| Interface | Description |
|---|---|
| Plugin | |
| PluginAction | |
| PluginListener |
| Class | Description |
|---|---|
| AbstractPlugin | |
| AbstractPluginAction | |
| DataSet |
This is a set of Datum.
|
| Datum |
This wraps data elements used as input or output to Tassel modules.
|
| DefaultPluginListener | |
| GeneratePluginCode | |
| GenerateRCode | |
| ParameterCache |
This class is for storing a cache of parameters retrieved from a
java.util.Properties file that is available to all plugins on the command line. This is used when run_pipeline.pl -configParameters config.txt... is used. config.txt example entries as follow... First five are using by GetDBConnectionPlugin -config config.txt but that should be refactored to individual PluginParameters. Then entry example would be GetDBConnectionPlugin.DBType=sqlite KinshipPlugin.method=TYPE is the standard. PLUGIN_NAME.COMMAND_LINE_NAME=VALUE host=localHost user=sqlite password=sqlite DB=/tempFileDir/outputDir/phgTestDB.db DBtype=sqlite KinshipPlugin.method=Normalized_IBS |
| PluginEvent | |
| PluginParameter<T> |
Defines the attributes of parameters to be used in the plugins
|
| ThreadedPluginListener |