Branch: refs/heads/develop
Home: https://github.com/cytoscape/cytoscape-impl
Commit: 78b3b50dac2c8a2ce68dee335788e4089fa28fb4
https://github.com/cytoscape/cytoscape-impl/commit/78b3b50dac2c8a2ce68dee335788e4089fa28fb4
Author: Adam Treister <[email protected]>
Date: 2017-08-09 (Wed, 09 Aug 2017)
Changed paths:
M
swing-application-impl/src/main/java/org/cytoscape/internal/CyActivator.java
Log Message:
-----------
changing CytoscapeToolbar constructor signature
Commit: dc1d2ef785254dac4c74fff287fdc2b1b53e4451
https://github.com/cytoscape/cytoscape-impl/commit/dc1d2ef785254dac4c74fff287fdc2b1b53e4451
Author: Adam Treister <[email protected]>
Date: 2017-08-10 (Thu, 10 Aug 2017)
Changed paths:
M
swing-application-impl/src/main/java/org/cytoscape/internal/view/CytoscapeToolBar.java
Log Message:
-----------
implement toolbar.stoplist
Commit: 31b5f1e9cb1e6dd996e78b167a6841ebc9ab0437
https://github.com/cytoscape/cytoscape-impl/commit/31b5f1e9cb1e6dd996e78b167a6841ebc9ab0437
Author: Adam Treister <[email protected]>
Date: 2017-08-10 (Thu, 10 Aug 2017)
Changed paths:
M
swing-application-impl/src/main/java/org/cytoscape/internal/view/CytoscapeToolBar.java
Log Message:
-----------
placeholder add(Component) method added
Commit: c7f26d021b73d88441b73471b0447ebf9ab754a7
https://github.com/cytoscape/cytoscape-impl/commit/c7f26d021b73d88441b73471b0447ebf9ab754a7
Author: Adam Treister <[email protected]>
Date: 2017-08-11 (Fri, 11 Aug 2017)
Changed paths:
M
swing-application-impl/src/main/java/org/cytoscape/internal/CyActivator.java
M
swing-application-impl/src/main/java/org/cytoscape/internal/view/CytoscapeMenuBar.java
M
swing-application-impl/src/main/java/org/cytoscape/internal/view/CytoscapeMenus.java
M
swing-application-impl/src/main/java/org/cytoscape/internal/view/CytoscapeToolBar.java
M
swing-application-impl/src/test/java/org/cytoscape/internal/view/CytoscapeDesktopTest.java
Log Message:
-----------
added stop list for menus and toolbar
Commit: 9387db90591d6802f830d90f715009ae9d954d62
https://github.com/cytoscape/cytoscape-impl/commit/9387db90591d6802f830d90f715009ae9d954d62
Author: Adam Treister <[email protected]>
Date: 2017-08-14 (Mon, 14 Aug 2017)
Changed paths:
M
swing-application-impl/src/main/java/org/cytoscape/internal/view/CytoscapeMenuBar.java
M
swing-application-impl/src/main/java/org/cytoscape/internal/view/CytoscapeMenus.java
M
swing-application-impl/src/main/java/org/cytoscape/internal/view/CytoscapeToolBar.java
M
swing-application-impl/src/test/java/org/cytoscape/internal/view/CytoscapeDesktopTest.java
M
vizmap-gui-impl/src/main/java/org/cytoscape/view/vizmap/gui/internal/action/AbstractVizMapperAction.java
M
vizmap-gui-impl/src/main/java/org/cytoscape/view/vizmap/gui/internal/action/EditSelectedDiscreteValuesAction.java
M
vizmap-gui-impl/src/main/java/org/cytoscape/view/vizmap/gui/internal/action/GenerateDiscreteValuesAction.java
M
vizmap-gui-impl/src/main/java/org/cytoscape/view/vizmap/gui/internal/action/RemoveSelectedDiscreteValuesAction.java
Log Message:
-----------
changed actions to be AbstractCyAction, added show all in tool bar
Commit: c81de8e9e322bdb455f4a068fc35a1b53f7c3d88
https://github.com/cytoscape/cytoscape-impl/commit/c81de8e9e322bdb455f4a068fc35a1b53f7c3d88
Author: Adam Treister <[email protected]>
Date: 2017-08-14 (Mon, 14 Aug 2017)
Changed paths:
M
ding-impl/ding-presentation-impl/src/main/java/org/cytoscape/graph/render/immed/GraphGraphics.java
M
ding-impl/ding-presentation-impl/src/main/java/org/cytoscape/graph/render/stateful/GraphRenderer.java
Log Message:
-----------
minor reformats
Commit: 1cd6ed832a72af8a24b5627fd83ba49d3a093ea5
https://github.com/cytoscape/cytoscape-impl/commit/1cd6ed832a72af8a24b5627fd83ba49d3a093ea5
Author: Adam Treister <[email protected]>
Date: 2017-08-14 (Mon, 14 Aug 2017)
Changed paths:
M
swing-application-impl/src/main/java/org/cytoscape/internal/view/CytoscapeToolBar.java
Log Message:
-----------
supporting right click on toolbar to edit contents
Commit: d4688dc1a314239c5ca3adf8cd3f45884a37db02
https://github.com/cytoscape/cytoscape-impl/commit/d4688dc1a314239c5ca3adf8cd3f45884a37db02
Author: Adam Treister <[email protected]>
Date: 2017-08-14 (Mon, 14 Aug 2017)
Changed paths:
M app-impl/src/main/java/org/cytoscape/app/internal/manager/AppParser.java
M app-impl/src/main/java/org/cytoscape/app/internal/net/WebQuerier.java
M
app-impl/src/main/java/org/cytoscape/app/internal/net/server/CyHttpdFactoryImpl.java
M
app-impl/src/main/java/org/cytoscape/app/internal/tunable/AppConflictHandler.java
M app-impl/src/main/java/org/cytoscape/app/internal/ui/InstallAppsPanel.java
M app-impl/src/main/java/org/cytoscape/app/internal/util/DebugHelper.java
M
application-impl/src/main/java/org/cytoscape/application/internal/CyApplicationManagerImpl.java
M
application-impl/src/main/java/org/cytoscape/application/internal/ShutdownHandler.java
M
command-executor-impl/src/main/java/org/cytoscape/command/internal/StringToModelImpl.java
M
command-executor-impl/src/main/java/org/cytoscape/command/internal/TFExecutor.java
M
command-executor-impl/src/main/java/org/cytoscape/command/internal/available/ArgRecorder.java
M
command-executor-impl/src/main/java/org/cytoscape/command/internal/available/AvailableCommandsImpl.java
M
command-executor-impl/src/main/java/org/cytoscape/command/internal/tunables/CommandTunableInterceptorImpl.java
M
command-executor-impl/src/main/java/org/cytoscape/command/internal/tunables/CyIdentifiableStringTunableHandlerFactory.java
M
core-task-impl/src/main/java/org/cytoscape/task/internal/creation/CreateNetworkViewTask.java
M
core-task-impl/src/main/java/org/cytoscape/task/internal/creation/GroupUtils.java
M
core-task-impl/src/main/java/org/cytoscape/task/internal/loaddatatable/AddImportedTableTask.java
M
core-task-impl/src/main/java/org/cytoscape/task/internal/loadnetwork/LoadMultipleNetworkFilesTaskFactoryImpl.java
M
core-task-impl/src/main/java/org/cytoscape/task/internal/loadvizmap/LoadVizmapFileTaskFactoryImpl.java
M
core-task-impl/src/main/java/org/cytoscape/task/internal/session/CySessionWriter.java
M
core-task-impl/src/main/java/org/cytoscape/task/internal/table/ImportTableDataTask.java
M
core-task-impl/src/main/java/org/cytoscape/task/internal/table/JoinTablesTask.java
M
core-task-impl/src/main/java/org/cytoscape/task/internal/table/MapTableToNetworkTablesTask.java
M
core-task-impl/src/main/java/org/cytoscape/task/internal/table/MergeTablesTask.java
M
datasource-impl/src/main/java/org/cytoscape/io/datasource/internal/bookmarks/BookmarkDataSourceBuilder.java
M
ding-impl/ding-presentation-impl/src/main/java/org/cytoscape/ding/customgraphics/AbstractCustomGraphics2.java
M
ding-impl/ding-presentation-impl/src/main/java/org/cytoscape/ding/customgraphics/bitmap/URLImageCustomGraphicsFactory.java
M
ding-impl/ding-presentation-impl/src/main/java/org/cytoscape/ding/customgraphics/json/PropertiesJsonDeserializer.java
M
ding-impl/ding-presentation-impl/src/main/java/org/cytoscape/ding/customgraphicsmgr/internal/CustomGraphicsManagerImpl.java
M
ding-impl/ding-presentation-impl/src/main/java/org/cytoscape/ding/customgraphicsmgr/internal/PersistImageTask.java
M
ding-impl/ding-presentation-impl/src/main/java/org/cytoscape/ding/customgraphicsmgr/internal/RestoreImageTask.java
M
ding-impl/ding-presentation-impl/src/main/java/org/cytoscape/ding/customgraphicsmgr/internal/ui/CustomGraphicsManagerDialog.java
M
ding-impl/ding-presentation-impl/src/main/java/org/cytoscape/ding/impl/AddEdgeTask.java
M
ding-impl/ding-presentation-impl/src/main/java/org/cytoscape/ding/impl/BirdsEyeView.java
M
ding-impl/ding-presentation-impl/src/main/java/org/cytoscape/ding/impl/cyannotator/annotations/GroupAnnotationImpl.java
M
edge-bundler-impl/src/main/java/org/cytoscape/edge/bundler/internal/EdgeBundlerTask.java
M
equations-impl/src/main/java/org/cytoscape/equations/internal/EquationParserImpl.java
M
event-impl/impl/src/main/java/org/cytoscape/event/internal/CyEventHelperImpl.java
M
event-impl/impl/src/main/java/org/cytoscape/event/internal/CyListenerAdapter.java
M
filter-impl/src/main/java/org/cytoscape/filter/internal/filters/FilterApp.java
M
filter-impl/src/main/java/org/cytoscape/filter/internal/filters/model/CompositeFilter.java
M
filter-impl/src/main/java/org/cytoscape/filter/internal/filters/model/FilterModelLocator.java
M
filter-impl/src/main/java/org/cytoscape/filter/internal/filters/model/NumericFilter.java
M
filter-impl/src/main/java/org/cytoscape/filter/internal/filters/model/StringFilter.java
M
filter-impl/src/main/java/org/cytoscape/filter/internal/filters/model/TopologyFilter.java
M
filter-impl/src/main/java/org/cytoscape/filter/internal/filters/view/FilterMainPanel.java
M
filter-impl/src/main/java/org/cytoscape/filter/internal/filters/view/FilterSettingPanel.java
M
filter-impl/src/main/java/org/cytoscape/filter/internal/read/filter/FilterReader.java
M
filter-impl/src/main/java/org/cytoscape/filter/internal/write/filter/FilterWriter.java
M
filter2-impl/src/main/java/org/cytoscape/filter/internal/FilterSettingsManager.java
M
filter2-impl/src/main/java/org/cytoscape/filter/internal/view/AbstractPanelController.java
M
filter2-impl/src/main/java/org/cytoscape/filter/internal/view/DragHandler.java
M
graphml-impl/src/main/java/org/cytoscape/io/internal/read/graphml/GraphMLFileFilter.java
M
graphml-impl/src/main/java/org/cytoscape/io/internal/read/graphml/GraphMLParser.java
M
graphml-impl/src/main/java/org/cytoscape/io/internal/write/graphml/GraphMLWriter.java
M group-impl/src/main/java/org/cytoscape/group/internal/CyGroupImpl.java
M group-impl/src/main/java/org/cytoscape/group/internal/GroupIO.java
M
group-impl/src/main/java/org/cytoscape/group/internal/data/GroupDataCollapseHandler.java
M
group-impl/src/main/java/org/cytoscape/group/internal/view/GroupViewCollapseHandler.java
M
gui-cmdline-parser-impl/src/main/java/org/cytoscape/cmdline/gui/internal/Parser.java
M
gui-cmdline-parser-impl/src/main/java/org/cytoscape/cmdline/gui/internal/StartupConfig.java
M
headless-cmdline-parser-impl/src/main/java/org/cytoscape/cmdline/headless/internal/Parser.java
M
headless-cmdline-parser-impl/src/main/java/org/cytoscape/cmdline/headless/internal/StartupConfig.java
Log Message:
-----------
CyUserLog #3112
Commit: 72dd0a76158da2a32fc305e7a14905d6ae0cb437
https://github.com/cytoscape/cytoscape-impl/commit/72dd0a76158da2a32fc305e7a14905d6ae0cb437
Author: Adam Treister <[email protected]>
Date: 2017-08-15 (Tue, 15 Aug 2017)
Changed paths:
M
ding-impl/ding-presentation-impl/src/main/java/org/cytoscape/ding/impl/AddEdgeTask.java
M
ding-impl/ding-presentation-impl/src/main/java/org/cytoscape/ding/impl/BirdsEyeView.java
M
io-impl/impl/src/main/java/org/cytoscape/io/internal/read/bookmarks/BookmarkFileFilter.java
M
io-impl/impl/src/main/java/org/cytoscape/io/internal/read/cysession/CysessionFileFilter.java
M
io-impl/impl/src/main/java/org/cytoscape/io/internal/read/datatable/CyAttributesReader.java
M
io-impl/impl/src/main/java/org/cytoscape/io/internal/read/gml/GMLFileFilter.java
M
io-impl/impl/src/main/java/org/cytoscape/io/internal/read/gml/GMLNetworkReader.java
M
io-impl/impl/src/main/java/org/cytoscape/io/internal/read/nnf/NNFNetworkReader.java
M
io-impl/impl/src/main/java/org/cytoscape/io/internal/read/session/AbstractSessionReader.java
M
io-impl/impl/src/main/java/org/cytoscape/io/internal/read/session/SessionFileFilter.java
M
io-impl/impl/src/main/java/org/cytoscape/io/internal/read/vizmap/VizmapXMLFileFilter.java
M
io-impl/impl/src/main/java/org/cytoscape/io/internal/read/xgmml/GenericXGMMLFileFilter.java
M
io-impl/impl/src/main/java/org/cytoscape/io/internal/read/xgmml/GenericXGMMLReader.java
M
io-impl/impl/src/main/java/org/cytoscape/io/internal/read/xgmml/handler/AbstractHandler.java
M
io-impl/impl/src/main/java/org/cytoscape/io/internal/read/xgmml/handler/ReadDataManager.java
M io-impl/impl/src/main/java/org/cytoscape/io/internal/util/ReadCache.java
M
io-impl/impl/src/main/java/org/cytoscape/io/internal/util/RecentlyOpenedTrackerImpl.java
M
io-impl/impl/src/main/java/org/cytoscape/io/internal/util/session/SessionUtil.java
M
io-impl/impl/src/main/java/org/cytoscape/io/internal/util/vizmap/VisualStyleSerializer.java
M
io-impl/impl/src/main/java/org/cytoscape/io/internal/write/AbstractWriterManager.java
M
io-impl/impl/src/main/java/org/cytoscape/io/internal/write/graphics/BitmapWriter.java
M
io-impl/impl/src/main/java/org/cytoscape/io/internal/write/graphics/PDFWriter.java
M
io-impl/impl/src/main/java/org/cytoscape/io/internal/write/graphics/PDFWriterFactory.java
M
io-impl/impl/src/main/java/org/cytoscape/io/internal/write/graphics/PSWriter.java
M
io-impl/impl/src/main/java/org/cytoscape/io/internal/write/graphics/SVGWriter.java
M
io-impl/impl/src/main/java/org/cytoscape/io/internal/write/session/SessionWriterImpl.java
M
io-impl/impl/src/main/java/org/cytoscape/io/internal/write/sif/SifWriter.java
M
io-impl/impl/src/main/java/org/cytoscape/io/internal/write/xgmml/GenericXGMMLWriter.java
M
io-impl/impl/src/test/java/org/cytoscape/io/internal/write/graphics/BitmapWriterTest.java
M
io-impl/impl/src/test/java/org/cytoscape/io/internal/write/graphics/PDFWriterTest.java
M
layout-cytoscape-impl/src/main/java/csapps/layout/algorithms/GroupAttributesLayoutTask.java
M
layout-cytoscape-impl/src/main/java/csapps/layout/algorithms/cose/CoSELayoutAlgorithmTask.java
M linkout-impl/src/main/java/org/cytoscape/linkout/internal/LinkOut.java
M linkout-impl/src/main/java/org/cytoscape/linkout/internal/LinkoutTask.java
M log-swing-impl/src/main/java/org/cytoscape/log/internal/ConsoleDialog.java
M log-swing-impl/src/main/java/org/cytoscape/log/internal/CyStatusBar.java
M
manual-layout-impl/src/main/java/org/cytoscape/view/manual/internal/CyActivator.java
M
model-impl/impl/src/main/java/org/cytoscape/model/internal/AbstractTableFacade.java
M
model-impl/impl/src/main/java/org/cytoscape/model/internal/CyNetworkFactoryImpl.java
M
model-impl/impl/src/main/java/org/cytoscape/model/internal/CyNetworkManagerImpl.java
M
model-impl/impl/src/main/java/org/cytoscape/model/internal/CyTableImpl.java
M
model-impl/impl/src/main/java/org/cytoscape/model/internal/CyTableManagerImpl.java
M model-impl/impl/src/main/java/org/cytoscape/model/internal/EqnSupport.java
M
model-impl/impl/src/main/java/org/cytoscape/model/internal/LocalTableFacade.java
M
model-impl/impl/src/main/java/org/cytoscape/model/internal/SharedTableFacade.java
M
presentation-impl/src/main/java/org/cytoscape/view/presentation/internal/RenderingEngineManagerImpl.java
M
property-impl/src/main/java/org/cytoscape/property/internal/PropsReader.java
M
property-impl/src/main/java/org/cytoscape/property/internal/bookmark/BookmarkReader.java
M
property-impl/src/main/java/org/cytoscape/property/internal/bookmark/BookmarksUtilImpl.java
M
search-impl/src/main/java/org/cytoscape/search/internal/EnhancedSearchQuery.java
M
search-impl/src/main/java/org/cytoscape/search/internal/IndexAndSearchTask.java
M
search-impl/src/main/java/org/cytoscape/search/internal/ui/EnhancedSearchPanel.java
M
session-impl/src/main/java/org/cytoscape/session/internal/CyNetworkNamingImpl.java
M
session-impl/src/main/java/org/cytoscape/session/internal/CySessionManagerImpl.java
M
swing-application-impl/src/main/java/org/cytoscape/internal/CyActivator.java
M
swing-application-impl/src/main/java/org/cytoscape/internal/SessionHandler.java
M
swing-application-impl/src/main/java/org/cytoscape/internal/actions/RecentSessionManager.java
M
swing-application-impl/src/main/java/org/cytoscape/internal/io/SessionIO.java
M
swing-application-impl/src/main/java/org/cytoscape/internal/shutdown/ConfigDirPropertyWriter.java
M
swing-application-impl/src/main/java/org/cytoscape/internal/task/CytoPanelTaskFactoryTunableAction.java
M
swing-application-impl/src/main/java/org/cytoscape/internal/task/TaskFactoryTunableAction.java
M
swing-application-impl/src/main/java/org/cytoscape/internal/undo/RedoAction.java
M
swing-application-impl/src/main/java/org/cytoscape/internal/undo/UndoAction.java
M
swing-application-impl/src/main/java/org/cytoscape/internal/view/BiModalJSplitPane.java
M
swing-application-impl/src/main/java/org/cytoscape/internal/view/CytoscapeDesktop.java
M
swing-application-impl/src/main/java/org/cytoscape/internal/view/CytoscapeMenuBar.java
M
swing-application-impl/src/main/java/org/cytoscape/internal/view/NetworkMainPanel.java
M
swing-application-impl/src/main/java/org/cytoscape/internal/view/NetworkSearchMediator.java
M
swing-application-impl/src/main/java/org/cytoscape/internal/view/NetworkViewMediator.java
M
swing-application-impl/src/main/java/org/cytoscape/internal/view/StarterPanel.java
M
swing-application-impl/src/main/java/org/cytoscape/internal/view/help/CreditScreen.java
M
swing-util-impl/src/main/java/org/cytoscape/util/swing/internal/OpenBrowserImpl.java
M
table-browser-impl/src/main/java/org/cytoscape/browser/internal/io/TableColumnStatFileIO.java
M
table-browser-impl/src/main/java/org/cytoscape/browser/internal/view/AbstractTableBrowser.java
M
table-browser-impl/src/main/java/org/cytoscape/browser/internal/view/BrowserTable.java
M
table-import-impl/src/main/java/org/cytoscape/tableimport/internal/reader/DefaultAttributeTableReader.java
M
table-import-impl/src/main/java/org/cytoscape/tableimport/internal/reader/ExcelAttributeSheetReader.java
M
table-import-impl/src/main/java/org/cytoscape/tableimport/internal/reader/ExcelNetworkSheetReader.java
M
table-import-impl/src/main/java/org/cytoscape/tableimport/internal/reader/NetworkTableReader.java
M
table-import-impl/src/main/java/org/cytoscape/tableimport/internal/reader/ontology/OBOReader.java
M
table-import-impl/src/main/java/org/cytoscape/tableimport/internal/task/ImportOntologyAndAnnotationAction.java
M
table-import-impl/src/main/java/org/cytoscape/tableimport/internal/task/MapGeneAssociationTask.java
M
table-import-impl/src/main/java/org/cytoscape/tableimport/internal/task/RegisterOntologyTask.java
M
table-import-impl/src/main/java/org/cytoscape/tableimport/internal/task/SelectFileTableTask.java
M
table-import-impl/src/main/java/org/cytoscape/tableimport/internal/task/SelectURLTableTask.java
M
table-import-impl/src/main/java/org/cytoscape/tableimport/internal/ui/ImportTablePanel.java
M
table-import-impl/src/main/java/org/cytoscape/tableimport/internal/ui/OntologyPanelBuilder.java
M
table-import-impl/src/main/java/org/cytoscape/tableimport/internal/ui/PreviewTablePanel.java
M
table-import-impl/src/main/java/org/cytoscape/tableimport/internal/util/OntologyUtil.java
M
viewmodel-impl/impl/src/main/java/org/cytoscape/view/model/internal/CyNetworkViewManagerImpl.java
M
vizmap-gui-impl/src/main/java/org/cytoscape/view/vizmap/gui/internal/action/EditSelectedDiscreteValuesAction.java
M
vizmap-gui-impl/src/main/java/org/cytoscape/view/vizmap/gui/internal/task/ImportDefaultVizmapTask.java
M
vizmap-gui-impl/src/main/java/org/cytoscape/view/vizmap/gui/internal/util/mapgenerator/NumberSeriesMappingGenerator.java
M
vizmap-gui-impl/src/main/java/org/cytoscape/view/vizmap/gui/internal/util/mapgenerator/RandomNumberMappingGenerator.java
M
vizmap-gui-impl/src/main/java/org/cytoscape/view/vizmap/gui/internal/view/VizMapPropertyBuilder.java
M
vizmap-gui-impl/src/main/java/org/cytoscape/view/vizmap/gui/internal/view/VizMapperMediator.java
M
vizmap-gui-impl/src/main/java/org/cytoscape/view/vizmap/gui/internal/view/cellrenderer/NumberContinuousCellRenderer.java
M
vizmap-gui-impl/src/main/java/org/cytoscape/view/vizmap/gui/internal/view/editor/mappingeditor/ContinuousMappingEditorPanel.java
M
vizmap-gui-impl/src/main/java/org/cytoscape/view/vizmap/gui/internal/view/editor/propertyeditor/CyNumberPropertyEditor.java
M
vizmap-impl/impl/src/main/java/org/cytoscape/view/vizmap/internal/ApplyToNetworkHandler.java
M
vizmap-impl/impl/src/main/java/org/cytoscape/view/vizmap/internal/VisualMappingManagerImpl.java
M
vizmap-impl/impl/src/main/java/org/cytoscape/view/vizmap/internal/VisualStyleFactoryImpl.java
M
vizmap-impl/impl/src/main/java/org/cytoscape/view/vizmap/internal/VisualStyleImpl.java
M
webservice-impl/src/main/java/org/cytoscape/webservice/internal/ui/AboutDialog.java
M
webservice-impl/src/main/java/org/cytoscape/webservice/internal/ui/WebServiceImportDialog.java
M
work-impl/src/main/java/org/cytoscape/work/internal/sync/LoggingTaskMonitor.java
M
work-impl/src/main/java/org/cytoscape/work/internal/sync/SyncTaskManager.java
M
work-swing-impl/impl/src/main/java/org/cytoscape/work/internal/task/JDialogTaskManager.java
M
work-swing-impl/impl/src/main/java/org/cytoscape/work/internal/task/JPanelTaskManager.java
M
work-swing-impl/impl/src/main/java/org/cytoscape/work/internal/tunables/BoundedHandler.java
M
work-swing-impl/impl/src/main/java/org/cytoscape/work/internal/tunables/JDialogTunableMutator.java
M
work-swing-impl/impl/src/main/java/org/cytoscape/work/internal/tunables/JPanelTunableMutator.java
M
work-swing-impl/impl/src/main/java/org/cytoscape/work/internal/tunables/StringHandler.java
M
work-swing-impl/impl/src/main/java/org/cytoscape/work/internal/tunables/URLHandler.java
M
work-swing-impl/impl/src/main/java/org/cytoscape/work/internal/tunables/UserActionHandler.java
Log Message:
-----------
use getLogger(CyUserLog.NAME)
Commit: 17f5294fcaab5274fb9a09f44e81774e8815e307
https://github.com/cytoscape/cytoscape-impl/commit/17f5294fcaab5274fb9a09f44e81774e8815e307
Author: adamtreister <[email protected]>
Date: 2017-08-19 (Sat, 19 Aug 2017)
Changed paths:
R CytoscapeMenuBar.java
M app-impl/src/main/java/org/cytoscape/app/internal/manager/AppParser.java
M app-impl/src/main/java/org/cytoscape/app/internal/net/WebQuerier.java
M
app-impl/src/main/java/org/cytoscape/app/internal/net/server/CyHttpdFactoryImpl.java
M
app-impl/src/main/java/org/cytoscape/app/internal/tunable/AppConflictHandler.java
M app-impl/src/main/java/org/cytoscape/app/internal/ui/InstallAppsPanel.java
M app-impl/src/main/java/org/cytoscape/app/internal/util/DebugHelper.java
M
application-impl/src/main/java/org/cytoscape/application/internal/CyApplicationManagerImpl.java
M
application-impl/src/main/java/org/cytoscape/application/internal/ShutdownHandler.java
M
command-executor-impl/src/main/java/org/cytoscape/command/internal/StringToModelImpl.java
M
command-executor-impl/src/main/java/org/cytoscape/command/internal/TFExecutor.java
M
command-executor-impl/src/main/java/org/cytoscape/command/internal/available/ArgRecorder.java
M
command-executor-impl/src/main/java/org/cytoscape/command/internal/available/AvailableCommandsImpl.java
M
command-executor-impl/src/main/java/org/cytoscape/command/internal/tunables/CommandTunableInterceptorImpl.java
M
command-executor-impl/src/main/java/org/cytoscape/command/internal/tunables/CyIdentifiableStringTunableHandlerFactory.java
M
core-task-impl/src/main/java/org/cytoscape/task/internal/creation/CreateNetworkViewTask.java
M
core-task-impl/src/main/java/org/cytoscape/task/internal/creation/GroupUtils.java
M
core-task-impl/src/main/java/org/cytoscape/task/internal/loaddatatable/AddImportedTableTask.java
M
core-task-impl/src/main/java/org/cytoscape/task/internal/loadnetwork/LoadMultipleNetworkFilesTaskFactoryImpl.java
M
core-task-impl/src/main/java/org/cytoscape/task/internal/loadvizmap/LoadVizmapFileTaskFactoryImpl.java
M
core-task-impl/src/main/java/org/cytoscape/task/internal/session/CySessionWriter.java
M
core-task-impl/src/main/java/org/cytoscape/task/internal/table/ImportTableDataTask.java
M
core-task-impl/src/main/java/org/cytoscape/task/internal/table/JoinTablesTask.java
M
core-task-impl/src/main/java/org/cytoscape/task/internal/table/MapTableToNetworkTablesTask.java
M
core-task-impl/src/main/java/org/cytoscape/task/internal/table/MergeTablesTask.java
M
datasource-impl/src/main/java/org/cytoscape/io/datasource/internal/bookmarks/BookmarkDataSourceBuilder.java
M
ding-impl/ding-presentation-impl/src/main/java/org/cytoscape/ding/customgraphics/AbstractCustomGraphics2.java
M
ding-impl/ding-presentation-impl/src/main/java/org/cytoscape/ding/customgraphics/bitmap/URLImageCustomGraphicsFactory.java
M
ding-impl/ding-presentation-impl/src/main/java/org/cytoscape/ding/customgraphics/json/PropertiesJsonDeserializer.java
M
ding-impl/ding-presentation-impl/src/main/java/org/cytoscape/ding/customgraphicsmgr/internal/CustomGraphicsManagerImpl.java
M
ding-impl/ding-presentation-impl/src/main/java/org/cytoscape/ding/customgraphicsmgr/internal/PersistImageTask.java
M
ding-impl/ding-presentation-impl/src/main/java/org/cytoscape/ding/customgraphicsmgr/internal/RestoreImageTask.java
M
ding-impl/ding-presentation-impl/src/main/java/org/cytoscape/ding/customgraphicsmgr/internal/ui/CustomGraphicsManagerDialog.java
M
ding-impl/ding-presentation-impl/src/main/java/org/cytoscape/ding/impl/AddEdgeTask.java
M
ding-impl/ding-presentation-impl/src/main/java/org/cytoscape/ding/impl/BirdsEyeView.java
M
ding-impl/ding-presentation-impl/src/main/java/org/cytoscape/ding/impl/cyannotator/annotations/GroupAnnotationImpl.java
M
ding-impl/ding-presentation-impl/src/main/java/org/cytoscape/graph/render/immed/GraphGraphics.java
M
ding-impl/ding-presentation-impl/src/main/java/org/cytoscape/graph/render/stateful/GraphRenderer.java
M
edge-bundler-impl/src/main/java/org/cytoscape/edge/bundler/internal/EdgeBundlerTask.java
M
equations-impl/src/main/java/org/cytoscape/equations/internal/EquationParserImpl.java
M
event-impl/impl/src/main/java/org/cytoscape/event/internal/CyEventHelperImpl.java
M
event-impl/impl/src/main/java/org/cytoscape/event/internal/CyListenerAdapter.java
M
filter-impl/src/main/java/org/cytoscape/filter/internal/filters/FilterApp.java
M
filter-impl/src/main/java/org/cytoscape/filter/internal/filters/model/CompositeFilter.java
M
filter-impl/src/main/java/org/cytoscape/filter/internal/filters/model/FilterModelLocator.java
M
filter-impl/src/main/java/org/cytoscape/filter/internal/filters/model/NumericFilter.java
M
filter-impl/src/main/java/org/cytoscape/filter/internal/filters/model/StringFilter.java
M
filter-impl/src/main/java/org/cytoscape/filter/internal/filters/model/TopologyFilter.java
M
filter-impl/src/main/java/org/cytoscape/filter/internal/filters/view/FilterMainPanel.java
M
filter-impl/src/main/java/org/cytoscape/filter/internal/filters/view/FilterSettingPanel.java
M
filter-impl/src/main/java/org/cytoscape/filter/internal/read/filter/FilterReader.java
M
filter-impl/src/main/java/org/cytoscape/filter/internal/write/filter/FilterWriter.java
M
filter2-impl/src/main/java/org/cytoscape/filter/internal/FilterSettingsManager.java
M
filter2-impl/src/main/java/org/cytoscape/filter/internal/view/AbstractPanelController.java
M
filter2-impl/src/main/java/org/cytoscape/filter/internal/view/DragHandler.java
M
graphml-impl/src/main/java/org/cytoscape/io/internal/read/graphml/GraphMLFileFilter.java
M
graphml-impl/src/main/java/org/cytoscape/io/internal/read/graphml/GraphMLParser.java
M
graphml-impl/src/main/java/org/cytoscape/io/internal/write/graphml/GraphMLWriter.java
M group-impl/src/main/java/org/cytoscape/group/internal/CyGroupImpl.java
M group-impl/src/main/java/org/cytoscape/group/internal/GroupIO.java
M
group-impl/src/main/java/org/cytoscape/group/internal/data/GroupDataCollapseHandler.java
M
group-impl/src/main/java/org/cytoscape/group/internal/view/GroupViewCollapseHandler.java
M
gui-cmdline-parser-impl/src/main/java/org/cytoscape/cmdline/gui/internal/Parser.java
M
gui-cmdline-parser-impl/src/main/java/org/cytoscape/cmdline/gui/internal/StartupConfig.java
M
headless-cmdline-parser-impl/src/main/java/org/cytoscape/cmdline/headless/internal/Parser.java
M
headless-cmdline-parser-impl/src/main/java/org/cytoscape/cmdline/headless/internal/StartupConfig.java
M
io-impl/impl/src/main/java/org/cytoscape/io/internal/read/bookmarks/BookmarkFileFilter.java
M
io-impl/impl/src/main/java/org/cytoscape/io/internal/read/cysession/CysessionFileFilter.java
M
io-impl/impl/src/main/java/org/cytoscape/io/internal/read/datatable/CyAttributesReader.java
M
io-impl/impl/src/main/java/org/cytoscape/io/internal/read/gml/GMLFileFilter.java
M
io-impl/impl/src/main/java/org/cytoscape/io/internal/read/gml/GMLNetworkReader.java
M
io-impl/impl/src/main/java/org/cytoscape/io/internal/read/nnf/NNFNetworkReader.java
M
io-impl/impl/src/main/java/org/cytoscape/io/internal/read/session/AbstractSessionReader.java
M
io-impl/impl/src/main/java/org/cytoscape/io/internal/read/session/SessionFileFilter.java
M
io-impl/impl/src/main/java/org/cytoscape/io/internal/read/vizmap/VizmapXMLFileFilter.java
M
io-impl/impl/src/main/java/org/cytoscape/io/internal/read/xgmml/GenericXGMMLFileFilter.java
M
io-impl/impl/src/main/java/org/cytoscape/io/internal/read/xgmml/GenericXGMMLReader.java
M
io-impl/impl/src/main/java/org/cytoscape/io/internal/read/xgmml/handler/AbstractHandler.java
M
io-impl/impl/src/main/java/org/cytoscape/io/internal/read/xgmml/handler/ReadDataManager.java
M io-impl/impl/src/main/java/org/cytoscape/io/internal/util/ReadCache.java
M
io-impl/impl/src/main/java/org/cytoscape/io/internal/util/RecentlyOpenedTrackerImpl.java
M
io-impl/impl/src/main/java/org/cytoscape/io/internal/util/session/SessionUtil.java
M
io-impl/impl/src/main/java/org/cytoscape/io/internal/util/vizmap/VisualStyleSerializer.java
M
io-impl/impl/src/main/java/org/cytoscape/io/internal/write/AbstractWriterManager.java
M
io-impl/impl/src/main/java/org/cytoscape/io/internal/write/graphics/BitmapWriter.java
M
io-impl/impl/src/main/java/org/cytoscape/io/internal/write/graphics/PDFWriter.java
M
io-impl/impl/src/main/java/org/cytoscape/io/internal/write/graphics/PDFWriterFactory.java
M
io-impl/impl/src/main/java/org/cytoscape/io/internal/write/graphics/PSWriter.java
M
io-impl/impl/src/main/java/org/cytoscape/io/internal/write/graphics/SVGWriter.java
M
io-impl/impl/src/main/java/org/cytoscape/io/internal/write/session/SessionWriterImpl.java
M
io-impl/impl/src/main/java/org/cytoscape/io/internal/write/sif/SifWriter.java
M
io-impl/impl/src/main/java/org/cytoscape/io/internal/write/xgmml/GenericXGMMLWriter.java
M
io-impl/impl/src/test/java/org/cytoscape/io/internal/write/graphics/BitmapWriterTest.java
M
io-impl/impl/src/test/java/org/cytoscape/io/internal/write/graphics/PDFWriterTest.java
M
layout-cytoscape-impl/src/main/java/csapps/layout/algorithms/GroupAttributesLayoutTask.java
M
layout-cytoscape-impl/src/main/java/csapps/layout/algorithms/cose/CoSELayoutAlgorithmTask.java
M linkout-impl/src/main/java/org/cytoscape/linkout/internal/LinkOut.java
M linkout-impl/src/main/java/org/cytoscape/linkout/internal/LinkoutTask.java
M log-swing-impl/src/main/java/org/cytoscape/log/internal/ConsoleDialog.java
M log-swing-impl/src/main/java/org/cytoscape/log/internal/CyStatusBar.java
M
manual-layout-impl/src/main/java/org/cytoscape/view/manual/internal/CyActivator.java
M
model-impl/impl/src/main/java/org/cytoscape/model/internal/AbstractTableFacade.java
M
model-impl/impl/src/main/java/org/cytoscape/model/internal/CyNetworkFactoryImpl.java
M
model-impl/impl/src/main/java/org/cytoscape/model/internal/CyNetworkManagerImpl.java
M
model-impl/impl/src/main/java/org/cytoscape/model/internal/CyTableImpl.java
M
model-impl/impl/src/main/java/org/cytoscape/model/internal/CyTableManagerImpl.java
M model-impl/impl/src/main/java/org/cytoscape/model/internal/EqnSupport.java
M
model-impl/impl/src/main/java/org/cytoscape/model/internal/LocalTableFacade.java
M
model-impl/impl/src/main/java/org/cytoscape/model/internal/SharedTableFacade.java
M
presentation-impl/src/main/java/org/cytoscape/view/presentation/internal/RenderingEngineManagerImpl.java
M
property-impl/src/main/java/org/cytoscape/property/internal/PropsReader.java
M
property-impl/src/main/java/org/cytoscape/property/internal/bookmark/BookmarkReader.java
M
property-impl/src/main/java/org/cytoscape/property/internal/bookmark/BookmarksUtilImpl.java
M
search-impl/src/main/java/org/cytoscape/search/internal/EnhancedSearchQuery.java
M
search-impl/src/main/java/org/cytoscape/search/internal/IndexAndSearchTask.java
M
search-impl/src/main/java/org/cytoscape/search/internal/ui/EnhancedSearchPanel.java
M
session-impl/src/main/java/org/cytoscape/session/internal/CyNetworkNamingImpl.java
M
session-impl/src/main/java/org/cytoscape/session/internal/CySessionManagerImpl.java
M
swing-application-impl/src/main/java/org/cytoscape/internal/CyActivator.java
M
swing-application-impl/src/main/java/org/cytoscape/internal/SessionHandler.java
M
swing-application-impl/src/main/java/org/cytoscape/internal/actions/RecentSessionManager.java
M
swing-application-impl/src/main/java/org/cytoscape/internal/io/SessionIO.java
M
swing-application-impl/src/main/java/org/cytoscape/internal/shutdown/ConfigDirPropertyWriter.java
M
swing-application-impl/src/main/java/org/cytoscape/internal/task/CytoPanelTaskFactoryTunableAction.java
M
swing-application-impl/src/main/java/org/cytoscape/internal/task/TaskFactoryTunableAction.java
M
swing-application-impl/src/main/java/org/cytoscape/internal/undo/RedoAction.java
M
swing-application-impl/src/main/java/org/cytoscape/internal/undo/UndoAction.java
M
swing-application-impl/src/main/java/org/cytoscape/internal/view/BiModalJSplitPane.java
M
swing-application-impl/src/main/java/org/cytoscape/internal/view/CytoscapeDesktop.java
M
swing-application-impl/src/main/java/org/cytoscape/internal/view/CytoscapeMenuBar.java
M
swing-application-impl/src/main/java/org/cytoscape/internal/view/CytoscapeToolBar.java
M
swing-application-impl/src/main/java/org/cytoscape/internal/view/NetworkMainPanel.java
M
swing-application-impl/src/main/java/org/cytoscape/internal/view/NetworkSearchMediator.java
M
swing-application-impl/src/main/java/org/cytoscape/internal/view/NetworkViewMediator.java
M
swing-application-impl/src/main/java/org/cytoscape/internal/view/StarterPanel.java
M
swing-application-impl/src/main/java/org/cytoscape/internal/view/help/CreditScreen.java
M
swing-util-impl/src/main/java/org/cytoscape/util/swing/internal/OpenBrowserImpl.java
M
table-browser-impl/src/main/java/org/cytoscape/browser/internal/io/TableColumnStatFileIO.java
M
table-browser-impl/src/main/java/org/cytoscape/browser/internal/view/AbstractTableBrowser.java
M
table-browser-impl/src/main/java/org/cytoscape/browser/internal/view/BrowserTable.java
M
table-import-impl/src/main/java/org/cytoscape/tableimport/internal/reader/DefaultAttributeTableReader.java
M
table-import-impl/src/main/java/org/cytoscape/tableimport/internal/reader/ExcelAttributeSheetReader.java
M
table-import-impl/src/main/java/org/cytoscape/tableimport/internal/reader/ExcelNetworkSheetReader.java
M
table-import-impl/src/main/java/org/cytoscape/tableimport/internal/reader/NetworkTableReader.java
M
table-import-impl/src/main/java/org/cytoscape/tableimport/internal/reader/ontology/OBOReader.java
M
table-import-impl/src/main/java/org/cytoscape/tableimport/internal/task/ImportOntologyAndAnnotationAction.java
M
table-import-impl/src/main/java/org/cytoscape/tableimport/internal/task/MapGeneAssociationTask.java
M
table-import-impl/src/main/java/org/cytoscape/tableimport/internal/task/RegisterOntologyTask.java
M
table-import-impl/src/main/java/org/cytoscape/tableimport/internal/task/SelectFileTableTask.java
M
table-import-impl/src/main/java/org/cytoscape/tableimport/internal/task/SelectURLTableTask.java
M
table-import-impl/src/main/java/org/cytoscape/tableimport/internal/ui/ImportTablePanel.java
M
table-import-impl/src/main/java/org/cytoscape/tableimport/internal/ui/OntologyPanelBuilder.java
M
table-import-impl/src/main/java/org/cytoscape/tableimport/internal/ui/PreviewTablePanel.java
M
table-import-impl/src/main/java/org/cytoscape/tableimport/internal/util/OntologyUtil.java
M
viewmodel-impl/impl/src/main/java/org/cytoscape/view/model/internal/CyNetworkViewManagerImpl.java
M
vizmap-gui-impl/src/main/java/org/cytoscape/view/vizmap/gui/internal/action/AbstractVizMapperAction.java
M
vizmap-gui-impl/src/main/java/org/cytoscape/view/vizmap/gui/internal/action/EditSelectedDiscreteValuesAction.java
M
vizmap-gui-impl/src/main/java/org/cytoscape/view/vizmap/gui/internal/action/GenerateDiscreteValuesAction.java
M
vizmap-gui-impl/src/main/java/org/cytoscape/view/vizmap/gui/internal/action/RemoveSelectedDiscreteValuesAction.java
M
vizmap-gui-impl/src/main/java/org/cytoscape/view/vizmap/gui/internal/task/ImportDefaultVizmapTask.java
M
vizmap-gui-impl/src/main/java/org/cytoscape/view/vizmap/gui/internal/util/mapgenerator/NumberSeriesMappingGenerator.java
M
vizmap-gui-impl/src/main/java/org/cytoscape/view/vizmap/gui/internal/util/mapgenerator/RandomNumberMappingGenerator.java
M
vizmap-gui-impl/src/main/java/org/cytoscape/view/vizmap/gui/internal/view/VizMapPropertyBuilder.java
M
vizmap-gui-impl/src/main/java/org/cytoscape/view/vizmap/gui/internal/view/VizMapperMediator.java
M
vizmap-gui-impl/src/main/java/org/cytoscape/view/vizmap/gui/internal/view/cellrenderer/NumberContinuousCellRenderer.java
M
vizmap-gui-impl/src/main/java/org/cytoscape/view/vizmap/gui/internal/view/editor/mappingeditor/ContinuousMappingEditorPanel.java
M
vizmap-gui-impl/src/main/java/org/cytoscape/view/vizmap/gui/internal/view/editor/propertyeditor/CyNumberPropertyEditor.java
M
vizmap-impl/impl/src/main/java/org/cytoscape/view/vizmap/internal/ApplyToNetworkHandler.java
M
vizmap-impl/impl/src/main/java/org/cytoscape/view/vizmap/internal/VisualMappingManagerImpl.java
M
vizmap-impl/impl/src/main/java/org/cytoscape/view/vizmap/internal/VisualStyleFactoryImpl.java
M
vizmap-impl/impl/src/main/java/org/cytoscape/view/vizmap/internal/VisualStyleImpl.java
M
webservice-impl/src/main/java/org/cytoscape/webservice/internal/ui/AboutDialog.java
M
webservice-impl/src/main/java/org/cytoscape/webservice/internal/ui/WebServiceImportDialog.java
M
work-impl/src/main/java/org/cytoscape/work/internal/sync/LoggingTaskMonitor.java
M
work-impl/src/main/java/org/cytoscape/work/internal/sync/SyncTaskManager.java
M
work-swing-impl/impl/src/main/java/org/cytoscape/work/internal/task/JDialogTaskManager.java
M
work-swing-impl/impl/src/main/java/org/cytoscape/work/internal/task/JPanelTaskManager.java
M
work-swing-impl/impl/src/main/java/org/cytoscape/work/internal/tunables/BoundedHandler.java
M
work-swing-impl/impl/src/main/java/org/cytoscape/work/internal/tunables/JDialogTunableMutator.java
M
work-swing-impl/impl/src/main/java/org/cytoscape/work/internal/tunables/JPanelTunableMutator.java
M
work-swing-impl/impl/src/main/java/org/cytoscape/work/internal/tunables/StringHandler.java
M
work-swing-impl/impl/src/main/java/org/cytoscape/work/internal/tunables/URLHandler.java
M
work-swing-impl/impl/src/main/java/org/cytoscape/work/internal/tunables/UserActionHandler.java
Log Message:
-----------
Merge branch 'cyUserLog' into develop
Commit: 4a07239c3377c0b9d159170b67eb6f47ccf49898
https://github.com/cytoscape/cytoscape-impl/commit/4a07239c3377c0b9d159170b67eb6f47ccf49898
Author: adamtreister <[email protected]>
Date: 2017-08-19 (Sat, 19 Aug 2017)
Changed paths:
M
swing-application-impl/src/main/java/org/cytoscape/internal/view/CytoscapeMenuBar.java
Log Message:
-----------
getLogger fix
Compare:
https://github.com/cytoscape/cytoscape-impl/compare/7b908c92f6b4...4a07239c3377
--
You received this message because you are subscribed to the Google Groups
"cytoscape-cvs" group.
To unsubscribe from this group and stop receiving emails from it, send an email
to [email protected].
To post to this group, send email to [email protected].
Visit this group at https://groups.google.com/group/cytoscape-cvs.
For more options, visit https://groups.google.com/d/optout.
