org.xmlcml.cml
Class ReactionImpl

java.lang.Object
  |
  +--org.apache.xerces.dom.NodeImpl
        |
        +--org.apache.xerces.dom.ChildNode
              |
              +--org.apache.xerces.dom.ChildAndParentNode
                    |
                    +--org.apache.xerces.dom.ElementImpl
                          |
                          +--uk.co.demon.ursus.dom.AbstractElementImpl
                                |
                                +--uk.co.demon.ursus.dom.PMRElementImpl
                                      |
                                      +--org.xmlcml.cml.CMLBaseImpl
                                            |
                                            +--org.xmlcml.cml.ReactionImpl

public class ReactionImpl

extends CMLBaseImpl

implements Reaction

See Also:

Serialized Form

Field Summary

protected java.util.Vector	productVector
protected java.util.Vector	reactantVector

Fields inherited from class org.xmlcml.cml.CMLBaseImpl

conventionName, conventionTable, dictRef, id, title, validity

Fields inherited from class uk.co.demon.ursus.dom.PMRElementImpl

CLASSNAME, processFlag

Fields inherited from class uk.co.demon.ursus.dom.AbstractElementImpl

CLASSNAME

Fields inherited from class org.apache.xerces.dom.ElementImpl

attributes, name

Fields inherited from class org.apache.xerces.dom.ChildAndParentNode

changes, firstChild, nodeListIndex, nodeListLength, nodeListNode, ownerDocument

Fields inherited from class org.apache.xerces.dom.ChildNode

nextSibling, previousSibling

Fields inherited from class org.apache.xerces.dom.NodeImpl

ELEMENT_DEFINITION_NODE, FIRSTCHILD, flags, IGNORABLEWS, MUTATION_AGGREGATE, MUTATION_ALL, MUTATION_LOCAL, MUTATION_NONE, MUTATIONEVENTS, OWNED, ownerNode, READONLY, SETVALUE, SPECIFIED, SYNCCHILDREN, SYNCDATA

Fields inherited from interface org.xmlcml.cml.CMLBase

ANGLE, ATOM, ATOMARRAY, BOND, BONDARRAY, BUILTIN, CML, CRYSTAL, ELECTRON, ELEMENT_COUNT, ELEMENT_NAMES, EXECUTE, FEATURE, FLOAT, FLOAT_TYPE, FLOATARRAY, FLOATMATRIX, FORMULA, INTEGER, INTEGER_TYPE, INTEGERARRAY, LINK, LIST, MOLECULE, PACKAGE_NAME, REACTION, SEQUENCE, STRING, STRING_TYPE, STRINGARRAY, TORSION, UNK, UNK_ELEM, UNKNOWN

Fields inherited from interface uk.co.demon.ursus.dom.PMRElement

CLASSNAME, LOCAL, QUALIFIED, UNIVERSAL

Fields inherited from interface org.xmlcml.cml.HasTitle

TITLE

Fields inherited from interface org.xmlcml.cml.HasDictRef

DICTREF

Fields inherited from interface org.xmlcml.cml.HasId

ID

Fields inherited from interface org.xmlcml.cml.HasConvention

CONVENTION

Fields inherited from interface uk.co.demon.ursus.dom.PMRNode

ATTRIBUTES, CONTENT, ELEMENTNAME, IDLIST, NESTED, NESTEDATTS, PACKAGENAME, PRETTY, SPLITFILES, STYLE, TAGGED, UNTAGGED, WHITESPACE, XMLCONTENT

Fields inherited from interface org.w3c.dom.Node

ATTRIBUTE_NODE, CDATA_SECTION_NODE, COMMENT_NODE, DOCUMENT_FRAGMENT_NODE, DOCUMENT_NODE, DOCUMENT_TYPE_NODE, ELEMENT_NODE, ENTITY_NODE, ENTITY_REFERENCE_NODE, NOTATION_NODE, PROCESSING_INSTRUCTION_NODE, TEXT_NODE

Fields inherited from interface org.w3c.dom.Node

ATTRIBUTE_NODE, CDATA_SECTION_NODE, COMMENT_NODE, DOCUMENT_FRAGMENT_NODE, DOCUMENT_NODE, DOCUMENT_TYPE_NODE, ELEMENT_NODE, ENTITY_NODE, ENTITY_REFERENCE_NODE, NOTATION_NODE, PROCESSING_INSTRUCTION_NODE, TEXT_NODE

Constructor Summary

ReactionImpl()

ReactionImpl(org.w3c.dom.Document document)
new Reaction in context

ReactionImpl(org.w3c.dom.Element element)

Method Summary

void	addProduct(Molecule product)
void	addReactant(Molecule reactant)
void	deleteProduct(Molecule product)
void	deleteReactant(Molecule reactant)
void	updateDOM()

Methods inherited from class org.xmlcml.cml.CMLBaseImpl

addValidity, convertToSubclass, debug, getConventionName, getDictRef, getId, getSubClassedElement, getTitle, getValidity, help, isValid, main, processDOM, setConventionName, setDictRef, setId, setTitle, showElementNames, test1, updateDOMHasConvention, updateDOMHasConvention, updateDOMHasCount, updateDOMHasDictRef, updateDOMHasDictRef, updateDOMHasId, updateDOMHasId, updateDOMHasTitle, updateDOMHasTitle, updateDOMHasUnits

Methods inherited from class uk.co.demon.ursus.dom.PMRElementImpl

appendTo, initialise, processDescendants, setProcessFlag

Methods inherited from class uk.co.demon.ursus.dom.AbstractElementImpl

setTagName

Methods inherited from class org.apache.xerces.dom.ElementImpl

cloneNode, getAttribute, getAttributeNode, getAttributeNodeNS, getAttributeNS, getAttributes, getElementsByTagName, getElementsByTagNameNS, getNodeName, getNodeType, getTagName, hasAttribute, hasAttributeNS, normalize, removeAttribute, removeAttributeNode, removeAttributeNS, setAttribute, setAttributeNode, setAttributeNodeNS, setAttributeNS, setReadOnly, setupDefaultAttributes, synchronizeData

Methods inherited from class org.apache.xerces.dom.ChildAndParentNode

changed, changes, getChildNodes, getFirstChild, getLastChild, getLength, getOwnerDocument, hasChildNodes, insertBefore, item, removeChild, replaceChild, synchronizeChildren, synchronizeChildren

Methods inherited from class org.apache.xerces.dom.ChildNode

getNextSibling, getParentNode, getPreviousSibling

Methods inherited from class org.apache.xerces.dom.NodeImpl

addEventListener, appendChild, dispatchEvent, finalize, getLocalName, getNamespaceURI, getNodeValue, getPrefix, getReadOnly, getUserData, removeEventListener, setNodeValue, setPrefix, setUserData, supports, toString

Methods inherited from class java.lang.Object

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

Field Detail

reactantVector

protected java.util.Vector reactantVector

productVector

protected java.util.Vector productVector

Constructor Detail

ReactionImpl

public ReactionImpl()

ReactionImpl

public ReactionImpl(org.w3c.dom.Element element)

ReactionImpl

public ReactionImpl(org.w3c.dom.Document document)

new Reaction in context

Method Detail

addReactant

public void addReactant(Molecule reactant)

Specified by:

addReactant in interface Reaction

deleteReactant

public void deleteReactant(Molecule reactant)

Specified by:

deleteReactant in interface Reaction

addProduct

public void addProduct(Molecule product)

Specified by:

addProduct in interface Reaction

deleteProduct

public void deleteProduct(Molecule product)

Specified by:

deleteProduct in interface Reaction

updateDOM

public void updateDOM()
               throws CMLException

Overrides:

updateDOM in class CMLBaseImpl