ambit2.core.io

Class DelimitedFileWriter

java.lang.Object

org.openscience.cdk.io.ChemObjectIO

org.openscience.cdk.io.DefaultChemObjectWriter

ambit2.core.io.FilesWithHeaderWriter

ambit2.core.io.DelimitedFileWriter

All Implemented Interfaces:

Closeable, AutoCloseable, org.openscience.cdk.io.IChemObjectIO, org.openscience.cdk.io.IChemObjectWriter

public class DelimitedFileWriter
extends FilesWithHeaderWriter

Writes delimited files

Author:

Nina Jeliazkova Modified 2005-9-6

Field Summary

Fields

Modifier and Type	Field and Description
protected DelimitedFileFormat	format
protected org.openscience.cdk.smiles.SmilesGenerator	sg
protected BufferedWriter	writer

Fields inherited from class ambit2.core.io.FilesWithHeaderWriter

addSMILEScolumn, defaultSMILESHeader, header, logger, smilesIndex, writingStarted

Constructor Summary

Constructors

Constructor and Description
DelimitedFileWriter(OutputStream input)
DelimitedFileWriter(OutputStream input, DelimitedFileFormat format)
DelimitedFileWriter(Writer out)
DelimitedFileWriter(Writer out, DelimitedFileFormat format)

Method Summary

Modifier and Type	Method and Description
boolean	accepts(Class classObject)
void	close()
org.openscience.cdk.io.formats.IResourceFormat	getFormat()
int	getSupportedDataFeatures()
void	setWriter(OutputStream writer)
void	setWriter(Writer writer)
String	toString()
void	write(org.openscience.cdk.interfaces.IChemObject object)
protected void	writeHeader()
void	writeMolecule(org.openscience.cdk.interfaces.IAtomContainer molecule)
void	writeSetOfMolecules(org.openscience.cdk.interfaces.IAtomContainerSet som)

Methods inherited from class ambit2.core.io.FilesWithHeaderWriter

getHeader, isAddSMILEScolumn, setAddSMILEScolumn, setHeader, setHeader

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, wait, wait, wait

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

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

Field Detail

writer

protected BufferedWriter writer

format

protected DelimitedFileFormat format

sg

protected org.openscience.cdk.smiles.SmilesGenerator sg

Constructor Detail

DelimitedFileWriter

public DelimitedFileWriter(Writer out,
                           DelimitedFileFormat format)

DelimitedFileWriter

public DelimitedFileWriter(Writer out)

DelimitedFileWriter

public DelimitedFileWriter(OutputStream input,
                           DelimitedFileFormat format)

DelimitedFileWriter

public DelimitedFileWriter(OutputStream input)

Method Detail

write

public void write(org.openscience.cdk.interfaces.IChemObject object)
           throws org.openscience.cdk.exception.CDKException

Throws:

org.openscience.cdk.exception.CDKException

getFormat

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

close

public void close()
           throws IOException

Throws:

IOException

writeSetOfMolecules

public void writeSetOfMolecules(org.openscience.cdk.interfaces.IAtomContainerSet som)

writeHeader

protected void writeHeader()
                    throws IOException

Specified by:

writeHeader in class FilesWithHeaderWriter

Throws:

IOException

writeMolecule

public void writeMolecule(org.openscience.cdk.interfaces.IAtomContainer molecule)

toString

public String toString()

Overrides:

toString in class Object

accepts

public boolean accepts(Class classObject)

getSupportedDataFeatures

public int getSupportedDataFeatures()

setWriter

public void setWriter(OutputStream writer)
               throws org.openscience.cdk.exception.CDKException

Throws:

org.openscience.cdk.exception.CDKException

setWriter

public void setWriter(Writer writer)
               throws org.openscience.cdk.exception.CDKException

Throws:

org.openscience.cdk.exception.CDKException