temporarily empty repository .. as Software Grant is not yet formally on file
Project: http://git-wip-us.apache.org/repos/asf/incubator-taverna-workbench/repo Commit: http://git-wip-us.apache.org/repos/asf/incubator-taverna-workbench/commit/dc466d6d Tree: http://git-wip-us.apache.org/repos/asf/incubator-taverna-workbench/tree/dc466d6d Diff: http://git-wip-us.apache.org/repos/asf/incubator-taverna-workbench/diff/dc466d6d Branch: refs/heads/master Commit: dc466d6d0d588fefbec8f009ac57cfa520679050 Parents: de04c8f Author: Stian Soiland-Reyes <[email protected]> Authored: Tue Feb 17 20:45:12 2015 +0000 Committer: Stian Soiland-Reyes <[email protected]> Committed: Tue Feb 17 20:45:12 2015 +0000 ---------------------------------------------------------------------- pom.xml | 91 - taverna-dataflow-activity-ui/pom.xml | 121 - .../actions/EditNestedDataflowAction.java | 49 - .../menu/EditNestedDataflowMenuAction.java | 28 - .../DataflowActivityIcon.java | 57 - .../DataflowTemplateService.java | 54 - .../views/DataflowActivityContextualView.java | 140 - .../views/DataflowActivityViewFactory.java | 93 - .../file/importworkflow/DataflowMerger.java | 124 - .../file/importworkflow/MergeException.java | 22 - .../actions/AddNestedWorkflowAction.java | 59 - .../actions/ImportWorkflowAction.java | 59 - .../actions/MergeWorkflowAction.java | 58 - .../actions/OpenSourceWorkflowAction.java | 139 - .../actions/ReplaceNestedWorkflowAction.java | 84 - .../gui/ImportWorkflowWizard.java | 1272 ------- .../menu/AddNestedWorkflowMenuAction.java | 104 - .../menu/ImportWorkflowMenuAction.java | 98 - .../menu/MergeWorkflowMenuAction.java | 65 - .../menu/ReplaceNestedWorkflowMenuAction.java | 76 - ...rvicedescriptions.ServiceDescriptionProvider | 1 - .../net.sf.taverna.t2.ui.menu.MenuComponent | 9 - ...a.t2.workbench.activityicons.ActivityIconSPI | 1 - ...t2.workbench.file.DataflowPersistenceHandler | 1 - ...ntextualviews.activity.ContextualViewFactory | 1 - .../dataflow-activity-ui-context-osgi.xml | 33 - .../spring/dataflow-activity-ui-context.xml | 64 - .../src/main/resources/dataflow.png | Bin 814 -> 0 bytes .../file/importworkflow/AbstractTestHelper.java | 266 -- .../file/importworkflow/TestPortMerge.java | 38 - .../file/importworkflow/TestRename.java | 58 - .../file/importworkflow/TestSimpleMerge.java | 98 - .../file/importworkflow/TestTestHelper.java | 24 - .../gui/ImportWizardLauncher.java | 24 - .../src/test/resources/abc.t2flow | 116 - .../src/test/resources/p.t2flow | 36 - .../src/test/resources/q.t2flow | 36 - taverna-disabled-activity-ui/pom.xml | 94 - .../DisabledActivityConfigurationAction.java | 118 - .../menu/ConfigureDisabledMenuAction.java | 52 - .../views/DisabledActivityViewFactory.java | 80 - .../disabled/views/DisabledConfigView.java | 141 - .../disabled/views/DisabledContextualView.java | 128 - .../net.sf.taverna.t2.ui.menu.MenuComponent | 1 - ...ntextualviews.activity.ContextualViewFactory | 1 - .../disabled-activity-ui-context-osgi.xml | 20 - .../spring/disabled-activity-ui-context.xml | 23 - taverna-stringconstant-activity-ui/pom.xml | 97 - ...ringConstantActivityConfigurationAction.java | 71 - .../menu/AddStringConstantTemplateAction.java | 112 - .../AddStringConstantTemplateMenuAction.java | 124 - .../menu/ConfigureStringConstantMenuAction.java | 64 - .../StringConstantActivityIcon.java | 58 - .../StringConstantTemplateService.java | 84 - .../StringConstantActivityContextualView.java | 93 - .../StringConstantActivityViewFactory.java | 87 - .../views/StringConstantConfigView.java | 243 -- ...rvicedescriptions.ServiceDescriptionProvider | 1 - .../net.sf.taverna.t2.ui.menu.MenuComponent | 3 - ...a.t2.workbench.activityicons.ActivityIconSPI | 1 - ...ntextualviews.activity.ContextualViewFactory | 1 - .../stringconstant-activity-ui-context-osgi.xml | 25 - .../stringconstant-activity-ui-context.xml | 49 - .../src/main/resources/stringconstant.png | Bin 733 -> 0 bytes .../views/TestStringConstantContextualView.java | 53 - taverna-unrecognized-activity-ui/pom.xml | 48 - .../views/UnrecognizedActivityViewFactory.java | 48 - .../views/UnrecognizedContextualView.java | 56 - ...ntextualviews.activity.ContextualViewFactory | 1 - .../unrecognized-activity-ui-context-osgi.xml | 13 - .../spring/unrecognized-activity-ui-context.xml | 10 - taverna-workbench-activity-icons-api/pom.xml | 20 - .../activityicons/ActivityIconManager.java | 41 - .../activityicons/ActivityIconSPI.java | 57 - .../activityicons/DefaultActivityIcon.java | 54 - .../impl/ActivityIconManagerImpl.java | 85 - ...a.t2.workbench.activityicons.ActivityIconSPI | 1 - .../spring/activity-icons-api-context-osgi.xml | 15 - .../spring/activity-icons-api-context.xml | 13 - .../main/resources/default-activity-icon.png | Bin 577 -> 0 bytes taverna-workbench-activity-palette-api/pom.xml | 61 - .../AbstractConfigurableServiceProvider.java | 53 - .../AbstractTemplateService.java | 85 - .../ConfigurableServiceProvider.java | 10 - .../CustomizedConfigurePanelProvider.java | 36 - .../servicedescriptions/IdentifiedObject.java | 30 - .../servicedescriptions/ServiceDescription.java | 80 - .../ServiceDescriptionProvider.java | 61 - .../ServiceDescriptionRegistry.java | 50 - .../ServiceDescriptionsConfiguration.java | 36 - .../events/AbstractProviderEvent.java | 16 - .../events/AbstractProviderNotification.java | 18 - .../events/AddedProviderEvent.java | 10 - .../PartialServiceDescriptionsNotification.java | 22 - .../events/ProviderErrorNotification.java | 19 - .../events/ProviderStatusNotification.java | 12 - .../events/ProviderUpdatingNotification.java | 11 - .../events/ProviderWarningNotification.java | 12 - .../events/RemovedProviderEvent.java | 10 - .../events/ServiceDescriptionProvidedEvent.java | 20 - .../events/ServiceDescriptionRegistryEvent.java | 4 - taverna-workbench-activity-palette-impl/pom.xml | 80 - .../impl/ServiceDescriptionConstants.java | 10 - .../impl/ServiceDescriptionDeserializer.java | 167 - .../impl/ServiceDescriptionRegistryImpl.java | 652 ---- .../impl/ServiceDescriptionSerializer.java | 102 - .../impl/ServiceDescriptionXMLConstants.java | 15 - .../ServiceDescriptionsConfigurationImpl.java | 92 - .../ActivityPaletteConfiguration.java | 81 - .../ActivityPaletteConfigurationPanel.java | 284 -- .../ActivityPaletteConfigurationUIFactory.java | 52 - ...rkbench.configuration.ConfigurationUIFactory | 1 - .../activity-palette-impl-context-osgi.xml | 17 - .../spring/activity-palette-impl-context.xml | 23 - .../ActivityPaletteConfigurationTest.java | 97 - ...averna.t2.partition.PartitionAlgorithmSetSPI | 1 - ...sf.taverna.t2.partition.PropertyExtractorSPI | 3 - .../net.sf.taverna.t2.partition.QueryFactory | 2 - taverna-workbench-activity-palette-ui/pom.xml | 73 - .../servicepanel/PathElementFilterTreeNode.java | 34 - .../ui/servicepanel/RootFilterTreeNode.java | 34 - .../ui/servicepanel/ServiceFilter.java | 158 - .../ui/servicepanel/ServiceFilterTreeNode.java | 40 - .../workbench/ui/servicepanel/ServicePanel.java | 411 -- .../ServicePanelComponentFactory.java | 82 - .../servicepanel/ServiceTreeCellRenderer.java | 77 - .../servicepanel/ServiceTreeClickListener.java | 252 -- .../ui/servicepanel/ServiceTreePanel.java | 176 - .../actions/AddServiceProviderAction.java | 256 -- .../ExportServiceDescriptionsAction.java | 155 - ...ImportServiceDescriptionsFromFileAction.java | 158 - .../ImportServiceDescriptionsFromURLAction.java | 129 - .../actions/RefreshProviderRegistryAction.java | 52 - .../actions/RemoveDefaultServicesAction.java | 51 - .../actions/RemoveUserServicesAction.java | 59 - .../actions/RestoreDefaultServicesAction.java | 50 - .../config/ServiceDescriptionConfigPanel.java | 181 - .../ServiceDescriptionConfigUIFactory.java | 57 - .../menu/AddServiceProviderMenu.java | 113 - .../workbench/ui/servicepanel/tree/Filter.java | 33 - .../tree/FilterTreeCellRenderer.java | 59 - .../ui/servicepanel/tree/FilterTreeModel.java | 92 - .../ui/servicepanel/tree/FilterTreeNode.java | 142 - .../tree/FilterTreeSelectionModel.java | 46 - .../ui/servicepanel/tree/MyFilter.java | 89 - .../ui/servicepanel/tree/TreePanel.java | 371 -- ....t2.workbench.ui.zaria.UIComponentFactorySPI | 1 - .../spring/activity-palette-ui-context-osgi.xml | 20 - .../spring/activity-palette-ui-context.xml | 22 - taverna-workbench-activity-tools/pom.xml | 30 - .../AbstractConfigureActivityMenuAction.java | 64 - taverna-workbench-configuration-api/pom.xml | 22 - .../configuration/colour/ColourManager.java | 41 - .../configuration/mimetype/MimeTypeManager.java | 42 - .../workbench/WorkbenchConfiguration.java | 44 - .../workbench/ui/T2ConfigurationFrame.java | 30 - taverna-workbench-configuration-impl/pom.xml | 61 - .../WorkbenchConfigurationImpl.java | 210 -- .../WorkbenchConfigurationPanel.java | 266 -- .../WorkbenchConfigurationUIFactory.java | 52 - .../configuration/colour/ColourManagerImpl.java | 178 - .../mimetype/MimeTypeManagerImpl.java | 82 - .../ui/T2ConfigurationFrameImpl.java | 205 - .../ui/WorkbenchConfigurationMenu.java | 61 - .../ui/WorkbenchPreferencesSection.java | 36 - .../net.sf.taverna.t2.ui.menu.MenuComponent | 2 - ...rkbench.configuration.ConfigurationUIFactory | 1 - .../spring/configuration-impl-context-osgi.xml | 27 - .../spring/configuration-impl-context.xml | 34 - .../configuration/ConfigurationManagerTest.java | 109 - .../configuration/colour/ColourManagerTest.java | 90 - taverna-workbench-contextual-views-api/pom.xml | 99 - .../activity/ActivityConfigurationAction.java | 167 - .../activity/ActivityContextualView.java | 69 - .../HTMLBasedActivityContextualView.java | 81 - .../contextualviews/AddLayerFactorySPI.java | 43 - .../views/contextualviews/ContextualView.java | 109 - .../activity/ActivityConfigurationDialog.java | 474 --- .../activity/ActivityConfigurationPanel.java | 214 -- .../activity/ActivityPortConfiguration.java | 84 - .../activity/ContextualViewFactory.java | 63 - .../activity/ContextualViewFactoryRegistry.java | 43 - .../activity/DependencyConfigurationPanel.java | 293 -- .../activity/ListConfigurationComponent.java | 119 - .../contextualviews/activity/ListLayout.java | 92 - .../MultiPageActivityConfigurationPanel.java | 65 - .../activity/ScriptConfigurationComponent.java | 150 - .../activity/ValidatingTextField.java | 53 - .../activity/ValidatingTextGroup.java | 119 - ....t2.workbench.ui.zaria.UIComponentFactorySPI | 2 - ...taverna.t2.workbench.ui.zaria.UIComponentSPI | 3 - .../contextual-views-api-context-osgi.xml | 9 - .../spring/contextual-views-api-context.xml | 6 - taverna-workbench-contextual-views-impl/pom.xml | 43 - .../impl/ContextualViewFactoryRegistryImpl.java | 75 - .../annotated/AnnotatedContextualView.java | 263 -- .../AnnotatedContextualViewFactory.java | 43 - .../condition/ConditionContextualView.java | 74 - .../ConditionContextualViewFactory.java | 51 - .../dataflow/DataflowContextualView.java | 108 - .../dataflow/DataflowContextualViewFactory.java | 41 - .../DataflowInputPortContextualView.java | 96 - .../DataflowInputPortContextualViewFactory.java | 54 - .../DataflowOutputPortContextualView.java | 106 - ...DataflowOutputPortContextualViewFactory.java | 55 - .../datalink/DatalinkContextualView.java | 106 - .../datalink/DatalinkContextualViewFactory.java | 55 - .../impl/ContextualViewComponent.java | 389 -- .../impl/ContextualViewComponentFactory.java | 64 - .../inputport/InputPortContextualView.java | 76 - .../InputPortContextualViewFactory.java | 48 - .../merge/MergeConfigurationAction.java | 79 - .../merge/MergeConfigurationView.java | 233 -- .../merge/MergeContextualView.java | 150 - .../merge/MergeContextualViewFactory.java | 66 - .../outputport/OutputPortContextualView.java | 76 - .../OutputPortContextualViewFactory.java | 48 - ...ntextualviews.activity.ContextualViewFactory | 9 - ....t2.workbench.ui.zaria.UIComponentFactorySPI | 1 - .../contextual-views-impl-context-osgi.xml | 31 - .../spring/contextual-views-impl-context.xml | 43 - .../annotatedcontextualview.properties | 4 - taverna-workbench-contextual-views/pom.xml | 41 - .../ProcessorActivitiesContextualView.java | 154 - ...rocessorActivitiesContextualViewFactory.java | 75 - ...rPredictedBehaviorContextualViewFactory.java | 177 - ...ntextualviews.activity.ContextualViewFactory | 4 - .../spring/contextual-views-context-osgi.xml | 15 - .../spring/contextual-views-context.xml | 12 - taverna-workbench-credential-manager-ui/pom.xml | 64 - .../ui/credentialmanager/CMStrings.java | 7 - .../ChangeMasterPasswordDialog.java | 234 -- .../ConfirmTrustedCertificateDialog.java | 520 --- .../ConfirmTrustedCertificateUI.java | 71 - .../credentialmanager/CredentialManagerUI.java | 1512 -------- .../CredentialManagerUILauncher.java | 96 - .../ui/credentialmanager/CryptoFileFilter.java | 73 - .../GetMasterPasswordDialog.java | 169 - .../ui/credentialmanager/GetPasswordDialog.java | 168 - .../credentialmanager/KeyPairsTableModel.java | 213 -- .../NewEditPasswordEntryDialog.java | 397 -- .../NewKeyPairEntryDialog.java | 304 -- .../credentialmanager/NewTrustCertsDialog.java | 248 -- .../credentialmanager/PasswordsTableModel.java | 227 -- .../SetMasterPasswordDialog.java | 189 - .../ui/credentialmanager/TableCellRenderer.java | 113 - .../credentialmanager/TableHeaderRenderer.java | 100 - .../TrustedCertsTableModel.java | 216 -- .../ViewCertDetailsDialog.java | 509 --- .../ViewUsernamePasswordEntryDialog.java | 199 - .../WarnUserAboutJCEPolicyDialog.java | 223 -- .../action/CredentialManagerAction.java | 68 - .../menu/CredentialManagerMenu.java | 72 - .../AskUserJavaTruststorePasswordProvider.java | 46 - .../password/AskUserMasterPasswordProvider.java | 55 - ...kUserServiceUsernameAndPasswordProvider.java | 23 - .../AskUserTrustConfirmationProvider.java | 35 - .../password/GetPasswordDialog.java | 228 -- .../password/SimpleMasterPasswordProvider.java | 54 - .../password/UIMasterPasswordProvider.java | 126 - .../password/UIUsernamePasswordProvider.java | 92 - .../startup/InitialiseSSLStartupHook.java | 64 - .../SetCredManAuthenticatorStartupHook.java | 24 - .../toolbar/CredentialManagerToolbarAction.java | 44 - .../CredentialManagerToolbarSection.java | 38 - ...rity.credentialmanager.CredentialProviderSPI | 3 - .../net.sf.taverna.t2.ui.menu.MenuComponent | 3 - .../net.sf.taverna.t2.workbench.StartupSPI | 2 - .../credential-manager-ui-context-osgi.xml | 37 - .../spring/credential-manager-ui-context.xml | 44 - .../src/main/resources/images/cred_manager.png | Bin 10131 -> 0 bytes .../main/resources/images/cred_manager16x16.png | Bin 3622 -> 0 bytes .../images/cred_manager_transparent.png | Bin 8376 -> 0 bytes .../resources/images/table/entry_heading.png | Bin 205 -> 0 bytes .../main/resources/images/table/key_entry.png | Bin 260 -> 0 bytes .../resources/images/table/keypair_entry.png | Bin 306 -> 0 bytes .../resources/images/table/trustcert_entry.png | Bin 551 -> 0 bytes .../pom.xml | 68 - .../DataManagementConfigurationPanel.java | 304 -- .../DataManagementConfigurationUIFactory.java | 64 - ...rkbench.configuration.ConfigurationUIFactory | 1 - .../data-management-config-ui-context-osgi.xml | 14 - .../data-management-config-ui-context.xml | 11 - taverna-workbench-design-ui/pom.xml | 44 - .../design/actions/AddConditionAction.java | 82 - .../design/actions/AddDataflowInputAction.java | 96 - .../design/actions/AddDataflowOutputAction.java | 90 - .../design/actions/DataflowEditAction.java | 57 - .../actions/EditDataflowInputPortAction.java | 115 - .../actions/EditDataflowOutputPortAction.java | 95 - .../design/actions/RemoveConditionAction.java | 69 - .../actions/RemoveDataflowInputPortAction.java | 85 - .../actions/RemoveDataflowOutputPortAction.java | 85 - .../design/actions/RemoveDatalinkAction.java | 68 - .../design/actions/RemoveProcessorAction.java | 136 - .../design/actions/RenameProcessorAction.java | 97 - .../design/ui/DataflowInputPortPanel.java | 203 - .../design/ui/DataflowOutputPortPanel.java | 105 - .../t2/workbench/design/ui/ProcessorPanel.java | 101 - taverna-workbench-edits-api/pom.xml | 28 - .../t2/workbench/edits/CompoundEdit.java | 118 - .../net/sf/taverna/t2/workbench/edits/Edit.java | 66 - .../t2/workbench/edits/EditException.java | 42 - .../taverna/t2/workbench/edits/EditManager.java | 222 -- .../t2/workbench/edits/package-info.java | 48 - .../taverna/t2/workflow/edits/AbstractEdit.java | 119 - .../t2/workflow/edits/AddActivityEdit.java | 55 - .../edits/AddActivityInputPortMappingEdit.java | 59 - .../edits/AddActivityOutputPortMappingEdit.java | 59 - .../taverna/t2/workflow/edits/AddChildEdit.java | 52 - .../t2/workflow/edits/AddDataLinkEdit.java | 90 - .../edits/AddIterationStrategyEdit.java | 49 - .../AddIterationStrategyInputPortEdit.java | 50 - .../t2/workflow/edits/AddProcessorEdit.java | 45 - .../edits/AddProcessorInputPortEdit.java | 45 - .../edits/AddProcessorOutputPortEdit.java | 46 - .../edits/AddWorkflowInputPortEdit.java | 110 - .../edits/AddWorkflowOutputPortEdit.java | 111 - .../t2/workflow/edits/ChangeDepthEdit.java | 104 - .../workflow/edits/ChangeGranularDepthEdit.java | 49 - .../t2/workflow/edits/ChangeJsonEdit.java | 50 - .../edits/ClearIterationStrategyStackEdit.java | 50 - .../t2/workflow/edits/ConfigureEdit.java | 55 - .../t2/workflow/edits/RemoveActivityEdit.java | 55 - .../RemoveActivityInputPortMappingEdit.java | 51 - .../RemoveActivityOutputPortMappingEdit.java | 51 - .../t2/workflow/edits/RemoveChildEdit.java | 48 - .../t2/workflow/edits/RemoveDataLinkEdit.java | 111 - .../edits/RemoveProcessorInputPortEdit.java | 31 - .../edits/RemoveProcessorOutputPortEdit.java | 31 - .../edits/RemoveWorkflowInputPortEdit.java | 107 - .../edits/RemoveWorkflowOutputPortEdit.java | 105 - .../taverna/t2/workflow/edits/RenameEdit.java | 136 - .../edits/ReorderMergePositionsEdit.java | 57 - .../edits/SetIterationStrategyStackEdit.java | 51 - .../UpdateDataflowInternalIdentifierEdit.java | 48 - taverna-workbench-edits-impl/pom.xml | 49 - .../workbench/edits/impl/EditManagerImpl.java | 285 -- .../edits/impl/menu/AbstractUndoAction.java | 166 - .../edits/impl/menu/RedoMenuAction.java | 86 - .../edits/impl/menu/UndoMenuAction.java | 86 - .../edits/impl/menu/UndoMenuSection.java | 42 - .../edits/impl/toolbar/EditToolbarSection.java | 36 - .../edits/impl/toolbar/RedoToolbarAction.java | 46 - .../edits/impl/toolbar/UndoToolbarAction.java | 46 - .../net.sf.taverna.t2.ui.menu.MenuComponent | 6 - ...et.sf.taverna.t2.workbench.edits.EditManager | 1 - .../META-INF/spring/edits-impl-context-osgi.xml | 20 - .../META-INF/spring/edits-impl-context.xml | 33 - .../edits/impl/TestEditManagerImpl.java | 258 -- taverna-workbench-file-api/pom.xml | 31 - .../AbstractDataflowPersistenceHandler.java | 69 - .../taverna/t2/workbench/file/DataflowInfo.java | 108 - .../file/DataflowPersistenceHandler.java | 152 - .../taverna/t2/workbench/file/FileManager.java | 573 --- .../sf/taverna/t2/workbench/file/FileType.java | 67 - .../file/events/AbstractDataflowEvent.java | 45 - .../file/events/ClosedDataflowEvent.java | 34 - .../file/events/ClosingDataflowEvent.java | 45 - .../workbench/file/events/FileManagerEvent.java | 39 - .../file/events/OpenedDataflowEvent.java | 34 - .../file/events/SavedDataflowEvent.java | 34 - .../file/events/SetCurrentDataflowEvent.java | 35 - .../file/exceptions/FileException.java | 44 - .../file/exceptions/OpenException.java | 40 - .../file/exceptions/OverwriteException.java | 36 - .../file/exceptions/SaveException.java | 40 - .../file/exceptions/UnsavedException.java | 38 - taverna-workbench-file-impl/pom.xml | 104 - .../DataflowFromDataflowPersistenceHandler.java | 49 - .../DataflowPersistenceHandlerRegistry.java | 238 -- .../workbench/file/impl/FileDataflowInfo.java | 67 - .../t2/workbench/file/impl/FileManagerImpl.java | 601 --- .../workbench/file/impl/FileTypeFileFilter.java | 55 - .../workbench/file/impl/MultipleFileTypes.java | 58 - .../file/impl/OpenDataflowInProgressDialog.java | 88 - .../workbench/file/impl/OpenDataflowInfo.java | 93 - .../file/impl/OpenDataflowRunnable.java | 71 - .../file/impl/OpenDataflowSwingWorker.java | 67 - .../workbench/file/impl/T2DataflowOpener.java | 144 - .../t2/workbench/file/impl/T2FileFilter.java | 40 - .../t2/workbench/file/impl/T2FlowFileType.java | 42 - .../file/impl/WorkflowBundleFileFilter.java | 40 - .../file/impl/WorkflowBundleFileType.java | 42 - .../file/impl/WorkflowBundleOpener.java | 143 - .../file/impl/WorkflowBundleSaver.java | 145 - .../impl/actions/CloseAllWorkflowsAction.java | 85 - .../file/impl/actions/CloseWorkflowAction.java | 107 - .../file/impl/actions/NewWorkflowAction.java | 58 - .../impl/actions/OpenNestedWorkflowAction.java | 76 - .../file/impl/actions/OpenWorkflowAction.java | 395 -- .../impl/actions/OpenWorkflowFromURLAction.java | 139 - .../file/impl/actions/PasswordInput.java | 221 -- .../impl/actions/SaveAllWorkflowsAction.java | 104 - .../file/impl/actions/SaveWorkflowAction.java | 175 - .../file/impl/actions/SaveWorkflowAsAction.java | 219 -- .../impl/hooks/CloseWorkflowsOnShutdown.java | 56 - .../file/impl/menu/FileCloseAllMenuAction.java | 51 - .../file/impl/menu/FileCloseMenuAction.java | 50 - .../file/impl/menu/FileNewMenuAction.java | 47 - .../impl/menu/FileOpenFromURLMenuAction.java | 48 - .../file/impl/menu/FileOpenMenuAction.java | 47 - .../file/impl/menu/FileOpenMenuSection.java | 36 - .../impl/menu/FileOpenRecentMenuAction.java | 418 -- .../file/impl/menu/FileSaveAllMenuAction.java | 47 - .../file/impl/menu/FileSaveAsMenuAction.java | 43 - .../file/impl/menu/FileSaveMenuAction.java | 46 - .../file/impl/menu/FileSaveMenuSection.java | 36 - .../workbench/file/impl/menu/WorkflowsMenu.java | 163 - .../file/impl/toolbar/CloseToolbarAction.java | 55 - .../impl/toolbar/FileToolbarMenuSection.java | 36 - .../file/impl/toolbar/NewToolbarAction.java | 47 - .../file/impl/toolbar/OpenToolbarAction.java | 47 - .../OpenWorkflowFromURLToolbarAction.java | 47 - .../file/impl/toolbar/SaveToolbarAction.java | 50 - .../net.sf.taverna.t2.ui.menu.MenuComponent | 20 - .../net.sf.taverna.t2.workbench.ShutdownSPI | 1 - ...t2.workbench.file.DataflowPersistenceHandler | 2 - ...net.sf.taverna.t2.workbench.file.FileManager | 1 - .../META-INF/spring/file-impl-context-osgi.xml | 100 - .../META-INF/spring/file-impl-context.xml | 123 - .../t2/workbench/file/impl/FileManagerTest.java | 385 -- .../workbench/file/impl/dummy-workflow.t2flow | 157 - taverna-workbench-graph-model/pom.xml | 129 - .../models/graph/DefaultGraphEventManager.java | 271 -- .../t2/workbench/models/graph/DotWriter.java | 253 -- .../t2/workbench/models/graph/Graph.java | 165 - .../models/graph/GraphColorManager.java | 75 - .../workbench/models/graph/GraphController.java | 1276 ------- .../t2/workbench/models/graph/GraphEdge.java | 137 - .../t2/workbench/models/graph/GraphElement.java | 430 --- .../models/graph/GraphEventManager.java | 47 - .../t2/workbench/models/graph/GraphNode.java | 153 - .../models/graph/GraphShapeElement.java | 119 - .../workbench/models/graph/dot/GraphLayout.java | 326 -- .../t2/workbench/models/graph/svg/SVGGraph.java | 439 --- .../models/graph/svg/SVGGraphController.java | 555 --- .../models/graph/svg/SVGGraphEdge.java | 311 -- .../graph/svg/SVGGraphElementDelegate.java | 178 - .../models/graph/svg/SVGGraphNode.java | 611 --- .../models/graph/svg/SVGGraphSettings.java | 28 - .../models/graph/svg/SVGMonitorShape.java | 40 - .../t2/workbench/models/graph/svg/SVGShape.java | 29 - .../t2/workbench/models/graph/svg/SVGUtil.java | 477 --- .../graph/svg/event/SVGEventListener.java | 56 - .../svg/event/SVGMouseClickEventListener.java | 45 - .../svg/event/SVGMouseDownEventListener.java | 45 - .../svg/event/SVGMouseMovedEventListener.java | 46 - .../svg/event/SVGMouseOutEventListener.java | 46 - .../svg/event/SVGMouseOverEventListener.java | 46 - .../svg/event/SVGMouseUpEventListener.java | 46 - .../src/main/jjtree/NamedNode.java | 65 - .../src/main/jjtree/dotparser.jjt | 289 -- .../models/graph/GraphControllerTest.java | 81 - .../workbench/models/graph/GraphEdgeTest.java | 129 - .../models/graph/GraphElementTest.java | 148 - .../workbench/models/graph/GraphNodeTest.java | 179 - .../t2/workbench/models/graph/GraphTest.java | 138 - .../src/test/resources/nested_iteration.xml | 121 - taverna-workbench-graph-view/pom.xml | 88 - .../views/graph/AutoScrollInteractor.java | 181 - .../views/graph/GraphViewComponent.java | 548 --- .../views/graph/GraphViewComponentFactory.java | 100 - .../views/graph/actions/AddWFInputAction.java | 69 - .../views/graph/actions/AddWFOutputAction.java | 69 - .../actions/DeleteGraphComponentAction.java | 180 - .../RenameWFInputOutputProcessorAction.java | 184 - .../graph/config/GraphViewConfiguration.java | 80 - .../config/GraphViewConfigurationPanel.java | 360 -- .../config/GraphViewConfigurationUIFactory.java | 55 - .../views/graph/menu/AddWFInputMenuAction.java | 60 - .../views/graph/menu/AddWFOutputMenuAction.java | 60 - .../menu/DeleteGraphComponentMenuAction.java | 61 - .../workbench/views/graph/menu/DiagramMenu.java | 44 - .../graph/menu/DiagramSaveMenuSection.java | 39 - .../graph/menu/DiagramZoomMenuSection.java | 40 - .../views/graph/menu/GraphCopyMenuSection.java | 39 - .../graph/menu/GraphDeleteMenuSection.java | 39 - .../graph/menu/GraphDetailsMenuSection.java | 40 - .../views/graph/menu/GraphEditMenuSection.java | 39 - .../views/graph/menu/GraphMenuSection.java | 39 - .../workbench/views/graph/menu/InsertMenu.java | 30 - .../RenameWFInputOutputProcessorMenuAction.java | 62 - .../views/graph/menu/ResetDiagramAction.java | 64 - .../graph/menu/ResetDiagramMenuAction.java | 50 - .../views/graph/menu/SaveGraphImageSubMenu.java | 315 -- .../views/graph/menu/ZoomInAction.java | 72 - .../views/graph/menu/ZoomInMenuAction.java | 50 - .../views/graph/menu/ZoomOutAction.java | 65 - .../views/graph/menu/ZoomOutMenuAction.java | 50 - .../graph/toolbar/AddWFInputToolbarAction.java | 60 - .../graph/toolbar/AddWFOutputToolbarAction.java | 60 - .../DeleteGraphComponentToolbarAction.java | 60 - .../toolbar/GraphDeleteToolbarSection.java | 39 - .../graph/toolbar/GraphEditToolbarSection.java | 39 - ...nameWFInputOutputProcessorToolbarAction.java | 63 - .../net.sf.taverna.t2.ui.menu.MenuComponent | 29 - ...rkbench.configuration.ConfigurationUIFactory | 1 - ....t2.workbench.ui.zaria.UIComponentFactorySPI | 1 - ...taverna.t2.workbench.ui.zaria.UIComponentSPI | 1 - .../META-INF/spring/graph-view-context-osgi.xml | 46 - .../META-INF/spring/graph-view-context.xml | 107 - .../src/test/resources/nested_iteration.t2flow | 111 - .../src/test/resources/nested_iteration.xml | 120 - taverna-workbench-helper-api/pom.xml | 58 - .../t2/workbench/helper/HelpCollator.java | 307 -- .../t2/workbench/helper/HelpEnabledDialog.java | 101 - .../sf/taverna/t2/workbench/helper/Helper.java | 187 - .../helper/NonBlockedHelpEnabledDialog.java | 40 - taverna-workbench-helper/pom.xml | 19 - taverna-workbench-httpproxy-config/pom.xml | 30 - .../config/HttpProxyConfigurationPanel.java | 582 --- .../config/HttpProxyConfigurationUIFactory.java | 56 - ...rkbench.configuration.ConfigurationUIFactory | 1 - .../spring/httpproxy-config-context-osgi.xml | 13 - .../spring/httpproxy-config-context.xml | 10 - taverna-workbench-iteration-strategy-ui/pom.xml | 63 - .../IterationStrategyIcons.java | 48 - .../IterationStrategyConfigurationDialog.java | 148 - .../IterationStrategyContextualView.java | 231 -- .../IterationStrategyContextualViewFactory.java | 54 - .../editor/IterationStrategyCellRenderer.java | 74 - .../editor/IterationStrategyEditor.java | 247 -- .../editor/IterationStrategyEditorControl.java | 439 --- .../editor/IterationStrategyTree.java | 106 - .../IterationStrategyConfigureMenuAction.java | 65 - .../net.sf.taverna.t2.ui.menu.MenuComponent | 1 - ...ntextualviews.activity.ContextualViewFactory | 1 - .../iteration-strategy-ui-context-osgi.xml | 14 - .../spring/iteration-strategy-ui-context.xml | 11 - .../icons/crossproducticon.png | Bin 831 -> 0 bytes .../iterationstrategy/icons/dotproducticon.png | Bin 663 -> 0 bytes .../iterationstrategy/icons/leafnodeicon.png | Bin 507 -> 0 bytes .../editor/RunIterationStrategyEditor.java | 56 - taverna-workbench-loop-ui/pom.xml | 71 - .../t2/workbench/loop/ActivityGenerator.java | 195 - .../t2/workbench/loop/AddLoopFactory.java | 125 - .../t2/workbench/loop/LoopAddMenuAction.java | 73 - .../workbench/loop/LoopConfigurationPanel.java | 588 --- .../t2/workbench/loop/LoopConfigureAction.java | 262 -- .../workbench/loop/LoopConfigureMenuAction.java | 97 - .../t2/workbench/loop/LoopContextualView.java | 172 - .../loop/LoopContextualViewFactory.java | 53 - .../t2/workbench/loop/LoopRemoveMenuAction.java | 92 - .../workbench/loop/comparisons/Comparison.java | 47 - .../t2/workbench/loop/comparisons/EqualTo.java | 40 - .../loop/comparisons/IsGreaterThan.java | 40 - .../workbench/loop/comparisons/IsLessThan.java | 40 - .../t2/workbench/loop/comparisons/Matches.java | 40 - .../workbench/loop/comparisons/NotEqualTo.java | 40 - .../workbench/loop/comparisons/NotMatches.java | 40 - .../net.sf.taverna.t2.ui.menu.MenuComponent | 3 - ....ui.views.contextualviews.AddLayerFactorySPI | 1 - ...ntextualviews.activity.ContextualViewFactory | 1 - .../META-INF/spring/loop-ui-context-osgi.xml | 21 - .../META-INF/spring/loop-ui-context.xml | 32 - .../t2/workbench/loop/ShowContextualView.java | 121 - .../src/test/resources/log4j.properties | 10 - taverna-workbench-menu-api/pom.xml | 28 - .../ui/menu/AbstractContextualMenuAction.java | 64 - .../net/sf/taverna/t2/ui/menu/AbstractMenu.java | 123 - .../taverna/t2/ui/menu/AbstractMenuAction.java | 135 - .../taverna/t2/ui/menu/AbstractMenuCustom.java | 144 - .../sf/taverna/t2/ui/menu/AbstractMenuItem.java | 144 - .../t2/ui/menu/AbstractMenuOptionGroup.java | 79 - .../taverna/t2/ui/menu/AbstractMenuSection.java | 113 - .../taverna/t2/ui/menu/AbstractMenuToggle.java | 132 - .../sf/taverna/t2/ui/menu/AbstractToolBar.java | 74 - .../t2/ui/menu/ContextualMenuComponent.java | 35 - .../taverna/t2/ui/menu/ContextualSelection.java | 48 - .../t2/ui/menu/DefaultContextualMenu.java | 53 - .../sf/taverna/t2/ui/menu/DefaultMenuBar.java | 50 - .../sf/taverna/t2/ui/menu/DefaultToolBar.java | 51 - .../sf/taverna/t2/ui/menu/DesignOnlyAction.java | 32 - .../t2/ui/menu/DesignOrResultsAction.java | 32 - .../sf/taverna/t2/ui/menu/MenuComponent.java | 277 -- .../net/sf/taverna/t2/ui/menu/MenuManager.java | 339 -- .../net/sf/taverna/t2/ui/menu/package-info.java | 141 - .../net.sf.taverna.t2.ui.menu.MenuComponent | 4 - .../META-INF/spring/menu-api-context-osgi.xml | 13 - .../META-INF/spring/menu-api-context.xml | 10 - taverna-workbench-menu-impl/pom.xml | 66 - .../t2/ui/menu/impl/MenuManagerImpl.java | 880 ----- .../t2/workbench/ui/impl/menu/AdvancedMenu.java | 44 - .../t2/workbench/ui/impl/menu/EditMenu.java | 43 - .../ui/impl/menu/FeedbackMenuAction.java | 75 - .../t2/workbench/ui/impl/menu/FileMenu.java | 48 - .../t2/workbench/ui/impl/menu/HelpMenu.java | 44 - .../ui/impl/menu/OnlineHelpMenuAction.java | 68 - .../ui/impl/menu/ShowLogsAndDataMenuAction.java | 89 - .../ui/impl/menu/ViewShowMenuSection.java | 40 - .../net.sf.taverna.t2.ui.menu.MenuManager | 1 - .../META-INF/spring/menu-impl-context-osgi.xml | 26 - .../META-INF/spring/menu-impl-context.xml | 25 - taverna-workbench-menu-items/pom.xml | 73 - .../AbstractConnectPortMenuActions.java | 268 -- .../activityport/ActivityInputPortSection.java | 67 - .../activityport/ActivityOutputPortSection.java | 67 - .../AddInputPortDefaultValueAction.java | 150 - .../ConnectInputPortMenuActions.java | 41 - .../ConnectOutputPortMenuActions.java | 41 - .../items/activityport/ConnectPortsAction.java | 68 - .../CreateAndConnectDataflowPortAction.java | 226 -- .../SetConstantInputPortValueMenuAction.java | 73 - .../SetDefaultInputPortValueAction.java | 171 - .../annotated/AnnotatedConfigureMenuAction.java | 77 - .../ConfigureRunningContextualMenuSection.java | 50 - .../items/contextualviews/ConfigureSection.java | 61 - .../menu/items/contextualviews/EditSection.java | 73 - .../items/contextualviews/InsertSection.java | 63 - .../items/contextualviews/PasteMenuAction.java | 74 - .../ShowConfigureMenuAction.java | 165 - .../ShowDetailsContextualMenuAction.java | 65 - .../contextualviews/ShowDetailsMenuAction.java | 81 - .../ShowReportsContextualMenuAction.java | 103 - .../items/controllink/ConditionSection.java | 71 - .../controllink/RemoveConditionMenuAction.java | 67 - .../t2/ui/menu/items/datalink/LinkSection.java | 73 - .../items/datalink/RemoveLinkMenuAction.java | 66 - .../ConnectDataflowInputPortMenuActions.java | 42 - .../ConnectDataflowOutputPortMenuActions.java | 42 - .../ports/EditDataflowInputPortMenuAction.java | 68 - .../ports/EditDataflowOutputPortMenuAction.java | 68 - .../RemoveDataflowInputPortMenuAction.java | 68 - .../RemoveDataflowOutputPortMenuAction.java | 68 - .../items/ports/WorkflowInputPortSection.java | 73 - .../items/ports/WorkflowOutputPortSection.java | 73 - .../items/processor/ConditionMenuActions.java | 118 - .../menu/items/processor/ProcessorSection.java | 58 - .../processor/RemoveProcessorMenuAction.java | 67 - .../processor/RenameProcessorMenuAction.java | 68 - .../items/workflow/CreateInputMenuAction.java | 62 - .../items/workflow/CreateOutputMenuAction.java | 62 - .../WorkflowServiceTemplatesSection.java | 76 - .../net.sf.taverna.t2.ui.menu.MenuComponent | 46 - .../META-INF/spring/menu-items-context-osgi.xml | 57 - .../META-INF/spring/menu-items-context.xml | 124 - taverna-workbench-monitor-view/pom.xml | 67 - .../views/monitor/MonitorViewComponent.java | 168 - .../views/monitor/graph/GraphMonitor.java | 140 - .../views/monitor/graph/GraphMonitorNode.java | 115 - .../monitor/graph/MonitorGraphComponent.java | 378 -- .../progressreport/TableMonitorComponent.java | 100 - .../WorkflowRunProgressTreeCellRenderer.java | 96 - .../WorkflowRunProgressTreeTable.java | 112 - .../WorkflowRunProgressTreeTableModel.java | 279 -- ....t2.workbench.ui.zaria.UIComponentFactorySPI | 1 - ...taverna.t2.workbench.ui.zaria.UIComponentSPI | 1 - .../spring/monitor-view-context-osgi.xml | 9 - .../META-INF/spring/monitor-view-context.xml | 6 - taverna-workbench-parallelize-ui/pom.xml | 42 - .../ParallelizeConfigurationPanel.java | 99 - .../parallelize/ParallelizeConfigureAction.java | 185 - .../ParallelizeConfigureMenuAction.java | 77 - .../parallelize/ParallelizeContextualView.java | 130 - .../ParallelizeContextualViewFactory.java | 56 - .../net.sf.taverna.t2.ui.menu.MenuComponent | 1 - ...ntextualviews.activity.ContextualViewFactory | 1 - .../spring/parallelize-ui-context-osgi.xml | 16 - .../META-INF/spring/parallelize-ui-context.xml | 16 - .../LocalTestLauncher.bat | 14 - .../lib/core-renderer.jar | Bin 1079323 -> 0 bytes .../log4j.properties | 4 - .../pom.xml | 183 - .../move_scomp_results_into_project.bat | 29 - .../scomp_compile_from_web.bat | 9 - .../scomp_compile_from_web_to_jar.bat | 9 - .../doc/BioCatalogue Plugin Documentation.odt | Bin 77721 -> 0 bytes .../src/main/help/Index-TOC-Map-Additions.txt | 20 - .../main/help/biocatalogue-plugin-features.html | 113 - .../main/help/biocatalogue-plugin-feedback.html | 28 - .../src/main/help/biocatalogue-plugin.html | 54 - .../model/BioCataloguePluginConstants.java | 77 - .../model/HTTPMethodInterpreter.java | 46 - .../model/LoadingExpandedResource.java | 41 - .../biocatalogue/model/LoadingResource.java | 39 - .../net/sf/taverna/biocatalogue/model/Pair.java | 30 - .../sf/taverna/biocatalogue/model/Resource.java | 506 --- .../biocatalogue/model/ResourceManager.java | 326 -- .../model/ResourcePreviewContent.java | 38 - .../model/SoapOperationIdentity.java | 77 - .../model/SoapOperationPortIdentity.java | 26 - .../model/SoapProcessorIdentity.java | 27 - .../biocatalogue/model/SoapServiceIdentity.java | 45 - .../net/sf/taverna/biocatalogue/model/Tag.java | 218 -- .../net/sf/taverna/biocatalogue/model/Util.java | 793 ---- .../BeanForPOSTToFilteredIndex.java | 12 - .../model/connectivity/BeansForJSONLiteAPI.java | 84 - .../connectivity/BioCatalogueAPIRequest.java | 47 - .../model/connectivity/BioCatalogueClient.java | 785 ---- .../model/connectivity/ServerResponse.java | 40 - .../connectivity/ServerResponseStream.java | 30 - .../biocatalogue/model/search/SearchEngine.java | 221 -- .../model/search/SearchInstance.java | 490 --- .../model/search/SearchInstanceTracker.java | 57 - .../model/search/SearchOptions.java | 70 - .../model/search/SearchResults.java | 214 -- .../model/search/ServiceFilteringSettings.java | 184 - .../biocatalogue/test/AnnotationBean.java | 52 - .../biocatalogue/test/DrawDefaultIconTest.java | 38 - .../sf/taverna/biocatalogue/test/GSONTest.java | 19 - .../test/GSONTest_exportingJSON.java | 30 - .../test/GSONTest_forSoapOperationsIndex.java | 27 - .../biocatalogue/test/JWaitDialogTest.java | 36 - .../biocatalogue/test/LinkedListEqualsTest.java | 25 - .../biocatalogue/test/TestAPICaller.java | 241 -- .../test/TestDoubleUsageOfSameSwingElement.java | 32 - .../biocatalogue/test/TestUtilURLHandling.java | 87 - .../biocatalogue/test/TestXHTMLRenderer.java | 42 - .../biocatalogue/test/WrappableJLabelTest.java | 35 - .../taverna/biocatalogue/test/XStreamTest.java | 32 - .../ui/BioCatalogueExplorationTab.java | 131 - .../ui/HasDefaultFocusCapability.java | 15 - .../biocatalogue/ui/JClickableLabel.java | 172 - .../sf/taverna/biocatalogue/ui/JWaitDialog.java | 234 -- .../biocatalogue/ui/SearchOptionsPanel.java | 167 - .../ui/filtertree/FilterTreeNode.java | 91 - .../ui/filtertree/FilterTreePane.java | 348 -- .../biocatalogue/ui/filtertree/JFilterTree.java | 69 - ...xpandableOnDemandLoadedListCellRenderer.java | 220 -- .../RESTMethodListCellRenderer.java | 248 -- .../SOAPOperationListCellRenderer.java | 257 -- .../SearchResultsListingPanel.java | 870 ----- .../search_results/SearchResultsMainPanel.java | 498 --- .../search_results/SearchResultsRenderer.java | 47 - .../search_results/ServiceListCellRenderer.java | 291 -- .../ui/tristatetree/JTriStateTree.java | 631 ---- .../tristatetree/Swing - Tristate CheckBox.7z | Bin 108419 -> 0 bytes .../biocatalogue/ui/tristatetree/Test.java | 67 - .../ui/tristatetree/TriStateCheckBox.java | 172 - .../TriStateCheckBoxTreeCellRenderer.java | 62 - .../TriStateTreeCheckingListener.java | 12 - .../ui/tristatetree/TriStateTreeNode.java | 246 -- .../biocatalogue/BioCataloguePerspective.java | 70 - .../biocatalogue/MainComponent.java | 285 -- .../biocatalogue/MainComponentFactory.java | 46 - .../biocatalogue/MainComponentShutdownHook.java | 49 - .../biocatalogue/TestJFrameForLocalLaunch.java | 68 - .../biocatalogue/integration/Integration.java | 518 --- .../config/BioCataloguePluginConfiguration.java | 68 - .../BioCataloguePluginConfigurationPanel.java | 448 --- ...ioCataloguePluginConfigurationUIFactory.java | 27 - ...aloguePluginInputPortContextViewFactory.java | 45 - ...loguePluginOutputPortContextViewFactory.java | 45 - ...aloguePluginProcessorContextViewFactory.java | 43 - .../ProcessorInputPortView.java | 52 - .../ProcessorOutputPortView.java | 52 - .../contextual_views/ProcessorView.java | 229 -- .../BioCatalogueWSDLActivityHealthCheck.java | 40 - ...ueWSDLActivityHealthCheckVisitExplainer.java | 111 - .../BioCatalogueWSDLActivityHealthChecker.java | 199 - .../health_check/ServiceHealthChecker.java | 280 -- .../ServiceMonitoringStatusInterpreter.java | 77 - .../BioCatalogueContextualMenuSection.java | 62 - .../integration/menus/MenuActionInputPort.java | 43 - .../menus/MenuActionProcessorHealthCheck.java | 51 - .../BioCatalogueRESTServiceProvider.java | 117 - .../BioCatalogueServiceProvider.java | 274 -- ...ioCatalogueWSDLOperationServiceProvider.java | 215 -- .../RESTFromBioCatalogueServiceDescription.java | 194 - ...ationFromBioCatalogueServiceDescription.java | 116 - ...rvicedescriptions.ServiceDescriptionProvider | 2 - .../net.sf.taverna.t2.ui.menu.MenuComponent | 2 - .../net.sf.taverna.t2.workbench.ShutdownSPI | 1 - ...rkbench.configuration.ConfigurationUIFactory | 1 - ...t2.workbench.report.explainer.VisitExplainer | 1 - ...ntextualviews.activity.ContextualViewFactory | 3 - ...taverna.t2.workbench.ui.zaria.PerspectiveSPI | 1 - ....t2.workbench.ui.zaria.UIComponentFactorySPI | 1 - ...taverna.t2.workbench.ui.zaria.UIComponentSPI | 1 - ...averna.t2.workflowmodel.health.HealthChecker | 1 - .../ajax-loader-grey-bert2-still.png | Bin 1271 -> 0 bytes .../biocatalogue/ajax-loader-grey-bert2.gif | Bin 3951 -> 0 bytes .../ajax-loader-orange-bert2-still.png | Bin 1214 -> 0 bytes .../biocatalogue/ajax-loader-orange-bert2.gif | Bin 3951 -> 0 bytes .../biocatalogue/ajax-loader-still.gif | Bin 889 -> 0 bytes .../perspectives/biocatalogue/ajax-loader.gif | Bin 1456 -> 0 bytes .../biocatalogue/biocatalogue-perspective.xml | 19 - .../biocatalogue/biocatalogue_styles.css | 2673 ------------- .../biocatalogue/blue-sphere-50.png | Bin 1936 -> 0 bytes .../biocatalogue/cross-sphere-35.png | Bin 2748 -> 0 bytes .../biocatalogue/cross-sphere-50.png | Bin 7161 -> 0 bytes .../biocatalogue/famfamfam_silk/accept.png | Bin 781 -> 0 bytes .../biocatalogue/famfamfam_silk/add - tick.pdn | Bin 5367 -> 0 bytes .../biocatalogue/famfamfam_silk/add - tick.png | Bin 784 -> 0 bytes .../biocatalogue/famfamfam_silk/add.png | Bin 733 -> 0 bytes .../famfamfam_silk/application_form_add.png | Bin 592 -> 0 bytes .../arrow_join (flipped vertically).png | Bin 669 -> 0 bytes .../biocatalogue/famfamfam_silk/arrow_left.png | Bin 557 -> 0 bytes .../famfamfam_silk/arrow_refresh.png | Bin 685 -> 0 bytes .../biocatalogue/famfamfam_silk/arrow_right.png | Bin 596 -> 0 bytes .../famfamfam_silk/chart_organisation.png | Bin 444 -> 0 bytes .../biocatalogue/famfamfam_silk/cross.png | Bin 655 -> 0 bytes .../biocatalogue/famfamfam_silk/disk.png | Bin 620 -> 0 bytes .../biocatalogue/famfamfam_silk/error.png | Bin 666 -> 0 bytes .../biocatalogue/famfamfam_silk/exclamation.png | Bin 701 -> 0 bytes .../external_link_listing_small.png | Bin 456 -> 0 bytes .../famfamfam_silk/folder_explore.png | Bin 679 -> 0 bytes .../biocatalogue/famfamfam_silk/grey_circle.png | Bin 586 -> 0 bytes .../biocatalogue/famfamfam_silk/help.png | Bin 786 -> 0 bytes .../biocatalogue/famfamfam_silk/information.png | Bin 778 -> 0 bytes .../biocatalogue/famfamfam_silk/lightbulb.png | Bin 782 -> 0 bytes .../biocatalogue/famfamfam_silk/lock.png | Bin 749 -> 0 bytes .../biocatalogue/famfamfam_silk/lock_open.png | Bin 727 -> 0 bytes .../biocatalogue/famfamfam_silk/magnifier.png | Bin 615 -> 0 bytes .../famfamfam_silk/multiple_star.png | Bin 676 -> 0 bytes .../famfamfam_silk/page_white_code.png | Bin 603 -> 0 bytes .../biocatalogue/famfamfam_silk/plugin.png | Bin 591 -> 0 bytes .../famfamfam_silk/remote_resource.png | Bin 957 -> 0 bytes .../biocatalogue/famfamfam_silk/server.png | Bin 530 -> 0 bytes .../biocatalogue/famfamfam_silk/star.png | Bin 670 -> 0 bytes .../biocatalogue/famfamfam_silk/style.png | Bin 813 -> 0 bytes .../biocatalogue/famfamfam_silk/sum.png | Bin 289 -> 0 bytes .../biocatalogue/famfamfam_silk/tag_blue.png | Bin 586 -> 0 bytes .../text_linespacing (collapse).png | Bin 371 -> 0 bytes .../famfamfam_silk/text_linespacing.png | Bin 363 -> 0 bytes .../famfamfam_silk/text_list_numbers.png | Bin 357 -> 0 bytes .../biocatalogue/famfamfam_silk/tick.png | Bin 537 -> 0 bytes .../biocatalogue/famfamfam_silk/user.png | Bin 741 -> 0 bytes .../t2/ui/perspectives/biocatalogue/favicon.png | Bin 1336 -> 0 bytes .../ui/perspectives/biocatalogue/folds/fold.png | Bin 331 -> 0 bytes .../biocatalogue/folds/fold_16x16.png | Bin 361 -> 0 bytes .../perspectives/biocatalogue/folds/unfold.png | Bin 334 -> 0 bytes .../biocatalogue/folds/unfold_16x16.png | Bin 354 -> 0 bytes .../biocatalogue/info-sphere-35.png | Bin 2492 -> 0 bytes .../biocatalogue/info-sphere-50.png | Bin 2439 -> 0 bytes .../biocatalogue/open_in_BioCatalogue.pdn | Bin 5128 -> 0 bytes .../biocatalogue/open_in_BioCatalogue.png | Bin 663 -> 0 bytes .../biocatalogue/pling-sphere-35.png | Bin 2275 -> 0 bytes .../biocatalogue/pling-sphere-50.png | Bin 1724 -> 0 bytes .../biocatalogue/query-sphere-35.png | Bin 2473 -> 0 bytes .../biocatalogue/query-sphere-50.png | Bin 1854 -> 0 bytes .../service_icons/service_type_multitype.png | Bin 1133 -> 0 bytes .../service_icons/service_type_rest.png | Bin 1137 -> 0 bytes .../service_icons/service_type_soap.png | Bin 1131 -> 0 bytes .../service_icons/service_type_unknown.png | Bin 1076 -> 0 bytes .../soap_rest_multitype_unknown.pdn | Bin 6693 -> 0 bytes .../t2/ui/perspectives/biocatalogue/styles.css | 290 -- .../t2/ui/perspectives/biocatalogue/test.html | 78 - .../biocatalogue/tick-sphere-35.png | Bin 2479 -> 0 bytes .../biocatalogue/tick-sphere-50.png | Bin 1909 -> 0 bytes .../t2/ui/perspectives/biocatalogue/trash.png | Bin 460 -> 0 bytes .../tristate_checkbox_checked.png | Bin 1050 -> 0 bytes .../tristate_checkbox_partial.png | Bin 1042 -> 0 bytes .../tristate_checkbox_partial_green.png | Bin 993 -> 0 bytes .../tristate_checkbox_unchecked.png | Bin 1033 -> 0 bytes .../ui/perspectives/biocatalogue/unchecked.png | Bin 3636 -> 0 bytes .../src/main/xsd/dc.xsd | 119 - .../src/main/xsd/dcterms.xsd | 137 - .../src/main/xsd/schema-v1.xsd | 3557 ------------------ .../src/main/xsd/xlink.xsd | 83 - taverna-workbench-perspective-design/pom.xml | 83 - .../perspectives/design/DesignPerspective.java | 118 - .../design/DesignPerspectiveComponent.java | 115 - .../design/WorkflowBundleSelectorComponent.java | 113 - .../design/WorkflowSelectorComponent.java | 167 - .../t2/ui/perspectives/design/WorkflowTab.java | 133 - ...taverna.t2.workbench.ui.zaria.PerspectiveSPI | 1 - .../spring/perspective-design-context-osgi.xml | 21 - .../spring/perspective-design-context.xml | 18 - .../pom.xml | 85 - .../myexperiment/AddCommentDialog.java | 330 -- .../myexperiment/AddRemoveFavouriteDialog.java | 277 -- .../myexperiment/ExampleWorkflowsPanel.java | 153 - .../HistoryBrowserTabContentPanel.java | 541 --- .../myexperiment/JClickableLabel.java | 127 - .../myexperiment/MainComponent.java | 645 ---- .../myexperiment/MainComponentFactory.java | 60 - .../myexperiment/MainComponentShutdownHook.java | 84 - .../myexperiment/MyExperimentPerspective.java | 190 - .../myexperiment/MyStuffContributionsPanel.java | 370 -- .../myexperiment/MyStuffSidebarPanel.java | 359 -- .../myexperiment/MyStuffTabContentPanel.java | 342 -- .../myexperiment/PluginPreferencesDialog.java | 372 -- .../myexperiment/PluginStatusBar.java | 195 - .../myexperiment/ResourceListPanel.java | 182 - .../myexperiment/ResourcePreviewBrowser.java | 711 ---- .../myexperiment/ResourcePreviewContent.java | 78 - .../myexperiment/ResourcePreviewFactory.java | 1359 ------- .../myexperiment/SearchOptionsPanel.java | 317 -- .../myexperiment/SearchResultsPanel.java | 201 - .../myexperiment/SearchTabContentPanel.java | 450 --- .../myexperiment/StyledHTMLEditorKit.java | 19 - .../myexperiment/TagBrowserTabContentPanel.java | 226 -- .../myexperiment/TagCloudPanel.java | 342 -- .../myexperiment/TestJFrameForLocalLaunch.java | 48 - .../myexperiment/UploadWorkflowDialog.java | 849 ----- .../myexperiment/model/Base64$InputStream.class | Bin 2083 -> 0 bytes .../model/Base64$OutputStream.class | Bin 2307 -> 0 bytes .../myexperiment/model/Base64.class | Bin 15458 -> 0 bytes .../perspectives/myexperiment/model/Base64.java | 1813 --------- .../myexperiment/model/Comment.java | 141 - .../perspectives/myexperiment/model/File.java | 237 -- .../perspectives/myexperiment/model/Group.java | 222 -- .../myexperiment/model/License.java | 62 - .../myexperiment/model/MyExperimentClient.class | Bin 3174 -> 0 bytes .../myexperiment/model/MyExperimentClient.java | 1218 ------ .../perspectives/myexperiment/model/Pack.java | 232 -- .../myexperiment/model/PackItem.java | 186 - .../myexperiment/model/Resource.java | 683 ---- .../myexperiment/model/SearchEngine.java | 321 -- .../myexperiment/model/ServerResponse.java | 59 - .../ui/perspectives/myexperiment/model/Tag.java | 125 - .../myexperiment/model/TagCloud.java | 47 - .../perspectives/myexperiment/model/User.java | 297 -- .../perspectives/myexperiment/model/Util.java | 624 --- .../myexperiment/model/Workflow.java | 420 --- .../config/MyExperimentConfiguration.java | 68 - .../config/MyExperimentConfigurationPanel.java | 305 -- .../MyExperimentConfigurationUIFactory.java | 62 - .../TestJFrameForPreferencesLocalLaunch.java | 46 - .../net.sf.taverna.t2.workbench.ShutdownSPI | 1 - ...rkbench.configuration.ConfigurationUIFactory | 1 - ...taverna.t2.workbench.ui.zaria.PerspectiveSPI | 1 - ....t2.workbench.ui.zaria.UIComponentFactorySPI | 1 - ...taverna.t2.workbench.ui.zaria.UIComponentSPI | 1 - .../perspective-myexperiment-context-osgi.xml | 20 - .../spring/perspective-myexperiment-context.xml | 20 - .../myexperiment/ajax-loader-still.gif | Bin 889 -> 0 bytes .../perspectives/myexperiment/ajax-loader.gif | Bin 1456 -> 0 bytes .../ui/perspectives/myexperiment/arrow_left.png | Bin 557 -> 0 bytes .../perspectives/myexperiment/arrow_refresh.png | Bin 685 -> 0 bytes .../perspectives/myexperiment/arrow_right.png | Bin 596 -> 0 bytes .../perspectives/myexperiment/comment_add.png | Bin 530 -> 0 bytes .../myexperiment/comment_delete.png | Bin 548 -> 0 bytes .../t2/ui/perspectives/myexperiment/cross.png | Bin 655 -> 0 bytes .../t2/ui/perspectives/myexperiment/denied.png | Bin 701 -> 0 bytes .../myexperiment/dummy-workflow.t2flow | 157 - .../external_link_listing_small.png | Bin 456 -> 0 bytes .../perspectives/myexperiment/favourite_add.png | Bin 701 -> 0 bytes .../myexperiment/favourite_delete.png | Bin 722 -> 0 bytes .../t2/ui/perspectives/myexperiment/file.png | Bin 562 -> 0 bytes .../t2/ui/perspectives/myexperiment/group.png | Bin 753 -> 0 bytes .../t2/ui/perspectives/myexperiment/login.png | Bin 693 -> 0 bytes .../t2/ui/perspectives/myexperiment/logout.png | Bin 688 -> 0 bytes .../ui/perspectives/myexperiment/myexp_icon.png | Bin 1611 -> 0 bytes .../myexperiment/myexp_icon16x16.png | Bin 1057 -> 0 bytes .../myexperiment/myexperiment-perspective.xml | 17 - .../myexperiment/open_in_myExperiment.png | Bin 621 -> 0 bytes .../t2/ui/perspectives/myexperiment/pack.png | Bin 565 -> 0 bytes .../myexperiment/remote_resource.png | Bin 957 -> 0 bytes .../t2/ui/perspectives/myexperiment/star.png | Bin 670 -> 0 bytes .../t2/ui/perspectives/myexperiment/styles.css | 380 -- .../ui/perspectives/myexperiment/tag_blue.png | Bin 586 -> 0 bytes .../t2/ui/perspectives/myexperiment/tick.png | Bin 537 -> 0 bytes .../myexperiment/transparent_icon.png | Bin 1172 -> 0 bytes .../t2/ui/perspectives/myexperiment/user.png | Bin 741 -> 0 bytes .../ui/perspectives/myexperiment/workflow.png | Bin 975 -> 0 bytes taverna-workbench-perspective-results/pom.xml | 64 - .../results/ResultsPerspective.java | 158 - .../results/ResultsPerspectiveComponent.java | 221 -- .../t2/ui/perspectives/results/RunMonitor.java | 171 - .../results/RunSelectorComponent.java | 72 - .../t2/ui/perspectives/results/RunTab.java | 133 - .../t2/ui/perspectives/results/WorkflowRun.java | 54 - .../results/WorkflowRunListCellRenderer.java | 59 - .../results/WorkflowRunListModel.java | 66 - ...taverna.t2.workbench.ui.zaria.PerspectiveSPI | 1 - .../spring/perspective-results-context-osgi.xml | 27 - .../spring/perspective-results-context.xml | 19 - taverna-workbench-plugin-manager/pom.xml | 49 - .../plugin/impl/AvailablePluginPanel.java | 72 - .../plugin/impl/InstalledPluginPanel.java | 66 - .../plugin/impl/PluginManagerPanel.java | 210 -- .../plugin/impl/PluginManagerView.java | 71 - .../t2/workbench/plugin/impl/PluginPanel.java | 166 - .../plugin/impl/UpdatePluginPanel.java | 72 - .../plugin/impl/menu/PluginMenuAction.java | 56 - .../spring/plugin-manager-context-osgi.xml | 20 - .../META-INF/spring/plugin-manager-context.xml | 15 - taverna-workbench-plugins-gui/pom.xml | 46 - .../raven/plugins/ui/AddPluginSiteFrame.java | 273 -- .../plugins/ui/CheckForNoticeStartupHook.java | 143 - .../raven/plugins/ui/CheckForUpdatesDialog.java | 122 - .../plugins/ui/CheckForUpdatesStartupHook.java | 94 - .../plugins/ui/PluginListCellRenderer.java | 214 -- .../raven/plugins/ui/PluginListModel.java | 108 - .../raven/plugins/ui/PluginManagerFrame.java | 516 --- .../plugins/ui/PluginRepositoryListener.java | 148 - .../raven/plugins/ui/PluginSiteFrame.java | 542 --- .../raven/plugins/ui/UpdatesAvailableIcon.java | 205 - .../profile/ui/ProfileVersionCellRenderer.java | 177 - .../profile/ui/ProfileVersionListFrame.java | 260 -- .../profile/ui/ProfileVersionListModel.java | 101 - .../net.sf.taverna.t2.workbench.StartupSPI | 2 - .../spring/plugins-gui-context-osgi.xml | 11 - .../META-INF/spring/plugins-gui-context.xml | 8 - .../net/sf/taverna/raven/plugins/ui/update.png | Bin 689 -> 0 bytes .../raven/plugins/ui/updateRecommended.png | Bin 731 -> 0 bytes taverna-workbench-reference-ui/pom.xml | 66 - .../t2/reference/ui/CheckWorkflowStatus.java | 97 - .../ui/CopyWorkflowInProgressDialog.java | 91 - .../reference/ui/CopyWorkflowSwingWorker.java | 51 - .../t2/reference/ui/InvalidDataflowReport.java | 95 - .../t2/reference/ui/RegistrationPanel.java | 808 ---- .../sf/taverna/t2/reference/ui/UrlPanel.java | 100 - .../t2/reference/ui/WorkflowLaunchWindow.java | 626 --- .../net/sf/taverna/t2/reference/ui/package.html | 4 - .../ui/referenceactions/LoadInputsFromXML.java | 120 - .../ui/referenceactions/ReferenceActionSPI.java | 38 - .../ui/referenceactions/SaveInputsAsXML.java | 207 - .../reference/ui/tree/PreRegistrationTree.java | 217 -- .../tree/PreRegistrationTreeCellRenderer.java | 115 - .../ui/tree/PreRegistrationTreeDnDHandler.java | 268 -- .../ui/tree/PreRegistrationTreeModel.java | 310 -- .../taverna/t2/reference/ui/tree/package.html | 6 - ...rence.ui.referenceactions.ReferenceActionSPI | 2 - .../spring/reference-ui-context-osgi.xml | 12 - .../META-INF/spring/reference-ui-context.xml | 9 - .../src/main/resources/icons/addtext_co.gif | Bin 335 -> 0 bytes .../main/resources/icons/complete_status.gif | Bin 76 -> 0 bytes .../src/main/resources/icons/deadlock_view.gif | Bin 239 -> 0 bytes .../src/main/resources/icons/delete_obj.gif | Bin 351 -> 0 bytes .../src/main/resources/icons/det_pane_hide.gif | Bin 370 -> 0 bytes .../src/main/resources/icons/error_tsk.gif | Bin 353 -> 0 bytes .../main/resources/icons/errorwarning_tab.gif | Bin 577 -> 0 bytes .../resources/icons/genericregister_obj.gif | Bin 115 -> 0 bytes .../src/main/resources/icons/information.gif | Bin 267 -> 0 bytes .../main/resources/icons/invalid_build_tool.gif | Bin 339 -> 0 bytes .../src/main/resources/icons/newfolder_wiz.gif | Bin 349 -> 0 bytes .../src/main/resources/icons/repo_rep.gif | Bin 588 -> 0 bytes .../src/main/resources/icons/start_task.gif | Bin 318 -> 0 bytes .../src/main/resources/icons/topic.gif | Bin 354 -> 0 bytes .../src/main/resources/icons/web.gif | Bin 362 -> 0 bytes .../src/main/resources/icons/wordassist_co.gif | Bin 152 -> 0 bytes .../src/main/resources/icons/write_obj.gif | Bin 210 -> 0 bytes taverna-workbench-renderers-api/pom.xml | 27 - .../net/sf/taverna/t2/renderers/Renderer.java | 33 - .../taverna/t2/renderers/RendererException.java | 46 - .../taverna/t2/renderers/RendererRegistry.java | 48 - .../sf/taverna/t2/renderers/RendererUtils.java | 89 - taverna-workbench-renderers-exts/pom.xml | 62 - .../t2/renderers/HTMLBrowserRenderer.java | 95 - .../sf/taverna/t2/renderers/JMolRenderer.java | 178 - .../sf/taverna/t2/renderers/PDFRenderer.java | 124 - .../sf/taverna/t2/renderers/SVGRenderer.java | 154 - .../taverna/t2/renderers/SeqVistaRenderer.java | 167 - .../net.sf.taverna.t2.renderers.Renderer | 5 - .../spring/renderers-exts-context-osgi.xml | 15 - .../META-INF/spring/renderers-exts-context.xml | 12 - .../taverna/t2/renderers/TestRendererSPI.java | 153 - taverna-workbench-renderers-impl/pom.xml | 65 - .../t2/renderers/impl/AbstractRenderer.java | 124 - .../renderers/impl/AdvancedImageRenderer.java | 94 - .../t2/renderers/impl/ExtensionFileFilter.java | 77 - .../t2/renderers/impl/HexBinaryRenderer.java | 77 - .../t2/renderers/impl/RendererConstants.java | 13 - .../t2/renderers/impl/RendererRegistryImpl.java | 54 - .../taverna/t2/renderers/impl/TextRenderer.java | 137 - .../t2/renderers/impl/TextRtfRenderer.java | 85 - .../t2/renderers/impl/TextXMLRenderer.java | 86 - .../sf/taverna/t2/renderers/impl/XMLTree.java | 329 -- .../net.sf.taverna.t2.renderers.Renderer | 7 - .../spring/renderers-impl-context-osgi.xml | 19 - .../META-INF/spring/renderers-impl-context.xml | 17 - .../taverna/t2/renderers/TestRendererSPI.java | 154 - taverna-workbench-report-api/pom.xml | 59 - .../t2/workbench/report/ProfileReportEvent.java | 21 - .../t2/workbench/report/ReportManager.java | 44 - .../t2/workbench/report/ReportManagerEvent.java | 10 - .../config/ReportManagerConfiguration.java | 44 - .../services/net.sf.taverna.t2.visit.VisitKind | 1 - ....taverna.t2.visit.fragility.FragilityChecker | 1 - .../META-INF/spring/report-api-context-osgi.xml | 13 - .../META-INF/spring/report-api-context.xml | 10 - taverna-workbench-report-explainer/pom.xml | 102 - .../report/explainer/BasicExplainer.java | 1294 ------- ...t2.workbench.report.explainer.VisitExplainer | 1 - .../spring/report-explainer-context-osgi.xml | 19 - .../spring/report-explainer-context.xml | 15 - taverna-workbench-report-impl/pom.xml | 40 - .../impl/ReportManagerConfigurationImpl.java | 71 - .../report/impl/ReportManagerImpl.java | 564 --- .../spring/report-impl-context-osgi.xml | 23 - .../META-INF/spring/report-impl-context.xml | 21 - taverna-workbench-report-view/pom.xml | 84 - .../ui/ReportManagerConfigurationPanel.java | 363 -- .../ui/ReportManagerConfigurationUIFactory.java | 55 - .../ReportOnObjectContextualMenuAction.java | 189 - .../report/view/ReportOnWorkflowAction.java | 177 - .../report/view/ReportViewComponent.java | 574 --- .../report/view/ReportViewComponentFactory.java | 75 - .../report/view/ReportViewConfigureAction.java | 45 - .../report/view/ReportViewTableModel.java | 284 -- .../workbench/report/view/StatusRenderer.java | 46 - .../report/view/ValidateInProgressDialog.java | 92 - .../view/ValidateObjectInProgressDialog.java | 93 - .../report/view/ValidateObjectSwingWorker.java | 71 - .../report/view/ValidateSwingWorker.java | 123 - .../workbench/report/view/VisitReportProxy.java | 42 - .../report/view/VisitReportProxySet.java | 36 - .../net.sf.taverna.t2.ui.menu.MenuComponent | 1 - ...rkbench.configuration.ConfigurationUIFactory | 1 - ....t2.workbench.ui.zaria.UIComponentFactorySPI | 1 - .../spring/report-view-context-osgi.xml | 25 - .../META-INF/spring/report-view-context.xml | 28 - taverna-workbench-results-view/pom.xml | 112 - .../views/results/InvocationTreeModel.java | 103 - .../views/results/InvocationTreeNode.java | 100 - .../workbench/views/results/InvocationView.java | 136 - .../t2/workbench/views/results/ReportView.java | 420 --- .../views/results/ResultsComponent.java | 233 -- .../views/results/SimpleFilteredTreeModel.java | 68 - .../processor/FilteredIterationTreeModel.java | 91 - .../FilteredProcessorValueTreeModel.java | 70 - .../IntermediateValuesInProgressDialog.java | 89 - .../IntermediateValuesSwingWorker.java | 47 - .../results/processor/IterationTreeNode.java | 99 - .../processor/ProcessorEnactmentsTreeModel.java | 189 - .../processor/ProcessorEnactmentsTreeNode.java | 84 - .../processor/ProcessorPortResultsViewTab.java | 229 -- .../processor/ProcessorResultCellRenderer.java | 89 - .../processor/ProcessorResultTreeNode.java | 181 - .../processor/ProcessorResultsComponent.java | 1004 ----- .../processor/ProcessorResultsTreeModel.java | 73 - .../RenderedProcessorResultComponent.java | 575 --- .../saveactions/SaveAllResultsAsExcel.java | 296 -- .../saveactions/SaveAllResultsAsXML.java | 80 - .../results/saveactions/SaveAllResultsSPI.java | 193 - .../saveactions/SaveAllResultsToFileSystem.java | 94 - .../saveactions/SaveIndividualResult.java | 186 - .../saveactions/SaveIndividualResultSPI.java | 48 - .../results/workflow/DataBundleTreeModel.java | 136 - .../workflow/FilteredDataBundleTreeModel.java | 147 - .../FilteredWorkflowResultTreeModel.java | 126 - .../workflow/PortResultCellRenderer.java | 100 - .../results/workflow/PortResultsViewTab.java | 283 -- .../workflow/RenderedResultComponent.java | 601 --- .../workflow/WorkflowResultTreeModel.java | 197 - .../workflow/WorkflowResultTreeNode.java | 120 - .../workflow/WorkflowResultsComponent.java | 352 -- ...taverna.t2.workbench.ui.zaria.UIComponentSPI | 1 - ....views.results.saveactions.SaveAllResultsSPI | 3 - ....results.saveactions.SaveIndividualResultSPI | 1 - .../spring/results-view-context-osgi.xml | 14 - .../META-INF/spring/results-view-context.xml | 11 - taverna-workbench-retry-ui/pom.xml | 42 - .../retry/RetryConfigurationPanel.java | 172 - .../workbench/retry/RetryConfigureAction.java | 183 - .../retry/RetryConfigureMenuAction.java | 77 - .../t2/workbench/retry/RetryContextualView.java | 165 - .../retry/RetryContextualViewFactory.java | 58 - .../net.sf.taverna.t2.ui.menu.MenuComponent | 1 - ...ntextualviews.activity.ContextualViewFactory | 1 - .../META-INF/spring/retry-ui-context-osgi.xml | 16 - .../META-INF/spring/retry-ui-context.xml | 16 - taverna-workbench-run-ui/pom.xml | 55 - .../run/actions/OpenWorkflowRunAction.java | 135 - .../run/actions/RunWorkflowAction.java | 299 -- .../run/actions/ValidateWorkflowAction.java | 56 - .../WorkflowRunStatusShutdownDialog.java | 153 - .../cleanup/WorkflowRunStatusShutdownHook.java | 110 - .../run/menu/FileOpenRunMenuAction.java | 63 - .../workbench/run/menu/FileRunMenuAction.java | 82 - .../workbench/run/menu/FileRunMenuSection.java | 36 - .../run/menu/FileValidateMenuAction.java | 70 - .../workbench/run/toolbar/RunToolbarAction.java | 82 - .../run/toolbar/RunToolbarSection.java | 36 - .../net.sf.taverna.t2.ui.menu.MenuComponent | 6 - .../net.sf.taverna.t2.workbench.ShutdownSPI | 5 - .../net.sf.taverna.t2.workbench.StartupSPI | 1 - ....t2.workbench.ui.zaria.UIComponentFactorySPI | 1 - ...taverna.t2.workbench.ui.zaria.UIComponentSPI | 1 - .../META-INF/spring/run-ui-context-osgi.xml | 28 - .../META-INF/spring/run-ui-context.xml | 41 - taverna-workbench-selection-api/pom.xml | 53 - .../selection/DataflowSelectionModel.java | 85 - .../workbench/selection/SelectionManager.java | 113 - .../events/DataflowSelectionMessage.java | 66 - .../events/PerspectiveSelectionEvent.java | 59 - .../selection/events/ProfileSelectionEvent.java | 57 - .../selection/events/SelectionManagerEvent.java | 34 - .../events/WorkflowBundleSelectionEvent.java | 59 - .../events/WorkflowRunSelectionEvent.java | 51 - .../events/WorkflowSelectionEvent.java | 57 - taverna-workbench-selection-impl/pom.xml | 35 - .../impl/DataflowSelectionModelImpl.java | 116 - .../selection/impl/SelectionManagerImpl.java | 367 -- .../spring/selection-impl-context-osgi.xml | 17 - .../META-INF/spring/selection-impl-context.xml | 12 - taverna-workbench-update-manager/pom.xml | 26 - .../update/impl/UpdateManagerView.java | 45 - .../update/impl/menu/UpdateMenuAction.java | 92 - .../updatemanager/PluginMenuAction.java | 52 - .../UpdatesAvailableMenuAction.java | 19 - .../updatemanager/UpdatesToolbarSection.java | 16 - .../spring/update-manager-context-osgi.xml | 13 - .../META-INF/spring/update-manager-context.xml | 12 - taverna-workbench-workbench-api/pom.xml | 15 - .../net/sf/taverna/t2/workbench/MainWindow.java | 16 - .../taverna/t2/workbench/ModelMapConstants.java | 28 - .../sf/taverna/t2/workbench/ShutdownSPI.java | 72 - .../net/sf/taverna/t2/workbench/StartupSPI.java | 65 - .../t2/workbench/icons/WorkbenchIcons.java | 214 -- .../ui/SwingWorkerCompletionWaiter.java | 33 - .../sf/taverna/t2/workbench/ui/Updatable.java | 32 - .../net/sf/taverna/t2/workbench/ui/Utils.java | 20 - .../sf/taverna/t2/workbench/ui/Workbench.java | 33 - .../t2/workbench/ui/zaria/PerspectiveSPI.java | 77 - .../ui/zaria/UIComponentFactorySPI.java | 56 - .../t2/workbench/ui/zaria/UIComponentSPI.java | 56 - .../t2/workbench/icons/explorer/biomoby.png | Bin 1218 -> 0 bytes .../t2/workbench/icons/explorer/constraint.gif | Bin 144 -> 0 bytes .../t2/workbench/icons/explorer/dataflow.png | Bin 814 -> 0 bytes .../t2/workbench/icons/explorer/datalink.gif | Bin 124 -> 0 bytes .../t2/workbench/icons/explorer/input.png | Bin 396 -> 0 bytes .../t2/workbench/icons/explorer/inputport.png | Bin 251 -> 0 bytes .../t2/workbench/icons/explorer/localworker.png | Bin 706 -> 0 bytes .../t2/workbench/icons/explorer/merge.png | Bin 422 -> 0 bytes .../t2/workbench/icons/explorer/output.png | Bin 425 -> 0 bytes .../t2/workbench/icons/explorer/outputport.png | Bin 235 -> 0 bytes .../t2/workbench/icons/explorer/rserv.png | Bin 1235 -> 0 bytes .../t2/workbench/icons/explorer/seqhound.png | Bin 3603 -> 0 bytes .../t2/workbench/icons/explorer/soaplab.png | Bin 701 -> 0 bytes .../workbench/icons/explorer/stringconstant.png | Bin 733 -> 0 bytes .../t2/workbench/icons/explorer/talisman.png | Bin 1214 -> 0 bytes .../icons/explorer/unknownprocessor.png | Bin 1060 -> 0 bytes .../icons/explorer/workflow-explorer-old.png | Bin 255 -> 0 bytes .../icons/explorer/workflow-explorer.png | Bin 267 -> 0 bytes .../t2/workbench/icons/explorer/workflow.png | Bin 1213 -> 0 bytes .../icons/explorer/workflowInputPort.png | Bin 718 -> 0 bytes .../icons/explorer/workflowOutputPort.png | Bin 636 -> 0 bytes .../t2/workbench/icons/explorer/wsdl.png | Bin 748 -> 0 bytes .../taverna/t2/workbench/icons/generic/bin.png | Bin 393 -> 0 bytes .../t2/workbench/icons/generic/break.gif | Bin 1120 -> 0 bytes .../t2/workbench/icons/generic/close.gif | Bin 351 -> 0 bytes .../t2/workbench/icons/generic/closeAll.gif | Bin 380 -> 0 bytes .../t2/workbench/icons/generic/configure.png | Bin 610 -> 0 bytes .../taverna/t2/workbench/icons/generic/copy.png | Bin 389 -> 0 bytes .../taverna/t2/workbench/icons/generic/cut.png | Bin 710 -> 0 bytes .../t2/workbench/icons/generic/database.gif | Bin 1032 -> 0 bytes .../t2/workbench/icons/generic/delete.png | Bin 565 -> 0 bytes .../t2/workbench/icons/generic/down-arrow.png | Bin 331 -> 0 bytes .../taverna/t2/workbench/icons/generic/edit.gif | Bin 579 -> 0 bytes .../t2/workbench/icons/generic/fileimport.png | Bin 851 -> 0 bytes .../taverna/t2/workbench/icons/generic/find.gif | Bin 346 -> 0 bytes .../workbench/icons/generic/folder-closed.png | Bin 621 -> 0 bytes .../t2/workbench/icons/generic/folder-open.png | Bin 626 -> 0 bytes .../t2/workbench/icons/generic/greentick.png | Bin 331 -> 0 bytes .../t2/workbench/icons/generic/import.gif | Bin 929 -> 0 bytes .../t2/workbench/icons/generic/inputValue.gif | Bin 561 -> 0 bytes .../t2/workbench/icons/generic/janus.png | Bin 395 -> 0 bytes .../taverna/t2/workbench/icons/generic/leaf.gif | Bin 194 -> 0 bytes .../t2/workbench/icons/generic/minus.png | Bin 214 -> 0 bytes .../t2/workbench/icons/generic/newinput.gif | Bin 357 -> 0 bytes .../t2/workbench/icons/generic/newlist.gif | Bin 350 -> 0 bytes .../t2/workbench/icons/generic/normalize.png | Bin 580 -> 0 bytes .../taverna/t2/workbench/icons/generic/open.gif | Bin 216 -> 0 bytes .../t2/workbench/icons/generic/openmenu.gif | Bin 251 -> 0 bytes .../t2/workbench/icons/generic/openurl.gif | Bin 362 -> 0 bytes .../t2/workbench/icons/generic/opmIcon.png | Bin 376 -> 0 bytes .../t2/workbench/icons/generic/paste.png | Bin 490 -> 0 bytes .../t2/workbench/icons/generic/pause.png | Bin 385 -> 0 bytes .../taverna/t2/workbench/icons/generic/play.png | Bin 341 -> 0 bytes .../taverna/t2/workbench/icons/generic/plus.png | Bin 345 -> 0 bytes .../t2/workbench/icons/generic/rbreak.gif | Bin 1161 -> 0 bytes .../taverna/t2/workbench/icons/generic/redo.png | Bin 513 -> 0 bytes .../t2/workbench/icons/generic/refresh.gif | Bin 336 -> 0 bytes .../t2/workbench/icons/generic/rename.png | Bin 212 -> 0 bytes .../icons/generic/results-perspective.png | Bin 542 -> 0 bytes .../taverna/t2/workbench/icons/generic/run.gif | Bin 318 -> 0 bytes .../taverna/t2/workbench/icons/generic/save.gif | Bin 639 -> 0 bytes .../taverna/t2/workbench/icons/generic/save.png | Bin 631 -> 0 bytes .../t2/workbench/icons/generic/saveAll.png | Bin 624 -> 0 bytes .../t2/workbench/icons/generic/saveAs.png | Bin 529 -> 0 bytes .../t2/workbench/icons/generic/savemenu.gif | Bin 661 -> 0 bytes .../t2/workbench/icons/generic/savepng.gif | Bin 988 -> 0 bytes .../t2/workbench/icons/generic/search.png | Bin 1023 -> 0 bytes .../taverna/t2/workbench/icons/generic/stop.gif | Bin 268 -> 0 bytes .../taverna-wheel-message-dialog-error-icon.png | Bin 11424 -> 0 bytes .../taverna-wheel-message-dialog-info-icon.png | Bin 11383 -> 0 bytes ...verna-wheel-message-dialog-question-icon.png | Bin 11312 -> 0 bytes ...averna-wheel-message-dialog-warning-icon.png | Bin 11254 -> 0 bytes .../icons/generic/taverna_cogs_32x32.png | Bin 3094 -> 0 bytes .../icons/generic/taverna_cogs_64x64.png | Bin 11014 -> 0 bytes .../taverna/t2/workbench/icons/generic/tick.png | Bin 537 -> 0 bytes .../taverna/t2/workbench/icons/generic/undo.png | Bin 548 -> 0 bytes .../t2/workbench/icons/generic/uninstall.png | Bin 639 -> 0 bytes .../t2/workbench/icons/generic/untick.png | Bin 664 -> 0 bytes .../t2/workbench/icons/generic/up-arrow.png | Bin 300 -> 0 bytes .../t2/workbench/icons/generic/update.png | Bin 689 -> 0 bytes .../icons/generic/updateRecommended.png | Bin 731 -> 0 bytes .../t2/workbench/icons/generic/urlimport.png | Bin 969 -> 0 bytes .../taverna/t2/workbench/icons/generic/web.gif | Bin 362 -> 0 bytes .../workbench/icons/generic/workflowResults.png | Bin 736 -> 0 bytes .../t2/workbench/icons/generic/working.gif | Bin 673 -> 0 bytes .../workbench/icons/generic/workingStopped.png | Bin 258 -> 0 bytes .../t2/workbench/icons/generic/xml_node.gif | Bin 82 -> 0 bytes .../taverna/t2/workbench/icons/generic/zoom.gif | Bin 545 -> 0 bytes .../t2/workbench/icons/generic/zoomin.gif | 78 - .../t2/workbench/icons/generic/zoomin.png | Bin 659 -> 0 bytes .../t2/workbench/icons/generic/zoomout.png | Bin 607 -> 0 bytes .../t2/workbench/icons/graph/allport.png | Bin 652 -> 0 bytes .../t2/workbench/icons/graph/allport.svg | 124 - .../taverna/t2/workbench/icons/graph/blob.png | Bin 468 -> 0 bytes .../taverna/t2/workbench/icons/graph/blob.svg | 72 - .../t2/workbench/icons/graph/expandnested.png | Bin 718 -> 0 bytes .../t2/workbench/icons/graph/expandnested.svg | 130 - .../t2/workbench/icons/graph/horizontal.png | Bin 380 -> 0 bytes .../t2/workbench/icons/graph/horizontal.svg | 152 - .../taverna/t2/workbench/icons/graph/noport.png | Bin 482 -> 0 bytes .../taverna/t2/workbench/icons/graph/noport.svg | 82 - .../t2/workbench/icons/graph/saveAsDOT.png | Bin 1105 -> 0 bytes .../t2/workbench/icons/graph/saveAsPNG.png | Bin 1337 -> 0 bytes .../t2/workbench/icons/graph/saveAsPS.png | Bin 1019 -> 0 bytes .../t2/workbench/icons/graph/saveAsPS2.png | Bin 1018 -> 0 bytes .../t2/workbench/icons/graph/saveAsSVG.png | Bin 1416 -> 0 bytes .../taverna/t2/workbench/icons/graph/trash.png | Bin 482 -> 0 bytes .../t2/workbench/icons/graph/vertical.png | Bin 383 -> 0 bytes .../t2/workbench/icons/graph/vertical.svg | 150 - taverna-workbench-workbench-impl/pom.xml | 116 - .../ui/impl/DataflowEditsListener.java | 93 - .../t2/workbench/ui/impl/LoggerStream.java | 136 - .../ui/impl/SetConsoleLoggerStartup.java | 62 - .../ui/impl/StoreWindowStateOnShutdown.java | 58 - .../workbench/ui/impl/UserRegistrationData.java | 105 - .../workbench/ui/impl/UserRegistrationForm.java | 995 ----- .../workbench/ui/impl/UserRegistrationHook.java | 163 - .../t2/workbench/ui/impl/WorkbenchImpl.java | 538 --- .../ui/impl/WorkbenchPerspectives.java | 229 -- .../t2/workbench/ui/impl/menu/ExitAction.java | 66 - .../net.sf.taverna.raven.launcher.Launchable | 1 - .../net.sf.taverna.t2.ui.menu.MenuComponent | 18 - .../net.sf.taverna.t2.workbench.ShutdownSPI | 1 - .../net.sf.taverna.t2.workbench.StartupSPI | 2 - .../spring/workbench-impl-context-osgi.xml | 38 - .../META-INF/spring/workbench-impl-context.xml | 43 - .../src/main/resources/Map.jhm | 28 - .../resources/example-registration-form.xml | 12 - .../src/main/resources/registration-form.xsd | 27 - .../src/main/resources/registration.php | 137 - .../src/main/resources/sample.hs | 64 - .../workbench/ui/impl/UserRegistrationTest.java | 190 - .../src/test/resources/log4j.properties | 10 - taverna-workbench-workflow-explorer/pom.xml | 75 - .../ui/workflowexplorer/WorkflowExplorer.java | 824 ---- .../WorkflowExplorerFactory.java | 95 - .../WorkflowExplorerTreeCellRenderer.java | 216 -- .../WorkflowExplorerTreeModel.java | 404 -- .../WorkflowExplorerTreeSelectionModel.java | 45 - ....t2.workbench.ui.zaria.UIComponentFactorySPI | 1 - ...taverna.t2.workbench.ui.zaria.UIComponentSPI | 1 - .../spring/workflow-explorer-context-osgi.xml | 19 - .../spring/workflow-explorer-context.xml | 18 - taverna-workbench-workflow-view/pom.xml | 74 - .../ui/actions/CopyGraphComponentAction.java | 143 - .../ui/actions/CopyProcessorAction.java | 53 - .../ui/actions/CutGraphComponentAction.java | 153 - .../ui/actions/CutProcessorAction.java | 69 - .../ui/actions/PasteGraphComponentAction.java | 98 - .../ui/dndhandler/ServiceTransferHandler.java | 119 - .../ui/menu/CopyGraphComponentMenuAction.java | 54 - .../ui/menu/CopyProcessorMenuAction.java | 56 - .../ui/menu/CutGraphComponentMenuAction.java | 60 - .../ui/menu/CutProcessorMenuAction.java | 69 - .../ui/menu/PasteGraphComponentMenuAction.java | 73 - .../workbench/ui/toolbar/CopyToolbarAction.java | 51 - .../workbench/ui/toolbar/CutToolbarAction.java | 57 - .../ui/toolbar/PasteToolbarAction.java | 70 - .../ui/workflowview/ShowExceptionRunnable.java | 26 - .../workbench/ui/workflowview/WorkflowView.java | 414 -- .../net.sf.taverna.t2.ui.menu.MenuComponent | 10 - .../spring/workflow-view-context-osgi.xml | 23 - .../META-INF/spring/workflow-view-context.xml | 38 - 1364 files changed, 137101 deletions(-) ---------------------------------------------------------------------- http://git-wip-us.apache.org/repos/asf/incubator-taverna-workbench/blob/dc466d6d/pom.xml ---------------------------------------------------------------------- diff --git a/pom.xml b/pom.xml deleted file mode 100644 index a23d348..0000000 --- a/pom.xml +++ /dev/null @@ -1,91 +0,0 @@ -<project xmlns="http://maven.apache.org/POM/4.0.0"; xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance"; - xsi:schemaLocation="http://maven.apache.org/POM/4.0.0 http://maven.apache.org/xsd/maven-4.0.0.xsd";> - <modelVersion>4.0.0</modelVersion> - <parent> - <groupId>org.apache.taverna</groupId> - <artifactId>taverna-parent</artifactId> - <version>1-incubating-SNAPSHOT</version> - </parent> - <groupId>org.apache.taverna.workbench</groupId> - <artifactId>taverna-workbench</artifactId> - <version>3.1.0-incubating-SNAPSHOT</version> - <packaging>pom</packaging> - <name>Apache Taverna Workbench</name> - <description>Graphical workbench for editing and running Apache Taverna workflows</description> - <properties> - <taverna.language.version>0.15.0-incubating-SNAPSHOT</taverna.language.version> - <taverna.osgi.version>0.2.0-incubating-SNAPSHOT</taverna.osgi.version> - <taverna.engine.version>3.1.0-incubating-SNAPSHOT</taverna.engine.version> - <taverna.commonactivities.version>2.1.0-incubating-SNAPSHOT</taverna.commonactivities.version> - </properties> - <modules> - <module>taverna-dataflow-activity-ui</module> - <module>taverna-disabled-activity-ui</module> - <module>taverna-stringconstant-activity-ui</module> - <module>taverna-unrecognized-activity-ui</module> - <module>taverna-workbench-activity-icons-api</module> - <module>taverna-workbench-activity-palette-api</module> - <module>taverna-workbench-activity-palette-impl</module> - <module>taverna-workbench-activity-palette-ui</module> - <module>taverna-workbench-activity-tools</module> - <module>taverna-workbench-configuration-api</module> - <module>taverna-workbench-configuration-impl</module> - <module>taverna-workbench-contextual-views</module> - <module>taverna-workbench-contextual-views-api</module> - <module>taverna-workbench-contextual-views-impl</module> - <module>taverna-workbench-credential-manager-ui</module> - <module>taverna-workbench-data-management-config-ui</module> - <module>taverna-workbench-design-ui</module> - <module>taverna-workbench-edits-api</module> - <module>taverna-workbench-edits-impl</module> - <module>taverna-workbench-file-api</module> - <module>taverna-workbench-file-impl</module> - <module>taverna-workbench-graph-model</module> - <module>taverna-workbench-graph-view</module> - <module>taverna-workbench-helper</module> - <module>taverna-workbench-helper-api</module> - <module>taverna-workbench-httpproxy-config</module> - <module>taverna-workbench-iteration-strategy-ui</module> - <module>taverna-workbench-loop-ui</module> - <module>taverna-workbench-menu-api</module> - <module>taverna-workbench-menu-impl</module> - <module>taverna-workbench-menu-items</module> - <module>taverna-workbench-monitor-view</module> - <module>taverna-workbench-parallelize-ui</module> - <module>taverna-workbench-perspective-biocatalogue</module> - <module>taverna-workbench-perspective-design</module> - <module>taverna-workbench-perspective-myexperiment</module> - <module>taverna-workbench-perspective-results</module> - <module>taverna-workbench-plugin-manager</module> - <module>taverna-workbench-plugins-gui</module> - <module>taverna-workbench-reference-ui</module> - <module>taverna-workbench-renderers-api</module> - <module>taverna-workbench-renderers-exts</module> - <module>taverna-workbench-renderers-impl</module> - <module>taverna-workbench-report-api</module> - <module>taverna-workbench-report-explainer</module> - <module>taverna-workbench-report-impl</module> - <module>taverna-workbench-report-view</module> - <module>taverna-workbench-results-view</module> - <module>taverna-workbench-retry-ui</module> - <module>taverna-workbench-run-ui</module> - <module>taverna-workbench-selection-api</module> - <module>taverna-workbench-selection-impl</module> - <module>taverna-workbench-update-manager</module> - <module>taverna-workbench-workbench-api</module> - <module>taverna-workbench-workbench-impl</module> - <module>taverna-workbench-workflow-explorer</module> - <module>taverna-workbench-workflow-view</module> - </modules> - <repositories> - <repository> - <id>taverna-incubating</id> - <name>Apache Taverna incubating Repository</name> - <url>http://repository.mygrid.org.uk/artifactory/incubator-snapshot-local/</url> - <releases> - <enabled>false</enabled> - </releases> - <snapshots /> - </repository> - </repositories> -</project>
