Class NexusExporter

Method Details

• exportAlignment

  public void exportAlignment(Alignment alignment)

  exportAlignment.

  Specified by:

  exportAlignment in interface AlignmentExporter

  Parameters:

  alignment - to export

• exportSequences

  public void exportSequences(Collection<? extends Sequence> sequences) throws IllegalArgumentException

  export alignment.

  Specified by:

  exportSequences in interface SequenceExporter

  Throws:

  IllegalArgumentException

• closeBlock

  public void closeBlock()

  close an existing open trees block

• exportTree

  public void exportTree(Tree tree)

  Export a single tree

  Specified by:

  exportTree in interface TreeExporter

  Parameters:

  tree -

  Throws:

  IOException

• exportTrees

  public void exportTrees(Collection<? extends Tree> trees)

  Description copied from interface: TreeExporter

  Export a collection of trees

  Specified by:

  exportTrees in interface TreeExporter

  Parameters:

  trees -

• exportTrees

  public void exportTrees(Collection<? extends Tree> trees, boolean writeTaxa)

• exportTreesWithTranslation

  public void exportTreesWithTranslation(Collection<? extends Tree> trees, Map<String,String> translationMap) throws IOException

  Throws:

  IOException

• close

  public void close()

  Specified by:

  close in interface TreeExporter

• exportMatrix

  public void exportMatrix(DistanceMatrix distanceMatrix)

• isGeneratedTreeName

  public static boolean isGeneratedTreeName(String name)