info.bioinfweb.jphyloio.formats.nexml.receivers

Class NeXMLAttributeMetadataReceiver

java.lang.Object

info.bioinfweb.jphyloio.dataadapters.implementations.receivers.BasicEventReceiver<P>

info.bioinfweb.jphyloio.formats.xml.receivers.AbstractXMLDataReceiver<NeXMLWriterStreamDataProvider>

info.bioinfweb.jphyloio.formats.nexml.receivers.AbstractNeXMLDataReceiver

info.bioinfweb.jphyloio.formats.nexml.receivers.NeXMLMetaDataReceiver

info.bioinfweb.jphyloio.formats.nexml.receivers.NeXMLPredicateMetaReceiver

info.bioinfweb.jphyloio.formats.nexml.receivers.NeXMLAttributeMetadataReceiver

All Implemented Interfaces:

JPhyloIOEventReceiver, NeXMLConstants

public class NeXMLAttributeMetadataReceiver
extends NeXMLPredicateMetaReceiver

Receiver that is used to store the contents of metadata events with certain predicates in a map to be written as attribute/value pairs later on. The predicates that shall be considered should be given as a constructor parameter. The filled map can be obtained after using this receiver at least once.

Author:

Sarah Wiechers

Field Summary

Fields inherited from interface info.bioinfweb.jphyloio.formats.nexml.NeXMLConstants

ATTR_ABOUT, ATTR_CELL_SET_LINKED_IDS, ATTR_CHAR_SET_LINKED_IDS, ATTR_CODON_POSITION, ATTR_CONTENT, ATTR_DATATYPE, ATTR_GENERATOR, ATTR_HREF, ATTR_ID, ATTR_LABEL, ATTR_LENGTH, ATTR_NODE_EDGE_SET_LINKED_EDGE_IDS, ATTR_NODE_EDGE_SET_LINKED_NODE_IDS, ATTR_NODE_EDGE_SET_LINKED_ROOTEDGE_IDS, ATTR_OTU_SET_LINKED_IDS, ATTR_OTUS, ATTR_PROPERTY, ATTR_REL, ATTR_ROOT, ATTR_SEQUENCE_SET_LINKED_IDS, ATTR_SINGLE_CHAR_LINK, ATTR_SINGLE_OTU_LINK, ATTR_SINGLE_STATE_LINK, ATTR_SOURCE, ATTR_STATE_SET_LINKED_IDS, ATTR_STATES, ATTR_SYMBOL, ATTR_TARGET, ATTR_TOKENS, ATTR_TREE_SET_LINKED_NETWORK_IDS, ATTR_TREE_SET_LINKED_TREE_IDS, ATTR_VERSION, ATTR_XSI_TYPE, DEFAULT_TOKEN_DEFINITION_SET_ID_PREFIX, NEXML_DEFAULT_NAMESPACE_PREFIX, NEXML_FORMAT_NAME, NEXML_NAMESPACE, NEXML_NAMESPACE_PREFIX, NEXML_PREDICATE_NAMESPACE, NEXML_VERSION, PREDICATE_CHAR_ATTR_CODON_POSITION, PREDICATE_CHAR_ATTR_TOKENS, PREDICATE_FORMAT, PREDICATE_MATRIX, PREDICATE_ORIGINAL_LABEL, PREDICATE_ORIGINAL_TOKEN_NAME, TAG_CELL, TAG_CHAR, TAG_CHARACTERS, TAG_EDGE, TAG_FORMAT, TAG_MATRIX, TAG_MEMBER, TAG_META, TAG_NETWORK, TAG_NODE, TAG_OTU, TAG_OTUS, TAG_POLYMORPHIC, TAG_ROOT, TAG_ROOTEDGE, TAG_ROW, TAG_SEQ, TAG_SET, TAG_STATE, TAG_STATES, TAG_TREE, TAG_TREES, TAG_UNCERTAIN, TYPE_CONTIN_CELLS, TYPE_CONTIN_SEQ, TYPE_DNA_CELLS, TYPE_DNA_SEQS, TYPE_FLOAT_NETWORK, TYPE_FLOAT_TREE, TYPE_INT_NETWORK, TYPE_INT_TREE, TYPE_LITERAL_META, TYPE_PROTEIN_CELLS, TYPE_PROTEIN_SEQS, TYPE_RESOURCE_META, TYPE_RESTRICTION_CELLS, TYPE_RESTRICTION_SEQS, TYPE_RNA_CELLS, TYPE_RNA_SEQS, TYPE_STANDARD_CELLS, TYPE_STANDARD_SEQ, UNDEFINED_OTU_ID_PREFIX, UNDEFINED_OTU_LABEL, UNDEFINED_OTUS_ID_PREFIX, UNDEFINED_OTUS_LABEL

Constructor Summary

Constructors

Constructor and Description
NeXMLAttributeMetadataReceiver(NeXMLWriterStreamDataProvider streamDataProvider, ReadWriteParameterMap parameterMap, javax.xml.namespace.QName... predicates)

Method Summary

Modifier and Type	Method and Description
java.util.Map<javax.xml.namespace.QName,java.lang.String>	getAttributeToValueMap()
protected void	handleComment(CommentEvent event)
protected void	handleLiteralContentMeta(LiteralMetadataContentEvent event)
protected void	handleLiteralMetaStart(LiteralMetadataEvent event)
protected void	handleMetaEndEvent(JPhyloIOEvent event)
protected void	handleResourceMetaStart(ResourceMetadataEvent event)

Methods inherited from class info.bioinfweb.jphyloio.formats.nexml.receivers.NeXMLPredicateMetaReceiver

changeMetaLevel, getMetaLevel, getPredicates, isUnderPredicate, setMetaLevel, setUnderPredicate

Methods inherited from class info.bioinfweb.jphyloio.dataadapters.implementations.receivers.BasicEventReceiver

add, addIgnoredComments, addIgnoredLiteralMetadata, addIgnoredResourceMetadata, addIgnoreLogMessage, didIgnoreComments, didIgnoreLiteralMetadata, didIgnoreMetadata, didIgnoreResourceMetadata, doAdd, getIgnoredComments, getIgnoredLiteralMetadata, getIgnoredMetadata, getIgnoredResourceMetadata, getLogger, getParameterMap, getParentEvent, getParentEvents, getStreamDataProvider, isInComment

Methods inherited from class java.lang.Object

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

Constructor Detail

NeXMLAttributeMetadataReceiver

public NeXMLAttributeMetadataReceiver(NeXMLWriterStreamDataProvider streamDataProvider,
                                      ReadWriteParameterMap parameterMap,
                                      javax.xml.namespace.QName... predicates)

Method Detail

getAttributeToValueMap

public java.util.Map<javax.xml.namespace.QName,java.lang.String> getAttributeToValueMap()

handleLiteralMetaStart

protected void handleLiteralMetaStart(LiteralMetadataEvent event)
                               throws java.io.IOException,
                                      javax.xml.stream.XMLStreamException

Overrides:

handleLiteralMetaStart in class NeXMLMetaDataReceiver

Throws:

java.io.IOException

javax.xml.stream.XMLStreamException

handleLiteralContentMeta

protected void handleLiteralContentMeta(LiteralMetadataContentEvent event)
                                 throws java.io.IOException,
                                        javax.xml.stream.XMLStreamException

Overrides:

handleLiteralContentMeta in class NeXMLMetaDataReceiver

Throws:

java.io.IOException

javax.xml.stream.XMLStreamException

handleResourceMetaStart

protected void handleResourceMetaStart(ResourceMetadataEvent event)
                                throws java.io.IOException,
                                       javax.xml.stream.XMLStreamException

Overrides:

handleResourceMetaStart in class NeXMLMetaDataReceiver

Throws:

java.io.IOException

javax.xml.stream.XMLStreamException

handleComment

protected void handleComment(CommentEvent event)
                      throws java.io.IOException,
                             javax.xml.stream.XMLStreamException

Overrides:

handleComment in class NeXMLMetaDataReceiver

Throws:

java.io.IOException

javax.xml.stream.XMLStreamException

handleMetaEndEvent

protected void handleMetaEndEvent(JPhyloIOEvent event)
                           throws java.io.IOException,
                                  javax.xml.stream.XMLStreamException

Overrides:

handleMetaEndEvent in class NeXMLMetaDataReceiver

Throws:

java.io.IOException

javax.xml.stream.XMLStreamException