String description;\r
Conservation conserve;\r
Vector aaFrequency;\r
- boolean displayBoxes;\r
- boolean displayText;\r
- boolean colourText;\r
+ boolean displayBoxes = true;\r
+ boolean displayText = true;\r
+ boolean colourText = true;\r
private Vector sequences = new Vector();\r
int width = -1;\r
\r
*/\r
public SequenceGroup()\r
{\r
- groupName = "Group";\r
- this.displayBoxes = true;\r
- this.displayText = true;\r
- this.colourText = false;\r
- cs = null;\r
+ groupName = "JGroup:"+this.hashCode();\r
}\r
\r
/**\r
recalcConservation();\r
}\r
\r
- /**\r
- * Creates a new SequenceGroup object.\r
- *\r
- * @param groupName DOCUMENT ME!\r
- * @param scheme DOCUMENT ME!\r
- * @param displayBoxes DOCUMENT ME!\r
- * @param displayText DOCUMENT ME!\r
- * @param colourText DOCUMENT ME!\r
- * @param start DOCUMENT ME!\r
- * @param end DOCUMENT ME!\r
- */\r
- public SequenceGroup(String groupName, ColourSchemeI scheme,\r
- boolean displayBoxes, boolean displayText, boolean colourText,\r
- int start, int end)\r
- {\r
- this.groupName = groupName;\r
- this.displayBoxes = displayBoxes;\r
- this.displayText = displayText;\r
- this.colourText = colourText;\r
- this.cs = scheme;\r
- startRes = start;\r
- endRes = end;\r
- }\r
-\r
public SequenceI [] getSelectionAsNewSequences(AlignmentI align)\r
{\r
int iSize = sequences.size();\r