infovis.tree.io
Class NewickTreeReader

java.lang.Object
  infovis.io.AbstractReader
      infovis.table.io.AbstractTableReader
          infovis.tree.io.AbstractTreeReader
              infovis.tree.io.NewickTreeReader

public class NewickTreeReader
extends AbstractTreeReader

Read Trees in Newick format, usually for phylogenetic trees.

Version:

$Revision: 1.16 $

Author:

Jean-Daniel Fekete

InfoVis factory arguments:

TreeReaderFactory nh

Constructor Summary

NewickTreeReader(InputStream in, String name, Tree tree)
Constructor for NewickTreeReader.

Method Summary

boolean

load() Main method for loading the file.

Methods inherited from class infovis.tree.io.AbstractTreeReader

findNode

Methods inherited from class infovis.table.io.AbstractTableReader

close, getBuffer, getBufferedReader, getCommentChar, getField, getIn, getTable, ignoreLine, isEof, read, readInt, readLine, readQuoted, setBuffer, setCommentChar, setEof, setTable, skipToEol

Methods inherited from class infovis.io.AbstractReader

createColumn, getEncoding, getName, guessFieldType, setEncoding, setIn, setName

Methods inherited from class java.lang.Object

equals, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Detail

NewickTreeReader

public NewickTreeReader(InputStream in,
                        String name,
                        Tree tree)

Constructor for NewickTreeReader.

Parameters:

in -

name -

tree -

Method Detail

load

public boolean load()

Description copied from class: AbstractReader

Main method for loading the file. The loading may fail at any point, leaving the table in an indefinite state if the methods returns false.

Specified by:

load in class AbstractReader

Returns:

true if the file has been loaded without error, false otherwise.

See Also:

AbstractReader.load()