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more tests for isDuplication() and isSpecation() added
[jalview.git]
/
forester
/
java
/
src
/
org
/
forester
/
tools
/
TreeSplitMatrix.java
diff --git
a/forester/java/src/org/forester/tools/TreeSplitMatrix.java
b/forester/java/src/org/forester/tools/TreeSplitMatrix.java
index
29bd2dd
..
7b00eb2
100644
(file)
--- a/
forester/java/src/org/forester/tools/TreeSplitMatrix.java
+++ b/
forester/java/src/org/forester/tools/TreeSplitMatrix.java
@@
-21,7
+21,7
@@
// Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA
//
// Contact: phylosoft @ gmail . com
// Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA
//
// Contact: phylosoft @ gmail . com
-// WWW: www.phylosoft.org/forester
+// WWW: https://sites.google.com/site/cmzmasek/home/software/forester
package org.forester.tools;
package org.forester.tools;
@@
-68,8
+68,8
@@
public class TreeSplitMatrix {
/**
* If strict is true, target nodes (all external nodes of the phylogeny for
* which support values are to be calculated) is not used for anything during construction.
/**
* If strict is true, target nodes (all external nodes of the phylogeny for
* which support values are to be calculated) is not used for anything during construction.
- *
- *
+ *
+ *
* @param target
* @param evaluator
* @param strict
* @param target
* @param evaluator
* @param strict
@@
-150,7
+150,7
@@
public class TreeSplitMatrix {
if ( q_counts != counts ) {
positive_matches = false;
}
if ( q_counts != counts ) {
positive_matches = false;
}
- if ( q_counts != keySet().size() - counts ) {
+ if ( q_counts != ( keySet().size() - counts ) ) {
negative_matches = false;
}
if ( !positive_matches && !negative_matches ) {
negative_matches = false;
}
if ( !positive_matches && !negative_matches ) {