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more tests for isDuplication() and isSpecation() added
[jalview.git]
/
forester
/
java
/
src
/
org
/
forester
/
tools
/
ConfidenceAssessor.java
diff --git
a/forester/java/src/org/forester/tools/ConfidenceAssessor.java
b/forester/java/src/org/forester/tools/ConfidenceAssessor.java
index
1a9d85e
..
18c9307
100644
(file)
--- a/
forester/java/src/org/forester/tools/ConfidenceAssessor.java
+++ b/
forester/java/src/org/forester/tools/ConfidenceAssessor.java
@@
-22,7
+22,7
@@
// 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;
@@
-90,7
+90,7
@@
public final class ConfidenceAssessor {
for( final Confidence confidence : confidences ) {
if ( confidence.getType().equals( confidence_type ) ) {
throw new IllegalArgumentException( "confidence [" + confidence_type
for( final Confidence confidence : confidences ) {
if ( confidence.getType().equals( confidence_type ) ) {
throw new IllegalArgumentException( "confidence [" + confidence_type
- + "] is already present in target" );
+ + "] is already present in target" );
}
}
}
}
}
}
@@
-128,9
+128,9
@@
public final class ConfidenceAssessor {
if ( strict ) {
if ( evaluator.getNumberOfExternalNodes() != target.getNumberOfExternalNodes() ) {
throw new IllegalArgumentException( "evaluator #" + counter
if ( strict ) {
if ( evaluator.getNumberOfExternalNodes() != target.getNumberOfExternalNodes() ) {
throw new IllegalArgumentException( "evaluator #" + counter
- + " does not have the same number of external nodes ["
- + evaluator.getNumberOfExternalNodes() + "] than the corresponding target ["
- + target.getNumberOfExternalNodes() + "]" );
+ + " does not have the same number of external nodes ["
+ + evaluator.getNumberOfExternalNodes() + "] than the corresponding target ["
+ + target.getNumberOfExternalNodes() + "]" );
}
}
final TreeSplitMatrix s = new TreeSplitMatrix( evaluator, strict, target );
}
}
final TreeSplitMatrix s = new TreeSplitMatrix( evaluator, strict, target );