- All Superinterfaces:
- AbstractAtom, AbstractBase, AbstractBuiltinContainer, AttributeConvention, AttributeCount, AttributeDictRef, AttributeId, AttributeTitle, BuiltinArrayContainer, BuiltinContainer, org.w3c.dom.Element, org.w3c.dom.Node
- public interface CMLAtomArray
- extends AbstractAtom, BuiltinArrayContainer
DTD Class
this interface is only used if AtomArrays are stored as such in the
DOM . It may become obsolete since atomArray is only a syntactic container
| Fields inherited from interface org.xmlcml.cml.AbstractAtom |
ATOM_BUILTIN_COUNT, ATOM_FLOATVAL_COUNT, ATOM_FLOATVAL_END, ATOM_FLOATVAL_START, ATOM_ID, ATOM_INTEGERVAL_COUNT, ATOM_INTEGERVAL_END, ATOM_INTEGERVAL_START, ATOM_PARITY_FLOAT, ATOM_PARITY_INT, ATOM_STRINGVAL_COUNT, ATOM_STRINGVAL_END, ATOM_STRINGVAL_START, ATOMID_NAME, builtinFloatValNames, builtinIntegerValNames, builtinStringValNames, ELEMENT_TYPE, ELTYPE_NAME, FCHARGE_NAME, FORMAL_CHARGE_FLOAT, FORMAL_CHARGE_INT, HCOUNT_NAME, HYDROGEN_COUNT_FLOAT, HYDROGEN_COUNT_INT, ISOTOPE_FLOAT, ISOTOPE_INT, ISOTOPE_NAME, NON_HYDROGEN_COUNT_FLOAT, NON_HYDROGEN_COUNT_INT, NONH_NAME, OCC_NAME, OCCUPANCY, PARITY_NAME, RESID_NAME, RESIDUE_ID, RESIDUE_TYPE, RESTYPE_NAME, SMILESATOMS, SP, SP2, SP3, spTypeStrings, valences, X2, X2_NAME, X3, X3_NAME, XFRACT, XFRACT_NAME, Y2, Y2_NAME, Y3, Y3_NAME, YFRACT, YFRACT_NAME, Z3, Z3_NAME, ZFRACT, ZFRACT_NAME |
| Fields inherited from interface org.xmlcml.cml.AbstractBase |
ANGLE, ATOM, ATOMARRAY, ATOMPARITY, BOND, BONDARRAY, BONDSTEREO, BUILTIN, CML, CML_PREFIX, CRYSTAL, ELECTRON, ELEMENT_COUNT, ELEMENT_NAMES, EXECUTE, FEATURE, FLOAT, FLOAT_TYPE, FLOATARRAY, FLOATMATRIX, FORMULA, INTEGER, INTEGER_TYPE, INTEGERARRAY, LINK, LIST, MOLECULE, NAMESPACE_URI, PACKAGE_NAME, REACTION, SEQUENCE, STRING, STRING_TYPE, STRINGARRAY, TORSION, UNK, UNK_ELEM, UNKNOWN |
| Fields inherited from interface org.w3c.dom.Node |
ATTRIBUTE_NODE, CDATA_SECTION_NODE, COMMENT_NODE, DOCUMENT_FRAGMENT_NODE, DOCUMENT_NODE, DOCUMENT_POSITION_CONTAINED_BY, DOCUMENT_POSITION_CONTAINS, DOCUMENT_POSITION_DISCONNECTED, DOCUMENT_POSITION_FOLLOWING, DOCUMENT_POSITION_IMPLEMENTATION_SPECIFIC, DOCUMENT_POSITION_PRECEDING, DOCUMENT_TYPE_NODE, ELEMENT_NODE, ENTITY_NODE, ENTITY_REFERENCE_NODE, NOTATION_NODE, PROCESSING_INSTRUCTION_NODE, TEXT_NODE |
| Methods inherited from interface org.xmlcml.cml.AbstractBuiltinContainer |
addBuiltinChildWithFloatValue, addBuiltinChildWithIntegerValue, addBuiltinChildWithStringValue, checkBuiltins, deleteNonBuiltinVal, getBuiltinChild, getBuiltinChildElements, getBuiltinChildFloatValue, getBuiltinChildIntegerValue, getBuiltinChildStringValue, getBuiltinCount, getBuiltinVal, getNonBuiltinVal, removeBuiltinChild, setBuiltinFloatChild, setBuiltinIntegerChild, setBuiltinStringChild, setBuiltinVal, setNonBuiltinVal |
| Methods inherited from interface org.w3c.dom.Element |
getAttribute, getAttributeNode, getAttributeNodeNS, getAttributeNS, getElementsByTagName, getElementsByTagNameNS, getSchemaTypeInfo, getTagName, hasAttribute, hasAttributeNS, removeAttribute, removeAttributeNode, removeAttributeNS, setAttribute, setAttributeNode, setAttributeNodeNS, setAttributeNS, setIdAttribute, setIdAttributeNode, setIdAttributeNS |
| Methods inherited from interface org.w3c.dom.Node |
appendChild, cloneNode, compareDocumentPosition, getAttributes, getBaseURI, getChildNodes, getFeature, getFirstChild, getLastChild, getLocalName, getNamespaceURI, getNextSibling, getNodeName, getNodeType, getNodeValue, getOwnerDocument, getParentNode, getPrefix, getPreviousSibling, getTextContent, getUserData, hasAttributes, hasChildNodes, insertBefore, isDefaultNamespace, isEqualNode, isSameNode, isSupported, lookupNamespaceURI, lookupPrefix, normalize, removeChild, replaceChild, setNodeValue, setPrefix, setTextContent, setUserData |
add
public void add(CMLAtom atom)
- when an CMLAtom is added then it is split over the various StringArrays
size
public int size()
elementAt
public CMLAtom elementAt(int index)
- when an CMLAtom is extracted then it is combined from the various StringArrays
delete
public void delete(CMLAtom atom)
getBuiltinArray
public CMLStringArray getBuiltinArray(int builtinId)
- this is slightly tricky/ucky since CMLAtomArray is subclassed from CMLAtom and CMLStringArray
from CMLStringVal we can extract the array object as scalars and simply cast them
- Specified by:
getBuiltinArray in interface BuiltinArrayContainer
setBuiltinArray
public void setBuiltinArray(int builtinId,
CMLStringArray array)
- Specified by:
setBuiltinArray in interface BuiltinArrayContainer
getNonBuiltinArray
public CMLStringArray getNonBuiltinArray(java.lang.String name)
- Specified by:
getNonBuiltinArray in interface BuiltinArrayContainer
setNonBuiltinArray
public void setNonBuiltinArray(java.lang.String name,
CMLStringArray array)
- Specified by:
setNonBuiltinArray in interface BuiltinArrayContainer
deleteNonBuiltinArray
public void deleteNonBuiltinArray(java.lang.String name)
- Specified by:
deleteNonBuiltinArray in interface BuiltinArrayContainer
createArrayElement
public AbstractBuiltinContainer createArrayElement(org.w3c.dom.Document document)
- Specified by:
createArrayElement in interface BuiltinArrayContainer
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