ambit2.core.io
Class DelimitedFileWriter

java.lang.Object
  org.openscience.cdk.io.DefaultChemObjectWriter
      ambit2.core.io.FilesWithHeaderWriter
          ambit2.core.io.DelimitedFileWriter

All Implemented Interfaces:

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

public class DelimitedFileWriter
extends FilesWithHeaderWriter

Writes delimited files

Field Summary

protected DelimitedFileFormat	format
protected org.openscience.cdk.smiles.SmilesGenerator	sg
protected java.io.BufferedWriter	writer

Fields inherited from class ambit2.core.io.FilesWithHeaderWriter

defaultSMILESHeader, header, logger, smilesIndex, writingStarted

Constructor Summary

DelimitedFileWriter(java.io.OutputStream input)

DelimitedFileWriter(java.io.OutputStream input, DelimitedFileFormat format)

DelimitedFileWriter(java.io.Writer out)

DelimitedFileWriter(java.io.Writer out, DelimitedFileFormat format)

Method Summary

boolean	accepts(java.lang.Class classObject)
void	close()
org.openscience.cdk.io.formats.IResourceFormat	getFormat()
int	getSupportedDataFeatures()
org.openscience.cdk.ChemObject	highestSupportedChemObject()
void	setWriter(java.io.OutputStream writer)
void	setWriter(java.io.Writer writer)
java.lang.String	toString()
void	write(org.openscience.cdk.interfaces.IChemObject object)
protected void	writeHeader()
void	writeMolecule(org.openscience.cdk.interfaces.IMolecule molecule)
void	writeSetOfMolecules(org.openscience.cdk.interfaces.IMoleculeSet som)

Methods inherited from class ambit2.core.io.FilesWithHeaderWriter

getHeader, setHeader, setHeader

Methods inherited from class org.openscience.cdk.io.DefaultChemObjectWriter

addChemObjectIOListener, fireIOSettingQuestion, getIOSettings, removeChemObjectIOListener

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, wait, wait, wait

Field Detail

writer

protected java.io.BufferedWriter writer

format

protected DelimitedFileFormat format

sg

protected org.openscience.cdk.smiles.SmilesGenerator sg

Constructor Detail

DelimitedFileWriter

public DelimitedFileWriter(java.io.Writer out,
                           DelimitedFileFormat format)

DelimitedFileWriter

public DelimitedFileWriter(java.io.Writer out)

DelimitedFileWriter

public DelimitedFileWriter(java.io.OutputStream input,
                           DelimitedFileFormat format)

DelimitedFileWriter

public DelimitedFileWriter(java.io.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

highestSupportedChemObject

public org.openscience.cdk.ChemObject highestSupportedChemObject()

getFormat

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

close

public void close()
           throws java.io.IOException

Throws:

java.io.IOException

writeSetOfMolecules

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

writeHeader

protected void writeHeader()
                    throws java.io.IOException

Specified by:

writeHeader in class FilesWithHeaderWriter

Throws:

java.io.IOException

writeMolecule

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

toString

public java.lang.String toString()

Overrides:

toString in class java.lang.Object

accepts

public boolean accepts(java.lang.Class classObject)

getSupportedDataFeatures

public int getSupportedDataFeatures()

setWriter

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

Throws:

org.openscience.cdk.exception.CDKException

setWriter

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

Throws:

org.openscience.cdk.exception.CDKException