}
- @Override
- public Color findColour(char c, int j, SequenceI seq)
- {
- Color currentColour;
- int index = ResidueProperties.aaIndex[c];
-
- if ((threshold == 0) || aboveThreshold(c, j))
- {
- if (lowerCaseColours != null && 'a' <= c && c <= 'z')
- {
- currentColour = lowerCaseColours[index];
- }
- else
- {
- currentColour = colors[index];
- }
- }
- else
- {
- currentColour = Color.white;
- }
-
- if (conservationColouring)
- {
- currentColour = applyConservation(currentColour, j);
- }
-
- return currentColour;
- }
-
public void setLowerCaseColours(Color[] lcolours)
{
lowerCaseColours = lcolours;