return null;
}
- if (Comparison.isGap(seq.getCharAt(column)))
+ // column is 'base 1' but getCharAt is an array index (ie from 0)
+ if (Comparison.isGap(seq.getCharAt(column - 1)))
{
/*
* returning null allows the colour scheme to provide gap colour
}
/**
-<<<<<<< HEAD
-=======
- * Answers true if the feature belongs to a feature group which is not
- * currently displayed, else false
- *
- * @param sequenceFeature
- * @return
- */
- @Override
- protected boolean featureGroupNotShown(
- final SequenceFeature sequenceFeature)
- {
- return featureGroups != null && sequenceFeature.featureGroup != null
- && sequenceFeature.featureGroup.length() != 0
- && featureGroups.containsKey(sequenceFeature.featureGroup)
- && !featureGroups.get(sequenceFeature.featureGroup)
- .booleanValue();
- }
-
- /**
->>>>>>> refs/heads/develop
* Called when alignment in associated view has new/modified features to
* discover and display.
*