org.xmlcml.noncml
Interface NonCMLDocument

All Known Subinterfaces:

JME, MDLMol, SDF, SMILES, XYZ

All Known Implementing Classes:

NonCMLDocumentImpl

public interface NonCMLDocument

extends CMLDocument

an interface for input/output of non-CML information (e.g. MOL, SMILES). The foreign document is held as a CMLDOM and accessed by input.output methods.

Field Summary

static java.lang.String	JME
static java.lang.String	MDLMOL
static java.lang.String	SDF
static java.lang.String	SMILES
static java.lang.String	XYZ

Fields inherited from interface org.xmlcml.cml.CMLDocument

PACKAGE_NAME

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

PACKAGENAME

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

void	input(java.io.BufferedReader w) input from a Reader.
java.lang.String	output(java.io.Writer w) output to a Writer.
void	setOutputCMLMolecule(Molecule outputCMLMolecule) to output a CML-Molecule in legacy form the molecule must be added to the NonCMLDocument and then the output() method called

Methods inherited from interface org.xmlcml.cml.CMLDocument

debug, getMolecule

Methods inherited from interface org.w3c.dom.Document

createAttribute, createAttributeNS, createCDATASection, createComment, createDocumentFragment, createElement, createElementNS, createEntityReference, createProcessingInstruction, createTextNode, getDoctype, getDocumentElement, getElementById, getElementsByTagName, getElementsByTagNameNS, getImplementation, importNode

Methods inherited from interface org.w3c.dom.Node

appendChild, cloneNode, getAttributes, getChildNodes, getFirstChild, getLastChild, getLocalName, getNamespaceURI, getNextSibling, getNodeName, getNodeType, getNodeValue, getOwnerDocument, getParentNode, getPrefix, getPreviousSibling, hasChildNodes, insertBefore, normalize, removeChild, replaceChild, setNodeValue, setPrefix, supports

Field Detail

JME

public static final java.lang.String JME

MDLMOL

public static final java.lang.String MDLMOL

SMILES

public static final java.lang.String SMILES

SDF

public static final java.lang.String SDF

XYZ

public static final java.lang.String XYZ

Method Detail

input

public void input(java.io.BufferedReader w)
           throws java.io.IOException,
                  CMLException

input from a Reader. If the String value is to be input, use a StringReader. This could be used immediately after a default constructor and may be used in the class constructors

output

public java.lang.String output(java.io.Writer w)
                        throws java.io.IOException,
                               CMLException

output to a Writer. If the String value is required, use a StringWriter and access the return value.

setOutputCMLMolecule

public void setOutputCMLMolecule(Molecule outputCMLMolecule)

to output a CML-Molecule in legacy form the molecule must be added to the NonCMLDocument and then the output() method called