org.openscience.cdk.io.iterator.event

Class EventCMLReader

java.lang.Object

org.openscience.cdk.io.ChemObjectIO

org.openscience.cdk.io.iterator.event.DefaultEventChemObjectReader

org.openscience.cdk.io.iterator.event.EventCMLReader

All Implemented Interfaces:

Closeable, AutoCloseable, IChemObjectIO, IEventChemObjectReader

public class EventCMLReader
extends DefaultEventChemObjectReader

Reads a molecule in CML 1.x and 2.0 format. CML is an XML based application (Murray-Rust, P. and Rzepa, H.S.. Journal of Chemical Information and Computer Sciences. 1999. 39), and this Reader applies the method described in (Willighagen, E.L.. Internet Journal of Chemistry. 2001. 4).

Author:

Egon L. Willighagen

Source code:

master

Belongs to CDK module:

io

Keywords:

file format, CML

Created on:

2001-02-01

Constructor Summary

Constructors

Constructor and Description
EventCMLReader(Reader input, IReaderListener listener, IChemObjectBuilder builder) Define this CMLReader to take the input from a java.io.Reader class.

Method Summary

Modifier and Type	Method and Description
void	close() Closes this IChemObjectIO's resources.
IAtomContainer	getAtomContainer()
IResourceFormat	getFormat() Returns the IResourceFormat class for this IO class.
void	process() Starts the reading of the CML file.
void	setReader(Reader reader)

Methods inherited from class org.openscience.cdk.io.iterator.event.DefaultEventChemObjectReader

accepts, accepts, fireFrameRead, remove

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

Constructor Detail

EventCMLReader

public EventCMLReader(Reader input,
                      IReaderListener listener,
                      IChemObjectBuilder builder)

Define this CMLReader to take the input from a java.io.Reader class. Possible readers are (among others) StringReader and FileReader. The given ReaderListener catches the events thrown to signal that a a new molecule is read.

Parameters:

input - Reader type input

listener - ReaderListener that listens to newMolecule events.

Method Detail

getFormat

public IResourceFormat getFormat()

Description copied from interface: IChemObjectIO

Returns the IResourceFormat class for this IO class.

getAtomContainer

public IAtomContainer getAtomContainer()

setReader

public void setReader(Reader reader)
               throws CDKException

Throws:

CDKException

process

public void process()
             throws CDKException

Starts the reading of the CML file. Whenever a new Molecule is read, a event is thrown to the ReaderListener.

Throws:

CDKException

close

public void close()
           throws IOException

Description copied from interface: IChemObjectIO

Closes this IChemObjectIO's resources.

Throws:

IOException - when the wrapper IO class cannot be closed.