Cytoscape Wiki|
Size: 638
Comment:
|
Size: 1075
Comment:
|
| Deletions are marked like this. | Additions are marked like this. |
| Line 1: | Line 1: |
| CySession.xml is the file to save current states of the Cytoscape session. | CySession.xml is the file to save current states of Cytoscape session. |
| Line 5: | Line 5: |
| 3. Network Tree structure. | 3. Network Tree structure (shown in Network Panel in CytoPanel 1). |
| Line 7: | Line 7: |
|
5. Annotation for the session 6. Selected/Hidden nodes/edges 7. Plugin state |
5. Annotation (node/memo) for the session 6. Selected/Hidden nodes and edges 7. Plugin state (This topic should be dicussed with plugin writers) |
| Line 12: | Line 12: |
| The last element is more complicated than others. First of all, we need to create a new signal called "SESSION_SAVE" and "SESSION_LOAD" to tell plugins that session save/load command is called. We may need to create a schema for each plugin to describe its state. |
7 is more complicated than others. First of all, we need to create new signals called "SESSION_SAVE" and "SESSION_LOAD" to tell plugins that session save/load command is executed. To simplify this process, we may need a standard for plugin state saving mechanism. One possible solution is: * Create a schema for each plugin to describe its state. * Use JAXB to create Java code to access plugin states in an XML file. * Session Saving class copies state xml files for each plugins, and then zip them into .cys file. In any case, we should create a standard to save/load plugin states. |
CySession.xml is the file to save current states of Cytoscape session. The following information will be stored in the XML document:
- List of networks opened in current session.
- States of Cytopanels 1~3.
Network Tree structure (shown in Network Panel in CytoPanel 1).
- Session ID
- Annotation (node/memo) for the session
- Selected/Hidden nodes and edges
- Plugin state (This topic should be dicussed with plugin writers)
Plugin State
7 is more complicated than others. First of all, we need to create new signals called "SESSION_SAVE" and "SESSION_LOAD" to tell plugins that session save/load command is executed. To simplify this process, we may need a standard for plugin state saving mechanism. One possible solution is:
- Create a schema for each plugin to describe its state.
- Use JAXB to create Java code to access plugin states in an XML file.
- Session Saving class copies state xml files for each plugins, and then zip them into .cys file.
In any case, we should create a standard to save/load plugin states.