Examples of org.cipres.treebase.domain.matrix.PhyloChar

                    org.nexml.model.Character nexCharacter = nexCharacters.get(i);
                    Assert.assertNotNull("The NeXML Character should not be null if there as an index into it in this set", nexCharacter);
                    Assert.assertTrue("The Subset should contain the character at index i", nexSubset.containsThing(nexCharacter));
                    
                    //get the treebase character for the index in this column range
                    PhyloChar tbCharacter = tbCharacterMatrix.getCharacter(i);
                    Assert.assertNotNull("The TreeBASE PhyloChar should not be null if there as an index into it in this set", tbCharacter);                    
                    Assert.assertEquals("If the TreeBASE character has a label, then the NeXML character's label should match it", tbCharacter.getLabel(), nexCharacter.getLabel());
                    
                  }
                }
                else {
                  System.out.println("NexmlMatrixConverter failed to create a Subset");

   * @param tbColumn
   * @param xmlCharacter
   */


  private void copyCharacterAttributes(MatrixColumn tbColumn,org.nexml.model.Character xmlCharacter) {
    PhyloChar tbCharacter = tbColumn.getCharacter();
    if ( null != tbCharacter.getDescription() ) {
      xmlCharacter.setLabel(tbCharacter.getLabel());
    }      
    attachTreeBaseID((Annotatable)xmlCharacter,tbColumn,MatrixColumn.class);
  }

Related Classes of org.cipres.treebase.domain.matrix.PhyloChar

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