog.karajan.compiled.nodes.CompoundNode.runChild(CompoundNode.java:110)
> at org.globus.cog.karajan.compiled.nodes.UParallel$1.run(UParallel.java:91)
> at k.thr.LWThread.run(LWThread.java:247)
> at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1145)
> at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:615)
> at java.lang.Thread.run(Thread.java:745)
> 
> Execution failed:
> Error attempting to use: java.lang.System
> swiftscript:java @ repast, line: 267
> 
> I think this is being triggered by the call:
> string s = strcat(java("java.lang.System","getProperty","user.dir"),"/“);
> 
> Which worked just fine with 0.95 RC5.
> 
> Any thoughts?
> 
> Jonathan
> 
> On Dec 4, 2014, at 11:14 AM, Yadu Nand Babuji <yadunand at uchicago.edu<mailto:yadunand at uchicago.edu>> wrote:
> 
> Hi Jonathan,
> 
> If your config file is named swift.conf and is in the current directory, it will be automatically selected and you needn't specify
> the file on the commandline, otherwise specify the config file using the -config option:
> swift -config <path_to_config> <your_script.swift>
> 
> To resume from the log, say the restart.log in your run001 folder specify the restart.log using the -resume option:
> swift -resume run001/restart.log  ...
> The restart log is from an 0.95 run, and I'm not quite sure if it will work correctly with trunk.
> 
> There is no trunk module available on Midway, since we rebuild from source to keep up to date with changes in the codebase.
> 
> Generally you can always get the latest trunk builds here, (atmost a week older than last commit):
> http://users.rcc.uchicago.edu/~yadunand/swift-trunk-latest.tar.gz
> 
> Thanks,
> Yadu
> 
> On 12/04/2014 10:48 AM, Jonathan Ozik wrote:
> Thanks Yadu,
> 
> I have a few questions.
> - How do I invoke swift and pass it the new swift.conf?
> - What is the “restart” procedure?
> - Is there a module I can load to use the latest swift trunk?
> 
> Jonathan
> 
> On Dec 3, 2014, at 7:03 PM, Yadu Nand Babuji <yadunand at uchicago.edu<mailto:yadunand at uchicago.edu>> wrote:
> 
> Hi Jonathan,
> 
> I believe some of the issues related to timeouts seen in your logs are fixed/less likely in trunk
> and would recommend that you try a run with that. I've also converted your swift.properties to
> the new swift.conf format. You can get a tested .conf file along with a small test case from here:
> 
> http://users.rcc.uchicago.edu/~yadunand/test_configs_package.tar.gz<http://users.rcc.uchicago.edu/%7Eyadunand/test_configs_package.tar.gz>
> 
> Here are some changes I've made to the conf:
> lazyErrors: true and executionRetries: 0 so that long running jobs are not retried.
> staging set to direct, since you are running on the shared FS.
> added worker logging and an app definition for debug.
> 
> You can get the latest trunk build from here : http://users.rcc.uchicago.edu/~yadunand/swift-trunk-latest.tar.gz<http://users.rcc.uchicago.edu/%7Eyadunand/swift-trunk-latest.tar.gz>
> 
> Thanks,
> Yadu
> 
> On 12/03/2014 01:16 PM, Jonathan Ozik wrote:
> Hi Yadu,
> 
> The tar.gz archive is here: https://www.dropbox.com/s/tt3ewapzaf0ygac/run001.tar.gz?dl=0
> I’m also attaching the swift.properties file that I used below.
> 
> Thank you,
> 
> Jonathan
> 
> On Dec 3, 2014, at 11:04 AM, Yadu Nand Babuji <yadunand at uchicago.edu<mailto:yadunand at uchicago.edu>> wrote:
> 
> Hi Jonathan,
> 
> The issue you are seeing sounds pretty close to what David reported a
> while back.
> Could you send us a tar ball of your run directory from a failed run ?
> 
> Could you also check if you've set lowOverAllocation and
> highOverAllocation in your sites definition ?
> 
> Thanks,
> Yadu
> 
> On 12/03/2014 10:50 AM, Ozik, Jonathan wrote:
> Hi all,
> 
> I’m trying to run a large set of simulations on Midway using Swift 0.95-RC5.
> 768 of the 2187 tasks completed successfully and then I got the exception:
> 
> exception @ swift-int.k, line: 530
> Caused by: Block task failed: Connection to worker lost
> org.globus.cog.coaster.TimeoutException: Channel timed out. lastTime=141203-145449.325, now=141203-145649.844, channel=TCPChannel [type: server, contact: 1202-5410010-000072-000000]
> at org.globus.cog.coaster.channels.AbstractCoasterChannel.checkTimeouts(AbstractCoasterChannel.java:133)
> at org.globus.cog.coaster.channels.AbstractCoasterChannel$1.run(AbstractCoasterChannel.java:124)
> at java.util.TimerThread.mainLoop(Timer.java:555)
> at java.util.TimerThread.run(Timer.java:505)
> 
> Progress: Wed, 03 Dec 2014 14:59:51+0000  Submitted:651  Failed:6  Finished successfully:768  Failed but can retry:762
> Progress: Wed, 03 Dec 2014 14:59:52+0000  Submitted:651  Failed:44  Finished successfully:768  Failed but can retry:724
> 
> And the process seems to have stopped.
> 
> What log file would be helpful for diagnosing this?
> 
> Jonathan
> 
> 
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