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Modified items
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Re: connect to database to save provenance data
by mehdi sarikhani, last updated: Jan 27, 2012 09:43 PM
Thank you very much. it works.
Re: connect to database to save provenance data
by Daniel Crawl, last updated: Jan 27, 2012 10:06 AM
Hi Mehdi, This was a bug in the provenance module, but was fixed last year. A workaround is to increase the size of the module_dependencies column in the workflow_exec table. See http://bugzilla.ecoinformatics.org/show_bug.cgi?id=5302. Alternatively, you can drop the provenance database and use the latest Kepler.
Re: adding provenance source code into eclipse
by Daniel Crawl, last updated: Jan 27, 2012 10:00 AM
Hi Mehdi, Is there a reason you want both Kepler and Kepler 2.1 in the same Eclipse workspace? I'd recommend having different workspaces for different Kepler versions. Also, if you quit Kepler and remove ~/.kepler/, this might fix some of the runtime errors you see.
Screen-shot-2012-01-27-at-5-04-30-PM.png
by mehdi sarikhani, last updated: Jan 26, 2012 10:53 PM
Re: connect to database to save provenance data
by mehdi sarikhani, last updated: Jan 26, 2012 10:53 PM
my configuration for provenance recorder.
Screen-shot-2012-01-27-at-5-04-11-PM.png
by mehdi sarikhani, last updated: Jan 26, 2012 10:52 PM
connect to database to save provenance data
by mehdi sarikhani, last updated: Jan 26, 2012 10:52 PM
Hi i want to connect kepler provenance recorder to my sql data base (information attached), but i face problem( error message attached). the connection can make appropriate tables to store data but cannot store data and error message appear to screen "Data too long for column". i try to save different type of data with different size, but it make no difference and again i see this message. i will appreciate if you can help me. Regards Mehdi
Re: adding provenance source code into eclipse
by mehdi sarikhani, last updated: Jan 26, 2012 04:29 PM
The exception error "Change failed can not create entity without a class name. in[external stream] at line 2 and column 29" will be appear after drag and drop every component into kepler.
Screen-shot-kepler.jpg
by mehdi sarikhani, last updated: Jan 26, 2012 04:26 PM
Re: adding provenance source code into eclipse
by mehdi sarikhani, last updated: Jan 26, 2012 04:26 PM
HI Daniel 1-the main problem is that after running the kepler from eclipse with lot's of error which you can see below.when i want to use provenance recorder, after drag and drop the icon, exception error come into the screen :"Change failed can not create entity without a class name. in[external stream] at line 2 and column 29". 2-a s long as i add provenance , or other component to kepler adding their source code into eclipse, 2 version of same component appear into eclipse in source code like "actor" and "actor-2.1.0". So after compiling or running a red cross appears next to " actor-2.1.0" and other added components this is the console log and errors : ---- Checking for patches... Building Kars... Ran additional initialization for module core from class org.kepler.module.core.Initialize Ran additional initialization for module gui from class org.kepler.module.gui.Initialize Failed to find splash screen image.Ignoring, use the Java coffee cup java.lang.NullPointerException at org.kepler.gui.SplashWindow.<init>(SplashWindow.java:158) at org.kepler.gui.SplashWindow.splash(SplashWindow.java:240) at org.kepler.gui.SplashWindow.splash(SplashWindow.java:285) at org.kepler.gui.SplashWindow.splash(SplashWindow.java:275) at org.kepler.gui.KeplerApplication.main(KeplerApplication.java:90) at org.kepler.Kepler.parseArgsAndRun(Kepler.java:351) at org.kepler.Kepler.main(Kepler.java:260) Kepler Initializing... INFO (org.kepler.objectmanager.library.LibraryManager:buildLibrary:338) Building Library... java.sql.SQLException: Column count does not match in statement [insert into KARS_CACHED (file, lsid, version, reponame, lastmodified) values ( ?, ?, ?, ?, ? )] at org.hsqldb.jdbc.Util.throwError(Unknown Source) at org.hsqldb.jdbc.jdbcPreparedStatement.<init>(Unknown Source) at org.hsqldb.jdbc.jdbcConnection.prepareStatement(Unknown Source) at org.kepler.kar.KARCacheManager.<init>(KARCacheManager.java:91) at org.kepler.kar.KARCacheManager$KARCacheManagerHolder.<clinit>(KARCacheManager.java:691) at org.kepler.kar.KARCacheManager.getInstance(KARCacheManager.java:687) at org.kepler.objectmanager.library.LibraryManager.buildLibrary(LibraryManager.java:342) at org.kepler.moml.KARLibraryBuilder.buildLibrary(KARLibraryBuilder.java:78) at ptolemy.actor.gui.UserActorLibrary.openLibrary(UserActorLibrary.java:222) at ptolemy.actor.gui.UserActorLibrary.openUserLibrary(UserActorLibrary.java:140) at ptolemy.vergil.VergilApplication._createDefaultConfiguration(VergilApplication.java:350) at ptolemy.vergil.VergilApplication._createEmptyConfiguration(VergilApplication.java:367) at ptolemy.actor.gui.ConfigurationApplication._parseArgs(ConfigurationApplication.java:1273) at ptolemy.vergil.VergilApplication._parseArgs(VergilApplication.java:497) at ptolemy.actor.gui.ConfigurationApplication.<init>(ConfigurationApplication.java:244) at ptolemy.actor.gui.MoMLApplication.<init>(MoMLApplication.java:80) at ptolemy.vergil.VergilApplication.<init>(VergilApplication.java:111) at ptolemy.vergil.VergilApplication$1.run(VergilApplication.java:239) at java.awt.event.InvocationEvent.dispatch(InvocationEvent.java:209) at java.awt.EventQueue.dispatchEvent(EventQueue.java:633) at java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:296) at java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:211) at java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:201) at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:196) at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:188) at java.awt.EventDispatchThread.run(EventDispatchThread.java:122) INFO (org.kepler.objectmanager.cache.LocalRepositoryManager:scanReposForKarFiles:246) Scanning Local Repositories for KAR files... Error checking if /Users/medisarikhani/KeplerData/modules/actors/kar/CoreActors.kar is in cache. java.lang.NullPointerException at org.kepler.kar.KARCacheManager.getLastModifiedTimeOfFileInCache(KARCacheManager.java:664) at org.kepler.kar.KARCacheManager.synchronizeKARCacheWithLocalRepositories(KARCacheManager.java:336) at org.kepler.objectmanager.library.LibraryManager.buildLibrary(LibraryManager.java:345) at org.kepler.moml.KARLibraryBuilder.buildLibrary(KARLibraryBuilder.java:78) at ptolemy.actor.gui.UserActorLibrary.openLibrary(UserActorLibrary.java:222) at ptolemy.actor.gui.UserActorLibrary.openUserLibrary(UserActorLibrary.java:140) at ptolemy.vergil.VergilApplication._createDefaultConfiguration(VergilApplication.java:350) at ptolemy.vergil.VergilApplication._createEmptyConfiguration(VergilApplication.java:367) at ptolemy.actor.gui.ConfigurationApplication._parseArgs(ConfigurationApplication.java:1273) at ptolemy.vergil.VergilApplication._parseArgs(VergilApplication.java:497) at ptolemy.actor.gui.ConfigurationApplication.<init>(ConfigurationApplication.java:244) at ptolemy.actor.gui.MoMLApplication.<init>(MoMLApplication.java:80) at ptolemy.vergil.VergilApplication.<init>(VergilApplication.java:111) at ptolemy.vergil.VergilApplication$1.run(VergilApplication.java:239) at java.awt.event.InvocationEvent.dispatch(InvocationEvent.java:209) at java.awt.EventQueue.dispatchEvent(EventQueue.java:633) at java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:296) at java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:211) at java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:201) at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:196) at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:188) at java.awt.EventDispatchThread.run(EventDispatchThread.java:122) Error checking if /Users/medisarikhani/KeplerData/modules/dataturbine/kar/DataTurbine.kar is in cache. java.lang.NullPointerException at org.kepler.kar.KARCacheManager.getLastModifiedTimeOfFileInCache(KARCacheManager.java:664) at org.kepler.kar.KARCacheManager.synchronizeKARCacheWithLocalRepositories(KARCacheManager.java:336) at org.kepler.objectmanager.library.LibraryManager.buildLibrary(LibraryManager.java:345) at org.kepler.moml.KARLibraryBuilder.buildLibrary(KARLibraryBuilder.java:78) at ptolemy.actor.gui.UserActorLibrary.openLibrary(UserActorLibrary.java:222) at ptolemy.actor.gui.UserActorLibrary.openUserLibrary(UserActorLibrary.java:140) at ptolemy.vergil.VergilApplication._createDefaultConfiguration(VergilApplication.java:350) at ptolemy.vergil.VergilApplication._createEmptyConfiguration(VergilApplication.java:367) at ptolemy.actor.gui.ConfigurationApplication._parseArgs(ConfigurationApplication.java:1273) at ptolemy.vergil.VergilApplication._parseArgs(VergilApplication.java:497) at ptolemy.actor.gui.ConfigurationApplication.<init>(ConfigurationApplication.java:244) at ptolemy.actor.gui.MoMLApplication.<init>(MoMLApplication.java:80) at ptolemy.vergil.VergilApplication.<init>(VergilApplication.java:111) at ptolemy.vergil.VergilApplication$1.run(VergilApplication.java:239) at java.awt.event.InvocationEvent.dispatch(InvocationEvent.java:209) at java.awt.EventQueue.dispatchEvent(EventQueue.java:633) at java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:296) at java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:211) at java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:201) at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:196) at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:188) at java.awt.EventDispatchThread.run(EventDispatchThread.java:122) Error checking if /Users/medisarikhani/KeplerData/modules/directors/kar/CoreDirectors.kar is in cache. java.lang.NullPointerException at org.kepler.kar.KARCacheManager.getLastModifiedTimeOfFileInCache(KARCacheManager.java:664) at org.kepler.kar.KARCacheManager.synchronizeKARCacheWithLocalRepositories(KARCacheManager.java:336) at org.kepler.objectmanager.library.LibraryManager.buildLibrary(LibraryManager.java:345) at org.kepler.moml.KARLibraryBuilder.buildLibrary(KARLibraryBuilder.java:78) at ptolemy.actor.gui.UserActorLibrary.openLibrary(UserActorLibrary.java:222) at ptolemy.actor.gui.UserActorLibrary.openUserLibrary(UserActorLibrary.java:140) at ptolemy.vergil.VergilApplication._createDefaultConfiguration(VergilApplication.java:350) at ptolemy.vergil.VergilApplication._createEmptyConfiguration(VergilApplication.java:367) at ptolemy.actor.gui.ConfigurationApplication._parseArgs(ConfigurationApplication.java:1273) at ptolemy.vergil.VergilApplication._parseArgs(VergilApplication.java:497) at ptolemy.actor.gui.ConfigurationApplication.<init>(ConfigurationApplication.java:244) at ptolemy.actor.gui.MoMLApplication.<init>(MoMLApplication.java:80) at ptolemy.vergil.VergilApplication.<init>(VergilApplication.java:111) at ptolemy.vergil.VergilApplication$1.run(VergilApplication.java:239) at java.awt.event.InvocationEvent.dispatch(InvocationEvent.java:209) at java.awt.EventQueue.dispatchEvent(EventQueue.java:633) at java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:296) at java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:211) at java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:201) at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:196) at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:188) at java.awt.EventDispatchThread.run(EventDispatchThread.java:122) Error checking if /Users/medisarikhani/KeplerData/workflows/MyWorkflows/helloworld-1.kar is in cache. java.lang.NullPointerException at org.kepler.kar.KARCacheManager.getLastModifiedTimeOfFileInCache(KARCacheManager.java:664) at org.kepler.kar.KARCacheManager.synchronizeKARCacheWithLocalRepositories(KARCacheManager.java:336) at org.kepler.objectmanager.library.LibraryManager.buildLibrary(LibraryManager.java:345) at org.kepler.moml.KARLibraryBuilder.buildLibrary(KARLibraryBuilder.java:78) at ptolemy.actor.gui.UserActorLibrary.openLibrary(UserActorLibrary.java:222) at ptolemy.actor.gui.UserActorLibrary.openUserLibrary(UserActorLibrary.java:140) at ptolemy.vergil.VergilApplication._createDefaultConfiguration(VergilApplication.java:350) at ptolemy.vergil.VergilApplication._createEmptyConfiguration(VergilApplication.java:367) at ptolemy.actor.gui.ConfigurationApplication._parseArgs(ConfigurationApplication.java:1273) at ptolemy.vergil.VergilApplication._parseArgs(VergilApplication.java:497) at ptolemy.actor.gui.ConfigurationApplication.<init>(ConfigurationApplication.java:244) at ptolemy.actor.gui.MoMLApplication.<init>(MoMLApplication.java:80) at ptolemy.vergil.VergilApplication.<init>(VergilApplication.java:111) at ptolemy.vergil.VergilApplication$1.run(VergilApplication.java:239) at java.awt.event.InvocationEvent.dispatch(InvocationEvent.java:209) at java.awt.EventQueue.dispatchEvent(EventQueue.java:633) at java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:296) at java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:211) at java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:201) at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:196) at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:188) at java.awt.EventDispatchThread.run(EventDispatchThread.java:122) Error checking if /Users/medisarikhani/KeplerData/workflows/MyWorkflows/ProvenanceRecorder_Example_1-run10.kar is in cache. java.lang.NullPointerException at org.kepler.kar.KARCacheManager.getLastModifiedTimeOfFileInCache(KARCacheManager.java:664) at org.kepler.kar.KARCacheManager.synchronizeKARCacheWithLocalRepositories(KARCacheManager.java:336) at org.kepler.objectmanager.library.LibraryManager.buildLibrary(LibraryManager.java:345) at org.kepler.moml.KARLibraryBuilder.buildLibrary(KARLibraryBuilder.java:78) at ptolemy.actor.gui.UserActorLibrary.openLibrary(UserActorLibrary.java:222) at ptolemy.actor.gui.UserActorLibrary.openUserLibrary(UserActorLibrary.java:140) at ptolemy.vergil.VergilApplication._createDefaultConfiguration(VergilApplication.java:350) at ptolemy.vergil.VergilApplication._createEmptyConfiguration(VergilApplication.java:367) at ptolemy.actor.gui.ConfigurationApplication._parseArgs(ConfigurationApplication.java:1273) at ptolemy.vergil.VergilApplication._parseArgs(VergilApplication.java:497) at ptolemy.actor.gui.ConfigurationApplication.<init>(ConfigurationApplication.java:244) at ptolemy.actor.gui.MoMLApplication.<init>(MoMLApplication.java:80) at ptolemy.vergil.VergilApplication.<init>(VergilApplication.java:111) at ptolemy.vergil.VergilApplication$1.run(VergilApplication.java:239) at java.awt.event.InvocationEvent.dispatch(InvocationEvent.java:209) at java.awt.EventQueue.dispatchEvent(EventQueue.java:633) at java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:296) at java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:211) at java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:201) at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:196) at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:188) at java.awt.EventDispatchThread.run(EventDispatchThread.java:122) Error checking if /Users/medisarikhani/KeplerData/workflows/MyWorkflows/ProvenanceRecorder_Example_1-run14.kar is in cache. java.lang.NullPointerException at org.kepler.kar.KARCacheManager.getLastModifiedTimeOfFileInCache(KARCacheManager.java:664) at org.kepler.kar.KARCacheManager.synchronizeKARCacheWithLocalRepositories(KARCacheManager.java:336) at org.kepler.objectmanager.library.LibraryManager.buildLibrary(LibraryManager.java:345) at org.kepler.moml.KARLibraryBuilder.buildLibrary(KARLibraryBuilder.java:78) at ptolemy.actor.gui.UserActorLibrary.openLibrary(UserActorLibrary.java:222) at ptolemy.actor.gui.UserActorLibrary.openUserLibrary(UserActorLibrary.java:140) at ptolemy.vergil.VergilApplication._createDefaultConfiguration(VergilApplication.java:350) at ptolemy.vergil.VergilApplication._createEmptyConfiguration(VergilApplication.java:367) at ptolemy.actor.gui.ConfigurationApplication._parseArgs(ConfigurationApplication.java:1273) at ptolemy.vergil.VergilApplication._parseArgs(VergilApplication.java:497) at ptolemy.actor.gui.ConfigurationApplication.<init>(ConfigurationApplication.java:244) at ptolemy.actor.gui.MoMLApplication.<init>(MoMLApplication.java:80) at ptolemy.vergil.VergilApplication.<init>(VergilApplication.java:111) at ptolemy.vergil.VergilApplication$1.run(VergilApplication.java:239) at java.awt.event.InvocationEvent.dispatch(InvocationEvent.java:209) at java.awt.EventQueue.dispatchEvent(EventQueue.java:633) at java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:296) at java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:211) at java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:201) at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:196) at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:188) at java.awt.EventDispatchThread.run(EventDispatchThread.java:122) Error checking if /Users/medisarikhani/KeplerData/modules/opendap/kar/OpendapDataSource.kar is in cache. java.lang.NullPointerException at org.kepler.kar.KARCacheManager.getLastModifiedTimeOfFileInCache(KARCacheManager.java:664) at org.kepler.kar.KARCacheManager.synchronizeKARCacheWithLocalRepositories(KARCacheManager.java:336) at org.kepler.objectmanager.library.LibraryManager.buildLibrary(LibraryManager.java:345) at org.kepler.moml.KARLibraryBuilder.buildLibrary(KARLibraryBuilder.java:78) at ptolemy.actor.gui.UserActorLibrary.openLibrary(UserActorLibrary.java:222) at ptolemy.actor.gui.UserActorLibrary.openUserLibrary(UserActorLibrary.java:140) at ptolemy.vergil.VergilApplication._createDefaultConfiguration(VergilApplication.java:350) at ptolemy.vergil.VergilApplication._createEmptyConfiguration(VergilApplication.java:367) at ptolemy.actor.gui.ConfigurationApplication._parseArgs(ConfigurationApplication.java:1273) at ptolemy.vergil.VergilApplication._parseArgs(VergilApplication.java:497) at ptolemy.actor.gui.ConfigurationApplication.<init>(ConfigurationApplication.java:244) at ptolemy.actor.gui.MoMLApplication.<init>(MoMLApplication.java:80) at ptolemy.vergil.VergilApplication.<init>(VergilApplication.java:111) at ptolemy.vergil.VergilApplication$1.run(VergilApplication.java:239) at java.awt.event.InvocationEvent.dispatch(InvocationEvent.java:209) at java.awt.EventQueue.dispatchEvent(EventQueue.java:633) at java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:296) at java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:211) at java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:201) at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:196) at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:188) at java.awt.EventDispatchThread.run(EventDispatchThread.java:122) Error checking if /Users/medisarikhani/KeplerData/modules/provenance/kar/ProvenanceRecorder.kar is in cache. java.lang.NullPointerException at org.kepler.kar.KARCacheManager.getLastModifiedTimeOfFileInCache(KARCacheManager.java:664) at org.kepler.kar.KARCacheManager.synchronizeKARCacheWithLocalRepositories(KARCacheManager.java:336) at org.kepler.objectmanager.library.LibraryManager.buildLibrary(LibraryManager.java:345) at org.kepler.moml.KARLibraryBuilder.buildLibrary(KARLibraryBuilder.java:78) at ptolemy.actor.gui.UserActorLibrary.openLibrary(UserActorLibrary.java:222) at ptolemy.actor.gui.UserActorLibrary.openUserLibrary(UserActorLibrary.java:140) at ptolemy.vergil.VergilApplication._createDefaultConfiguration(VergilApplication.java:350) at ptolemy.vergil.VergilApplication._createEmptyConfiguration(VergilApplication.java:367) at ptolemy.actor.gui.ConfigurationApplication._parseArgs(ConfigurationApplication.java:1273) at ptolemy.vergil.VergilApplication._parseArgs(VergilApplication.java:497) at ptolemy.actor.gui.ConfigurationApplication.<init>(ConfigurationApplication.java:244) at ptolemy.actor.gui.MoMLApplication.<init>(MoMLApplication.java:80) at ptolemy.vergil.VergilApplication.<init>(VergilApplication.java:111) at ptolemy.vergil.VergilApplication$1.run(VergilApplication.java:239) at java.awt.event.InvocationEvent.dispatch(InvocationEvent.java:209) at java.awt.EventQueue.dispatchEvent(EventQueue.java:633) at java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:296) at java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:211) at java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:201) at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:196) at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:188) at java.awt.EventDispatchThread.run(EventDispatchThread.java:122) Error checking if /Users/medisarikhani/KeplerData/modules/r/kar/RExpression.kar is in cache. java.lang.NullPointerException at org.kepler.kar.KARCacheManager.getLastModifiedTimeOfFileInCache(KARCacheManager.java:664) at org.kepler.kar.KARCacheManager.synchronizeKARCacheWithLocalRepositories(KARCacheManager.java:336) at org.kepler.objectmanager.library.LibraryManager.buildLibrary(LibraryManager.java:345) at org.kepler.moml.KARLibraryBuilder.buildLibrary(KARLibraryBuilder.java:78) at ptolemy.actor.gui.UserActorLibrary.openLibrary(UserActorLibrary.java:222) at ptolemy.actor.gui.UserActorLibrary.openUserLibrary(UserActorLibrary.java:140) at ptolemy.vergil.VergilApplication._createDefaultConfiguration(VergilApplication.java:350) at ptolemy.vergil.VergilApplication._createEmptyConfiguration(VergilApplication.java:367) at ptolemy.actor.gui.ConfigurationApplication._parseArgs(ConfigurationApplication.java:1273) at ptolemy.vergil.VergilApplication._parseArgs(VergilApplication.java:497) at ptolemy.actor.gui.ConfigurationApplication.<init>(ConfigurationApplication.java:244) at ptolemy.actor.gui.MoMLApplication.<init>(MoMLApplication.java:80) at ptolemy.vergil.VergilApplication.<init>(VergilApplication.java:111) at ptolemy.vergil.VergilApplication$1.run(VergilApplication.java:239) at java.awt.event.InvocationEvent.dispatch(InvocationEvent.java:209) at java.awt.EventQueue.dispatchEvent(EventQueue.java:633) at java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:296) at java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:211) at java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:201) at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:196) at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:188) at java.awt.EventDispatchThread.run(EventDispatchThread.java:122) java.lang.NullPointerException at org.kepler.kar.KARCacheManager.synchronizeKARCacheWithLocalRepositories(KARCacheManager.java:374) at org.kepler.objectmanager.library.LibraryManager.buildLibrary(LibraryManager.java:345) at org.kepler.moml.KARLibraryBuilder.buildLibrary(KARLibraryBuilder.java:78) at ptolemy.actor.gui.UserActorLibrary.openLibrary(UserActorLibrary.java:222) at ptolemy.actor.gui.UserActorLibrary.openUserLibrary(UserActorLibrary.java:140) at ptolemy.vergil.VergilApplication._createDefaultConfiguration(VergilApplication.java:350) at ptolemy.vergil.VergilApplication._createEmptyConfiguration(VergilApplication.java:367) at ptolemy.actor.gui.ConfigurationApplication._parseArgs(ConfigurationApplication.java:1273) at ptolemy.vergil.VergilApplication._parseArgs(VergilApplication.java:497) at ptolemy.actor.gui.ConfigurationApplication.<init>(ConfigurationApplication.java:244) at ptolemy.actor.gui.MoMLApplication.<init>(MoMLApplication.java:80) at ptolemy.vergil.VergilApplication.<init>(VergilApplication.java:111) at ptolemy.vergil.VergilApplication$1.run(VergilApplication.java:239) at java.awt.event.InvocationEvent.dispatch(InvocationEvent.java:209) at java.awt.EventQueue.dispatchEvent(EventQueue.java:633) at java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:296) at java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:211) at java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:201) at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:196) at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:188) at java.awt.EventDispatchThread.run(EventDispatchThread.java:122) INFO (org.kepler.kar.KARCacheManager:synchronizeKARCacheWithLocalRepositories:395) The Cache was out of sync with KAR files in Local Repositories. INFO (org.kepler.kar.KARCacheManager:synchronizeKARCacheWithLocalRepositories:397) The Cache has been syncronized with KAR files in Local Repositories. INFO (org.kepler.objectmanager.library.LibIndex:rebuild:255) Building LibIndex... java.lang.ClassNotFoundException: org.kepler.objectmanager.cache.WorkflowRunCacheObject at java.net.URLClassLoader$1.run(URLClassLoader.java:200) at java.security.AccessController.doPrivileged(Native Method) at java.net.URLClassLoader.findClass(URLClassLoader.java:188) at java.lang.ClassLoader.loadClass(ClassLoader.java:315) at sun.misc.Launcher$AppClassLoader.loadClass(Launcher.java:330) at java.lang.ClassLoader.loadClass(ClassLoader.java:250) at java.lang.ClassLoader.loadClassInternal(ClassLoader.java:398) at java.lang.Class.forName0(Native Method) at java.lang.Class.forName(Class.java:169) at org.kepler.kar.KARFile.isSubclass(KARFile.java:486) at org.kepler.objectmanager.library.LibIndex.determineLibIndexType(LibIndex.java:634) at org.kepler.objectmanager.library.LibIndex.assureKarEntry(LibIndex.java:548) at org.kepler.objectmanager.library.LibIndex.rebuild(LibIndex.java:268) at org.kepler.objectmanager.library.LibraryManager.buildLibrary(LibraryManager.java:363) at org.kepler.moml.KARLibraryBuilder.buildLibrary(KARLibraryBuilder.java:78) at ptolemy.actor.gui.UserActorLibrary.openLibrary(UserActorLibrary.java:222) at ptolemy.actor.gui.UserActorLibrary.openUserLibrary(UserActorLibrary.java:140) at ptolemy.vergil.VergilApplication._createDefaultConfiguration(VergilApplication.java:350) at ptolemy.vergil.VergilApplication._createEmptyConfiguration(VergilApplication.java:367) at ptolemy.actor.gui.ConfigurationApplication._parseArgs(ConfigurationApplication.java:1273) at ptolemy.vergil.VergilApplication._parseArgs(VergilApplication.java:497) at ptolemy.actor.gui.ConfigurationApplication.<init>(ConfigurationApplication.java:244) at ptolemy.actor.gui.MoMLApplication.<init>(MoMLApplication.java:80) at ptolemy.vergil.VergilApplication.<init>(VergilApplication.java:111) at ptolemy.vergil.VergilApplication$1.run(VergilApplication.java:239) at java.awt.event.InvocationEvent.dispatch(InvocationEvent.java:209) at java.awt.EventQueue.dispatchEvent(EventQueue.java:633) at java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:296) at java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:211) at java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:201) at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:196) at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:188) at java.awt.EventDispatchThread.run(EventDispatchThread.java:122) java.lang.ClassNotFoundException: org.kepler.util.WorkflowRun at java.net.URLClassLoader$1.run(URLClassLoader.java:200) at java.security.AccessController.doPrivileged(Native Method) at java.net.URLClassLoader.findClass(URLClassLoader.java:188) at java.lang.ClassLoader.loadClass(ClassLoader.java:315) at sun.misc.Launcher$AppClassLoader.loadClass(Launcher.java:330) at java.lang.ClassLoader.loadClass(ClassLoader.java:250) at java.lang.ClassLoader.loadClassInternal(ClassLoader.java:398) at java.lang.Class.forName0(Native Method) at java.lang.Class.forName(Class.java:169) at org.kepler.kar.KARFile.isSubclass(KARFile.java:486) at org.kepler.objectmanager.library.LibIndex.determineLibIndexType(LibIndex.java:650) at org.kepler.objectmanager.library.LibIndex.assureKarEntry(LibIndex.java:548) at org.kepler.objectmanager.library.LibIndex.rebuild(LibIndex.java:268) at org.kepler.objectmanager.library.LibraryManager.buildLibrary(LibraryManager.java:363) at org.kepler.moml.KARLibraryBuilder.buildLibrary(KARLibraryBuilder.java:78) at ptolemy.actor.gui.UserActorLibrary.openLibrary(UserActorLibrary.java:222) at ptolemy.actor.gui.UserActorLibrary.openUserLibrary(UserActorLibrary.java:140) at ptolemy.vergil.VergilApplication._createDefaultConfiguration(VergilApplication.java:350) at ptolemy.vergil.VergilApplication._createEmptyConfiguration(VergilApplication.java:367) at ptolemy.actor.gui.ConfigurationApplication._parseArgs(ConfigurationApplication.java:1273) at ptolemy.vergil.VergilApplication._parseArgs(VergilApplication.java:497) at ptolemy.actor.gui.ConfigurationApplication.<init>(ConfigurationApplication.java:244) at ptolemy.actor.gui.MoMLApplication.<init>(MoMLApplication.java:80) at ptolemy.vergil.VergilApplication.<init>(VergilApplication.java:111) at ptolemy.vergil.VergilApplication$1.run(VergilApplication.java:239) at java.awt.event.InvocationEvent.dispatch(InvocationEvent.java:209) at java.awt.EventQueue.dispatchEvent(EventQueue.java:633) at java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:296) at java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:211) at java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:201) at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:196) at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:188) at java.awt.EventDispatchThread.run(EventDispatchThread.java:122) java.lang.ClassNotFoundException: org.kepler.objectmanager.cache.WorkflowRunCacheObject at java.net.URLClassLoader$1.run(URLClassLoader.java:200) at java.security.AccessController.doPrivileged(Native Method) at java.net.URLClassLoader.findClass(URLClassLoader.java:188) at java.lang.ClassLoader.loadClass(ClassLoader.java:315) at sun.misc.Launcher$AppClassLoader.loadClass(Launcher.java:330) at java.lang.ClassLoader.loadClass(ClassLoader.java:250) at java.lang.ClassLoader.loadClassInternal(ClassLoader.java:398) at java.lang.Class.forName0(Native Method) at java.lang.Class.forName(Class.java:169) at org.kepler.kar.KARFile.isSubclass(KARFile.java:486) at org.kepler.objectmanager.library.LibIndex.determineLibIndexType(LibIndex.java:634) at org.kepler.objectmanager.library.LibIndex.assureKarEntry(LibIndex.java:548) at org.kepler.objectmanager.library.LibIndex.rebuild(LibIndex.java:268) at org.kepler.objectmanager.library.LibraryManager.buildLibrary(LibraryManager.java:363) at org.kepler.moml.KARLibraryBuilder.buildLibrary(KARLibraryBuilder.java:78) at ptolemy.actor.gui.UserActorLibrary.openLibrary(UserActorLibrary.java:222) at ptolemy.actor.gui.UserActorLibrary.openUserLibrary(UserActorLibrary.java:140) at ptolemy.vergil.VergilApplication._createDefaultConfiguration(VergilApplication.java:350) at ptolemy.vergil.VergilApplication._createEmptyConfiguration(VergilApplication.java:367) at ptolemy.actor.gui.ConfigurationApplication._parseArgs(ConfigurationApplication.java:1273) at ptolemy.vergil.VergilApplication._parseArgs(VergilApplication.java:497) at ptolemy.actor.gui.ConfigurationApplication.<init>(ConfigurationApplication.java:244) at ptolemy.actor.gui.MoMLApplication.<init>(MoMLApplication.java:80) at ptolemy.vergil.VergilApplication.<init>(VergilApplication.java:111) at ptolemy.vergil.VergilApplication$1.run(VergilApplication.java:239) at java.awt.event.InvocationEvent.dispatch(InvocationEvent.java:209) at java.awt.EventQueue.dispatchEvent(EventQueue.java:633) at java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:296) at java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:211) at java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:201) at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:196) at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:188) at java.awt.EventDispatchThread.run(EventDispatchThread.java:122) java.lang.ClassNotFoundException: org.kepler.util.WorkflowRun at java.net.URLClassLoader$1.run(URLClassLoader.java:200) at java.security.AccessController.doPrivileged(Native Method) at java.net.URLClassLoader.findClass(URLClassLoader.java:188) at java.lang.ClassLoader.loadClass(ClassLoader.java:315) at sun.misc.Launcher$AppClassLoader.loadClass(Launcher.java:330) at java.lang.ClassLoader.loadClass(ClassLoader.java:250) at java.lang.ClassLoader.loadClassInternal(ClassLoader.java:398) at java.lang.Class.forName0(Native Method) at java.lang.Class.forName(Class.java:169) at org.kepler.kar.KARFile.isSubclass(KARFile.java:486) at org.kepler.objectmanager.library.LibIndex.determineLibIndexType(LibIndex.java:650) at org.kepler.objectmanager.library.LibIndex.assureKarEntry(LibIndex.java:548) at org.kepler.objectmanager.library.LibIndex.rebuild(LibIndex.java:268) at org.kepler.objectmanager.library.LibraryManager.buildLibrary(LibraryManager.java:363) at org.kepler.moml.KARLibraryBuilder.buildLibrary(KARLibraryBuilder.java:78) at ptolemy.actor.gui.UserActorLibrary.openLibrary(UserActorLibrary.java:222) at ptolemy.actor.gui.UserActorLibrary.openUserLibrary(UserActorLibrary.java:140) at ptolemy.vergil.VergilApplication._createDefaultConfiguration(VergilApplication.java:350) at ptolemy.vergil.VergilApplication._createEmptyConfiguration(VergilApplication.java:367) at ptolemy.actor.gui.ConfigurationApplication._parseArgs(ConfigurationApplication.java:1273) at ptolemy.vergil.VergilApplication._parseArgs(VergilApplication.java:497) at ptolemy.actor.gui.ConfigurationApplication.<init>(ConfigurationApplication.java:244) at ptolemy.actor.gui.MoMLApplication.<init>(MoMLApplication.java:80) at ptolemy.vergil.VergilApplication.<init>(VergilApplication.java:111) at ptolemy.vergil.VergilApplication$1.run(VergilApplication.java:239) at java.awt.event.InvocationEvent.dispatch(InvocationEvent.java:209) at java.awt.EventQueue.dispatchEvent(EventQueue.java:633) at java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:296) at java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:211) at java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:201) at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:196) at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:188) at java.awt.EventDispatchThread.run(EventDispatchThread.java:122) Cheers mehdi
Re: adding provenance source code into eclipse
by Daniel Crawl, last updated: Jan 26, 2012 01:28 PM
Hi Mehdi, What errors are you getting?
Building Kepler 1.0
by Chad Berkley, last updated: Jan 26, 2012 09:19 AM
Reporting 2.3 Add-on Suite Released
by Derik Barseghian, last updated: Jan 20, 2012 02:03 PM
The Reporting module adds useful features to the Kepler scientific workflow system, including the ability to track the provenance of workflow results, design reports displaying results, and manage workflow runs. Reporting 2.3 addresses many bugs, adds new features, and makes many improvements to the GUIs of Reporting 2.1. A new Workflow Scheduler suite is also included, enabling users to schedule workflows for periodic execution by a remote Kepler server.
Kepler 2.3 Released
by Derik Barseghian, last updated: Jan 20, 2012 01:59 PM
Kepler 2.3 is an incremental improvement upon 2.2. It contains many bug fixes and infrastructure improvements, paving the way for smoother minor, patch, and 3rd party add-on module releases in the future. Some improvements and additions to the GUI will also be noticed, including preliminary support for exporting workflows to static images and html, and a vastly improved Automate Layout feature.
adding provenance source code into eclipse
by mehdi sarikhani, last updated: Jan 19, 2012 08:46 PM
Hi I can import source code of kepler into eclipse, but as long as i add provenance , or other component to kepler adding their source code into eclipse cause lot's of errors. some of these errors are related to versioning.( i mean 2 version of same component are exist in source code like actor and actor-2.1.0) i try both version of kelper ( ant change-to -Dsuite=kepler-2.1 and ant change-to -Dsuite=kepler). after adding provenance component , i import them to eclipse but they can not run. i follow manual to import source code ( there is not any problem without adding additional components to source code.) i will appreciate if help me to import provenance source code into eclipse. Cheers
iccs logo
by Ilkay Altintas, last updated: Jan 12, 2012 09:33 AM
Kepler logo
by Ilkay Altintas, last updated: Jan 12, 2012 09:32 AM
Kepler Workshops
by Ilkay Altintas, last updated: Jan 11, 2012 10:51 AM
Configuring and Running SPAN
by Daniel Crawl, last updated: Dec 08, 2011 12:57 PM
How to configure and run the SPAN software
Serpens Suite for Kepler released
by Matthew Jones, last updated: Dec 05, 2011 04:31 PM
The Serpens suite for Kepler, a set of actors, composites and workflows that provide support for different grid middleware stacks - (e.g. gLite and UNICORE), has been released by the Poznan Supercomputing and Networking Center (PSNC).
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