/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.9.0b2)
- * Copyright (C) 2015 The Jalview Authors
+ * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$)
+ * Copyright (C) $$Year-Rel$$ The Jalview Authors
*
* This file is part of Jalview.
*
alignedSeqs = true;
nucleotidesAllowed = false;
proteinAllowed = true;
+ filterNonStandardResidues = true;
gapMap = new boolean[0];
initViewportParams();
}
+ @Override
public String getServiceActionText()
{
return "calculating Amino acid consensus using AACon service";
* current visualization settings.
*/
+ @Override
public void updateResultAnnotation(boolean immediate)
{
if (immediate || !calcMan.isWorking(this) && scoremanager != null)
{
Map<String, TreeSet<Score>> scoremap = scoremanager.asMap();
int alWidth = alignViewport.getAlignment().getWidth();
- ArrayList<AlignmentAnnotation> ourAnnot = new ArrayList<AlignmentAnnotation>();
+ ArrayList<AlignmentAnnotation> ourAnnot = new ArrayList<>();
for (String score : scoremap.keySet())
{
Set<Score> scores = scoremap.get(score);