Ann Loraine added a comment - 12/Nov/18 1:11 PM Error was due to a typo in IGB preferences JSON file: core/igb-preferences/src/main/resources/igbDefaultPrefs.json Fixed on branch release-9.0.2 with commit: https://bitbucket.org/lorainelab/integrated-genome-browser/commits/e48079e134dfd0ad8517357a57a641471af707d5

Mason Meyer (Inactive) added a comment - 12/Nov/18 8:26 AM Rest of Console Content: 08:20:23.955 INFO org.amdatu.remote.AbstractComponent - Adding Remote Service Admin: [org.osgi.service.remoteserviceadmin.RemoteServiceAdmin] 08:20:23.968 INFO org.amdatu.remote.AbstractComponent - Configured export filter updated: (service.exported.interfaces=*) 08:20:23.969 INFO org.amdatu.remote.AbstractComponent - Configured import filter updated: (!(endpoint.framework.uuid=4c39f6ab-8f93-4e98-86ee-ae4b7c9b06cd)) 08:20:23.980 INFO o.l.i.p.PairedReadPreprocessor - Initializaing PairedReadPreprocessor ERROR: org.lorainelab.igb.plugins-manager (71): [PluginRepositoryList(80)] The activate method has thrown an exception com.google.gson.JsonSyntaxException: com.google.gson.stream.MalformedJsonException: Unterminated object at line 10 column 18 path $.prefs.server [0] .mirror at com.google.gson.Gson.fromJson(Gson.java:825) at com.google.gson.Gson.fromJson(Gson.java:748) at org.lorainelab.igb.preferences.IgbPreferencesParser.fromJson(IgbPreferencesParser.java:61) at org.lorainelab.igb.preferences.IgbPreferencesParser.fromDefaultPreferences(IgbPreferencesParser.java:84) at org.lorainelab.igb.plugin.manager.repos.PluginRepositoryList.activate(PluginRepositoryList.java:46) at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method) at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62) at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) at java.lang.reflect.Method.invoke(Method.java:498) at org.apache.felix.scr.impl.helper.BaseMethod.invokeMethod(BaseMethod.java:231) at org.apache.felix.scr.impl.helper.BaseMethod.access$500(BaseMethod.java:39) at org.apache.felix.scr.impl.helper.BaseMethod$Resolved.invoke(BaseMethod.java:624) at org.apache.felix.scr.impl.helper.BaseMethod.invoke(BaseMethod.java:508) at org.apache.felix.scr.impl.helper.ActivateMethod.invoke(ActivateMethod.java:149) at org.apache.felix.scr.impl.manager.SingleComponentManager.createImplementationObject(SingleComponentManager.java:315) at org.apache.felix.scr.impl.manager.SingleComponentManager.createComponent(SingleComponentManager.java:127) at org.apache.felix.scr.impl.manager.SingleComponentManager.getService(SingleComponentManager.java:871) at org.apache.felix.scr.impl.manager.SingleComponentManager.getServiceInternal(SingleComponentManager.java:838) at org.apache.felix.scr.impl.manager.AbstractComponentManager.activateInternal(AbstractComponentManager.java:850) at org.apache.felix.scr.impl.manager.DependencyManager$SingleStaticCustomizer.addedService(DependencyManager.java:931) at org.apache.felix.scr.impl.manager.DependencyManager$SingleStaticCustomizer.addedService(DependencyManager.java:895) at org.apache.felix.scr.impl.manager.ServiceTracker$Tracked.customizerAdded(ServiceTracker.java:1480) at org.apache.felix.scr.impl.manager.ServiceTracker$Tracked.customizerAdded(ServiceTracker.java:1401) at org.apache.felix.scr.impl.manager.ServiceTracker$AbstractTracked.trackAdding(ServiceTracker.java:1210) at org.apache.felix.scr.impl.manager.ServiceTracker$AbstractTracked.track(ServiceTracker.java:1148) at org.apache.felix.scr.impl.manager.ServiceTracker$Tracked.serviceChanged(ServiceTracker.java:1432) at org.apache.felix.framework.util.EventDispatcher.invokeServiceListenerCallback(EventDispatcher.java:987) at org.apache.felix.framework.util.EventDispatcher.fireEventImmediately(EventDispatcher.java:838) at org.apache.felix.framework.util.EventDispatcher.fireServiceEvent(EventDispatcher.java:545) at org.apache.felix.framework.Felix.fireServiceEvent(Felix.java:4560) at org.apache.felix.framework.Felix.registerService(Felix.java:3542) at org.apache.felix.framework.BundleContextImpl.registerService(BundleContextImpl.java:348) at org.apache.felix.scr.impl.manager.AbstractComponentManager$3.register(AbstractComponentManager.java:1003) at org.apache.felix.scr.impl.manager.AbstractComponentManager$3.register(AbstractComponentManager.java:992) at org.apache.felix.scr.impl.manager.RegistrationManager.changeRegistration(RegistrationManager.java:134) at org.apache.felix.scr.impl.manager.AbstractComponentManager.registerService(AbstractComponentManager.java:1044) at org.apache.felix.scr.impl.manager.AbstractComponentManager.activateInternal(AbstractComponentManager.java:841) at org.apache.felix.scr.impl.manager.DependencyManager$SingleStaticCustomizer.addedService(DependencyManager.java:931) at org.apache.felix.scr.impl.manager.DependencyManager$SingleStaticCustomizer.addedService(DependencyManager.java:895) at org.apache.felix.scr.impl.manager.ServiceTracker$Tracked.customizerAdded(ServiceTracker.java:1480) at org.apache.felix.scr.impl.manager.ServiceTracker$Tracked.customizerAdded(ServiceTracker.java:1401) at org.apache.felix.scr.impl.manager.ServiceTracker$AbstractTracked.trackAdding(ServiceTracker.java:1210) at org.apache.felix.scr.impl.manager.ServiceTracker$AbstractTracked.track(ServiceTracker.java:1148) at org.apache.felix.scr.impl.manager.ServiceTracker$Tracked.serviceChanged(ServiceTracker.java:1432) at org.apache.felix.framework.util.EventDispatcher.invokeServiceListenerCallback(EventDispatcher.java:987) at org.apache.felix.framework.util.EventDispatcher.fireEventImmediately(EventDispatcher.java:838) at org.apache.felix.framework.util.EventDispatcher.fireServiceEvent(EventDispatcher.java:545) at org.apache.felix.framework.Felix.fireServiceEvent(Felix.java:4560) at org.apache.felix.framework.Felix.registerService(Felix.java:3542) at org.apache.felix.framework.BundleContextImpl.registerService(BundleContextImpl.java:348) at org.apache.felix.scr.impl.manager.AbstractComponentManager$3.register(AbstractComponentManager.java:1003) at org.apache.felix.scr.impl.manager.AbstractComponentManager$3.register(AbstractComponentManager.java:992) at org.apache.felix.scr.impl.manager.RegistrationManager.changeRegistration(RegistrationManager.java:134) at org.apache.felix.scr.impl.manager.AbstractComponentManager.registerService(AbstractComponentManager.java:1044) at org.apache.felix.scr.impl.manager.AbstractComponentManager.activateInternal(AbstractComponentManager.java:841) at org.apache.felix.scr.impl.manager.DependencyManager$SingleStaticCustomizer.addedService(DependencyManager.java:931) at org.apache.felix.scr.impl.manager.DependencyManager$SingleStaticCustomizer.addedService(DependencyManager.java:895) at org.apache.felix.scr.impl.manager.ServiceTracker$Tracked.customizerAdded(ServiceTracker.java:1480) at org.apache.felix.scr.impl.manager.ServiceTracker$Tracked.customizerAdded(ServiceTracker.java:1401) at org.apache.felix.scr.impl.manager.ServiceTracker$AbstractTracked.trackAdding(ServiceTracker.java:1210) at org.apache.felix.scr.impl.manager.ServiceTracker$AbstractTracked.track(ServiceTracker.java:1148) at org.apache.felix.scr.impl.manager.ServiceTracker$Tracked.serviceChanged(ServiceTracker.java:1432) at org.apache.felix.framework.util.EventDispatcher.invokeServiceListenerCallback(EventDispatcher.java:987) at org.apache.felix.framework.util.EventDispatcher.fireEventImmediately(EventDispatcher.java:838) at org.apache.felix.framework.util.EventDispatcher.fireServiceEvent(EventDispatcher.java:545) at org.apache.felix.framework.Felix.fireServiceEvent(Felix.java:4560) at org.apache.felix.framework.Felix.registerService(Felix.java:3542) at org.apache.felix.framework.BundleContextImpl.registerService(BundleContextImpl.java:348) at org.apache.felix.scr.impl.manager.AbstractComponentManager$3.register(AbstractComponentManager.java:1003) at org.apache.felix.scr.impl.manager.AbstractComponentManager$3.register(AbstractComponentManager.java:992) at org.apache.felix.scr.impl.manager.RegistrationManager.changeRegistration(RegistrationManager.java:134) at org.apache.felix.scr.impl.manager.AbstractComponentManager.registerService(AbstractComponentManager.java:1044) at org.apache.felix.scr.impl.manager.AbstractComponentManager.activateInternal(AbstractComponentManager.java:841) at org.apache.felix.scr.impl.manager.AbstractComponentManager.enable(AbstractComponentManager.java:419) at org.apache.felix.scr.impl.config.ConfigurableComponentHolder.enableComponents(ConfigurableComponentHolder.java:376) at org.apache.felix.scr.impl.BundleComponentActivator.initialize(BundleComponentActivator.java:172) at org.apache.felix.scr.impl.BundleComponentActivator.<init>(BundleComponentActivator.java:120) at org.apache.felix.scr.impl.Activator.loadComponents(Activator.java:258) at org.apache.felix.scr.impl.Activator.access$000(Activator.java:45) at org.apache.felix.scr.impl.Activator$ScrExtension.start(Activator.java:185) at org.apache.felix.utils.extender.AbstractExtender.createExtension(AbstractExtender.java:259) at org.apache.felix.utils.extender.AbstractExtender.modifiedBundle(AbstractExtender.java:232) at org.osgi.util.tracker.BundleTracker$Tracked.customizerModified(BundleTracker.java:479) at org.osgi.util.tracker.BundleTracker$Tracked.customizerModified(BundleTracker.java:414) at org.osgi.util.tracker.AbstractTracked.track(AbstractTracked.java:232) at org.osgi.util.tracker.BundleTracker$Tracked.bundleChanged(BundleTracker.java:443) at org.apache.felix.framework.util.EventDispatcher.invokeBundleListenerCallback(EventDispatcher.java:913) at org.apache.felix.framework.util.EventDispatcher.fireEventImmediately(EventDispatcher.java:834) at org.apache.felix.framework.util.EventDispatcher.fireBundleEvent(EventDispatcher.java:516) at org.apache.felix.framework.Felix.fireBundleEvent(Felix.java:4544) at org.apache.felix.framework.Felix.startBundle(Felix.java:2166) at org.apache.felix.framework.Felix.setActiveStartLevel(Felix.java:1365) at org.apache.felix.framework.FrameworkStartLevelImpl.run(FrameworkStartLevelImpl.java:308) at java.lang.Thread.run(Thread.java:748) Caused by: com.google.gson.stream.MalformedJsonException: Unterminated object at line 10 column 18 path $.prefs.server [0] .mirror at com.google.gson.stream.JsonReader.syntaxError(JsonReader.java:1573) at com.google.gson.stream.JsonReader.doPeek(JsonReader.java:495) at com.google.gson.stream.JsonReader.hasNext(JsonReader.java:418) at com.google.gson.internal.bind.ReflectiveTypeAdapterFactory$Adapter.read(ReflectiveTypeAdapterFactory.java:190) at com.google.gson.internal.bind.TypeAdapterRuntimeTypeWrapper.read(TypeAdapterRuntimeTypeWrapper.java:40) at com.google.gson.internal.bind.CollectionTypeAdapterFactory$Adapter.read(CollectionTypeAdapterFactory.java:81) at com.google.gson.internal.bind.CollectionTypeAdapterFactory$Adapter.read(CollectionTypeAdapterFactory.java:60) at com.google.gson.internal.bind.ReflectiveTypeAdapterFactory$1.read(ReflectiveTypeAdapterFactory.java:103) at com.google.gson.internal.bind.ReflectiveTypeAdapterFactory$Adapter.read(ReflectiveTypeAdapterFactory.java:196) at com.google.gson.internal.bind.ReflectiveTypeAdapterFactory$1.read(ReflectiveTypeAdapterFactory.java:103) at com.google.gson.internal.bind.ReflectiveTypeAdapterFactory$Adapter.read(ReflectiveTypeAdapterFactory.java:196) at com.google.gson.Gson.fromJson(Gson.java:810) ... 93 more ERROR: org.lorainelab.igb.plugins-manager (71): [PluginRepositoryList(80)] Failed creating the component instance; see log for reason ERROR: igb (35): [PrefsLoader(40)] The activate method has thrown an exception com.google.gson.JsonSyntaxException: com.google.gson.stream.MalformedJsonException: Unterminated object at line 10 column 18 path $.prefs.server [0] .mirror at com.google.gson.Gson.fromJson(Gson.java:825) at com.google.gson.Gson.fromJson(Gson.java:748) at org.lorainelab.igb.preferences.IgbPreferencesParser.fromJson(IgbPreferencesParser.java:61) at org.lorainelab.igb.preferences.IgbPreferencesParser.fromDefaultPreferences(IgbPreferencesParser.java:84) at com.affymetrix.igb.prefs.IgbPreferencesLoadingOrchestrator.loadDefaultPrefs(IgbPreferencesLoadingOrchestrator.java:77) at com.affymetrix.igb.prefs.IgbPreferencesLoadingOrchestrator.loadIGBPrefs(IgbPreferencesLoadingOrchestrator.java:69) at com.affymetrix.igb.prefs.IgbPreferencesLoadingOrchestrator.activate(IgbPreferencesLoadingOrchestrator.java:50) at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method) at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62) at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) at java.lang.reflect.Method.invoke(Method.java:498) at org.apache.felix.scr.impl.helper.BaseMethod.invokeMethod(BaseMethod.java:231) at org.apache.felix.scr.impl.helper.BaseMethod.access$500(BaseMethod.java:39) at org.apache.felix.scr.impl.helper.BaseMethod$Resolved.invoke(BaseMethod.java:624) at org.apache.felix.scr.impl.helper.BaseMethod.invoke(BaseMethod.java:508) at org.apache.felix.scr.impl.helper.ActivateMethod.invoke(ActivateMethod.java:149) at org.apache.felix.scr.impl.manager.SingleComponentManager.createImplementationObject(SingleComponentManager.java:315) at org.apache.felix.scr.impl.manager.SingleComponentManager.createComponent(SingleComponentManager.java:127) at org.apache.felix.scr.impl.manager.SingleComponentManager.getService(SingleComponentManager.java:871) at org.apache.felix.scr.impl.manager.SingleComponentManager.getServiceInternal(SingleComponentManager.java:838) at org.apache.felix.scr.impl.manager.AbstractComponentManager.activateInternal(AbstractComponentManager.java:850) at org.apache.felix.scr.impl.manager.DependencyManager$SingleStaticCustomizer.addedService(DependencyManager.java:931) at org.apache.felix.scr.impl.manager.DependencyManager$SingleStaticCustomizer.addedService(DependencyManager.java:895) at org.apache.felix.scr.impl.manager.ServiceTracker$Tracked.customizerAdded(ServiceTracker.java:1480) at org.apache.felix.scr.impl.manager.ServiceTracker$Tracked.customizerAdded(ServiceTracker.java:1401) at org.apache.felix.scr.impl.manager.ServiceTracker$AbstractTracked.trackAdding(ServiceTracker.java:1210) at org.apache.felix.scr.impl.manager.ServiceTracker$AbstractTracked.track(ServiceTracker.java:1148) at org.apache.felix.scr.impl.manager.ServiceTracker$Tracked.serviceChanged(ServiceTracker.java:1432) at org.apache.felix.framework.util.EventDispatcher.invokeServiceListenerCallback(EventDispatcher.java:987) at org.apache.felix.framework.util.EventDispatcher.fireEventImmediately(EventDispatcher.java:838) at org.apache.felix.framework.util.EventDispatcher.fireServiceEvent(EventDispatcher.java:545) at org.apache.felix.framework.Felix.fireServiceEvent(Felix.java:4560) at org.apache.felix.framework.Felix.registerService(Felix.java:3542) at org.apache.felix.framework.BundleContextImpl.registerService(BundleContextImpl.java:348) at org.apache.felix.scr.impl.manager.AbstractComponentManager$3.register(AbstractComponentManager.java:1003) at org.apache.felix.scr.impl.manager.AbstractComponentManager$3.register(AbstractComponentManager.java:992) at org.apache.felix.scr.impl.manager.RegistrationManager.changeRegistration(RegistrationManager.java:134) at org.apache.felix.scr.impl.manager.AbstractComponentManager.registerService(AbstractComponentManager.java:1044) at org.apache.felix.scr.impl.manager.AbstractComponentManager.activateInternal(AbstractComponentManager.java:841) at org.apache.felix.scr.impl.manager.DependencyManager$SingleStaticCustomizer.addedService(DependencyManager.java:931) at org.apache.felix.scr.impl.manager.DependencyManager$SingleStaticCustomizer.addedService(DependencyManager.java:895) at org.apache.felix.scr.impl.manager.ServiceTracker$Tracked.customizerAdded(ServiceTracker.java:1480) at org.apache.felix.scr.impl.manager.ServiceTracker$Tracked.customizerAdded(ServiceTracker.java:1401) at org.apache.felix.scr.impl.manager.ServiceTracker$AbstractTracked.trackAdding(ServiceTracker.java:1210) at org.apache.felix.scr.impl.manager.ServiceTracker$AbstractTracked.track(ServiceTracker.java:1148) at org.apache.felix.scr.impl.manager.ServiceTracker$Tracked.serviceChanged(ServiceTracker.java:1432) at org.apache.felix.framework.util.EventDispatcher.invokeServiceListenerCallback(EventDispatcher.java:987) at org.apache.felix.framework.util.EventDispatcher.fireEventImmediately(EventDispatcher.java:838) at org.apache.felix.framework.util.EventDispatcher.fireServiceEvent(EventDispatcher.java:545) at org.apache.felix.framework.Felix.fireServiceEvent(Felix.java:4560) at org.apache.felix.framework.Felix.registerService(Felix.java:3542) at org.apache.felix.framework.BundleContextImpl.registerService(BundleContextImpl.java:348) at org.apache.felix.scr.impl.manager.AbstractComponentManager$3.register(AbstractComponentManager.java:1003) at org.apache.felix.scr.impl.manager.AbstractComponentManager$3.register(AbstractComponentManager.java:992) at org.apache.felix.scr.impl.manager.RegistrationManager.changeRegistration(RegistrationManager.java:134) at org.apache.felix.scr.impl.manager.AbstractComponentManager.registerService(AbstractComponentManager.java:1044) at org.apache.felix.scr.impl.manager.AbstractComponentManager.activateInternal(AbstractComponentManager.java:841) at org.apache.felix.scr.impl.manager.AbstractComponentManager.enable(AbstractComponentManager.java:419) at org.apache.felix.scr.impl.config.ConfigurableComponentHolder.enableComponents(ConfigurableComponentHolder.java:376) at org.apache.felix.scr.impl.BundleComponentActivator.initialize(BundleComponentActivator.java:172) at org.apache.felix.scr.impl.BundleComponentActivator.<init>(BundleComponentActivator.java:120) at org.apache.felix.scr.impl.Activator.loadComponents(Activator.java:258) at org.apache.felix.scr.impl.Activator.access$000(Activator.java:45) at org.apache.felix.scr.impl.Activator$ScrExtension.start(Activator.java:185) at org.apache.felix.utils.extender.AbstractExtender.createExtension(AbstractExtender.java:259) at org.apache.felix.utils.extender.AbstractExtender.modifiedBundle(AbstractExtender.java:232) at org.osgi.util.tracker.BundleTracker$Tracked.customizerModified(BundleTracker.java:479) at org.osgi.util.tracker.BundleTracker$Tracked.customizerModified(BundleTracker.java:414) at org.osgi.util.tracker.AbstractTracked.track(AbstractTracked.java:232) at org.osgi.util.tracker.BundleTracker$Tracked.bundleChanged(BundleTracker.java:443) at org.apache.felix.framework.util.EventDispatcher.invokeBundleListenerCallback(EventDispatcher.java:913) at org.apache.felix.framework.util.EventDispatcher.fireEventImmediately(EventDispatcher.java:834) at org.apache.felix.framework.util.EventDispatcher.fireBundleEvent(EventDispatcher.java:516) at org.apache.felix.framework.Felix.fireBundleEvent(Felix.java:4544) at org.apache.felix.framework.Felix.startBundle(Felix.java:2166) at org.apache.felix.framework.Felix.setActiveStartLevel(Felix.java:1365) at org.apache.felix.framework.FrameworkStartLevelImpl.run(FrameworkStartLevelImpl.java:308) at java.lang.Thread.run(Thread.java:748) Caused by: com.google.gson.stream.MalformedJsonException: Unterminated object at line 10 column 18 path $.prefs.server [0] .mirror at com.google.gson.stream.JsonReader.syntaxError(JsonReader.java:1573) at com.google.gson.stream.JsonReader.doPeek(JsonReader.java:495) at com.google.gson.stream.JsonReader.hasNext(JsonReader.java:418) at com.google.gson.internal.bind.ReflectiveTypeAdapterFactory$Adapter.read(ReflectiveTypeAdapterFactory.java:190) at com.google.gson.internal.bind.TypeAdapterRuntimeTypeWrapper.read(TypeAdapterRuntimeTypeWrapper.java:40) at com.google.gson.internal.bind.CollectionTypeAdapterFactory$Adapter.read(CollectionTypeAdapterFactory.java:81) at com.google.gson.internal.bind.CollectionTypeAdapterFactory$Adapter.read(CollectionTypeAdapterFactory.java:60) at com.google.gson.internal.bind.ReflectiveTypeAdapterFactory$1.read(ReflectiveTypeAdapterFactory.java:103) at com.google.gson.internal.bind.ReflectiveTypeAdapterFactory$Adapter.read(ReflectiveTypeAdapterFactory.java:196) at com.google.gson.internal.bind.ReflectiveTypeAdapterFactory$1.read(ReflectiveTypeAdapterFactory.java:103) at com.google.gson.internal.bind.ReflectiveTypeAdapterFactory$Adapter.read(ReflectiveTypeAdapterFactory.java:196) at com.google.gson.Gson.fromJson(Gson.java:810) ... 77 more ERROR: igb (35): [PrefsLoader(40)] Failed creating the component instance; see log for reason ERROR: weblinks (86): [WebLinkUtils(105)] The activate method has thrown an exception com.google.gson.JsonSyntaxException: com.google.gson.stream.MalformedJsonException: Unterminated object at line 10 column 18 path $.prefs.server [0] .mirror at com.google.gson.Gson.fromJson(Gson.java:825) at com.google.gson.Gson.fromJson(Gson.java:748) at org.lorainelab.igb.preferences.IgbPreferencesParser.fromJson(IgbPreferencesParser.java:61) at org.lorainelab.igb.preferences.IgbPreferencesParser.fromDefaultPreferences(IgbPreferencesParser.java:84) at org.lorainelab.igb.preferences.weblink.WebLinkUtils.initializeDefaultWebLinks(WebLinkUtils.java:80) at org.lorainelab.igb.preferences.weblink.WebLinkUtils.activate(WebLinkUtils.java:61) at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method) at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62) at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) at java.lang.reflect.Method.invoke(Method.java:498) at org.apache.felix.scr.impl.helper.BaseMethod.invokeMethod(BaseMethod.java:231) at org.apache.felix.scr.impl.helper.BaseMethod.access$500(BaseMethod.java:39) at org.apache.felix.scr.impl.helper.BaseMethod$Resolved.invoke(BaseMethod.java:624) at org.apache.felix.scr.impl.helper.BaseMethod.invoke(BaseMethod.java:508) at org.apache.felix.scr.impl.helper.ActivateMethod.invoke(ActivateMethod.java:149) at org.apache.felix.scr.impl.manager.SingleComponentManager.createImplementationObject(SingleComponentManager.java:315) at org.apache.felix.scr.impl.manager.SingleComponentManager.createComponent(SingleComponentManager.java:127) at org.apache.felix.scr.impl.manager.SingleComponentManager.getService(SingleComponentManager.java:871) at org.apache.felix.scr.impl.manager.SingleComponentManager.getServiceInternal(SingleComponentManager.java:838) at org.apache.felix.scr.impl.manager.SingleComponentManager.getService(SingleComponentManager.java:777) at org.apache.felix.framework.ServiceRegistrationImpl.getFactoryUnchecked(ServiceRegistrationImpl.java:347) at org.apache.felix.framework.ServiceRegistrationImpl.getService(ServiceRegistrationImpl.java:247) at org.apache.felix.framework.ServiceRegistry.getService(ServiceRegistry.java:343) at org.apache.felix.framework.Felix.getService(Felix.java:3692) at org.apache.felix.framework.BundleContextImpl.getService(BundleContextImpl.java:470) at org.apache.felix.scr.impl.helper.BindMethod.getServiceObject(BindMethod.java:572) at org.apache.felix.scr.impl.manager.DependencyManager.getServiceObject(DependencyManager.java:2012) at org.apache.felix.scr.impl.manager.DependencyManager$SingleStaticCustomizer.prebind(DependencyManager.java:1005) at org.apache.felix.scr.impl.manager.DependencyManager.prebind(DependencyManager.java:1439) at org.apache.felix.scr.impl.manager.AbstractComponentManager.collectDependencies(AbstractComponentManager.java:1119) at org.apache.felix.scr.impl.manager.SingleComponentManager.getServiceInternal(SingleComponentManager.java:807) at org.apache.felix.scr.impl.manager.AbstractComponentManager.activateInternal(AbstractComponentManager.java:850) at org.apache.felix.scr.impl.manager.DependencyManager$SingleStaticCustomizer.addedService(DependencyManager.java:931) at org.apache.felix.scr.impl.manager.DependencyManager$SingleStaticCustomizer.addedService(DependencyManager.java:895) at org.apache.felix.scr.impl.manager.ServiceTracker$Tracked.customizerAdded(ServiceTracker.java:1480) at org.apache.felix.scr.impl.manager.ServiceTracker$Tracked.customizerAdded(ServiceTracker.java:1401) at org.apache.felix.scr.impl.manager.ServiceTracker$AbstractTracked.trackAdding(ServiceTracker.java:1210) at org.apache.felix.scr.impl.manager.ServiceTracker$AbstractTracked.track(ServiceTracker.java:1148) at org.apache.felix.scr.impl.manager.ServiceTracker$Tracked.serviceChanged(ServiceTracker.java:1432) at org.apache.felix.framework.util.EventDispatcher.invokeServiceListenerCallback(EventDispatcher.java:987) at org.apache.felix.framework.util.EventDispatcher.fireEventImmediately(EventDispatcher.java:838) at org.apache.felix.framework.util.EventDispatcher.fireServiceEvent(EventDispatcher.java:545) at org.apache.felix.framework.Felix.fireServiceEvent(Felix.java:4560) at org.apache.felix.framework.Felix.registerService(Felix.java:3542) at org.apache.felix.framework.BundleContextImpl.registerService(BundleContextImpl.java:348) at org.apache.felix.scr.impl.manager.AbstractComponentManager$3.register(AbstractComponentManager.java:1003) at org.apache.felix.scr.impl.manager.AbstractComponentManager$3.register(AbstractComponentManager.java:992) at org.apache.felix.scr.impl.manager.RegistrationManager.changeRegistration(RegistrationManager.java:134) at org.apache.felix.scr.impl.manager.AbstractComponentManager.registerService(AbstractComponentManager.java:1044) at org.apache.felix.scr.impl.manager.AbstractComponentManager.activateInternal(AbstractComponentManager.java:841) at org.apache.felix.scr.impl.manager.AbstractComponentManager.enable(AbstractComponentManager.java:419) at org.apache.felix.scr.impl.config.ConfigurableComponentHolder.enableComponents(ConfigurableComponentHolder.java:376) at org.apache.felix.scr.impl.BundleComponentActivator.initialize(BundleComponentActivator.java:172) at org.apache.felix.scr.impl.BundleComponentActivator.<init>(BundleComponentActivator.java:120) at org.apache.felix.scr.impl.Activator.loadComponents(Activator.java:258) at org.apache.felix.scr.impl.Activator.access$000(Activator.java:45) at org.apache.felix.scr.impl.Activator$ScrExtension.start(Activator.java:185) at org.apache.felix.utils.extender.AbstractExtender.createExtension(AbstractExtender.java:259) at org.apache.felix.utils.extender.AbstractExtender.modifiedBundle(AbstractExtender.java:232) at org.osgi.util.tracker.BundleTracker$Tracked.customizerModified(BundleTracker.java:479) at org.osgi.util.tracker.BundleTracker$Tracked.customizerModified(BundleTracker.java:414) at org.osgi.util.tracker.AbstractTracked.track(AbstractTracked.java:232) at org.osgi.util.tracker.BundleTracker$Tracked.bundleChanged(BundleTracker.java:443) at org.apache.felix.framework.util.EventDispatcher.invokeBundleListenerCallback(EventDispatcher.java:913) at org.apache.felix.framework.util.EventDispatcher.fireEventImmediately(EventDispatcher.java:834) at org.apache.felix.framework.util.EventDispatcher.fireBundleEvent(EventDispatcher.java:516) at org.apache.felix.framework.Felix.fireBundleEvent(Felix.java:4544) at org.apache.felix.framework.Felix.startBundle(Felix.java:2166) at org.apache.felix.framework.Felix.setActiveStartLevel(Felix.java:1365) at org.apache.felix.framework.FrameworkStartLevelImpl.run(FrameworkStartLevelImpl.java:308) at java.lang.Thread.run(Thread.java:748) Caused by: com.google.gson.stream.MalformedJsonException: Unterminated object at line 10 column 18 path $.prefs.server [0] .mirror at com.google.gson.stream.JsonReader.syntaxError(JsonReader.java:1573) at com.google.gson.stream.JsonReader.doPeek(JsonReader.java:495) at com.google.gson.stream.JsonReader.hasNext(JsonReader.java:418) at com.google.gson.internal.bind.ReflectiveTypeAdapterFactory$Adapter.read(ReflectiveTypeAdapterFactory.java:190) at com.google.gson.internal.bind.TypeAdapterRuntimeTypeWrapper.read(TypeAdapterRuntimeTypeWrapper.java:40) at com.google.gson.internal.bind.CollectionTypeAdapterFactory$Adapter.read(CollectionTypeAdapterFactory.java:81) at com.google.gson.internal.bind.CollectionTypeAdapterFactory$Adapter.read(CollectionTypeAdapterFactory.java:60) at com.google.gson.internal.bind.ReflectiveTypeAdapterFactory$1.read(ReflectiveTypeAdapterFactory.java:103) at com.google.gson.internal.bind.ReflectiveTypeAdapterFactory$Adapter.read(ReflectiveTypeAdapterFactory.java:196) at com.google.gson.internal.bind.ReflectiveTypeAdapterFactory$1.read(ReflectiveTypeAdapterFactory.java:103) at com.google.gson.internal.bind.ReflectiveTypeAdapterFactory$Adapter.read(ReflectiveTypeAdapterFactory.java:196) at com.google.gson.Gson.fromJson(Gson.java:810) ... 70 more ERROR: weblinks (86): [WebLinkUtils(105)] Failed creating the component instance; see log for reason ERROR: weblinks (86): [WebLinkExportRoutine(104)] Cannot create component instance due to failure to bind reference webLinkUtils ERROR: weblinks (86): [WebLinkExportRoutine(104)] Failed creating the component instance; see log for reason ERROR: weblinks (86): [WebLinkUtils(105)] The activate method has thrown an exception com.google.gson.JsonSyntaxException: com.google.gson.stream.MalformedJsonException: Unterminated object at line 10 column 18 path $.prefs.server [0] .mirror at com.google.gson.Gson.fromJson(Gson.java:825) at com.google.gson.Gson.fromJson(Gson.java:748) at org.lorainelab.igb.preferences.IgbPreferencesParser.fromJson(IgbPreferencesParser.java:61) at org.lorainelab.igb.preferences.IgbPreferencesParser.fromDefaultPreferences(IgbPreferencesParser.java:84) at org.lorainelab.igb.preferences.weblink.WebLinkUtils.initializeDefaultWebLinks(WebLinkUtils.java:80) at org.lorainelab.igb.preferences.weblink.WebLinkUtils.activate(WebLinkUtils.java:61) at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method) at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62) at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) at java.lang.reflect.Method.invoke(Method.java:498) at org.apache.felix.scr.impl.helper.BaseMethod.invokeMethod(BaseMethod.java:231) at org.apache.felix.scr.impl.helper.BaseMethod.access$500(BaseMethod.java:39) at org.apache.felix.scr.impl.helper.BaseMethod$Resolved.invoke(BaseMethod.java:624) at org.apache.felix.scr.impl.helper.BaseMethod.invoke(BaseMethod.java:508) at org.apache.felix.scr.impl.helper.ActivateMethod.invoke(ActivateMethod.java:149) at org.apache.felix.scr.impl.manager.SingleComponentManager.createImplementationObject(SingleComponentManager.java:315) at org.apache.felix.scr.impl.manager.SingleComponentManager.createComponent(SingleComponentManager.java:127) at org.apache.felix.scr.impl.manager.SingleComponentManager.getService(SingleComponentManager.java:871) at org.apache.felix.scr.impl.manager.SingleComponentManager.getServiceInternal(SingleComponentManager.java:838) at org.apache.felix.scr.impl.manager.AbstractComponentManager.activateInternal(AbstractComponentManager.java:850) at org.apache.felix.scr.impl.manager.AbstractComponentManager.enable(AbstractComponentManager.java:419) at org.apache.felix.scr.impl.config.ConfigurableComponentHolder.enableComponents(ConfigurableComponentHolder.java:376) at org.apache.felix.scr.impl.BundleComponentActivator.initialize(BundleComponentActivator.java:172) at org.apache.felix.scr.impl.BundleComponentActivator.<init>(BundleComponentActivator.java:120) at org.apache.felix.scr.impl.Activator.loadComponents(Activator.java:258) at org.apache.felix.scr.impl.Activator.access$000(Activator.java:45) at org.apache.felix.scr.impl.Activator$ScrExtension.start(Activator.java:185) at org.apache.felix.utils.extender.AbstractExtender.createExtension(AbstractExtender.java:259) at org.apache.felix.utils.extender.AbstractExtender.modifiedBundle(AbstractExtender.java:232) at org.osgi.util.tracker.BundleTracker$Tracked.customizerModified(BundleTracker.java:479) at org.osgi.util.tracker.BundleTracker$Tracked.customizerModified(BundleTracker.java:414) at org.osgi.util.tracker.AbstractTracked.track(AbstractTracked.java:232) at org.osgi.util.tracker.BundleTracker$Tracked.bundleChanged(BundleTracker.java:443) at org.apache.felix.framework.util.EventDispatcher.invokeBundleListenerCallback(EventDispatcher.java:913) at org.apache.felix.framework.util.EventDispatcher.fireEventImmediately(EventDispatcher.java:834) at org.apache.felix.framework.util.EventDispatcher.fireBundleEvent(EventDispatcher.java:516) at org.apache.felix.framework.Felix.fireBundleEvent(Felix.java:4544) at org.apache.felix.framework.Felix.startBundle(Felix.java:2166) at org.apache.felix.framework.Felix.setActiveStartLevel(Felix.java:1365) at org.apache.felix.framework.FrameworkStartLevelImpl.run(FrameworkStartLevelImpl.java:308) at java.lang.Thread.run(Thread.java:748) Caused by: com.google.gson.stream.MalformedJsonException: Unterminated object at line 10 column 18 path $.prefs.server [0] .mirror at com.google.gson.stream.JsonReader.syntaxError(JsonReader.java:1573) at com.google.gson.stream.JsonReader.doPeek(JsonReader.java:495) at com.google.gson.stream.JsonReader.hasNext(JsonReader.java:418) at com.google.gson.internal.bind.ReflectiveTypeAdapterFactory$Adapter.read(ReflectiveTypeAdapterFactory.java:190) at com.google.gson.internal.bind.TypeAdapterRuntimeTypeWrapper.read(TypeAdapterRuntimeTypeWrapper.java:40) at com.google.gson.internal.bind.CollectionTypeAdapterFactory$Adapter.read(CollectionTypeAdapterFactory.java:81) at com.google.gson.internal.bind.CollectionTypeAdapterFactory$Adapter.read(CollectionTypeAdapterFactory.java:60) at com.google.gson.internal.bind.ReflectiveTypeAdapterFactory$1.read(ReflectiveTypeAdapterFactory.java:103) at com.google.gson.internal.bind.ReflectiveTypeAdapterFactory$Adapter.read(ReflectiveTypeAdapterFactory.java:196) at com.google.gson.internal.bind.ReflectiveTypeAdapterFactory$1.read(ReflectiveTypeAdapterFactory.java:103) at com.google.gson.internal.bind.ReflectiveTypeAdapterFactory$Adapter.read(ReflectiveTypeAdapterFactory.java:196) at com.google.gson.Gson.fromJson(Gson.java:810) ... 40 more ERROR: weblinks (86): [WebLinkUtils(105)] Failed creating the component instance; see log for reason ERROR: weblinks (86): [WebLinkUtils(105)] The activate method has thrown an exception com.google.gson.JsonSyntaxException: com.google.gson.stream.MalformedJsonException: Unterminated object at line 10 column 18 path $.prefs.server [0] .mirror at com.google.gson.Gson.fromJson(Gson.java:825) at com.google.gson.Gson.fromJson(Gson.java:748) at org.lorainelab.igb.preferences.IgbPreferencesParser.fromJson(IgbPreferencesParser.java:61) at org.lorainelab.igb.preferences.IgbPreferencesParser.fromDefaultPreferences(IgbPreferencesParser.java:84) at org.lorainelab.igb.preferences.weblink.WebLinkUtils.initializeDefaultWebLinks(WebLinkUtils.java:80) at org.lorainelab.igb.preferences.weblink.WebLinkUtils.activate(WebLinkUtils.java:61) at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method) at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62) at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) at java.lang.reflect.Method.invoke(Method.java:498) at org.apache.felix.scr.impl.helper.BaseMethod.invokeMethod(BaseMethod.java:231) at org.apache.felix.scr.impl.helper.BaseMethod.access$500(BaseMethod.java:39) at org.apache.felix.scr.impl.helper.BaseMethod$Resolved.invoke(BaseMethod.java:624) at org.apache.felix.scr.impl.helper.BaseMethod.invoke(BaseMethod.java:508) at org.apache.felix.scr.impl.helper.ActivateMethod.invoke(ActivateMethod.java:149) at org.apache.felix.scr.impl.manager.SingleComponentManager.createImplementationObject(SingleComponentManager.java:315) at org.apache.felix.scr.impl.manager.SingleComponentManager.createComponent(SingleComponentManager.java:127) at org.apache.felix.scr.impl.manager.SingleComponentManager.getService(SingleComponentManager.java:871) at org.apache.felix.scr.impl.manager.SingleComponentManager.getServiceInternal(SingleComponentManager.java:838) at org.apache.felix.scr.impl.manager.SingleComponentManager.getService(SingleComponentManager.java:777) at org.apache.felix.framework.ServiceRegistrationImpl.getFactoryUnchecked(ServiceRegistrationImpl.java:347) at org.apache.felix.framework.ServiceRegistrationImpl.getService(ServiceRegistrationImpl.java:247) at org.apache.felix.framework.ServiceRegistry.getService(ServiceRegistry.java:343) at org.apache.felix.framework.Felix.getService(Felix.java:3692) at org.apache.felix.framework.BundleContextImpl.getService(BundleContextImpl.java:470) at org.apache.felix.scr.impl.helper.BindMethod.getServiceObject(BindMethod.java:572) at org.apache.felix.scr.impl.manager.DependencyManager.getServiceObject(DependencyManager.java:2012) at org.apache.felix.scr.impl.manager.DependencyManager$SingleStaticCustomizer.prebind(DependencyManager.java:1005) at org.apache.felix.scr.impl.manager.DependencyManager.prebind(DependencyManager.java:1439) at org.apache.felix.scr.impl.manager.AbstractComponentManager.collectDependencies(AbstractComponentManager.java:1119) at org.apache.felix.scr.impl.manager.SingleComponentManager.getServiceInternal(SingleComponentManager.java:807) at org.apache.felix.scr.impl.manager.SingleComponentManager.getService(SingleComponentManager.java:777) at org.apache.felix.framework.ServiceRegistrationImpl.getFactoryUnchecked(ServiceRegistrationImpl.java:347) at org.apache.felix.framework.ServiceRegistrationImpl.getService(ServiceRegistrationImpl.java:247) at org.apache.felix.framework.ServiceRegistry.getService(ServiceRegistry.java:343) at org.apache.felix.framework.Felix.getService(Felix.java:3692) at org.apache.felix.framework.BundleContextImpl.getService(BundleContextImpl.java:470) at org.apache.felix.scr.impl.helper.BindMethod.getServiceObject(BindMethod.java:572) at org.apache.felix.scr.impl.manager.DependencyManager.getServiceObject(DependencyManager.java:2012) at org.apache.felix.scr.impl.manager.DependencyManager$MultipleDynamicCustomizer.prebind(DependencyManager.java:400) at org.apache.felix.scr.impl.manager.DependencyManager.prebind(DependencyManager.java:1439) at org.apache.felix.scr.impl.manager.AbstractComponentManager.collectDependencies(AbstractComponentManager.java:1119) at org.apache.felix.scr.impl.manager.SingleComponentManager.getServiceInternal(SingleComponentManager.java:807) at org.apache.felix.scr.impl.manager.SingleComponentManager.getService(SingleComponentManager.java:777) at org.apache.felix.framework.ServiceRegistrationImpl.getFactoryUnchecked(ServiceRegistrationImpl.java:347) at org.apache.felix.framework.ServiceRegistrationImpl.getService(ServiceRegistrationImpl.java:247) at org.apache.felix.framework.ServiceRegistry.getService(ServiceRegistry.java:343) at org.apache.felix.framework.Felix.getService(Felix.java:3692) at org.apache.felix.framework.BundleContextImpl.getService(BundleContextImpl.java:470) at org.apache.felix.scr.impl.helper.BindMethod.getServiceObject(BindMethod.java:572) at org.apache.felix.scr.impl.manager.DependencyManager.getServiceObject(DependencyManager.java:2012) at org.apache.felix.scr.impl.manager.DependencyManager$SingleStaticCustomizer.prebind(DependencyManager.java:1005) at org.apache.felix.scr.impl.manager.DependencyManager.prebind(DependencyManager.java:1439) at org.apache.felix.scr.impl.manager.AbstractComponentManager.collectDependencies(AbstractComponentManager.java:1119) at org.apache.felix.scr.impl.manager.SingleComponentManager.getServiceInternal(SingleComponentManager.java:807) at org.apache.felix.scr.impl.manager.AbstractComponentManager.activateInternal(AbstractComponentManager.java:850) at org.apache.felix.scr.impl.manager.DependencyManager$SingleStaticCustomizer.addedService(DependencyManager.java:931) at org.apache.felix.scr.impl.manager.DependencyManager$SingleStaticCustomizer.addedService(DependencyManager.java:895) at org.apache.felix.scr.impl.manager.ServiceTracker$Tracked.customizerAdded(ServiceTracker.java:1480) at org.apache.felix.scr.impl.manager.ServiceTracker$Tracked.customizerAdded(ServiceTracker.java:1401) at org.apache.felix.scr.impl.manager.ServiceTracker$AbstractTracked.trackAdding(ServiceTracker.java:1210) at org.apache.felix.scr.impl.manager.ServiceTracker$AbstractTracked.track(ServiceTracker.java:1148) at org.apache.felix.scr.impl.manager.ServiceTracker$Tracked.serviceChanged(ServiceTracker.java:1432) at org.apache.felix.framework.util.EventDispatcher.invokeServiceListenerCallback(EventDispatcher.java:987) at org.apache.felix.framework.util.EventDispatcher.fireEventImmediately(EventDispatcher.java:838) at org.apache.felix.framework.util.EventDispatcher.fireServiceEvent(EventDispatcher.java:545) at org.apache.felix.framework.Felix.fireServiceEvent(Felix.java:4560) at org.apache.felix.framework.Felix.registerService(Felix.java:3542) at org.apache.felix.framework.BundleContextImpl.registerService(BundleContextImpl.java:348) at org.apache.felix.scr.impl.manager.AbstractComponentManager$3.register(AbstractComponentManager.java:1003) at org.apache.felix.scr.impl.manager.AbstractComponentManager$3.register(AbstractComponentManager.java:992) at org.apache.felix.scr.impl.manager.RegistrationManager.changeRegistration(RegistrationManager.java:134) at org.apache.felix.scr.impl.manager.AbstractComponentManager.registerService(AbstractComponentManager.java:1044) at org.apache.felix.scr.impl.manager.AbstractComponentManager.activateInternal(AbstractComponentManager.java:841) at org.apache.felix.scr.impl.manager.AbstractComponentManager.enable(AbstractComponentManager.java:419) at org.apache.felix.scr.impl.config.ConfigurableComponentHolder.enableComponents(ConfigurableComponentHolder.java:376) at org.apache.felix.scr.impl.BundleComponentActivator.initialize(BundleComponentActivator.java:172) at org.apache.felix.scr.impl.BundleComponentActivator.<init>(BundleComponentActivator.java:120) at org.apache.felix.scr.impl.Activator.loadComponents(Activator.java:258) at org.apache.felix.scr.impl.Activator.access$000(Activator.java:45) at org.apache.felix.scr.impl.Activator$ScrExtension.start(Activator.java:185) at org.apache.felix.utils.extender.AbstractExtender.createExtension(AbstractExtender.java:259) at org.apache.felix.utils.extender.AbstractExtender.modifiedBundle(AbstractExtender.java:232) at org.osgi.util.tracker.BundleTracker$Tracked.customizerModified(BundleTracker.java:479) at org.osgi.util.tracker.BundleTracker$Tracked.customizerModified(BundleTracker.java:414) at org.osgi.util.tracker.AbstractTracked.track(AbstractTracked.java:232) at org.osgi.util.tracker.BundleTracker$Tracked.bundleChanged(BundleTracker.java:443) at org.apache.felix.framework.util.EventDispatcher.invokeBundleListenerCallback(EventDispatcher.java:913) at org.apache.felix.framework.util.EventDispatcher.fireEventImmediately(EventDispatcher.java:834) at org.apache.felix.framework.util.EventDispatcher.fireBundleEvent(EventDispatcher.java:516) at org.apache.felix.framework.Felix.fireBundleEvent(Felix.java:4544) at org.apache.felix.framework.Felix.startBundle(Felix.java:2166) at org.apache.felix.framework.Felix.setActiveStartLevel(Felix.java:1365) at org.apache.felix.framework.FrameworkStartLevelImpl.run(FrameworkStartLevelImpl.java:308) at java.lang.Thread.run(Thread.java:748) Caused by: com.google.gson.stream.MalformedJsonException: Unterminated object at line 10 column 18 path $.prefs.server [0] .mirror at com.google.gson.stream.JsonReader.syntaxError(JsonReader.java:1573) at com.google.gson.stream.JsonReader.doPeek(JsonReader.java:495) at com.google.gson.stream.JsonReader.hasNext(JsonReader.java:418) at com.google.gson.internal.bind.ReflectiveTypeAdapterFactory$Adapter.read(ReflectiveTypeAdapterFactory.java:190) at com.google.gson.internal.bind.TypeAdapterRuntimeTypeWrapper.read(TypeAdapterRuntimeTypeWrapper.java:40) at com.google.gson.internal.bind.CollectionTypeAdapterFactory$Adapter.read(CollectionTypeAdapterFactory.java:81) at com.google.gson.internal.bind.CollectionTypeAdapterFactory$Adapter.read(CollectionTypeAdapterFactory.java:60) at com.google.gson.internal.bind.ReflectiveTypeAdapterFactory$1.read(ReflectiveTypeAdapterFactory.java:103) at com.google.gson.internal.bind.ReflectiveTypeAdapterFactory$Adapter.read(ReflectiveTypeAdapterFactory.java:196) at com.google.gson.internal.bind.ReflectiveTypeAdapterFactory$1.read(ReflectiveTypeAdapterFactory.java:103) at com.google.gson.internal.bind.ReflectiveTypeAdapterFactory$Adapter.read(ReflectiveTypeAdapterFactory.java:196) at com.google.gson.Gson.fromJson(Gson.java:810) ... 94 more ERROR: weblinks (86): [WebLinkUtils(105)] Failed creating the component instance; see log for reason ERROR: weblinks (86): [WebLinkExportRoutine(104)] Cannot create component instance due to failure to bind reference webLinkUtils ERROR: weblinks (86): [WebLinkExportRoutine(104)] Failed creating the component instance; see log for reason 08:20:25.162 INFO c.a.igb.IgbServiceDependencyManager - AnnotationContextMenuRegistryI now available. 08:20:25.162 INFO c.a.igb.IgbServiceDependencyManager - ChromosomeSynonymLookupService now available. 08:20:25.163 INFO c.a.igb.IgbServiceDependencyManager - Console Service now available. 08:20:25.163 INFO c.a.igb.IgbServiceDependencyManager - FrameManagerService now available. 08:20:25.163 INFO c.a.igb.IgbServiceDependencyManager - GenomeVersionSynonymLookupService now available. 08:20:25.163 INFO c.a.igb.IgbServiceDependencyManager - QuickloadFactory now available. 08:20:25.164 INFO c.a.igb.IgbServiceDependencyManager - SpeciesSynonymLookupService now available. 08:20:25.164 INFO c.a.igb.IgbServiceDependencyManager - Window Service now available. 08:20:25.166 INFO c.a.igb.IgbServiceDependencyManager - Igb Module Service Dependencies are now available. 08:20:25.166 INFO com.affymetrix.igb.Activator - Starting IGB 08:20:26.702 INFO com.affymetrix.igb.IGB - Starting: Integrated Genome Browser 9.0.2 08:20:26.707 INFO com.affymetrix.igb.IGB - Java version: 1.8.0_192 from Oracle Corporation 08:20:26.709 INFO com.affymetrix.igb.IGB - System memory: 1.9 GB 08:20:30.973 INFO c.a.i.b.action.BookmarkActionManager - Loading bookmarks from file /Users/lorainelab/.igb/bookmarks.html 08:20:30.997 INFO c.a.i.b.action.BookmarkActionManager - Saving bookmarks to file /Users/lorainelab/.igb/bookmarks.html~ ERROR: org.lorainelab.igb.plugins-manager (71): [PluginRepositoryList(80)] The activate method has thrown an exception com.google.gson.JsonSyntaxException: com.google.gson.stream.MalformedJsonException: Unterminated object at line 10 column 18 path $.prefs.server [0] .mirror at com.google.gson.Gson.fromJson(Gson.java:825) at com.google.gson.Gson.fromJson(Gson.java:748) at org.lorainelab.igb.preferences.IgbPreferencesParser.fromJson(IgbPreferencesParser.java:61) at org.lorainelab.igb.preferences.IgbPreferencesParser.fromDefaultPreferences(IgbPreferencesParser.java:84) at org.lorainelab.igb.plugin.manager.repos.PluginRepositoryList.activate(PluginRepositoryList.java:46) at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method) at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62) at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) at java.lang.reflect.Method.invoke(Method.java:498) at org.apache.felix.scr.impl.helper.BaseMethod.invokeMethod(BaseMethod.java:231) at org.apache.felix.scr.impl.helper.BaseMethod.access$500(BaseMethod.java:39) at org.apache.felix.scr.impl.helper.BaseMethod$Resolved.invoke(BaseMethod.java:624) at org.apache.felix.scr.impl.helper.BaseMethod.invoke(BaseMethod.java:508) at org.apache.felix.scr.impl.helper.ActivateMethod.invoke(ActivateMethod.java:149) at org.apache.felix.scr.impl.manager.SingleComponentManager.createImplementationObject(SingleComponentManager.java:315) at org.apache.felix.scr.impl.manager.SingleComponentManager.createComponent(SingleComponentManager.java:127) at org.apache.felix.scr.impl.manager.SingleComponentManager.getService(SingleComponentManager.java:871) at org.apache.felix.scr.impl.manager.SingleComponentManager.getServiceInternal(SingleComponentManager.java:838) at org.apache.felix.scr.impl.manager.SingleComponentManager.getService(SingleComponentManager.java:777) at org.apache.felix.framework.ServiceRegistrationImpl.getFactoryUnchecked(ServiceRegistrationImpl.java:347) at org.apache.felix.framework.ServiceRegistrationImpl.getService(ServiceRegistrationImpl.java:247) at org.apache.felix.framework.ServiceRegistry.getService(ServiceRegistry.java:343) at org.apache.felix.framework.Felix.getService(Felix.java:3692) at org.apache.felix.framework.BundleContextImpl.getService(BundleContextImpl.java:470) at org.apache.felix.scr.impl.helper.BindMethod.getServiceObject(BindMethod.java:572) at org.apache.felix.scr.impl.manager.DependencyManager.getServiceObject(DependencyManager.java:2012) at org.apache.felix.scr.impl.manager.DependencyManager$SingleStaticCustomizer.prebind(DependencyManager.java:1005) at org.apache.felix.scr.impl.manager.DependencyManager.prebind(DependencyManager.java:1439) at org.apache.felix.scr.impl.manager.AbstractComponentManager.collectDependencies(AbstractComponentManager.java:1119) at org.apache.felix.scr.impl.manager.SingleComponentManager.getServiceInternal(SingleComponentManager.java:807) at org.apache.felix.scr.impl.manager.SingleComponentManager.getService(SingleComponentManager.java:777) at org.apache.felix.framework.ServiceRegistrationImpl.getFactoryUnchecked(ServiceRegistrationImpl.java:347) at org.apache.felix.framework.ServiceRegistrationImpl.getService(ServiceRegistrationImpl.java:247) at org.apache.felix.framework.ServiceRegistry.getService(ServiceRegistry.java:343) at org.apache.felix.framework.Felix.getService(Felix.java:3692) at org.apache.felix.framework.BundleContextImpl.getService(BundleContextImpl.java:470) at org.apache.felix.scr.impl.helper.BindMethod.getServiceObject(BindMethod.java:572) at org.apache.felix.scr.impl.manager.DependencyManager.getServiceObject(DependencyManager.java:2012) at org.apache.felix.scr.impl.manager.DependencyManager$MultipleDynamicCustomizer.addedService(DependencyManager.java:328) at org.apache.felix.scr.impl.manager.DependencyManager$MultipleDynamicCustomizer.addedService(DependencyManager.java:304) at org.apache.felix.scr.impl.manager.ServiceTracker$Tracked.customizerAdded(ServiceTracker.java:1480) at org.apache.felix.scr.impl.manager.ServiceTracker$Tracked.customizerAdded(ServiceTracker.java:1401) at org.apache.felix.scr.impl.manager.ServiceTracker$AbstractTracked.trackAdding(ServiceTracker.java:1210) at org.apache.felix.scr.impl.manager.ServiceTracker$AbstractTracked.track(ServiceTracker.java:1148) at org.apache.felix.scr.impl.manager.ServiceTracker$Tracked.serviceChanged(ServiceTracker.java:1432) at org.apache.felix.framework.util.EventDispatcher.invokeServiceListenerCallback(EventDispatcher.java:987) at org.apache.felix.framework.util.EventDispatcher.fireEventImmediately(EventDispatcher.java:838) at org.apache.felix.framework.util.EventDispatcher.fireServiceEvent(EventDispatcher.java:545) at org.apache.felix.framework.Felix.fireServiceEvent(Felix.java:4560) at org.apache.felix.framework.Felix.registerService(Felix.java:3542) at org.apache.felix.framework.BundleContextImpl.registerService(BundleContextImpl.java:348) at org.apache.felix.scr.impl.manager.AbstractComponentManager$3.register(AbstractComponentManager.java:1003) at org.apache.felix.scr.impl.manager.AbstractComponentManager$3.register(AbstractComponentManager.java:992) at org.apache.felix.scr.impl.manager.RegistrationManager.changeRegistration(RegistrationManager.java:134) at org.apache.felix.scr.impl.manager.AbstractComponentManager.registerService(AbstractComponentManager.java:1044) at org.apache.felix.scr.impl.manager.AbstractComponentManager.activateInternal(AbstractComponentManager.java:841) at org.apache.felix.scr.impl.manager.DependencyManager$SingleStaticCustomizer.addedService(DependencyManager.java:931) at org.apache.felix.scr.impl.manager.DependencyManager$SingleStaticCustomizer.addedService(DependencyManager.java:895) at org.apache.felix.scr.impl.manager.ServiceTracker$Tracked.customizerAdded(ServiceTracker.java:1480) at org.apache.felix.scr.impl.manager.ServiceTracker$Tracked.customizerAdded(ServiceTracker.java:1401) at org.apache.felix.scr.impl.manager.ServiceTracker$AbstractTracked.trackAdding(ServiceTracker.java:1210) at org.apache.felix.scr.impl.manager.ServiceTracker$AbstractTracked.track(ServiceTracker.java:1148) at org.apache.felix.scr.impl.manager.ServiceTracker$Tracked.serviceChanged(ServiceTracker.java:1432) at org.apache.felix.framework.util.EventDispatcher.invokeServiceListenerCallback(EventDispatcher.java:987) at org.apache.felix.framework.util.EventDispatcher.fireEventImmediately(EventDispatcher.java:838) at org.apache.felix.framework.util.EventDispatcher.fireServiceEvent(EventDispatcher.java:545) at org.apache.felix.framework.Felix.fireServiceEvent(Felix.java:4560) at org.apache.felix.framework.Felix.registerService(Felix.java:3542) at org.apache.felix.framework.BundleContextImpl.registerService(BundleContextImpl.java:348) at org.apache.felix.framework.BundleContextImpl.registerService(BundleContextImpl.java:355) at com.affymetrix.igb.Activator$1.initializeWindowService(Activator.java:143) at com.affymetrix.igb.Activator$1.addingService(Activator.java:134) at org.osgi.util.tracker.ServiceTracker$Tracked.customizerAdding(ServiceTracker.java:941) at org.osgi.util.tracker.ServiceTracker$Tracked.customizerAdding(ServiceTracker.java:870) at org.osgi.util.tracker.AbstractTracked.trackAdding(AbstractTracked.java:256) at org.osgi.util.tracker.AbstractTracked.track(AbstractTracked.java:229) at org.osgi.util.tracker.ServiceTracker$Tracked.serviceChanged(ServiceTracker.java:901) at org.apache.felix.framework.util.EventDispatcher.invokeServiceListenerCallback(EventDispatcher.java:987) at org.apache.felix.framework.util.EventDispatcher.fireEventImmediately(EventDispatcher.java:838) at org.apache.felix.framework.util.EventDispatcher.fireServiceEvent(EventDispatcher.java:545) at org.apache.felix.framework.Felix.fireServiceEvent(Felix.java:4560) at org.apache.felix.framework.Felix.registerService(Felix.java:3542) at org.apache.felix.framework.BundleContextImpl.registerService(BundleContextImpl.java:348) at org.apache.felix.scr.impl.manager.AbstractComponentManager$3.register(AbstractComponentManager.java:1003) at org.apache.felix.scr.impl.manager.AbstractComponentManager$3.register(AbstractComponentManager.java:992) at org.apache.felix.scr.impl.manager.RegistrationManager.changeRegistration(RegistrationManager.java:134) at org.apache.felix.scr.impl.manager.AbstractComponentManager.registerService(AbstractComponentManager.java:1044) at org.apache.felix.scr.impl.manager.AbstractComponentManager.activateInternal(AbstractComponentManager.java:841) at org.apache.felix.scr.impl.manager.DependencyManager$SingleStaticCustomizer.addedService(DependencyManager.java:931) at org.apache.felix.scr.impl.manager.DependencyManager$SingleStaticCustomizer.addedService(DependencyManager.java:895) at org.apache.felix.scr.impl.manager.ServiceTracker$Tracked.customizerAdded(ServiceTracker.java:1480) at org.apache.felix.scr.impl.manager.ServiceTracker$Tracked.customizerAdded(ServiceTracker.java:1401) at org.apache.felix.scr.impl.manager.ServiceTracker$AbstractTracked.trackAdding(ServiceTracker.java:1210) at org.apache.felix.scr.impl.manager.ServiceTracker$AbstractTracked.track(ServiceTracker.java:1148) at org.apache.felix.scr.impl.manager.ServiceTracker$Tracked.serviceChanged(ServiceTracker.java:1432) at org.apache.felix.framework.util.EventDispatcher.invokeServiceListenerCallback(EventDispatcher.java:987) at org.apache.felix.framework.util.EventDispatcher.fireEventImmediately(EventDispatcher.java:838) at org.apache.felix.framework.util.EventDispatcher.fireServiceEvent(EventDispatcher.java:545) at org.apache.felix.framework.Felix.fireServiceEvent(Felix.java:4560) at org.apache.felix.framework.Felix.registerService(Felix.java:3542) at org.apache.felix.framework.BundleContextImpl.registerService(BundleContextImpl.java:348) at org.apache.felix.scr.impl.manager.AbstractComponentManager$3.register(AbstractComponentManager.java:1003) at org.apache.felix.scr.impl.manager.AbstractComponentManager$3.register(AbstractComponentManager.java:992) at org.apache.felix.scr.impl.manager.RegistrationManager.changeRegistration(RegistrationManager.java:134) at org.apache.felix.scr.impl.manager.AbstractComponentManager.registerService(AbstractComponentManager.java:1044) at org.apache.felix.scr.impl.manager.AbstractComponentManager.activateInternal(AbstractComponentManager.java:841) at org.apache.felix.scr.impl.manager.AbstractComponentManager.enable(AbstractComponentManager.java:419) at org.apache.felix.scr.impl.config.ConfigurableComponentHolder.enableComponents(ConfigurableComponentHolder.java:376) at org.apache.felix.scr.impl.BundleComponentActivator.initialize(BundleComponentActivator.java:172) at org.apache.felix.scr.impl.BundleComponentActivator.<init>(BundleComponentActivator.java:120) at org.apache.felix.scr.impl.Activator.loadComponents(Activator.java:258) at org.apache.felix.scr.impl.Activator.access$000(Activator.java:45) at org.apache.felix.scr.impl.Activator$ScrExtension.start(Activator.java:185) at org.apache.felix.utils.extender.AbstractExtender.createExtension(AbstractExtender.java:259) at org.apache.felix.utils.extender.AbstractExtender.modifiedBundle(AbstractExtender.java:232) at org.osgi.util.tracker.BundleTracker$Tracked.customizerModified(BundleTracker.java:479) at org.osgi.util.tracker.BundleTracker$Tracked.customizerModified(BundleTracker.java:414) at org.osgi.util.tracker.AbstractTracked.track(AbstractTracked.java:232) at org.osgi.util.tracker.BundleTracker$Tracked.bundleChanged(BundleTracker.java:443) at org.apache.felix.framework.util.EventDispatcher.invokeBundleListenerCallback(EventDispatcher.java:913) at org.apache.felix.framework.util.EventDispatcher.fireEventImmediately(EventDispatcher.java:834) at org.apache.felix.framework.util.EventDispatcher.fireBundleEvent(EventDispatcher.java:516) at org.apache.felix.framework.Felix.fireBundleEvent(Felix.java:4544) at org.apache.felix.framework.Felix.startBundle(Felix.java:2166) at org.apache.felix.framework.Felix.setActiveStartLevel(Felix.java:1365) at org.apache.felix.framework.FrameworkStartLevelImpl.run(FrameworkStartLevelImpl.java:308) at java.lang.Thread.run(Thread.java:748) Caused by: com.google.gson.stream.MalformedJsonException: Unterminated object at line 10 column 18 path $.prefs.server [0] .mirror at com.google.gson.stream.JsonReader.syntaxError(JsonReader.java:1573) at com.google.gson.stream.JsonReader.doPeek(JsonReader.java:495) at com.google.gson.stream.JsonReader.hasNext(JsonReader.java:418) at com.google.gson.internal.bind.ReflectiveTypeAdapterFactory$Adapter.read(ReflectiveTypeAdapterFactory.java:190) at com.google.gson.internal.bind.TypeAdapterRuntimeTypeWrapper.read(TypeAdapterRuntimeTypeWrapper.java:40) at com.google.gson.internal.bind.CollectionTypeAdapterFactory$Adapter.read(CollectionTypeAdapterFactory.java:81) at com.google.gson.internal.bind.CollectionTypeAdapterFactory$Adapter.read(CollectionTypeAdapterFactory.java:60) at com.google.gson.internal.bind.ReflectiveTypeAdapterFactory$1.read(ReflectiveTypeAdapterFactory.java:103) at com.google.gson.internal.bind.ReflectiveTypeAdapterFactory$Adapter.read(ReflectiveTypeAdapterFactory.java:196) at com.google.gson.internal.bind.ReflectiveTypeAdapterFactory$1.read(ReflectiveTypeAdapterFactory.java:103) at com.google.gson.internal.bind.ReflectiveTypeAdapterFactory$Adapter.read(ReflectiveTypeAdapterFactory.java:196) at com.google.gson.Gson.fromJson(Gson.java:810) ... 126 more ERROR: org.lorainelab.igb.plugins-manager (71): [PluginRepositoryList(80)] Failed creating the component instance; see log for reason ERROR: org.lorainelab.igb.plugins-manager (71): [BundleRepositoryPrefsView(82)] Cannot create component instance due to failure to bind reference eventBus ERROR: org.lorainelab.igb.plugins-manager (71): [BundleRepositoryPrefsView(82)] Failed creating the component instance; see log for reason ERROR: org.lorainelab.igb.plugins-manager (71): [PluginRepositoryList(80)] The activate method has thrown an exception com.google.gson.JsonSyntaxException: com.google.gson.stream.MalformedJsonException: Unterminated object at line 10 column 18 path $.prefs.server [0] .mirror at com.google.gson.Gson.fromJson(Gson.java:825) at com.google.gson.Gson.fromJson(Gson.java:748) at org.lorainelab.igb.preferences.IgbPreferencesParser.fromJson(IgbPreferencesParser.java:61) at org.lorainelab.igb.preferences.IgbPreferencesParser.fromDefaultPreferences(IgbPreferencesParser.java:84) at org.lorainelab.igb.plugin.manager.repos.PluginRepositoryList.activate(PluginRepositoryList.java:46) at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method) at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62) at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) at java.lang.reflect.Method.invoke(Method.java:498) at org.apache.felix.scr.impl.helper.BaseMethod.invokeMethod(BaseMethod.java:231) at org.apache.felix.scr.impl.helper.BaseMethod.access$500(BaseMethod.java:39) at org.apache.felix.scr.impl.helper.BaseMethod$Resolved.invoke(BaseMethod.java:624) at org.apache.felix.scr.impl.helper.BaseMethod.invoke(BaseMethod.java:508) at org.apache.felix.scr.impl.helper.ActivateMethod.invoke(ActivateMethod.java:149) at org.apache.felix.scr.impl.manager.SingleComponentManager.createImplementationObject(SingleComponentManager.java:315) at org.apache.felix.scr.impl.manager.SingleComponentManager.createComponent(SingleComponentManager.java:127) at org.apache.felix.scr.impl.manager.SingleComponentManager.getService(SingleComponentManager.java:871) at org.apache.felix.scr.impl.manager.SingleComponentManager.getServiceInternal(SingleComponentManager.java:838) at org.apache.felix.scr.impl.manager.SingleComponentManager.getService(SingleComponentManager.java:777) at org.apache.felix.framework.ServiceRegistrationImpl.getFactoryUnchecked(ServiceRegistrationImpl.java:347) at org.apache.felix.framework.ServiceRegistrationImpl.getService(ServiceRegistrationImpl.java:247) at org.apache.felix.framework.ServiceRegistry.getService(ServiceRegistry.java:343) at org.apache.felix.framework.Felix.getService(Felix.java:3692) at org.apache.felix.framework.BundleContextImpl.getService(BundleContextImpl.java:470) at org.apache.felix.scr.impl.helper.BindMethod.getServiceObject(BindMethod.java:572) at org.apache.felix.scr.impl.manager.DependencyManager.getServiceObject(DependencyManager.java:2012) at org.apache.felix.scr.impl.manager.DependencyManager$SingleStaticCustomizer.prebind(DependencyManager.java:1005) at org.apache.felix.scr.impl.manager.DependencyManager.prebind(DependencyManager.java:1439) at org.apache.felix.scr.impl.manager.AbstractComponentManager.collectDependencies(AbstractComponentManager.java:1119) at org.apache.felix.scr.impl.manager.SingleComponentManager.getServiceInternal(SingleComponentManager.java:807) at org.apache.felix.scr.impl.manager.AbstractComponentManager.activateInternal(AbstractComponentManager.java:850) at org.apache.felix.scr.impl.manager.DependencyManager$SingleStaticCustomizer.addedService(DependencyManager.java:931) at org.apache.felix.scr.impl.manager.DependencyManager$SingleStaticCustomizer.addedService(DependencyManager.java:895) at org.apache.felix.scr.impl.manager.ServiceTracker$Tracked.customizerAdded(ServiceTracker.java:1480) at org.apache.felix.scr.impl.manager.ServiceTracker$Tracked.customizerAdded(ServiceTracker.java:1401) at org.apache.felix.scr.impl.manager.ServiceTracker$AbstractTracked.trackAdding(ServiceTracker.java:1210) at org.apache.felix.scr.impl.manager.ServiceTracker$AbstractTracked.track(ServiceTracker.java:1148) at org.apache.felix.scr.impl.manager.ServiceTracker$Tracked.serviceChanged(ServiceTracker.java:1432) at org.apache.felix.framework.util.EventDispatcher.invokeServiceListenerCallback(EventDispatcher.java:987) at org.apache.felix.framework.util.EventDispatcher.fireEventImmediately(EventDispatcher.java:838) at org.apache.felix.framework.util.EventDispatcher.fireServiceEvent(EventDispatcher.java:545) at org.apache.felix.framework.Felix.fireServiceEvent(Felix.java:4560) at org.apache.felix.framework.Felix.registerService(Felix.java:3542) at org.apache.felix.framework.BundleContextImpl.registerService(BundleContextImpl.java:348) at org.apache.felix.framework.BundleContextImpl.registerService(BundleContextImpl.java:355) at com.affymetrix.igb.Activator$1.initializeWindowService(Activator.java:143) at com.affymetrix.igb.Activator$1.addingService(Activator.java:134) at org.osgi.util.tracker.ServiceTracker$Tracked.customizerAdding(ServiceTracker.java:941) at org.osgi.util.tracker.ServiceTracker$Tracked.customizerAdding(ServiceTracker.java:870) at org.osgi.util.tracker.AbstractTracked.trackAdding(AbstractTracked.java:256) at org.osgi.util.tracker.AbstractTracked.track(AbstractTracked.java:229) at org.osgi.util.tracker.ServiceTracker$Tracked.serviceChanged(ServiceTracker.java:901) at org.apache.felix.framework.util.EventDispatcher.invokeServiceListenerCallback(EventDispatcher.java:987) at org.apache.felix.framework.util.EventDispatcher.fireEventImmediately(EventDispatcher.java:838) at org.apache.felix.framework.util.EventDispatcher.fireServiceEvent(EventDispatcher.java:545) at org.apache.felix.framework.Felix.fireServiceEvent(Felix.java:4560) at org.apache.felix.framework.Felix.registerService(Felix.java:3542) at org.apache.felix.framework.BundleContextImpl.registerService(BundleContextImpl.java:348) at org.apache.felix.scr.impl.manager.AbstractComponentManager$3.register(AbstractComponentManager.java:1003) at org.apache.felix.scr.impl.manager.AbstractComponentManager$3.register(AbstractComponentManager.java:992) at org.apache.felix.scr.impl.manager.RegistrationManager.changeRegistration(RegistrationManager.java:134) at org.apache.felix.scr.impl.manager.AbstractComponentManager.registerService(AbstractComponentManager.java:1044) at org.apache.felix.scr.impl.manager.AbstractComponentManager.activateInternal(AbstractComponentManager.java:841) at org.apache.felix.scr.impl.manager.DependencyManager$SingleStaticCustomizer.addedService(DependencyManager.java:931) at org.apache.felix.scr.impl.manager.DependencyManager$SingleStaticCustomizer.addedService(DependencyManager.java:895) at org.apache.felix.scr.impl.manager.ServiceTracker$Tracked.customizerAdded(ServiceTracker.java:1480) at org.apache.felix.scr.impl.manager.ServiceTracker$Tracked.customizerAdded(ServiceTracker.java:1401) at org.apache.felix.scr.impl.manager.ServiceTracker$AbstractTracked.trackAdding(ServiceTracker.java:1210) at org.apache.felix.scr.impl.manager.ServiceTracker$AbstractTracked.track(ServiceTracker.java:1148) at org.apache.felix.scr.impl.manager.ServiceTracker$Tracked.serviceChanged(ServiceTracker.java:1432) at org.apache.felix.framework.util.EventDispatcher.invokeServiceListenerCallback(EventDispatcher.java:987) at org.apache.felix.framework.util.EventDispatcher.fireEventImmediately(EventDispatcher.java:838) at org.apache.felix.framework.util.EventDispatcher.fireServiceEvent(EventDispatcher.java:545) at org.apache.felix.framework.Felix.fireServiceEvent(Felix.java:4560) at org.apache.felix.framework.Felix.registerService(Felix.java:3542) at org.apache.felix.framework.BundleContextImpl.registerService(BundleContextImpl.java:348) at org.apache.felix.scr.impl.manager.AbstractComponentManager$3.register(AbstractComponentManager.java:1003) at org.apache.felix.scr.impl.manager.AbstractComponentManager$3.register(AbstractComponentManager.java:992) at org.apache.felix.scr.impl.manager.RegistrationManager.changeRegistration(RegistrationManager.java:134) at org.apache.felix.scr.impl.manager.AbstractComponentManager.registerService(AbstractComponentManager.java:1044) at org.apache.felix.scr.impl.manager.AbstractComponentManager.activateInternal(AbstractComponentManager.java:841) at org.apache.felix.scr.impl.manager.AbstractComponentManager.enable(AbstractComponentManager.java:419) at org.apache.felix.scr.impl.config.ConfigurableComponentHolder.enableComponents(ConfigurableComponentHolder.java:376) at org.apache.felix.scr.impl.BundleComponentActivator.initialize(BundleComponentActivator.java:172) at org.apache.felix.scr.impl.BundleComponentActivator.<init>(BundleComponentActivator.java:120) at org.apache.felix.scr.impl.Activator.loadComponents(Activator.java:258) at org.apache.felix.scr.impl.Activator.access$000(Activator.java:45) at org.apache.felix.scr.impl.Activator$ScrExtension.start(Activator.java:185) at org.apache.felix.utils.extender.AbstractExtender.createExtension(AbstractExtender.java:259) at org.apache.felix.utils.extender.AbstractExtender.modifiedBundle(AbstractExtender.java:232) at org.osgi.util.tracker.BundleTracker$Tracked.customizerModified(BundleTracker.java:479) at org.osgi.util.tracker.BundleTracker$Tracked.customizerModified(BundleTracker.java:414) at org.osgi.util.tracker.AbstractTracked.track(AbstractTracked.java:232) at org.osgi.util.tracker.BundleTracker$Tracked.bundleChanged(BundleTracker.java:443) at org.apache.felix.framework.util.EventDispatcher.invokeBundleListenerCallback(EventDispatcher.java:913) at org.apache.felix.framework.util.EventDispatcher.fireEventImmediately(EventDispatcher.java:834) at org.apache.felix.framework.util.EventDispatcher.fireBundleEvent(EventDispatcher.java:516) at org.apache.felix.framework.Felix.fireBundleEvent(Felix.java:4544) at org.apache.felix.framework.Felix.startBundle(Felix.java:2166) at org.apache.felix.framework.Felix.setActiveStartLevel(Felix.java:1365) at org.apache.felix.framework.FrameworkStartLevelImpl.run(FrameworkStartLevelImpl.java:308) at java.lang.Thread.run(Thread.java:748) Caused by: com.google.gson.stream.MalformedJsonException: Unterminated object at line 10 column 18 path $.prefs.server [0] .mirror at com.google.gson.stream.JsonReader.syntaxError(JsonReader.java:1573) at com.google.gson.stream.JsonReader.doPeek(JsonReader.java:495) at com.google.gson.stream.JsonReader.hasNext(JsonReader.java:418) at com.google.gson.internal.bind.ReflectiveTypeAdapterFactory$Adapter.read(ReflectiveTypeAdapterFactory.java:190) at com.google.gson.internal.bind.TypeAdapterRuntimeTypeWrapper.read(TypeAdapterRuntimeTypeWrapper.java:40) at com.google.gson.internal.bind.CollectionTypeAdapterFactory$Adapter.read(CollectionTypeAdapterFactory.java:81) at com.google.gson.internal.bind.CollectionTypeAdapterFactory$Adapter.read(CollectionTypeAdapterFactory.java:60) at com.google.gson.internal.bind.ReflectiveTypeAdapterFactory$1.read(ReflectiveTypeAdapterFactory.java:103) at com.google.gson.internal.bind.ReflectiveTypeAdapterFactory$Adapter.read(ReflectiveTypeAdapterFactory.java:196) at com.google.gson.internal.bind.ReflectiveTypeAdapterFactory$1.read(ReflectiveTypeAdapterFactory.java:103) at com.google.gson.internal.bind.ReflectiveTypeAdapterFactory$Adapter.read(ReflectiveTypeAdapterFactory.java:196) at com.google.gson.Gson.fromJson(Gson.java:810) ... 101 more ERROR: org.lorainelab.igb.plugins-manager (71): [PluginRepositoryList(80)] Failed creating the component instance; see log for reason ERROR: org.lorainelab.igb.plugins-manager (71): [BundleRepositoryPrefsView(82)] Cannot create component instance due to failure to bind reference eventBus ERROR: org.lorainelab.igb.plugins-manager (71): [BundleRepositoryPrefsView(82)] Failed creating the component instance; see log for reason 08:20:47.526 INFO com.affymetrix.igb.Activator - IGB Started 08:20:48.067 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: org.apache.felix.framework 08:20:48.067 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: affymetrix-common 08:20:48.068 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: annotation-tab 08:20:48.068 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: apollo-library 08:20:48.068 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: org.lorainelab.igb.bam 08:20:48.068 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: org.lorainelab.igb.bed 08:20:48.068 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: bigBedHandler 08:20:48.068 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: bigWigHandler 08:20:48.069 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: org.broad.igv.bigwig 08:20:48.069 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: bookmark 08:20:48.069 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: org.lorainelab.igb.cache 08:20:48.069 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: org.lorainelab.igb.cache-api 08:20:48.069 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: org.apache.commons.codec 08:20:48.069 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: org.apache.commons.compress 08:20:48.069 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: org.apache.commons.csv 08:20:48.069 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: org.apache.commons.io 08:20:48.069 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: org.apache.commons.jexl 08:20:48.069 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: org.apache.commons.lang3 08:20:48.070 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: org.apache.commons.logging 08:20:48.070 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: org.apache.commons.pool 08:20:48.070 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: console-gui 08:20:48.070 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: context-menu-service 08:20:48.070 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: das 08:20:48.071 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: das2 08:20:48.071 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: org.lorainelab.igb.external-sort 08:20:48.071 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: externalView 08:20:48.072 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: org.lorainelab.igb.feedback 08:20:48.072 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: frameManager 08:20:48.072 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: genometry 08:20:48.073 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: com.affymetrix.genoviz 08:20:48.073 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: graphTab 08:20:48.073 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: com.google.gson 08:20:48.074 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: com.google.guava 08:20:48.074 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: heatmap-editor 08:20:48.074 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: htsjdk-igb 08:20:48.075 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: igb 08:20:48.075 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: igb-genoviz-extensions 08:20:48.075 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: igb-javafx-util 08:20:48.076 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: igb-preferences 08:20:48.076 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: igb-services 08:20:48.076 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: igbScript 08:20:48.077 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: igbSwingExt 08:20:48.077 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: image-exporter 08:20:48.077 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: com.fasterxml.jackson.core.jackson-annotations 08:20:48.077 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: com.fasterxml.jackson.core.jackson-core 08:20:48.077 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: com.fasterxml.jackson.core.jackson-databind 08:20:48.077 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: com.jidesoft.ultimate 08:20:48.077 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: keyWordSearch 08:20:48.077 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: keybinding-registry 08:20:48.078 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: ch.qos.logback.classic 08:20:48.078 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: ch.qos.logback.core 08:20:48.078 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: org.lorainelab.igb.logging-config 08:20:48.078 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: org.lorainelab.igb.narrowpeak 08:20:48.078 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: ncbiBlast 08:20:48.078 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: org.apache.felix.bundlerepository 08:20:48.078 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: org.apache.felix.configadmin 08:20:48.078 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: org.apache.felix.dependencymanager 08:20:48.079 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: org.apache.felix.http.bundle 08:20:48.079 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: org.apache.felix.http.jetty 08:20:48.079 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: org.apache.felix.http.servlet-api 08:20:48.079 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: org.apache.felix.scr 08:20:48.079 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: org.lorainelab.igb.error.reporter.api 08:20:48.079 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: org.lorainelab.igb.error.reporter.manager 08:20:48.079 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: org.lorainelab.igb.menu.api 08:20:48.079 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: org.lorainelab.igb.remote.services.commons 08:20:48.079 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: org.lorainelab.igb.remote.services.discovery.provider.configured 08:20:48.080 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: org.lorainelab.igb.remote.services.distribution.provider.http 08:20:48.080 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: org.lorainelab.igb.remote.services.topology.manager 08:20:48.080 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: osgi.cmpn 08:20:48.080 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: org.osgi.service.remoteserviceadmin 08:20:48.080 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: paired-data-preprocessor 08:20:48.080 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: org.lorainelab.igb.plugins-manager 08:20:48.080 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: propertyView 08:20:48.080 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: quickload 08:20:48.081 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: restrictionSites 08:20:48.081 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: searchModelIdOrProps 08:20:48.081 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: searchView 08:20:48.081 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: sequenceViewer 08:20:48.081 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: session-manager 08:20:48.081 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: shared-lib-wrapper 08:20:48.081 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: slf4j.api 08:20:48.081 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: survey 08:20:48.082 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: synonym-lookup 08:20:48.082 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: thresholding 08:20:48.082 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: track-operations-panel 08:20:48.082 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: update 08:20:48.082 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: weblinks 08:20:48.082 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: window-service 08:20:48.082 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: org.tukaani.xz 08:20:48.082 [main] INFO com.affymetrix.main.OSGiHandler - OSGi is started with org.apache.felix.framework version 5.2.0