ambit2.core.io
Class IteratingFilesWithHeaderReader

java.lang.Object
  org.openscience.cdk.io.iterator.DefaultIteratingChemObjectReader
      ambit2.core.io.IteratingFilesWithHeaderReader

All Implemented Interfaces:

java.util.Iterator, org.openscience.cdk.io.IChemObjectIO, org.openscience.cdk.io.iterator.IIteratingChemObjectReader

Direct Known Subclasses:

IteratingDelimitedFileReader, IteratingXLSReader

public abstract class IteratingFilesWithHeaderReader
extends org.openscience.cdk.io.iterator.DefaultIteratingChemObjectReader

Field Summary

static java.lang.String	defaultSMILESHeader
protected static org.openscience.cdk.tools.LoggingTool	logger
protected int	numberOfHeaderLines
protected int	smilesIndex
protected SmilesParserWrapper	sp
protected long	timeout

Constructor Summary

IteratingFilesWithHeaderReader()

Method Summary

protected void	addHeaderColumn(java.lang.String name)
protected ambit2.base.data.Property	getHeaderColumn(int index)
protected int	getNumberOfColumns()
int	getNumberOfHeaderLines()
protected abstract ambit2.base.data.LiteratureEntry	getReference()
long	getTimeout()
protected boolean	isHeaderEmpty()
protected void	setHeaderColumn(int index, java.lang.String name)
void	setNumberOfHeaderLines(int numberOfHeaderLines)
void	setTimeout(long timeout)

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

accepts, addChemObjectIOListener, fireFrameRead, fireIOSettingQuestion, getIOSettings, remove, 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

close, getFormat

Methods inherited from interface java.util.Iterator

hasNext, next

Field Detail

sp

protected SmilesParserWrapper sp

logger

protected static org.openscience.cdk.tools.LoggingTool logger

defaultSMILESHeader

public static java.lang.String defaultSMILESHeader

smilesIndex

protected int smilesIndex

timeout

protected long timeout

numberOfHeaderLines

protected int numberOfHeaderLines

Constructor Detail

IteratingFilesWithHeaderReader

public IteratingFilesWithHeaderReader()

Method Detail

getTimeout

public long getTimeout()

setTimeout

public void setTimeout(long timeout)

getNumberOfHeaderLines

public int getNumberOfHeaderLines()

setNumberOfHeaderLines

public void setNumberOfHeaderLines(int numberOfHeaderLines)

getReference

protected abstract ambit2.base.data.LiteratureEntry getReference()

addHeaderColumn

protected void addHeaderColumn(java.lang.String name)

setHeaderColumn

protected void setHeaderColumn(int index,
                               java.lang.String name)

getHeaderColumn

protected ambit2.base.data.Property getHeaderColumn(int index)

getNumberOfColumns

protected int getNumberOfColumns()

isHeaderEmpty

protected boolean isHeaderEmpty()