ambit2.some

Class SOMERawReader

java.lang.Object

org.openscience.cdk.io.ChemObjectIO

org.openscience.cdk.io.iterator.DefaultIteratingChemObjectReader

ambit2.core.io.RawIteratingReader<String>

ambit2.some.SOMERawReader

All Implemented Interfaces:

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

public class SOMERawReader
extends RawIteratingReader<String>

Reads SOME records

Author:

nina

Nested Class Summary

Nested Classes

Modifier and Type	Class and Description
static class	SOMERawReader.someindex

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 String	firstLine

Fields inherited from class ambit2.core.io.RawIteratingReader

input, logger, recordBuffer, reference

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

errorHandler, mode

Constructor Summary

Constructors

Constructor and Description
SOMERawReader(Reader in)

Method Summary

Modifier and Type	Method and Description
protected boolean	acceptLastRecord()
static IAtomContainerHighlights	getAtomSelector(org.openscience.cdk.interfaces.IAtomContainer structure, SOMERawReader.someindex index)
org.openscience.cdk.io.formats.IResourceFormat	getFormat()
boolean	hasNext()
boolean	isEndOfRecord(String line)
String	nextRecord()

Methods inherited from class ambit2.core.io.RawIteratingReader

close, getReference, next, setReader, setReader, setReference

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

firstLine

protected String firstLine

Constructor Detail

SOMERawReader

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

Throws:

org.openscience.cdk.exception.CDKException

Method Detail

getFormat

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

Specified by:

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

Specified by:

getFormat in class RawIteratingReader<String>

isEndOfRecord

public boolean isEndOfRecord(String line)

Specified by:

isEndOfRecord in class RawIteratingReader<String>

nextRecord

public String nextRecord()

Specified by:

nextRecord in interface IRawReader<String>

Specified by:

nextRecord in class RawIteratingReader<String>

hasNext

public boolean hasNext()

Specified by:

hasNext in interface Iterator

Overrides:

hasNext in class RawIteratingReader<String>

acceptLastRecord

protected boolean acceptLastRecord()

Overrides:

acceptLastRecord in class RawIteratingReader<String>

getAtomSelector

public static IAtomContainerHighlights getAtomSelector(org.openscience.cdk.interfaces.IAtomContainer structure,
                                                       SOMERawReader.someindex index)
                                                throws Exception

Throws:

Exception