ambit2.core.io

Class ECHAPreregistrationListReader

java.lang.Object

org.openscience.cdk.io.ChemObjectIO

org.openscience.cdk.io.iterator.DefaultIteratingChemObjectReader

ambit2.core.io.ECHAPreregistrationListReader

All Implemented Interfaces:

IRawReader<IStructureRecord>, Closeable, AutoCloseable, Iterator, org.openscience.cdk.io.IChemObjectIO, org.openscience.cdk.io.IChemObjectReader, org.openscience.cdk.io.iterator.IIteratingChemObjectReader

public class ECHAPreregistrationListReader
extends org.openscience.cdk.io.iterator.DefaultIteratingChemObjectReader
implements IRawReader<IStructureRecord>

Reads preregistration list in XML format as in http://apps.echa.europa.eu/preregistered/prsDownload.aspx

Author:

nina

Nested Class Summary

Nested Classes

Modifier and Type	Class and Description
static class	ECHAPreregistrationListReader.echa_tags

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

org.openscience.cdk.io.IChemObjectReader.Mode

Field Summary

Fields

Modifier and Type	Field and Description
protected CASProcessor	casProcessor
protected Property	casProperty
protected static String	ECHA_REFERENCE
protected static String	ECHA_URL
protected Property	ecProperty
protected static Logger	logger
protected Property	nameProperty
protected XMLStreamReader	reader
protected IStructureRecord	record
protected Property	registrationProperty
protected ArrayList<String>	synonyms
protected String	tmpValue

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

errorHandler, mode

Constructor Summary

Constructors

Constructor and Description
ECHAPreregistrationListReader(InputStream in)

Method Summary

Modifier and Type	Method and Description
void	close()
org.openscience.cdk.io.formats.IResourceFormat	getFormat()
boolean	hasNext()
Object	next()
IStructureRecord	nextRecord()
void	parseDocument()
void	setReader(InputStream in)
void	setReader(Reader in)

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

accepts, handleError, handleError, handleError, handleError, remove, 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.IChemObjectReader

handleError, handleError, handleError, handleError, setErrorHandler, setReaderMode

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

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

Methods inherited from interface java.util.Iterator

forEachRemaining, remove

Field Detail

logger

protected static Logger logger

reader

protected XMLStreamReader reader

ECHA_URL

protected static String ECHA_URL

ECHA_REFERENCE

protected static String ECHA_REFERENCE

synonyms

protected ArrayList<String> synonyms

record

protected IStructureRecord record

tmpValue

protected String tmpValue

casProcessor

protected CASProcessor casProcessor

casProperty

protected Property casProperty

ecProperty

protected Property ecProperty

nameProperty

protected Property nameProperty

registrationProperty

protected Property registrationProperty

Constructor Detail

ECHAPreregistrationListReader

public ECHAPreregistrationListReader(InputStream in)
                              throws org.openscience.cdk.exception.CDKException

Throws:

org.openscience.cdk.exception.CDKException

Method Detail

setReader

public void setReader(InputStream in)
               throws org.openscience.cdk.exception.CDKException

Specified by:

setReader in interface org.openscience.cdk.io.IChemObjectReader

Throws:

org.openscience.cdk.exception.CDKException

setReader

public void setReader(Reader in)
               throws org.openscience.cdk.exception.CDKException

Specified by:

setReader in interface org.openscience.cdk.io.IChemObjectReader

Throws:

org.openscience.cdk.exception.CDKException

close

public void close()
           throws IOException

Specified by:

close in interface Closeable

Specified by:

close in interface AutoCloseable

Specified by:

close in interface org.openscience.cdk.io.IChemObjectIO

Throws:

IOException

getFormat

public org.openscience.cdk.io.formats.IResourceFormat getFormat()

Specified by:

getFormat in interface org.openscience.cdk.io.IChemObjectIO

hasNext

public boolean hasNext()

Specified by:

hasNext in interface Iterator

next

public Object next()

Specified by:

next in interface Iterator

nextRecord

public IStructureRecord nextRecord()

Specified by:

nextRecord in interface IRawReader<IStructureRecord>

parseDocument

public void parseDocument()
                   throws Exception

Throws:

Exception