Path	Lines of Code
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/ContentsDescriptorBuilder.java	190
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/DirectoryREST.java	277
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/FileConcatenation.java	41
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/InputREST.java	207
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/InteractionFeed.java	84
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/ListenerPropertyREST.java	59
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/ListenersREST.java	71
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/ManagementState.java	154
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/RunREST.java	403
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/RunSecurityREST.java	259
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/SingleListenerREST.java	73
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/TavernaServer.java	1203
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/TavernaServerSupport.java	565
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/admin/Admin.java	638
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/admin/AdminBean.java	621
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/admin/package-info.java	21
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/api/ContentTypes.java	21
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/api/DirectoryBean.java	8
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/api/FeedBean.java	6
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/api/InputBean.java	11
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/api/ListenerPropertyBean.java	8
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/api/ListenersBean.java	6
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/api/ManagementModel.java	11
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/api/OneListenerBean.java	7
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/api/RunBean.java	8
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/api/SecurityBean.java	7
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/api/SupportAware.java	7
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/api/TavernaServerBean.java	34
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/api/package-info.java	1
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/common/Capability.java	13
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/common/Credential.java	80
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/common/DirEntryReference.java	46
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/common/InputDescription.java	51
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/common/Namespaces.java	12
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/common/Permission.java	16
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/common/ProfileList.java	20
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/common/Roles.java	6
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/common/RunReference.java	32
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/common/Status.java	11
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/common/Trust.java	39
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/common/Uri.java	292
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/common/VersionedElement.java	44
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/common/Workflow.java	266
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/common/package-info.java	17
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/common/version/Version.java	23
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/defaults/Default.java	25
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/defaults/package-info.java	1
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/exceptions/BadInputPortNameException.java	9
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/exceptions/BadPropertyValueException.java	12
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/exceptions/BadStateChangeException.java	18
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/exceptions/FilesystemAccessException.java	23
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/exceptions/GeneralFailureException.java	13
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/exceptions/InvalidCredentialException.java	18
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/exceptions/NoCreateException.java	15
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/exceptions/NoCredentialException.java	7
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/exceptions/NoDestroyException.java	9
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/exceptions/NoDirectoryEntryException.java	12
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/exceptions/NoListenerException.java	17
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/exceptions/NoUpdateException.java	17
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/exceptions/NotOwnerException.java	9
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/exceptions/OverloadedException.java	18
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/exceptions/UnknownRunException.java	12
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/exceptions/package-info.java	17
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/facade/Facade.java	38
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/facade/package-info.java	1
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/factories/ConfigurableRunFactory.java	40
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/factories/ListenerFactory.java	10
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/factories/RunFactory.java	10
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/factories/package-info.java	1
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/identity/AuthorityDerivedIDMapper.java	31
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/identity/CompositeIDMapper.java	43
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/identity/ConstantIDMapper.java	13
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/identity/NameIDMapper.java	25
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/identity/StrippedDownAuthProvider.java	151
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/identity/User.java	108
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/identity/UserStore.java	322
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/identity/UserStoreAPI.java	12
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/identity/WorkflowInternalAuthProvider.java	218
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/identity/package-info.java	1
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/interaction/InteractionFeedSupport.java	193
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/interaction/package-info.java	1
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/interfaces/Directory.java	17
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/interfaces/DirectoryEntry.java	9
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/interfaces/File.java	10
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/interfaces/Input.java	21
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/interfaces/Listener.java	12
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/interfaces/LocalIdentityMapper.java	5
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/interfaces/MessageDispatcher.java	9
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/interfaces/Policy.java	23
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/interfaces/RunStore.java	12
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/interfaces/SecurityContextFactory.java	7
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/interfaces/TavernaRun.java	39
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/interfaces/TavernaSecurityContext.java	37
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/interfaces/UriBuilderFactory.java	8
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/interfaces/package-info.java	1
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/localworker/AbstractRemoteRunFactory.java	333
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/localworker/ForkRunFactory.java	242
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/localworker/IdAwareForkRunFactory.java	379
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/localworker/LocalWorkerFactory.java	17
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/localworker/LocalWorkerState.java	343
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/localworker/PersistedState.java	201
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/localworker/StreamLogger.java	44
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/localworker/package-info.java	1
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/notification/EmailDispatcher.java	68
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/notification/JabberDispatcher.java	98
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/notification/NotificationEngine.java	92
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/notification/RateLimitedDispatcher.java	43
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/notification/SMSDispatcher.java	105
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/notification/TwitterDispatcher.java	85
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/notification/atom/AtomFeed.java	102
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/notification/atom/Event.java	77
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/notification/atom/EventDAO.java	153
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/notification/atom/package-info.java	17
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/notification/package-info.java	1
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/package-info.java	1
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/rest/ContentTypes.java	16
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/rest/DirectoryContents.java	29
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/rest/FileSegment.java	39
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/rest/InteractionFeedREST.java	54
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/rest/ListenerDefinition.java	13
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/rest/MakeOrUpdateDirEntry.java	24
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/rest/TavernaServerDirectoryREST.java	111
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/rest/TavernaServerInputREST.java	179
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/rest/TavernaServerListenersREST.java	202
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/rest/TavernaServerREST.java	301
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/rest/TavernaServerRunREST.java	436
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/rest/TavernaServerSecurityREST.java	373
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/rest/handler/AccessDeniedHandler.java	12
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/rest/handler/BadInputPortNameHandler.java	14
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/rest/handler/BadPropertyValueHandler.java	14
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/rest/handler/BadStateChangeHandler.java	14
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/rest/handler/EntryHandler.java	118
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/rest/handler/FeedHandler.java	56
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/rest/handler/FileConcatenationHandler.java	47
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/rest/handler/FileMessageHandler.java	56
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/rest/handler/FileSegmentHandler.java	50
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/rest/handler/FilesystemAccessHandler.java	14
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/rest/handler/GeneralFailureHandler.java	12
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/rest/handler/HandlerCore.java	29
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/rest/handler/IllegalArgumentHandler.java	13
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/rest/handler/ImplementationProblemHandler.java	12
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/rest/handler/InputStreamMessageHandler.java	79
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/rest/handler/InvalidCredentialHandler.java	14
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/rest/handler/JAXBExceptionHandler.java	14
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/rest/handler/NegotiationFailedHandler.java	16
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/rest/handler/NoCreateHandler.java	14
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/rest/handler/NoCredentialHandler.java	12
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/rest/handler/NoDestroyHandler.java	14
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/rest/handler/NoDirectoryEntryHandler.java	14
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/rest/handler/NoListenerHandler.java	14
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/rest/handler/NoUpdateHandler.java	14
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/rest/handler/NotOwnerHandler.java	12
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/rest/handler/OverloadedHandler.java	14
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/rest/handler/PermissionHandler.java	54
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/rest/handler/Scufl2DocumentHandler.java	66
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/rest/handler/T2FlowDocumentHandler.java	97
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/rest/handler/URIListHandler.java	99
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/rest/handler/UnknownRunHandler.java	14
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/rest/handler/ZipStreamHandler.java	37
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/rest/handler/package-info.java	19
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/rest/package-info.java	19
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/soap/DirEntry.java	56
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/soap/FileContents.java	123
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/soap/PermissionList.java	23
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/soap/TavernaServerSOAP.java	435
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/soap/WrappedWorkflow.java	112
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/soap/ZippedDirectory.java	52
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/soap/package-info.java	19
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/usage/UsageRecord.java	70
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/usage/UsageRecordRecorder.java	114
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/usage/package-info.java	1
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/utils/CallTimeLogger.java	51
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/utils/CallTimingFilter.java	46
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/utils/CapabilityLister.java	32
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/utils/CertificateChainFetcher.java	127
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/utils/Contextualizer.java	26
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/utils/DerbyUtils.java	47
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/utils/FilenameUtils.java	114
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/utils/FlushThreadLocalCacheInterceptor.java	15
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/utils/InvocationCounter.java	24
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/utils/JCECheck.java	30
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/utils/JDOSupport.java	152
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/utils/LoggingDerbyAdapter.java	111
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/utils/OneShotThread.java	9
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/utils/RestUtils.java	12
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/utils/RuntimeExceptionWrapper.java	14
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/utils/UsernamePrincipal.java	48
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/utils/WSDLHeadOptionsInterceptor.java	37
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/utils/WebappAwareDataSource.java	99
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/utils/X500Utils.java	63
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/utils/package-info.java	1
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/worker/CompletionNotifier.java	6
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/worker/FactoryBean.java	6
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/worker/PasswordIssuer.java	40
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/worker/PolicyImpl.java	130
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/worker/PolicyLimits.java	10
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/worker/RemoteRunDelegate.java	812
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/worker/RunConnection.java	167
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/worker/RunDBSupport.java	18
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/worker/RunDatabase.java	241
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/worker/RunDatabaseDAO.java	209
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/worker/RunFactoryConfiguration.java	252
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/worker/SecurityContextDelegate.java	440
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/worker/SecurityContextDelegateImpl.java	184
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/worker/SecurityContextFactory.java	114
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/worker/SimpleFormattedCompletionNotifier.java	34
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/worker/VelocityCompletionNotifier.java	77
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/worker/WorkerModel.java	39
taverna-server-webapp/src/main/java/org/apache/taverna/server/master/worker/package-info.java	1
taverna-server-webapp/src/main/resources/admin.html	220
taverna-server-webapp/src/main/resources/security.policy	17
taverna-server-webapp/src/main/resources/static/admin.js	485
taverna-server-webapp/src/main/resources/welcome.html	117
taverna-server-webapp/src/main/webapp/META-INF/persistence.xml	14
taverna-server-webapp/src/main/webapp/WEB-INF/beans.xml	445
taverna-server-webapp/src/main/webapp/WEB-INF/insecure.xml	25
taverna-server-webapp/src/main/webapp/WEB-INF/partsecure.xml	29
taverna-server-webapp/src/main/webapp/WEB-INF/providers.xml	91
taverna-server-webapp/src/main/webapp/WEB-INF/secure.xml	29
taverna-server-webapp/src/main/webapp/WEB-INF/web-nosec.xml	81
taverna-server-webapp/src/main/webapp/WEB-INF/web-partsec.xml	81
taverna-server-webapp/src/main/webapp/WEB-INF/web-sec.xml	81
taverna-server-webapp/src/main/webapp/WEB-INF/webappBeans.xml	195