import org.forester.phylogeny.iterators.PreorderTreeIterator;
import org.forester.util.BasicDescriptiveStatistics;
import org.forester.util.DescriptiveStatistics;
+import org.forester.util.FailedConditionCheckException;
import org.forester.util.ForesterUtil;
import org.forester.util.TaxonomyUtil;
private static enum NDF {
NodeName( "NN" ),
TaxonomyCode( "TC" ),
- TaxonomyCommonName( "CN" ),
+ TaxonomyCommonName( "TN" ),
TaxonomyScientificName( "TS" ),
TaxonomyIdentifier( "TI" ),
TaxonomySynonym( "SY" ),
}
}
-
+ public final static PhylogenyNode getFirstExternalNode( final PhylogenyNode node ) {
+ PhylogenyNode n = node;
+ while ( n.isInternal() ) {
+ n = n.getFirstChildNode();
+ }
+ return n;
+ }
+
+ public final static PhylogenyNode getLastExternalNode( final PhylogenyNode node ) {
+ PhylogenyNode n = node;
+ while ( n.isInternal() ) {
+ n = n.getLastChildNode();
+ }
+ return n;
+ }
+
+ public final static boolean isHasCollapsedNodes( final Phylogeny phy ) {
+ for( final PhylogenyNodeIterator iter = phy.iteratorPreorder(); iter.hasNext(); ) {
+ final PhylogenyNode n = iter.next();
+ if ( !n.isExternal() && ( n.isCollapse() ) ) {
+ return true;
+ }
+ }
+ return false;
+ }
}