org.openscience.cdk.io

Class PCCompoundASNReader

java.lang.Object

org.openscience.cdk.io.ChemObjectIO

org.openscience.cdk.io.DefaultChemObjectReader

org.openscience.cdk.io.PCCompoundASNReader

All Implemented Interfaces:

Closeable, AutoCloseable, IChemObjectIO, IChemObjectReader, ISimpleChemObjectReader

public class PCCompoundASNReader
extends DefaultChemObjectReader

Reads an object from ASN formated input for PubChem Compound entries. The following bits are supported: atoms.aid, atoms.element, bonds.aid1, bonds.aid2. Additionally, it extracts the InChI and canonical SMILES properties.

Source code:

master

Belongs to CDK module:

io

Keywords:

file format, PubChem Compound ASN

Nested Class Summary

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

IChemObjectReader.Mode

Field Summary

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

errorHandler, mode

Constructor Summary

Constructors

Constructor and Description
PCCompoundASNReader()
PCCompoundASNReader(InputStream input)
PCCompoundASNReader(Reader input) Construct a new reader from a Reader type object.

Method Summary

Modifier and Type	Method and Description
boolean	accepts(Class<? extends IChemObject> classObject)
void	close()
IResourceFormat	getFormat()
<T extends IChemObject> T	read(T object)
void	setReader(InputStream input)
void	setReader(Reader input)

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

fireFrameRead, handleError, handleError, handleError, handleError, 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.IChemObjectIO

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

Constructor Detail

PCCompoundASNReader

public PCCompoundASNReader(Reader input)

Construct a new reader from a Reader type object.

Parameters:

input - reader from which input is read

PCCompoundASNReader

public PCCompoundASNReader(InputStream input)

PCCompoundASNReader

public PCCompoundASNReader()

Method Detail

getFormat

public IResourceFormat getFormat()

setReader

public void setReader(Reader input)
               throws CDKException

Throws:

CDKException

setReader

public void setReader(InputStream input)
               throws CDKException

Throws:

CDKException

accepts

public boolean accepts(Class<? extends IChemObject> classObject)

read

public <T extends IChemObject> T read(T object)
                               throws CDKException

Throws:

CDKException

close

public void close()
           throws IOException

Throws:

IOException