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Test version to switch branches
[jalview.git]
/
src
/
jalview
/
gui
/
PairwiseAlignPanel.java
diff --git
a/src/jalview/gui/PairwiseAlignPanel.java
b/src/jalview/gui/PairwiseAlignPanel.java
index
a84c449
..
fc862fe
100755
(executable)
--- a/
src/jalview/gui/PairwiseAlignPanel.java
+++ b/
src/jalview/gui/PairwiseAlignPanel.java
@@
-104,6
+104,7
@@
public class PairwiseAlignPanel extends GPairwiseAlignPanel
double totscore = 0D;
int count = seqs.length;
boolean first = true;
double totscore = 0D;
int count = seqs.length;
boolean first = true;
+ //AlignSeq as = new AlignSeq(seqs[1], seqStrings[1], seqs[0], seqStrings[0], type, gapOpenCost, gapExtendCost);
for (int i = 1; i < count; i++)
{
for (int i = 1; i < count; i++)
{
@@
-113,6
+114,7
@@
public class PairwiseAlignPanel extends GPairwiseAlignPanel
{
AlignSeq as = new AlignSeq(seqs[i], seqStrings[i], seqs[j],
seqStrings[j], type, gapOpenCost, gapExtendCost);
{
AlignSeq as = new AlignSeq(seqs[i], seqStrings[i], seqs[j],
seqStrings[j], type, gapOpenCost, gapExtendCost);
+// as.seqInit(seqs[i], seqStrings[i], seqs[j], seqStrings[j], type);
if (as.s1str.length() == 0 || as.s2str.length() == 0)
{
if (as.s1str.length() == 0 || as.s2str.length() == 0)
{