org.openscience.cdk.io.iterator

Class IteratingPCSubstancesXMLReader

java.lang.Object

org.openscience.cdk.io.ChemObjectIO

org.openscience.cdk.io.iterator.DefaultIteratingChemObjectReader<IChemModel>

org.openscience.cdk.io.iterator.IteratingPCSubstancesXMLReader

All Implemented Interfaces:

Closeable, AutoCloseable, Iterator<IChemModel>, IChemObjectIO, IChemObjectReader, IIteratingChemObjectReader<IChemModel>

public class IteratingPCSubstancesXMLReader
extends DefaultIteratingChemObjectReader<IChemModel>

Iterating PubChem PC-Substances ASN.1 XML reader.

Author:

Egon Willighagen <egonw@users.sf.net>

Source code:

master

Belongs to CDK module:

io

Keywords:

file format, ASN, PubChem

Created on:

2008-05-05

Nested Class Summary

Nested classes/interfaces inherited from interface org.openscience.cdk.io.IChemObjectReader

IChemObjectReader.Mode

Field Summary

Fields inherited from class org.openscience.cdk.io.iterator.DefaultIteratingChemObjectReader

errorHandler, mode

Constructor Summary

Constructors

Constructor and Description
IteratingPCSubstancesXMLReader(InputStream in, IChemObjectBuilder builder) Constructs a new IteratingPCSubstancesXMLReader that can read Molecule from a given InputStream and IChemObjectBuilder.
IteratingPCSubstancesXMLReader(Reader in, IChemObjectBuilder builder) Constructs a new IteratingPCSubstancesXMLReader that can read Molecule from a given Reader and IChemObjectBuilder.

Method Summary

Modifier and Type	Method and Description
void	close()
IResourceFormat	getFormat()
boolean	hasNext()
IChemModel	next()
void	remove()
void	setReader(InputStream reader)
void	setReader(Reader reader)

Methods inherited from class org.openscience.cdk.io.iterator.DefaultIteratingChemObjectReader

accepts, handleError, handleError, handleError, handleError, setErrorHandler, setReaderMode

Methods inherited from class org.openscience.cdk.io.ChemObjectIO

addChemObjectIOListener, addSetting, addSettings, fireIOSettingQuestion, getIOSettings, getListeners, getSetting, getSetting, getSettings, hasSetting, removeChemObjectIOListener

Methods inherited from class java.lang.Object

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

Methods inherited from interface org.openscience.cdk.io.IChemObjectIO

addChemObjectIOListener, addSetting, addSettings, getIOSettings, getListeners, getSetting, getSetting, getSettings, hasSetting, removeChemObjectIOListener

Methods inherited from interface java.util.Iterator

forEachRemaining

Constructor Detail

IteratingPCSubstancesXMLReader

public IteratingPCSubstancesXMLReader(Reader in,
                                      IChemObjectBuilder builder)
                               throws IOException,
                                      XMLStreamException

Constructs a new IteratingPCSubstancesXMLReader that can read Molecule from a given Reader and IChemObjectBuilder.

Parameters:

in - The input stream

builder - The builder

Throws:

IOException - if there is error in getting the IsotopeFactory

XMLStreamException - an error in reading XML

IteratingPCSubstancesXMLReader

public IteratingPCSubstancesXMLReader(InputStream in,
                                      IChemObjectBuilder builder)
                               throws Exception

Constructs a new IteratingPCSubstancesXMLReader that can read Molecule from a given InputStream and IChemObjectBuilder.

Parameters:

in - The input stream

builder - The builder. In general, use DefaultChemObjectBuilder

Throws:

Exception - if there is a problem creating an InputStreamReader

Method Detail

getFormat

public IResourceFormat getFormat()

hasNext

public boolean hasNext()

next

public IChemModel next()

close

public void close()
           throws IOException

Throws:

IOException

remove

public void remove()

Specified by:

remove in interface Iterator<IChemModel>

Overrides:

remove in class DefaultIteratingChemObjectReader<IChemModel>

setReader

public void setReader(Reader reader)
               throws CDKException

Throws:

CDKException

setReader

public void setReader(InputStream reader)
               throws CDKException

Throws:

CDKException