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ensure all annotation dependent rendering gets refreshed
[jalview.git]
/
src
/
jalview
/
gui
/
PairwiseAlignPanel.java
diff --git
a/src/jalview/gui/PairwiseAlignPanel.java
b/src/jalview/gui/PairwiseAlignPanel.java
index
5ca572c
..
fedd8d2
100755
(executable)
--- a/
src/jalview/gui/PairwiseAlignPanel.java
+++ b/
src/jalview/gui/PairwiseAlignPanel.java
@@
-1,6
+1,6
@@
/*
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
/*
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
- * Copyright (C) 2011 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Copyright (C) 2011 J Procter, AM Waterhouse, J Engelhardt, LM Lui, G Barton, M Clamp, S Searle
*
* This file is part of Jalview.
*
*
* This file is part of Jalview.
*
@@
-56,14
+56,14
@@
public class PairwiseAlignPanel extends GPairwiseAlignPanel
if (av.getSelectionGroup() == null)
{
if (av.getSelectionGroup() == null)
{
- seqs = av.alignment.getSequencesArray();
+ seqs = av.getAlignment().getSequencesArray();
}
else
{
}
else
{
- seqs = av.getSelectionGroup().getSequencesInOrder(av.alignment);
+ seqs = av.getSelectionGroup().getSequencesInOrder(av.getAlignment());
}
}
- String type = (av.alignment.isNucleotide()) ? AlignSeq.DNA
+ String type = (av.getAlignment().isNucleotide()) ? AlignSeq.DNA
: AlignSeq.PEP;
float[][] scores = new float[seqs.length][seqs.length];
: AlignSeq.PEP;
float[][] scores = new float[seqs.length][seqs.length];