I’m trying to do an abbreviated build on DevRatMine and also configure the new search function. I got the following error message from Go Annoations source that I have never seen before. Given a ProxyReference, but id not in ID Map. Here is the full stack: starting command: ant -v -Dsource=go-annotation BUILD FAILED /home/intermine/build/intermine_current/imbuild/integrate.xml:54: The following error occurred while executing this line: /home/intermine/build/intermine_current/imbuild/source.xml:330: java.lang.RuntimeException: Exception while dataloading - to allow multiple errors, set the property "dataLoader.allowMultipleErrors" to true Problem while loading item identifier 8_74144 because Given a ProxyReference, but id not in ID Map. Source object ID: 86835 at org.apache.tools.ant.ProjectHelper.addLocationToBuildException(ProjectHelper.java:508) at org.apache.tools.ant.taskdefs.Ant.execute(Ant.java:418) at org.intermine.task.Integrate.performAction(Integrate.java:223) at org.intermine.task.Integrate.performAction(Integrate.java:136) at org.intermine.task.Integrate.execute(Integrate.java:127) at org.apache.tools.ant.UnknownElement.execute(UnknownElement.java:288) at sun.reflect.GeneratedMethodAccessor1.invoke(Unknown Source) at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25) at java.lang.reflect.Method.invoke(Method.java:597) at org.apache.tools.ant.dispatch.DispatchUtils.execute(DispatchUtils.java:106) at org.apache.tools.ant.Task.perform(Task.java:348) at org.apache.tools.ant.Target.execute(Target.java:357) at org.apache.tools.ant.Target.performTasks(Target.java:385) at org.apache.tools.ant.Project.executeSortedTargets(Project.java:1337) at org.apache.tools.ant.Project.executeTarget(Project.java:1306) at org.apache.tools.ant.helper.DefaultExecutor.executeTargets(DefaultExecutor.java:41) at org.apache.tools.ant.Project.executeTargets(Project.java:1189) at org.apache.tools.ant.Main.runBuild(Main.java:758) at org.apache.tools.ant.Main.startAnt(Main.java:217) at org.apache.tools.ant.launch.Launcher.run(Launcher.java:257) at org.apache.tools.ant.launch.Launcher.main(Launcher.java:104) Caused by: /home/intermine/build/intermine_current/imbuild/source.xml:330: java.lang.RuntimeException: Exception while dataloading - to allow multiple errors, set the property "dataLoader.allowMultipleErrors" to true Problem while loading item identifier 8_74144 because Given a ProxyReference, but id not in ID Map. Source object ID: 86835 at org.intermine.dataloader.ObjectStoreDataLoaderTask.execute(ObjectStoreDataLoaderTask.java:133) at org.apache.tools.ant.UnknownElement.execute(UnknownElement.java:288) at sun.reflect.GeneratedMethodAccessor91.invoke(Unknown Source) at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25) at java.lang.reflect.Method.invoke(Method.java:597) at org.apache.tools.ant.dispatch.DispatchUtils.execute(DispatchUtils.java:106) at org.apache.tools.ant.Task.perform(Task.java:348) at org.apache.tools.ant.Target.execute(Target.java:357) at org.apache.tools.ant.Target.performTasks(Target.java:385) at org.apache.tools.ant.Project.executeSortedTargets(Project.java:1337) at org.apache.tools.ant.helper.SingleCheckExecutor.executeTargets(SingleCheckExecutor.java:38) at org.apache.tools.ant.Project.executeTargets(Project.java:1189) at org.apache.tools.ant.taskdefs.Ant.execute(Ant.java:416) ... 19 more Caused by: java.lang.RuntimeException: Exception while dataloading - to allow multiple errors, set the property "dataLoader.allowMultipleErrors" to true Problem while loading item identifier 8_74144 because Given a ProxyReference, but id not in ID Map. Source object ID: 86835 at org.intermine.dataloader.ObjectStoreDataLoader.process(ObjectStoreDataLoader.java:164) at org.intermine.dataloader.ObjectStoreDataLoader.process(ObjectStoreDataLoader.java:60) at org.intermine.dataloader.ObjectStoreDataLoaderTask.execute(ObjectStoreDataLoaderTask.java:128) ... 31 more Caused by: java.lang.IllegalArgumentException: Given a ProxyReference, but id not in ID Map. Source object ID: 86835 at org.intermine.dataloader.IntegrationWriterAbstractImpl.getEquivalentObjects(IntegrationWriterAbstractImpl.java:146) at org.intermine.dataloader.IntegrationWriterDataTrackingImpl.store(IntegrationWriterDataTrackingImpl.java:257) at org.intermine.dataloader.IntegrationWriterAbstractImpl.copyField(IntegrationWriterAbstractImpl.java:343) at org.intermine.dataloader.IntegrationWriterDataTrackingImpl.shortcut(IntegrationWriterDataTrackingImpl.java:571) at org.intermine.dataloader.IntegrationWriterDataTrackingImpl.store(IntegrationWriterDataTrackingImpl.java:263) at org.intermine.dataloader.IntegrationWriterAbstractImpl.store(IntegrationWriterAbstractImpl.java:171) at org.intermine.dataloader.ObjectStoreDataLoader.process(ObjectStoreDataLoader.java:146) ... 33 more --- Nested Exception --- /home/intermine/build/intermine_current/imbuild/source.xml:330: java.lang.RuntimeException: Exception while dataloading - to allow multiple errors, set the property "dataLoader.allowMultipleErrors" to true Problem while loading item identifier 8_74144 because Given a ProxyReference, but id not in ID Map. Source object ID: 86835 at org.intermine.dataloader.ObjectStoreDataLoaderTask.execute(ObjectStoreDataLoaderTask.java:133) at org.apache.tools.ant.UnknownElement.execute(UnknownElement.java:288) at sun.reflect.GeneratedMethodAccessor91.invoke(Unknown Source) at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25) at java.lang.reflect.Method.invoke(Method.java:597) at org.apache.tools.ant.dispatch.DispatchUtils.execute(DispatchUtils.java:106) at org.apache.tools.ant.Task.perform(Task.java:348) at org.apache.tools.ant.Target.execute(Target.java:357) at org.apache.tools.ant.Target.performTasks(Target.java:385) at org.apache.tools.ant.Project.executeSortedTargets(Project.java:1337) at org.apache.tools.ant.helper.SingleCheckExecutor.executeTargets(SingleCheckExecutor.java:38) at org.apache.tools.ant.Project.executeTargets(Project.java:1189) at org.apache.tools.ant.taskdefs.Ant.execute(Ant.java:416) at org.intermine.task.Integrate.performAction(Integrate.java:223) at org.intermine.task.Integrate.performAction(Integrate.java:136) at org.intermine.task.Integrate.execute(Integrate.java:127) at org.apache.tools.ant.UnknownElement.execute(UnknownElement.java:288) at sun.reflect.GeneratedMethodAccessor1.invoke(Unknown Source) at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25) at java.lang.reflect.Method.invoke(Method.java:597) at org.apache.tools.ant.dispatch.DispatchUtils.execute(DispatchUtils.java:106) at org.apache.tools.ant.Task.perform(Task.java:348) at org.apache.tools.ant.Target.execute(Target.java:357) at org.apache.tools.ant.Target.performTasks(Target.java:385) at org.apache.tools.ant.Project.executeSortedTargets(Project.java:1337) at org.apache.tools.ant.Project.executeTarget(Project.java:1306) at org.apache.tools.ant.helper.DefaultExecutor.executeTargets(DefaultExecutor.java:41) at org.apache.tools.ant.Project.executeTargets(Project.java:1189) at org.apache.tools.ant.Main.runBuild(Main.java:758) at org.apache.tools.ant.Main.startAnt(Main.java:217) at org.apache.tools.ant.launch.Launcher.run(Launcher.java:257) at org.apache.tools.ant.launch.Launcher.main(Launcher.java:104) Caused by: java.lang.RuntimeException: Exception while dataloading - to allow multiple errors, set the property "dataLoader.allowMultipleErrors" to true Problem while loading item identifier 8_74144 because Given a ProxyReference, but id not in ID Map. Source object ID: 86835 at org.intermine.dataloader.ObjectStoreDataLoader.process(ObjectStoreDataLoader.java:164) at org.intermine.dataloader.ObjectStoreDataLoader.process(ObjectStoreDataLoader.java:60) at org.intermine.dataloader.ObjectStoreDataLoaderTask.execute(ObjectStoreDataLoaderTask.java:128) ... 31 more Caused by: java.lang.IllegalArgumentException: Given a ProxyReference, but id not in ID Map. Source object ID: 86835 at org.intermine.dataloader.IntegrationWriterAbstractImpl.getEquivalentObjects(IntegrationWriterAbstractImpl.java:146) at org.intermine.dataloader.IntegrationWriterDataTrackingImpl.store(IntegrationWriterDataTrackingImpl.java:257) at org.intermine.dataloader.IntegrationWriterAbstractImpl.copyField(IntegrationWriterAbstractImpl.java:343) at org.intermine.dataloader.IntegrationWriterDataTrackingImpl.shortcut(IntegrationWriterDataTrackingImpl.java:571) at org.intermine.dataloader.IntegrationWriterDataTrackingImpl.store(IntegrationWriterDataTrackingImpl.java:263) at org.intermine.dataloader.IntegrationWriterAbstractImpl.store(IntegrationWriterAbstractImpl.java:171) at org.intermine.dataloader.ObjectStoreDataLoader.process(ObjectStoreDataLoader.java:146) ... 33 more --- Nested Exception --- java.lang.RuntimeException: Exception while dataloading - to allow multiple errors, set the property "dataLoader.allowMultipleErrors" to true Problem while loading item identifier 8_74144 because Given a ProxyReference, but id not in ID Map. Source object ID: 86835 at org.intermine.dataloader.ObjectStoreDataLoader.process(ObjectStoreDataLoader.java:164) at org.intermine.dataloader.ObjectStoreDataLoader.process(ObjectStoreDataLoader.java:60) at org.intermine.dataloader.ObjectStoreDataLoaderTask.execute(ObjectStoreDataLoaderTask.java:128) at org.apache.tools.ant.UnknownElement.execute(UnknownElement.java:288) at sun.reflect.GeneratedMethodAccessor91.invoke(Unknown Source) at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25) at java.lang.reflect.Method.invoke(Method.java:597) at org.apache.tools.ant.dispatch.DispatchUtils.execute(DispatchUtils.java:106) at org.apache.tools.ant.Task.perform(Task.java:348) at org.apache.tools.ant.Target.execute(Target.java:357) at org.apache.tools.ant.Target.performTasks(Target.java:385) at org.apache.tools.ant.Project.executeSortedTargets(Project.java:1337) at org.apache.tools.ant.helper.SingleCheckExecutor.executeTargets(SingleCheckExecutor.java:38) at org.apache.tools.ant.Project.executeTargets(Project.java:1189) at org.apache.tools.ant.taskdefs.Ant.execute(Ant.java:416) at org.intermine.task.Integrate.performAction(Integrate.java:223) at org.intermine.task.Integrate.performAction(Integrate.java:136) at org.intermine.task.Integrate.execute(Integrate.java:127) at org.apache.tools.ant.UnknownElement.execute(UnknownElement.java:288) at sun.reflect.GeneratedMethodAccessor1.invoke(Unknown Source) at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25) at java.lang.reflect.Method.invoke(Method.java:597) at org.apache.tools.ant.dispatch.DispatchUtils.execute(DispatchUtils.java:106) at org.apache.tools.ant.Task.perform(Task.java:348) at org.apache.tools.ant.Target.execute(Target.java:357) at org.apache.tools.ant.Target.performTasks(Target.java:385) at org.apache.tools.ant.Project.executeSortedTargets(Project.java:1337) at org.apache.tools.ant.Project.executeTarget(Project.java:1306) at org.apache.tools.ant.helper.DefaultExecutor.executeTargets(DefaultExecutor.java:41) at org.apache.tools.ant.Project.executeTargets(Project.java:1189) at org.apache.tools.ant.Main.runBuild(Main.java:758) at org.apache.tools.ant.Main.startAnt(Main.java:217) at org.apache.tools.ant.launch.Launcher.run(Launcher.java:257) at org.apache.tools.ant.launch.Launcher.main(Launcher.java:104) Caused by: java.lang.IllegalArgumentException: Given a ProxyReference, but id not in ID Map. Source object ID: 86835 at org.intermine.dataloader.IntegrationWriterAbstractImpl.getEquivalentObjects(IntegrationWriterAbstractImpl.java:146) at org.intermine.dataloader.IntegrationWriterDataTrackingImpl.store(IntegrationWriterDataTrackingImpl.java:257) at org.intermine.dataloader.IntegrationWriterAbstractImpl.copyField(IntegrationWriterAbstractImpl.java:343) at org.intermine.dataloader.IntegrationWriterDataTrackingImpl.shortcut(IntegrationWriterDataTrackingImpl.java:571) at org.intermine.dataloader.IntegrationWriterDataTrackingImpl.store(IntegrationWriterDataTrackingImpl.java:263) at org.intermine.dataloader.IntegrationWriterAbstractImpl.store(IntegrationWriterAbstractImpl.java:171) at org.intermine.dataloader.ObjectStoreDataLoader.process(ObjectStoreDataLoader.java:146) ... 33 more ====================== Andrew Vallejos Web Developer II Biotechnology and Bioengineering Center 414-955-4104 _______________________________________________ dev mailing list [hidden email] http://mail.intermine.org/cgi-bin/mailman/listinfo/dev |
Hi Andrew,
It looks like one of your objects is referring to an object that doesn't exist in the database. What has changed in the new build? You released ratmine with InterMine 0.96 code. Did you run a build with these same annotation files? If you send me your annotation files, I'll track down the bug. Cheers, Julie > I'm trying to do an abbreviated build on DevRatMine and also configure > the new search function. > > > > I got the following error message from Go Annoations source that I have > never seen before. > > > > Given a ProxyReference, but id not in ID Map. > > > > > > Here is the full stack: > > starting command: ant -v -Dsource=go-annotation > > > > > > BUILD FAILED > > /home/intermine/build/intermine_current/imbuild/integrate.xml:54: The > following error occurred while executing this line: > > /home/intermine/build/intermine_current/imbuild/source.xml:330: > java.lang.RuntimeException: Exception while dataloading - to allow > multiple errors, set the property "dataLoader.allowMultipleErrors" to > true > > Problem while loading item identifier 8_74144 because > > Given a ProxyReference, but id not in ID Map. Source object ID: 86835 > > at > org.apache.tools.ant.ProjectHelper.addLocationToBuildException(ProjectHe > lper.java:508) > > at org.apache.tools.ant.taskdefs.Ant.execute(Ant.java:418) > > at > org.intermine.task.Integrate.performAction(Integrate.java:223) > > at > org.intermine.task.Integrate.performAction(Integrate.java:136) > > at org.intermine.task.Integrate.execute(Integrate.java:127) > > at > org.apache.tools.ant.UnknownElement.execute(UnknownElement.java:288) > > at sun.reflect.GeneratedMethodAccessor1.invoke(Unknown Source) > > at > sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessor > Impl.java:25) > > at java.lang.reflect.Method.invoke(Method.java:597) > > at > org.apache.tools.ant.dispatch.DispatchUtils.execute(DispatchUtils.java:1 > 06) > > at org.apache.tools.ant.Task.perform(Task.java:348) > > at org.apache.tools.ant.Target.execute(Target.java:357) > > at org.apache.tools.ant.Target.performTasks(Target.java:385) > > at > org.apache.tools.ant.Project.executeSortedTargets(Project.java:1337) > > at org.apache.tools.ant.Project.executeTarget(Project.java:1306) > > at > org.apache.tools.ant.helper.DefaultExecutor.executeTargets(DefaultExecut > or.java:41) > > at > org.apache.tools.ant.Project.executeTargets(Project.java:1189) > > at org.apache.tools.ant.Main.runBuild(Main.java:758) > > at org.apache.tools.ant.Main.startAnt(Main.java:217) > > at org.apache.tools.ant.launch.Launcher.run(Launcher.java:257) > > at org.apache.tools.ant.launch.Launcher.main(Launcher.java:104) > > Caused by: > /home/intermine/build/intermine_current/imbuild/source.xml:330: > java.lang.RuntimeException: Exception while dataloading - to allow > multiple errors, set the property "dataLoader.allowMultipleErrors" to > true > > Problem while loading item identifier 8_74144 because > > Given a ProxyReference, but id not in ID Map. Source object ID: 86835 > > at > org.intermine.dataloader.ObjectStoreDataLoaderTask.execute(ObjectStoreDa > taLoaderTask.java:133) > > at > org.apache.tools.ant.UnknownElement.execute(UnknownElement.java:288) > > at sun.reflect.GeneratedMethodAccessor91.invoke(Unknown Source) > > at > sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessor > Impl.java:25) > > at java.lang.reflect.Method.invoke(Method.java:597) > > at > org.apache.tools.ant.dispatch.DispatchUtils.execute(DispatchUtils.java:1 > 06) > > at org.apache.tools.ant.Task.perform(Task.java:348) > > at org.apache.tools.ant.Target.execute(Target.java:357) > > at org.apache.tools.ant.Target.performTasks(Target.java:385) > > at > org.apache.tools.ant.Project.executeSortedTargets(Project.java:1337) > > at > org.apache.tools.ant.helper.SingleCheckExecutor.executeTargets(SingleChe > ckExecutor.java:38) > > at > org.apache.tools.ant.Project.executeTargets(Project.java:1189) > > at org.apache.tools.ant.taskdefs.Ant.execute(Ant.java:416) > > ... 19 more > > Caused by: java.lang.RuntimeException: Exception while dataloading - to > allow multiple errors, set the property "dataLoader.allowMultipleErrors" > to true > > Problem while loading item identifier 8_74144 because > > Given a ProxyReference, but id not in ID Map. Source object ID: 86835 > > at > org.intermine.dataloader.ObjectStoreDataLoader.process(ObjectStoreDataLo > ader.java:164) > > at > org.intermine.dataloader.ObjectStoreDataLoader.process(ObjectStoreDataLo > ader.java:60) > > at > org.intermine.dataloader.ObjectStoreDataLoaderTask.execute(ObjectStoreDa > taLoaderTask.java:128) > > ... 31 more > > Caused by: java.lang.IllegalArgumentException: Given a ProxyReference, > but id not in ID Map. Source object ID: 86835 > > at > org.intermine.dataloader.IntegrationWriterAbstractImpl.getEquivalentObje > cts(IntegrationWriterAbstractImpl.java:146) > > at > org.intermine.dataloader.IntegrationWriterDataTrackingImpl.store(Integra > tionWriterDataTrackingImpl.java:257) > > at > org.intermine.dataloader.IntegrationWriterAbstractImpl.copyField(Integra > tionWriterAbstractImpl.java:343) > > at > org.intermine.dataloader.IntegrationWriterDataTrackingImpl.shortcut(Inte > grationWriterDataTrackingImpl.java:571) > > at > org.intermine.dataloader.IntegrationWriterDataTrackingImpl.store(Integra > tionWriterDataTrackingImpl.java:263) > > at > org.intermine.dataloader.IntegrationWriterAbstractImpl.store(Integration > WriterAbstractImpl.java:171) > > at > org.intermine.dataloader.ObjectStoreDataLoader.process(ObjectStoreDataLo > ader.java:146) > > ... 33 more > > --- Nested Exception --- > > /home/intermine/build/intermine_current/imbuild/source.xml:330: > java.lang.RuntimeException: Exception while dataloading - to allow > multiple errors, set the property "dataLoader.allowMultipleErrors" to > true > > Problem while loading item identifier 8_74144 because > > Given a ProxyReference, but id not in ID Map. Source object ID: 86835 > > at > org.intermine.dataloader.ObjectStoreDataLoaderTask.execute(ObjectStoreDa > taLoaderTask.java:133) > > at > org.apache.tools.ant.UnknownElement.execute(UnknownElement.java:288) > > at sun.reflect.GeneratedMethodAccessor91.invoke(Unknown Source) > > at > sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessor > Impl.java:25) > > at java.lang.reflect.Method.invoke(Method.java:597) > > at > org.apache.tools.ant.dispatch.DispatchUtils.execute(DispatchUtils.java:1 > 06) > > at org.apache.tools.ant.Task.perform(Task.java:348) > > at org.apache.tools.ant.Target.execute(Target.java:357) > > at org.apache.tools.ant.Target.performTasks(Target.java:385) > > at > org.apache.tools.ant.Project.executeSortedTargets(Project.java:1337) > > at > org.apache.tools.ant.helper.SingleCheckExecutor.executeTargets(SingleChe > ckExecutor.java:38) > > at > org.apache.tools.ant.Project.executeTargets(Project.java:1189) > > at org.apache.tools.ant.taskdefs.Ant.execute(Ant.java:416) > > at > org.intermine.task.Integrate.performAction(Integrate.java:223) > > at > org.intermine.task.Integrate.performAction(Integrate.java:136) > > at org.intermine.task.Integrate.execute(Integrate.java:127) > > at > org.apache.tools.ant.UnknownElement.execute(UnknownElement.java:288) > > at sun.reflect.GeneratedMethodAccessor1.invoke(Unknown Source) > > at > sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessor > Impl.java:25) > > at java.lang.reflect.Method.invoke(Method.java:597) > > at > org.apache.tools.ant.dispatch.DispatchUtils.execute(DispatchUtils.java:1 > 06) > > at org.apache.tools.ant.Task.perform(Task.java:348) > > at org.apache.tools.ant.Target.execute(Target.java:357) > > at org.apache.tools.ant.Target.performTasks(Target.java:385) > > at > org.apache.tools.ant.Project.executeSortedTargets(Project.java:1337) > > at org.apache.tools.ant.Project.executeTarget(Project.java:1306) > > at > org.apache.tools.ant.helper.DefaultExecutor.executeTargets(DefaultExecut > or.java:41) > > at > org.apache.tools.ant.Project.executeTargets(Project.java:1189) > > at org.apache.tools.ant.Main.runBuild(Main.java:758) > > at org.apache.tools.ant.Main.startAnt(Main.java:217) > > at org.apache.tools.ant.launch.Launcher.run(Launcher.java:257) > > at org.apache.tools.ant.launch.Launcher.main(Launcher.java:104) > > Caused by: java.lang.RuntimeException: Exception while dataloading - to > allow multiple errors, set the property "dataLoader.allowMultipleErrors" > to true > > Problem while loading item identifier 8_74144 because > > Given a ProxyReference, but id not in ID Map. Source object ID: 86835 > > at > org.intermine.dataloader.ObjectStoreDataLoader.process(ObjectStoreDataLo > ader.java:164) > > at > org.intermine.dataloader.ObjectStoreDataLoader.process(ObjectStoreDataLo > ader.java:60) > > at > org.intermine.dataloader.ObjectStoreDataLoaderTask.execute(ObjectStoreDa > taLoaderTask.java:128) > > ... 31 more > > Caused by: java.lang.IllegalArgumentException: Given a ProxyReference, > but id not in ID Map. Source object ID: 86835 > > at > org.intermine.dataloader.IntegrationWriterAbstractImpl.getEquivalentObje > cts(IntegrationWriterAbstractImpl.java:146) > > at > org.intermine.dataloader.IntegrationWriterDataTrackingImpl.store(Integra > tionWriterDataTrackingImpl.java:257) > > at > org.intermine.dataloader.IntegrationWriterAbstractImpl.copyField(Integra > tionWriterAbstractImpl.java:343) > > at > org.intermine.dataloader.IntegrationWriterDataTrackingImpl.shortcut(Inte > grationWriterDataTrackingImpl.java:571) > > at > org.intermine.dataloader.IntegrationWriterDataTrackingImpl.store(Integra > tionWriterDataTrackingImpl.java:263) > > at > org.intermine.dataloader.IntegrationWriterAbstractImpl.store(Integration > WriterAbstractImpl.java:171) > > at > org.intermine.dataloader.ObjectStoreDataLoader.process(ObjectStoreDataLo > ader.java:146) > > ... 33 more > > --- Nested Exception --- > > java.lang.RuntimeException: Exception while dataloading - to allow > multiple errors, set the property "dataLoader.allowMultipleErrors" to > true > > Problem while loading item identifier 8_74144 because > > Given a ProxyReference, but id not in ID Map. Source object ID: 86835 > > at > org.intermine.dataloader.ObjectStoreDataLoader.process(ObjectStoreDataLo > ader.java:164) > > at > org.intermine.dataloader.ObjectStoreDataLoader.process(ObjectStoreDataLo > ader.java:60) > > at > org.intermine.dataloader.ObjectStoreDataLoaderTask.execute(ObjectStoreDa > taLoaderTask.java:128) > > at > org.apache.tools.ant.UnknownElement.execute(UnknownElement.java:288) > > at sun.reflect.GeneratedMethodAccessor91.invoke(Unknown Source) > > at > sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessor > Impl.java:25) > > at java.lang.reflect.Method.invoke(Method.java:597) > > at > org.apache.tools.ant.dispatch.DispatchUtils.execute(DispatchUtils.java:1 > 06) > > at org.apache.tools.ant.Task.perform(Task.java:348) > > at org.apache.tools.ant.Target.execute(Target.java:357) > > at org.apache.tools.ant.Target.performTasks(Target.java:385) > > at > org.apache.tools.ant.Project.executeSortedTargets(Project.java:1337) > > at > org.apache.tools.ant.helper.SingleCheckExecutor.executeTargets(SingleChe > ckExecutor.java:38) > > at > org.apache.tools.ant.Project.executeTargets(Project.java:1189) > > at org.apache.tools.ant.taskdefs.Ant.execute(Ant.java:416) > > at > org.intermine.task.Integrate.performAction(Integrate.java:223) > > at > org.intermine.task.Integrate.performAction(Integrate.java:136) > > at org.intermine.task.Integrate.execute(Integrate.java:127) > > at > org.apache.tools.ant.UnknownElement.execute(UnknownElement.java:288) > > at sun.reflect.GeneratedMethodAccessor1.invoke(Unknown Source) > > at > sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessor > Impl.java:25) > > at java.lang.reflect.Method.invoke(Method.java:597) > > at > org.apache.tools.ant.dispatch.DispatchUtils.execute(DispatchUtils.java:1 > 06) > > at org.apache.tools.ant.Task.perform(Task.java:348) > > at org.apache.tools.ant.Target.execute(Target.java:357) > > at org.apache.tools.ant.Target.performTasks(Target.java:385) > > at > org.apache.tools.ant.Project.executeSortedTargets(Project.java:1337) > > at org.apache.tools.ant.Project.executeTarget(Project.java:1306) > > at > org.apache.tools.ant.helper.DefaultExecutor.executeTargets(DefaultExecut > or.java:41) > > at > org.apache.tools.ant.Project.executeTargets(Project.java:1189) > > at org.apache.tools.ant.Main.runBuild(Main.java:758) > > at org.apache.tools.ant.Main.startAnt(Main.java:217) > > at org.apache.tools.ant.launch.Launcher.run(Launcher.java:257) > > at org.apache.tools.ant.launch.Launcher.main(Launcher.java:104) > > Caused by: java.lang.IllegalArgumentException: Given a ProxyReference, > but id not in ID Map. Source object ID: 86835 > > at > org.intermine.dataloader.IntegrationWriterAbstractImpl.getEquivalentObje > cts(IntegrationWriterAbstractImpl.java:146) > > at > org.intermine.dataloader.IntegrationWriterDataTrackingImpl.store(Integra > tionWriterDataTrackingImpl.java:257) > > at > org.intermine.dataloader.IntegrationWriterAbstractImpl.copyField(Integra > tionWriterAbstractImpl.java:343) > > at > org.intermine.dataloader.IntegrationWriterDataTrackingImpl.shortcut(Inte > grationWriterDataTrackingImpl.java:571) > > at > org.intermine.dataloader.IntegrationWriterDataTrackingImpl.store(Integra > tionWriterDataTrackingImpl.java:263) > > at > org.intermine.dataloader.IntegrationWriterAbstractImpl.store(Integration > WriterAbstractImpl.java:171) > > at > org.intermine.dataloader.ObjectStoreDataLoader.process(ObjectStoreDataLo > ader.java:146) > > ... 33 more > > > > ====================== > > Andrew Vallejos > > Web Developer II > > Biotechnology and Bioengineering Center > > Medical College of Wisconsin > > 414-955-4104 > > [hidden email] > > _______________________________________________ > dev mailing list > [hidden email] > http://mail.intermine.org/cgi-bin/mailman/listinfo/dev > _______________________________________________ dev mailing list [hidden email] http://mail.intermine.org/cgi-bin/mailman/listinfo/dev |
Thanks,
I figured it out last night, I had goAnnotations instead of goAnnotation, notice the extra 's'. -Andrew -----Original Message----- From: [hidden email] [mailto:[hidden email]] Sent: Monday, March 14, 2011 6:11 PM To: Vallejos, Andrew Cc: [hidden email] Subject: Re: [InterMine Dev] New Error Message Hi Andrew, It looks like one of your objects is referring to an object that doesn't exist in the database. What has changed in the new build? You released ratmine with InterMine 0.96 code. Did you run a build with these same annotation files? If you send me your annotation files, I'll track down the bug. Cheers, Julie > I'm trying to do an abbreviated build on DevRatMine and also configure > the new search function. > > > > I got the following error message from Go Annoations source that I have > never seen before. > > > > Given a ProxyReference, but id not in ID Map. > > > > > > Here is the full stack: > > starting command: ant -v -Dsource=go-annotation > > > > > > BUILD FAILED > > /home/intermine/build/intermine_current/imbuild/integrate.xml:54: The > following error occurred while executing this line: > > /home/intermine/build/intermine_current/imbuild/source.xml:330: > java.lang.RuntimeException: Exception while dataloading - to allow > multiple errors, set the property "dataLoader.allowMultipleErrors" to > true > > Problem while loading item identifier 8_74144 because > > Given a ProxyReference, but id not in ID Map. Source object ID: 86835 > > at > > lper.java:508) > > at org.apache.tools.ant.taskdefs.Ant.execute(Ant.java:418) > > at > org.intermine.task.Integrate.performAction(Integrate.java:223) > > at > org.intermine.task.Integrate.performAction(Integrate.java:136) > > at org.intermine.task.Integrate.execute(Integrate.java:127) > > at > org.apache.tools.ant.UnknownElement.execute(UnknownElement.java:288) > > at sun.reflect.GeneratedMethodAccessor1.invoke(Unknown Source) > > at > > Impl.java:25) > > at java.lang.reflect.Method.invoke(Method.java:597) > > at > org.apache.tools.ant.dispatch.DispatchUtils.execute(DispatchUtils.java:1 > 06) > > at org.apache.tools.ant.Task.perform(Task.java:348) > > at org.apache.tools.ant.Target.execute(Target.java:357) > > at org.apache.tools.ant.Target.performTasks(Target.java:385) > > at > org.apache.tools.ant.Project.executeSortedTargets(Project.java:1337) > > at > > at > org.apache.tools.ant.helper.DefaultExecutor.executeTargets(DefaultExecut > or.java:41) > > at > org.apache.tools.ant.Project.executeTargets(Project.java:1189) > > at org.apache.tools.ant.Main.runBuild(Main.java:758) > > at org.apache.tools.ant.Main.startAnt(Main.java:217) > > at org.apache.tools.ant.launch.Launcher.run(Launcher.java:257) > > at > > Caused by: > /home/intermine/build/intermine_current/imbuild/source.xml:330: > java.lang.RuntimeException: Exception while dataloading - to allow > multiple errors, set the property "dataLoader.allowMultipleErrors" to > true > > Problem while loading item identifier 8_74144 because > > Given a ProxyReference, but id not in ID Map. Source object ID: 86835 > > at > > taLoaderTask.java:133) > > at > org.apache.tools.ant.UnknownElement.execute(UnknownElement.java:288) > > at sun.reflect.GeneratedMethodAccessor91.invoke(Unknown Source) > > at > sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessor > Impl.java:25) > > at java.lang.reflect.Method.invoke(Method.java:597) > > at > org.apache.tools.ant.dispatch.DispatchUtils.execute(DispatchUtils.java:1 > 06) > > at org.apache.tools.ant.Task.perform(Task.java:348) > > at org.apache.tools.ant.Target.execute(Target.java:357) > > at org.apache.tools.ant.Target.performTasks(Target.java:385) > > at > org.apache.tools.ant.Project.executeSortedTargets(Project.java:1337) > > at > > ckExecutor.java:38) > > at > org.apache.tools.ant.Project.executeTargets(Project.java:1189) > > at org.apache.tools.ant.taskdefs.Ant.execute(Ant.java:416) > > ... 19 more > > Caused by: java.lang.RuntimeException: Exception while dataloading - > allow multiple errors, set the property "dataLoader.allowMultipleErrors" > to true > > Problem while loading item identifier 8_74144 because > > Given a ProxyReference, but id not in ID Map. Source object ID: 86835 > > at > org.intermine.dataloader.ObjectStoreDataLoader.process(ObjectStoreDataLo > ader.java:164) > > at > org.intermine.dataloader.ObjectStoreDataLoader.process(ObjectStoreDataLo > ader.java:60) > > at > org.intermine.dataloader.ObjectStoreDataLoaderTask.execute(ObjectStoreDa > taLoaderTask.java:128) > > ... 31 more > > Caused by: java.lang.IllegalArgumentException: Given a ProxyReference, > but id not in ID Map. Source object ID: 86835 > > at > org.intermine.dataloader.IntegrationWriterAbstractImpl.getEquivalentObje > cts(IntegrationWriterAbstractImpl.java:146) > > at > org.intermine.dataloader.IntegrationWriterDataTrackingImpl.store(Integra > tionWriterDataTrackingImpl.java:257) > > at > org.intermine.dataloader.IntegrationWriterAbstractImpl.copyField(Integra > tionWriterAbstractImpl.java:343) > > at > org.intermine.dataloader.IntegrationWriterDataTrackingImpl.shortcut(Inte > grationWriterDataTrackingImpl.java:571) > > at > org.intermine.dataloader.IntegrationWriterDataTrackingImpl.store(Integra > tionWriterDataTrackingImpl.java:263) > > at > org.intermine.dataloader.IntegrationWriterAbstractImpl.store(Integration > WriterAbstractImpl.java:171) > > at > org.intermine.dataloader.ObjectStoreDataLoader.process(ObjectStoreDataLo > ader.java:146) > > ... 33 more > > --- Nested Exception --- > > /home/intermine/build/intermine_current/imbuild/source.xml:330: > java.lang.RuntimeException: Exception while dataloading - to allow > multiple errors, set the property "dataLoader.allowMultipleErrors" to > true > > Problem while loading item identifier 8_74144 because > > Given a ProxyReference, but id not in ID Map. Source object ID: 86835 > > at > > taLoaderTask.java:133) > > at > org.apache.tools.ant.UnknownElement.execute(UnknownElement.java:288) > > at sun.reflect.GeneratedMethodAccessor91.invoke(Unknown Source) > > at > sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessor > Impl.java:25) > > at java.lang.reflect.Method.invoke(Method.java:597) > > at > org.apache.tools.ant.dispatch.DispatchUtils.execute(DispatchUtils.java:1 > 06) > > at org.apache.tools.ant.Task.perform(Task.java:348) > > at org.apache.tools.ant.Target.execute(Target.java:357) > > at org.apache.tools.ant.Target.performTasks(Target.java:385) > > at > org.apache.tools.ant.Project.executeSortedTargets(Project.java:1337) > > at > > ckExecutor.java:38) > > at > org.apache.tools.ant.Project.executeTargets(Project.java:1189) > > at org.apache.tools.ant.taskdefs.Ant.execute(Ant.java:416) > > at > org.intermine.task.Integrate.performAction(Integrate.java:223) > > at > org.intermine.task.Integrate.performAction(Integrate.java:136) > > at org.intermine.task.Integrate.execute(Integrate.java:127) > > at > org.apache.tools.ant.UnknownElement.execute(UnknownElement.java:288) > > at sun.reflect.GeneratedMethodAccessor1.invoke(Unknown Source) > > at > > Impl.java:25) > > at java.lang.reflect.Method.invoke(Method.java:597) > > at > org.apache.tools.ant.dispatch.DispatchUtils.execute(DispatchUtils.java:1 > 06) > > at org.apache.tools.ant.Task.perform(Task.java:348) > > at org.apache.tools.ant.Target.execute(Target.java:357) > > at org.apache.tools.ant.Target.performTasks(Target.java:385) > > at > org.apache.tools.ant.Project.executeSortedTargets(Project.java:1337) > > at > > at > org.apache.tools.ant.helper.DefaultExecutor.executeTargets(DefaultExecut > or.java:41) > > at > org.apache.tools.ant.Project.executeTargets(Project.java:1189) > > at org.apache.tools.ant.Main.runBuild(Main.java:758) > > at org.apache.tools.ant.Main.startAnt(Main.java:217) > > at org.apache.tools.ant.launch.Launcher.run(Launcher.java:257) > > at > > Caused by: java.lang.RuntimeException: Exception while dataloading - to > allow multiple errors, set the property "dataLoader.allowMultipleErrors" > to true > > Problem while loading item identifier 8_74144 because > > Given a ProxyReference, but id not in ID Map. Source object ID: 86835 > > at > org.intermine.dataloader.ObjectStoreDataLoader.process(ObjectStoreDataLo > ader.java:164) > > at > org.intermine.dataloader.ObjectStoreDataLoader.process(ObjectStoreDataLo > ader.java:60) > > at > org.intermine.dataloader.ObjectStoreDataLoaderTask.execute(ObjectStoreDa > taLoaderTask.java:128) > > ... 31 more > > Caused by: java.lang.IllegalArgumentException: Given a ProxyReference, > but id not in ID Map. Source object ID: 86835 > > at > org.intermine.dataloader.IntegrationWriterAbstractImpl.getEquivalentObje > cts(IntegrationWriterAbstractImpl.java:146) > > at > org.intermine.dataloader.IntegrationWriterDataTrackingImpl.store(Integra > tionWriterDataTrackingImpl.java:257) > > at > org.intermine.dataloader.IntegrationWriterAbstractImpl.copyField(Integra > tionWriterAbstractImpl.java:343) > > at > org.intermine.dataloader.IntegrationWriterDataTrackingImpl.shortcut(Inte > grationWriterDataTrackingImpl.java:571) > > at > org.intermine.dataloader.IntegrationWriterDataTrackingImpl.store(Integra > tionWriterDataTrackingImpl.java:263) > > at > org.intermine.dataloader.IntegrationWriterAbstractImpl.store(Integration > WriterAbstractImpl.java:171) > > at > org.intermine.dataloader.ObjectStoreDataLoader.process(ObjectStoreDataLo > ader.java:146) > > ... 33 more > > --- Nested Exception --- > > java.lang.RuntimeException: Exception while dataloading - to allow > multiple errors, set the property "dataLoader.allowMultipleErrors" to > true > > Problem while loading item identifier 8_74144 because > > Given a ProxyReference, but id not in ID Map. Source object ID: 86835 > > at > > ader.java:164) > > at > org.intermine.dataloader.ObjectStoreDataLoader.process(ObjectStoreDataLo > ader.java:60) > > at > org.intermine.dataloader.ObjectStoreDataLoaderTask.execute(ObjectStoreDa > taLoaderTask.java:128) > > at > org.apache.tools.ant.UnknownElement.execute(UnknownElement.java:288) > > at sun.reflect.GeneratedMethodAccessor91.invoke(Unknown Source) > > at > sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessor > Impl.java:25) > > at java.lang.reflect.Method.invoke(Method.java:597) > > at > org.apache.tools.ant.dispatch.DispatchUtils.execute(DispatchUtils.java:1 > 06) > > at org.apache.tools.ant.Task.perform(Task.java:348) > > at org.apache.tools.ant.Target.execute(Target.java:357) > > at org.apache.tools.ant.Target.performTasks(Target.java:385) > > at > org.apache.tools.ant.Project.executeSortedTargets(Project.java:1337) > > at > > ckExecutor.java:38) > > at > org.apache.tools.ant.Project.executeTargets(Project.java:1189) > > at org.apache.tools.ant.taskdefs.Ant.execute(Ant.java:416) > > at > org.intermine.task.Integrate.performAction(Integrate.java:223) > > at > org.intermine.task.Integrate.performAction(Integrate.java:136) > > at org.intermine.task.Integrate.execute(Integrate.java:127) > > at > org.apache.tools.ant.UnknownElement.execute(UnknownElement.java:288) > > at sun.reflect.GeneratedMethodAccessor1.invoke(Unknown Source) > > at > > Impl.java:25) > > at java.lang.reflect.Method.invoke(Method.java:597) > > at > org.apache.tools.ant.dispatch.DispatchUtils.execute(DispatchUtils.java:1 > 06) > > at org.apache.tools.ant.Task.perform(Task.java:348) > > at org.apache.tools.ant.Target.execute(Target.java:357) > > at org.apache.tools.ant.Target.performTasks(Target.java:385) > > at > org.apache.tools.ant.Project.executeSortedTargets(Project.java:1337) > > at > > at > org.apache.tools.ant.helper.DefaultExecutor.executeTargets(DefaultExecut > or.java:41) > > at > org.apache.tools.ant.Project.executeTargets(Project.java:1189) > > at org.apache.tools.ant.Main.runBuild(Main.java:758) > > at org.apache.tools.ant.Main.startAnt(Main.java:217) > > at org.apache.tools.ant.launch.Launcher.run(Launcher.java:257) > > at > > Caused by: java.lang.IllegalArgumentException: Given a ProxyReference, > but id not in ID Map. Source object ID: 86835 > > at > org.intermine.dataloader.IntegrationWriterAbstractImpl.getEquivalentObje > cts(IntegrationWriterAbstractImpl.java:146) > > at > org.intermine.dataloader.IntegrationWriterDataTrackingImpl.store(Integra > tionWriterDataTrackingImpl.java:257) > > at > org.intermine.dataloader.IntegrationWriterAbstractImpl.copyField(Integra > tionWriterAbstractImpl.java:343) > > at > org.intermine.dataloader.IntegrationWriterDataTrackingImpl.shortcut(Inte > grationWriterDataTrackingImpl.java:571) > > at > org.intermine.dataloader.IntegrationWriterDataTrackingImpl.store(Integra > tionWriterDataTrackingImpl.java:263) > > at > org.intermine.dataloader.IntegrationWriterAbstractImpl.store(Integration > WriterAbstractImpl.java:171) > > at > org.intermine.dataloader.ObjectStoreDataLoader.process(ObjectStoreDataLo > ader.java:146) > > ... 33 more > > > > ====================== > > Andrew Vallejos > > Web Developer II > > Biotechnology and Bioengineering Center > > Medical College of Wisconsin > > 414-955-4104 > > [hidden email] > > _______________________________________________ > dev mailing list > [hidden email] > http://mail.intermine.org/cgi-bin/mailman/listinfo/dev > _______________________________________________ dev mailing list [hidden email] http://mail.intermine.org/cgi-bin/mailman/listinfo/dev |
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