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
JAL-934 - standard label font functions
[jalview.git]
/
src
/
jalview
/
analysis
/
NJTree.java
diff --git
a/src/jalview/analysis/NJTree.java
b/src/jalview/analysis/NJTree.java
old mode 100755
(executable)
new mode 100644
(file)
index
6976dc3
..
e5c1643
--- a/
src/jalview/analysis/NJTree.java
+++ b/
src/jalview/analysis/NJTree.java
@@
-237,7
+237,7
@@
public class NJTree
{
if (ResidueProperties.getScoreMatrix(pwtype) == null)
{
{
if (ResidueProperties.getScoreMatrix(pwtype) == null)
{
- type = "BLOSUM62";
+ pwtype = "BLOSUM62";
}
}
}
}
@@
-267,15
+267,16
@@
public class NJTree
}
/**
}
/**
- * DOCUMENT ME!
+ * Generate a string representation of the Tree
*
*
- * @return DOCUMENT ME!
+ * @return Newick File with all tree data available
*/
public String toString()
{
jalview.io.NewickFile fout = new jalview.io.NewickFile(getTopNode());
*/
public String toString()
{
jalview.io.NewickFile fout = new jalview.io.NewickFile(getTopNode());
- return fout.print(false, true); // distances only
+ return fout.print(isHasBootstrap(),
+ isHasDistances(), isHasRootDistance()); // output all data available for tree
}
/**
}
/**