git://source.jalview.org
/
jalview.git
/ blobdiff
commit
grep
author
committer
pickaxe
?
search:
re
summary
|
shortlog
|
log
|
commit
|
commitdiff
|
tree
raw
|
inline
| side by side
added default ClustalWS or MuscleWS to remove gaps.
[jalview.git]
/
src
/
jalview
/
analysis
/
NJTree.java
diff --git
a/src/jalview/analysis/NJTree.java
b/src/jalview/analysis/NJTree.java
index
f44f990
..
d56464c
100755
(executable)
--- a/
src/jalview/analysis/NJTree.java
+++ b/
src/jalview/analysis/NJTree.java
@@
-430,7
+430,7
@@
public class NJTree {
k + 1),
\r
sequence[j].getSequence(k,
\r
k + 1));
\r
k + 1),
\r
sequence[j].getSequence(k,
\r
k + 1));
\r
- }catch(Exception ex){System.out.println("err creating BLOSUM62 tree");}
\r
+ }catch(Exception ex){System.err.println("err creating BLOSUM62 tree");ex.printStackTrace();}
\r
}
\r
distance[i][j] = (float)score;
\r
if (score > maxscore) {
\r
}
\r
distance[i][j] = (float)score;
\r
if (score > maxscore) {
\r
@@
-522,6
+522,11
@@
public class NJTree {
return found;
\r
}
\r
\r
return found;
\r
}
\r
\r
+ /**
\r
+ * printNode is mainly for debugging purposes.
\r
+ *
\r
+ * @param node SequenceNode
\r
+ */
\r
public void printNode(SequenceNode node) {
\r
if (node == null) {
\r
return;
\r
public void printNode(SequenceNode node) {
\r
if (node == null) {
\r
return;
\r