ambit2.core.io
Class DelimitedFileReader

java.lang.Object
  org.openscience.cdk.io.DefaultChemObjectReader
      ambit2.core.io.DelimitedFileReader

All Implemented Interfaces:

org.openscience.cdk.io.IChemObjectIO, org.openscience.cdk.io.IChemObjectReader

public class DelimitedFileReader
extends org.openscience.cdk.io.DefaultChemObjectReader
implements org.openscience.cdk.io.IChemObjectReader

Reads delimited files (CSV, TXT)

Nested Class Summary

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

org.openscience.cdk.io.IChemObjectReader.Mode

Field Summary

protected DelimitedFileFormat

format

Fields inherited from class org.openscience.cdk.io.DefaultChemObjectReader

mode

Constructor Summary

DelimitedFileReader(java.io.InputStream input)

DelimitedFileReader(java.io.InputStream input, DelimitedFileFormat format)

DelimitedFileReader(java.io.Reader input)

DelimitedFileReader(java.io.Reader input, DelimitedFileFormat format)
Default delimited file format - CSV

Method Summary

boolean	accepts(java.lang.Class classObject)
void	close()
org.openscience.cdk.io.formats.IResourceFormat	getFormat()
org.openscience.cdk.io.setting.IOSetting[]	getIOSettings()
org.openscience.cdk.interfaces.IChemObject	read(org.openscience.cdk.interfaces.IChemObject object)
void	setReader(java.io.InputStream reader)
void	setReader(java.io.Reader reader)
java.lang.String	toString()

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

addChemObjectIOListener, fireFrameRead, fireIOSettingQuestion, removeChemObjectIOListener, setReaderMode

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.IChemObjectReader

setReaderMode

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

addChemObjectIOListener, removeChemObjectIOListener

Field Detail

format

protected DelimitedFileFormat format

Constructor Detail

DelimitedFileReader

public DelimitedFileReader(java.io.Reader input,
                           DelimitedFileFormat format)

Default delimited file format - CSV

DelimitedFileReader

public DelimitedFileReader(java.io.Reader input)

DelimitedFileReader

public DelimitedFileReader(java.io.InputStream input,
                           DelimitedFileFormat format)

DelimitedFileReader

public DelimitedFileReader(java.io.InputStream input)

Method Detail

read

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

Specified by:

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

Throws:

org.openscience.cdk.exception.CDKException

setReader

public void setReader(java.io.Reader reader)
               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(java.io.InputStream reader)
               throws org.openscience.cdk.exception.CDKException

Specified by:

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

Throws:

org.openscience.cdk.exception.CDKException

getFormat

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

Specified by:

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

close

public void close()
           throws java.io.IOException

Specified by:

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

Throws:

java.io.IOException

getIOSettings

public org.openscience.cdk.io.setting.IOSetting[] getIOSettings()

Specified by:

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

Overrides:

getIOSettings in class org.openscience.cdk.io.DefaultChemObjectReader

toString

public java.lang.String toString()

Overrides:

toString in class java.lang.Object

accepts

public boolean accepts(java.lang.Class classObject)

Specified by:

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