info.bioinfweb.jphyloio.formats.newick

Class NewickUtils

java.lang.Object

info.bioinfweb.jphyloio.formats.newick.NewickUtils

All Implemented Interfaces:

NewickConstants

public class NewickUtils
extends java.lang.Object
implements NewickConstants

Nested Class Summary

Nested Classes

Modifier and Type	Class and Description
static class	NewickUtils.ReadElement

Field Summary

Fields inherited from interface info.bioinfweb.jphyloio.formats.newick.NewickConstants

ALLOCATION_SEPARATOR_SYMBOL, ALLOCATION_SYMBOL, ALTERNATIVE_NAME_DELIMITER, COMMENT_END, COMMENT_START, DATA_TYPE_NEWICK_ARRAY, E_NEWICK_EDGE_TYPE_HYBRIDIZATION, E_NEWICK_EDGE_TYPE_LATERAL_GENE_TRANSFER, E_NEWICK_EDGE_TYPE_RECOMBINATION, E_NEWICK_NAMESPACE_PREFIX, E_NEWICK_NETWORK_DATA_SEPARATOR, ELEMENT_SEPERATOR, FIELD_END_SYMBOL, FIELD_START_SYMBOL, FIELD_VALUE_SEPARATOR_SYMBOL, FREE_NAME_BLANK, HOT_COMMENT_START_SYMBOL, INDEX_END_SYMBOL, INDEX_START_SYMBOL, LENGTH_SEPERATOR, NAME_DELIMITER, NEWICK_DATA_TYPE_NAMESPACE, NEWICK_FORMAT_NAME, NEWICK_NAMESPACE_PREFIX, NHX_KEY_CONFIDENCE, NHX_KEY_EVENT, NHX_KEY_GENE_NAME, NHX_KEY_PREFIX, NHX_KEY_SCIENTIFIC_NAME, NHX_KEY_SEQUENCE_ACCESSION, NHX_KEY_TAXONOMY_ID, NHX_START, NHX_VALUE_SEPARATOR_SYMBOL, PREDICATE_E_NEWICK_EDGE_TYPE, ROOTED_HOT_COMMENT, SUBTREE_END, SUBTREE_START, TERMINAL_SYMBOL, UNROOTED_HOT_COMMENT

Constructor Summary

Constructors

Constructor and Description
NewickUtils()

Method Summary

Modifier and Type	Method and Description
static java.lang.Number	parseNumericValue(java.lang.String text)
static NewickUtils.ReadElement	readNextElement(java.lang.String text, int start, int end)

Methods inherited from class java.lang.Object

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

Constructor Detail

NewickUtils

public NewickUtils()

Method Detail

parseNumericValue

public static java.lang.Number parseNumericValue(java.lang.String text)

readNextElement

public static NewickUtils.ReadElement readNextElement(java.lang.String text,
                                                      int start,
                                                      int end)
                                               throws InvalidObjectSourceDataException

Throws:

InvalidObjectSourceDataException