You can generally increase the number of openfiles using: ulimit -n 10240 (you should execute it in the current bash before running openmole)
Le 26/11/2016 à 00:41, Romain Reuillon a écrit : > It mean that you have an ulimit set tow low. Can you send the result > of ulimit -a ? > > Le 25/11/2016 à 21:37, reyman a écrit : >> I precise, this error only happen with EGI environnement and not with >> LocalEnvironnement. >> And this error crash openmole in terminal. >> >> 2016-11-25 21:28 GMT+01:00 reyman <[email protected] >> <mailto:[email protected]>>: >> >> Uh thanks, but i have a weird error now : >> >> Picked up _JAVA_OPTIONS: -Xms1024m -Xmx2G -Xss256m >> Nouvelle fenêtre ouverte dans la session du navigateur >> nov. 25, 2016 9:23:45 PM >> org.openmole.ui.Application$$anonfun$run$1$$anonfun$apply$mcI$sp$6 >> apply >> INFOS: Server listening on port 41947. >> !SESSION 2016-11-25 21:24:28.668 >> ----------------------------------------------- >> eclipse.buildId=unknown >> java.version=1.8.0_101 >> java.vendor=Oracle Corporation >> BootLoader constants: OS=linux, ARCH=x86_64, WS=gtk, NL=fr_FR >> >> !ENTRY org.apache.commons.configuration2 4 0 2016-11-25 21:24:28.668 >> !MESSAGE FrameworkEvent ERROR >> !STACK 0 >> java.io.IOException: Exception in opening zip file: >> /home/reyman/.openmole/.tmp/1480105414_12098/org.eclipse.os >> gi/90/0/bundleFile >> at >> >> org.eclipse.osgi.framework.util.SecureAction.getZipFile(SecureAction.java:305) >> at >> >> org.eclipse.osgi.storage.bundlefile.ZipBundleFile.basicOpen(ZipBundleFile.java:85) >> at >> >> org.eclipse.osgi.storage.bundlefile.ZipBundleFile.getZipFile(ZipBundleFile.java:98) >> at >> >> org.eclipse.osgi.storage.bundlefile.ZipBundleFile.checkedOpen(ZipBundleFile.java:65) >> at >> >> org.eclipse.osgi.storage.bundlefile.ZipBundleFile.getEntry(ZipBundleFile.java:232) >> at >> >> org.eclipse.osgi.internal.loader.classpath.ClasspathManager.findClassImpl(ClasspathManager.java:562) >> at >> >> org.eclipse.osgi.internal.loader.classpath.ClasspathManager.findLocalClassImpl(ClasspathManager.java >> :540) >> at >> >> org.eclipse.osgi.internal.loader.classpath.ClasspathManager.findLocalClass(ClasspathManager.java:527 >> ) >> at >> >> org.eclipse.osgi.internal.loader.ModuleClassLoader.findLocalClass(ModuleClassLoader.java:324) >> at >> >> org.eclipse.osgi.internal.loader.BundleLoader.findLocalClass(BundleLoader.java:311) >> at >> >> org.eclipse.osgi.internal.loader.BundleLoader.findClassInternal(BundleLoader.java:386) >> at >> >> org.eclipse.osgi.internal.loader.BundleLoader.findClass(BundleLoader.java:336) >> at >> >> org.eclipse.osgi.internal.loader.BundleLoader.findClass(BundleLoader.java:328) >> at >> >> org.eclipse.osgi.internal.loader.ModuleClassLoader.loadClass(ModuleClassLoader.java:160) >> at java.lang.ClassLoader.loadClass(ClassLoader.java:357) >> at >> >> org.apache.commons.configuration2.event.EventListenerList$EventListenerIterator.<init>(EventListener >> List.java:308) >> at >> >> org.apache.commons.configuration2.event.EventListenerList.getEventListenerIterator(EventListenerList >> .java:197) >> at >> >> org.apache.commons.configuration2.event.EventListenerList.fire(EventListenerList.java:158) >> at >> >> org.apache.commons.configuration2.builder.BasicConfigurationBuilder.fireBuilderEvent(BasicConfigurat >> ionBuilder.java:636) >> at >> >> org.apache.commons.configuration2.builder.BasicConfigurationBuilder.getConfiguration(BasicConfigurat >> ionBuilder.java:273) >> at >> >> org.openmole.core.workspace.ConfigurationFile$$anonfun$org$openmole$core$workspace$ConfigurationFile >> $$config$1.apply(Configuration.scala:65) >> at >> >> org.openmole.core.workspace.ConfigurationFile$$anonfun$org$openmole$core$workspace$ConfigurationFile >> $$config$1.apply(Configuration.scala:65) >> at >> org.openmole.tool.thread.package$.withThreadClassLoader(package.scala:66) >> at org.openmole.core.workspace.ConfigurationF at >> >> org.openmole.core.workspace.ConfigurationFile$$anonfun$value$1.apply(Configuration.scala:68) >> at >> >> org.openmole.core.workspace.ConfigurationFile$$anonfun$value$1.apply(Configuration.scala:68) >> at >> >> org.openmole.tool.lock.package$ReadWriteLockDecorator.read(package.scala:48) >> at >> >> org.openmole.core.workspace.ConfigurationFile.value(Configuration.scala:67) >> at >> >> org.openmole.core.workspace.Workspace.preferenceOption(Workspace.scala:142) >> at >> org.openmole.core.workspace.Workspace.preference(Workspace.scala:150) >> at >> >> org.openmole.core.workflow.execution.Environment$$anonfun$org$openmole$core$workflow$execution$Envir >> onment$$_errors$1.apply$mcI$sp(Environment.scala:57) >> at >> org.openmole.tool.collection.SlidingList.put(SlidingList.scala:28) >> at >> >> org.openmole.core.workflow.execution.Environment$class.error(Environment.scala:58) >> at >> >> org.openmole.plugin.environment.egi.DIRACEnvironment.error(DIRACEnvironment.scala:83) >> at >> >> org.openmole.plugin.environment.batch.refresh.JobManager.$bang(JobManager.scala:133) >> at >> >> org.openmole.plugin.environment.batch.refresh.UploadActor.receive(UploadActor.scala:61) >> at >> >> org.openmole.plugin.environment.batch.refresh.JobManager$DispatcherActor$.receive(JobManager.scala:8 >> 2) >> at >> >> org.openmole.plugin.environment.batch.refresh.JobManager$$anonfun$1$$anon$1.run(JobManager.scala:64) >> Caused by: java.io.FileNotFoundException: >> /home/reyman/.openmole/.tmp/1480105414_12098/org.eclipse.osgi/90/0/bu >> ndleFile (Trop de fichiers ouverts) >> at java.util.zip.ZipFile.open(Native Method) >> at java.util.zip.ZipFile.<init>(ZipFile.java:219) >> at java.util.zip.ZipFile.<init>(ZipFile.java:149) >> at java.util.zip.ZipFile.<init>(ZipFile.java:163) >> at >> >> org.eclipse.osgi.framework.util.SecureAction.getZipFile(SecureAction.java:288) >> ... 37 more >> ile.org >> <http://ile.org>$openmole$core$workspace$ConfigurationFile$$config( >> Configuration.scala:65) >> >> >> 2016-11-25 13:31 GMT+01:00 Jonathan Passerat-Palmbach >> <[email protected] >> <mailto:[email protected]>>: >> >> (moleTask on env) will do :) >> >> Just an operator priority issue ;) >> >> J. >> >> >> On 25 November 2016 12:21:34 GMT+00:00, sebastien rey >> coyrehourcq <[email protected] <mailto:[email protected]>> >> wrote: >> >> HI Jo, >> i tried, without success :-/ >> >> val moleTask = MoleTask(templateTask -- scriptTask) >> exploration -< moleTask on env >> >> return >> >> org.openmole.core.console.ScalaREPL$CompilationError: >> (line 87) value on is not a member of >> org.openmole.core.workflow.puzzle.Puzzle >> exploration -< moleTask on env >> >> --- >> Sébastien Rey Coyrehourcq >> Research Engineer, BAP E, UMR IDEES >> Sent from Nylas N1 <https://nylas.com/n1?ref=n1>, the >> extensible, open source mail client. >> >> On nov. 25 2016, at 1:10 pm, Jonathan Passerat-Palmbach >> <[email protected] >> <mailto:[email protected]>> wrote: >> >> Hey Seb, >> >> Try to wrap your two consecutive tasks in a MoleTask >> to apply the same env setting to both of them. >> >> >> http://www.openmole.org/current/Documentation_Language_Tasks_Mole.html >> >> <http://www.openmole.org/current/Documentation_Language_Tasks_Mole.html> >> >> Cheers >> J. >> >> On 25 November 2016 11:58:40 GMT+00:00, sebastien rey >> coyrehourcq <[email protected] >> <mailto:[email protected]>> wrote: >> >> Hi guys, >> >> With env = LocalEnvironment(...) >> >> One little question about env position in final >> workflow, >> i need to run two task on grid node, so i >> position my env like that : >> >> val exploration = >> ExplorationTask( ...) >> >> val templateTask = >> TemplateFileTask(workDirectory / >> "parameters.xml", fileoutput) set ( .... ) >> >> val scriptTask = >> SystemExecTask("bash ./emergence2/script.sh >> ${fileoutput}") set ( ...) >> >> val copyFolder = CopyFileHook(folder, >> workDirectory / >> "results/${seeds(0)}_${tremble}_outputs") >> >> *exploration -< (templateTask -- scriptTask) on >> env hook copyFolder >> * >> >> I try other positions in the wf , but i have >> always a puzzle error : >> >> org.openmole.core.console.ScalaREPL$CompilationError: >> (line 85) value on is not a member of >> org.openmole.core.workflow.puzzle.Puzzle >> exploration -< templateTask on env -- >> scriptTask hook copyFolder // -- scriptTask2 >> hook ToStringHook() >> ^ >> >> Any idea ? >> >> --- >> Sébastien Rey Coyrehourcq >> Research Engineer, BAP E, UMR IDEES >> Sent from Nylas N1 <https://nylas.com/n1?ref=n1>, >> the extensible, open source mail client. >> >> >> ------------------------------------------------------------------------ >> >> OpenMOLE-users mailing list >> [email protected] >> <mailto:[email protected]> >> http://fedex.iscpif.fr/mailman/listinfo/openmole-users >> <http://fedex.iscpif.fr/mailman/listinfo/openmole-users> >> >> -- Jonathan Passerat-Palmbach, PhD Research Associate >> Department of Computing Imperial College London South >> Kensington Campus Huxley Building - room 344 180 >> Queen's Gate London SW7 2AZ >> >> >> ------------------------------------------------------------------------ >> >> OpenMOLE-users mailing list >> [email protected] <mailto:[email protected]> >> http://fedex.iscpif.fr/mailman/listinfo/openmole-users >> <http://fedex.iscpif.fr/mailman/listinfo/openmole-users> >> >> -- Jonathan Passerat-Palmbach, PhD Research Associate >> Department of Computing Imperial College London South >> Kensington Campus Huxley Building - room 344 180 Queen's Gate >> London SW7 2AZ >> _______________________________________________OpenMOLE-users >> mailing list [email protected] >> <mailto:[email protected]> >> http://fedex.iscpif.fr/mailman/listinfo/openmole-users >> <http://fedex.iscpif.fr/mailman/listinfo/openmole-users> >> >> -- >> <http://stackoverflow.com/users/385881/reyman64> >> >> -- >> <http://stackoverflow.com/users/385881/reyman64> >> >> _______________________________________________ >> OpenMOLE-users mailing list >> [email protected] >> http://fedex.iscpif.fr/mailman/listinfo/openmole-users >
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