org.xmlcml.cml
Interface Bond

All Known Implementing Classes:

BondImpl

public interface Bond

extends AbstractBond

Fields inherited from interface org.xmlcml.cml.AbstractBond

AROMATIC, ATOMREF, ATOMREFS, BOND_BUILTIN_COUNT, BOND_FLOATVAL_COUNT, BOND_FLOATVAL_END, BOND_FLOATVAL_START, BOND_INTEGERVAL_COUNT, BOND_INTEGERVAL_END, BOND_INTEGERVAL_START, BOND_STRINGVAL_COUNT, BOND_STRINGVAL_END, BOND_STRINGVAL_START, bondOrders, bondTypeStrings, DECREASE, DEFAULTXY2LENGTH, DEFAULTXYZ3LENGTH, DELETE, DOUBLE, HATCH, INCREASE, LENGTH, NOSTEREO, ORDER, OVERRUN, SINGLE, STEREO, TRIPLE, WEDGE, ZERO

Fields inherited from interface org.xmlcml.cml.AbstractBuiltinContainer

NONUNIQUE, UNIQUE

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

Method Summary

boolean	contains(Atom atom) true if bond contains this atom
Atom	getAtom(int i)
double	getBondLength()
Molecule	getMolecule()
java.lang.String	getOrder()
Atom	getOtherAtom(Atom atom) returns other atom in a 2-atom bond else null
java.lang.String	getStereo()
StringVal	getStringVal(int i)
java.lang.String	hashKey()
void	processAtomRefs(Molecule molecule)
void	setBondLength(double length)
void	setOrder(java.lang.String order)
void	setStereo(java.lang.String stereo)
void	setStringVal(int i, StringVal stringVal)

Methods inherited from interface org.xmlcml.cml.AbstractBond

addAtomRef, deleteAtomRef, getAtomRef, getAtomRefVector

Methods inherited from interface org.xmlcml.cml.AbstractBuiltinContainer

addBuiltinChildWithFloatValue, addBuiltinChildWithIntegerValue, addBuiltinChildWithStringValue, checkBuiltins, deleteNonBuiltinVal, getBuiltinChildElements, getBuiltinChildFloatValue, getBuiltinChildIntegerValue, getBuiltinChildStringValue, getBuiltinCount, getBuiltinVal, getNonBuiltinVal, setBuiltinVal, setNonBuiltinVal

Methods inherited from interface org.xmlcml.cml.CMLBase

addValidity, debug, isValid, processDOM, updateDOM

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

appendTo, getValidity, processDescendants, setProcessFlag, setTagName

Methods inherited from interface org.xmlcml.cml.HasTitle

getTitle, setTitle, updateDOMHasTitle

Methods inherited from interface org.xmlcml.cml.HasDictRef

getDictRef, setDictRef, updateDOMHasDictRef

Methods inherited from interface org.xmlcml.cml.HasId

getId, setId, updateDOMHasId

Methods inherited from interface org.xmlcml.cml.HasConvention

getConventionName, setConventionName, updateDOMHasConvention

Methods inherited from interface org.w3c.dom.Element

getAttribute, getAttributeNode, getAttributeNodeNS, getAttributeNS, getElementsByTagName, getElementsByTagNameNS, getTagName, hasAttribute, hasAttributeNS, removeAttribute, removeAttributeNode, removeAttributeNS, setAttribute, setAttributeNode, setAttributeNodeNS, setAttributeNS

Method Detail

getStringVal

public StringVal getStringVal(int i)

setStringVal

public void setStringVal(int i,
                         StringVal stringVal)

getAtom

public Atom getAtom(int i)

getOtherAtom

public Atom getOtherAtom(Atom atom)

returns other atom in a 2-atom bond else null

contains

public boolean contains(Atom atom)

true if bond contains this atom

processAtomRefs

public void processAtomRefs(Molecule molecule)
                     throws CMLException

getMolecule

public Molecule getMolecule()

hashKey

public java.lang.String hashKey()

getOrder

public java.lang.String getOrder()
                          throws CMLException

setOrder

public void setOrder(java.lang.String order)
              throws CMLException

getStereo

public java.lang.String getStereo()
                           throws CMLException

setStereo

public void setStereo(java.lang.String stereo)
               throws CMLException

getBondLength

public double getBondLength()
                     throws CMLException

setBondLength

public void setBondLength(double length)
                   throws CMLException