* @param ft
* @return display style for a feature
*/
- Object getFeatureStyle(String ft);
+ FeatureColourI getFeatureStyle(String ft);
/**
* update the feature style for a particular feature
*
* @param ft
* @param ggc
- * - currently allows java.awt.Color and
- * jalview.schemes.GraduatedColor
*/
- void setColour(String ft, Object ggc);
+ void setColour(String ft, FeatureColourI ggc);
AlignViewportI getViewport();
*
* @return
*/
- Map<String,Object> getFeatureColours();
+ Map<String, FeatureColourI> getFeatureColours();
/**
* query the alignment view to find all features
*
* @return
*/
- Map<String,Object> getDisplayedFeatureCols();
+ Map<String, FeatureColourI> getDisplayedFeatureCols();
/**
* get all registered groups
void setGroupVisibility(String group, boolean visible);
/**
- * locate features at a particular position on the given sequence
+ * Returns features at the specified position on the given sequence.
+ * Non-positional features are not included.
*
* @param sequence
* @param res
List<SequenceFeature> findFeaturesAtRes(SequenceI sequence, int res);
/**
+ * get current displayed types, in ordering of rendering (on top last)
*
- * @return true if the rendering platform supports transparency
+ * @return a (possibly empty) list of feature types
*/
- boolean isTransparencyAvailable();
- /**
- * get current displayed types
- *
- * @return
- */
-
- String[] getDisplayedFeatureTypes();
+ List<String> getDisplayedFeatureTypes();
/**
* get current displayed groups
*
- * @return
+ * @return a (possibly empty) list of feature groups
*/
- String[] getDisplayedFeatureGroups();
+ List<String> getDisplayedFeatureGroups();
/**
* display all features of these types