cleanup

[jalview.git] / forester / java / src / org / forester / test / Test.java

diff --git a/forester/java/src/org/forester/test/Test.java b/forester/java/src/org/forester/test/Test.java
index 9326fd1..66bff3d 100644 (file)
--- a/forester/java/src/org/forester/test/Test.java
+++ b/forester/java/src/org/forester/test/Test.java
@@ -127,7 +127,7 @@ import org.forester.ws.wabi.TxSearch.TAX_RANK;
 @SuppressWarnings( "unused")
 public final class Test {
 
-    private final static boolean PERFORM_DB_TESTS          = true;
+    private final static boolean PERFORM_DB_TESTS          = false;
     private final static double  ZERO_DIFF                 = 1.0E-9;
     private final static String  PATH_TO_TEST_DATA         = System.getProperty( "user.dir" )
                                                                    + ForesterUtil.getFileSeparator() + "test_data"
@@ -759,6 +759,15 @@ public final class Test {
             System.out.println( "failed." );
             failed++;
         }
+        System.out.print( "Tree copy: " );
+        if ( Test.testTreeCopy() ) {
+            System.out.println( "OK." );
+            succeeded++;
+        }
+        else {
+            System.out.println( "failed." );
+            failed++;
+        }
         System.out.print( "Basic tree methods: " );
         if ( Test.testBasicTreeMethods() ) {
             System.out.println( "OK." );
@@ -2765,6 +2774,39 @@ public final class Test {
         return true;
     }
 
+    private static boolean testTreeCopy() {
+        try {
+            final String str_0 = "((((a,b),c),d)[&&NHX:S=lizards],e[&&NHX:S=reptiles])";
+            final Phylogeny t0 = Phylogeny.createInstanceFromNhxString( str_0 );
+            final Phylogeny t1 = t0.copy();
+            if ( !t1.toNewHampshireX().equals( t0.toNewHampshireX() ) ) {
+                return false;
+            }
+            if ( !t1.toNewHampshireX().equals( str_0 ) ) {
+                return false;
+            }
+            t0.deleteSubtree( t0.getNode( "c" ), true );
+            t0.deleteSubtree( t0.getNode( "a" ), true );
+            t0.deleteSubtree( t0.getNode( "e" ), true );
+            if ( !t0.toNewHampshireX().equals( "(b,d)[&&NHX:S=lizards]" ) ) {
+                return false;
+            }
+            if ( !t1.toNewHampshireX().equals( str_0 ) ) {
+                return false;
+            }
+            t0.deleteSubtree( t0.getNode( "b" ), true );
+            t0.deleteSubtree( t0.getNode( "d" ), true );
+            if ( !t1.toNewHampshireX().equals( str_0 ) ) {
+                return false;
+            }
+        }
+        catch ( final Exception e ) {
+            e.printStackTrace();
+            return false;
+        }
+        return true;
+    }
+
     private static boolean testCreateBalancedPhylogeny() {
         try {
             final Phylogeny p0 = DevelopmentTools.createBalancedPhylogeny( 6, 5 );