RawIteratingReader (Ambit 2 4.0.1-SNAPSHOT API)

java.lang.Object
- org.openscience.cdk.io.ChemObjectIO
- - org.openscience.cdk.io.iterator.DefaultIteratingChemObjectReader
  - - ambit2.core.io.RawIteratingReader<T>

All Implemented Interfaces:

ICiteable, IRawReader<T>, Closeable, AutoCloseable, Iterator, org.openscience.cdk.io.IChemObjectIO, org.openscience.cdk.io.IChemObjectReader, org.openscience.cdk.io.iterator.IIteratingChemObjectReader

Direct Known Subclasses:

RawIteratingMOLReader, RawIteratingPDBReader, RawIteratingSDFReader, SOMERawReader
```
public abstract class RawIteratingReader<T>
extends org.openscience.cdk.io.iterator.DefaultIteratingChemObjectReader
implements IRawReader<T>, ICiteable
```

Nested Class Summary
- Nested classes/interfaces inherited from interface org.openscience.cdk.io.IChemObjectReader
  org.openscience.cdk.io.IChemObjectReader.Mode

Field Summary

Fields
Modifier and Type	Field and Description
`protected BufferedReader`	`input`
`protected static Logger`	`logger`
`protected StringBuilder`	`recordBuffer`
`protected ILiteratureEntry`	`reference`

Fields inherited from class org.openscience.cdk.io.iterator.DefaultIteratingChemObjectReader
errorHandler, mode

Constructor Summary

Constructors
Constructor and Description

RawIteratingReader(Reader in)

Constructors
Constructor and Description
`RawIteratingReader(Reader in)`

Method Summary

All Methods Instance Methods Abstract Methods Concrete Methods
Modifier and Type	Method and Description
`protected boolean`	`acceptLastRecord()`
`void`	`close()`
`abstract org.openscience.cdk.io.formats.IResourceFormat`	`getFormat()`
`ILiteratureEntry`	`getReference()`
`boolean`	`hasNext()`
`abstract boolean`	`isEndOfRecord(String line)`
`Object`	`next()`
`abstract T`	`nextRecord()`
`void`	`setReader(InputStream in)`
`void`	`setReader(Reader in)`
`void`	`setReference(ILiteratureEntry reference)`

Methods inherited from class org.openscience.cdk.io.iterator.DefaultIteratingChemObjectReader
accepts, handleError, handleError, handleError, handleError, remove, 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.IChemObjectReader
handleError, handleError, handleError, handleError, setErrorHandler, setReaderMode

Methods inherited from interface org.openscience.cdk.io.IChemObjectIO
accepts, addChemObjectIOListener, addSetting, addSettings, getIOSettings, getListeners, getSetting, getSetting, getSettings, hasSetting, removeChemObjectIOListener

Methods inherited from interface java.util.Iterator
forEachRemaining, remove

- Field Detail
  - logger
```
protected static Logger logger
```
  - input
```
protected BufferedReader input
```
  - recordBuffer
```
protected StringBuilder recordBuffer
```
  - reference
```
protected ILiteratureEntry reference
```
- Constructor Detail
  - RawIteratingReader
```
public RawIteratingReader(Reader in)
                   throws org.openscience.cdk.exception.CDKException
```
    Throws:
    
    org.openscience.cdk.exception.CDKException
- Method Detail
  - getReference
```
public ILiteratureEntry getReference()
```
    Specified by:
    
    getReference in interface ICiteable
  - setReference
```
public void setReference(ILiteratureEntry reference)
```
    Specified by:
    
    setReference in interface ICiteable
  - setReader
```
public void setReader(InputStream in)
               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(Reader in)
               throws org.openscience.cdk.exception.CDKException
```
    Specified by:
    
    setReader in interface org.openscience.cdk.io.IChemObjectReader
    
    Throws:
    
    org.openscience.cdk.exception.CDKException
  - getFormat
```
public abstract org.openscience.cdk.io.formats.IResourceFormat getFormat()
```
    Specified by:
    
    getFormat in interface org.openscience.cdk.io.IChemObjectIO
  - close
```
public void close()
           throws IOException
```
    Specified by:
    
    close in interface Closeable
    
    Specified by:
    
    close in interface AutoCloseable
    
    Specified by:
    
    close in interface org.openscience.cdk.io.IChemObjectIO
    
    Throws:
    
    IOException
  - hasNext
```
public boolean hasNext()
```
    Specified by:
    
    hasNext in interface Iterator
  - acceptLastRecord
```
protected boolean acceptLastRecord()
```
  - next
```
public Object next()
```
    Specified by:
    
    next in interface Iterator
  - nextRecord
```
public abstract T nextRecord()
```
    Specified by:
    
    nextRecord in interface IRawReader<T>
  - isEndOfRecord
```
public abstract boolean isEndOfRecord(String line)
```

Class RawIteratingReader<T>

Nested Class Summary

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

Field Summary

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

Constructor Summary

Method Summary

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

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

Methods inherited from class java.lang.Object

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

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

Methods inherited from interface java.util.Iterator

Field Detail

logger

input

recordBuffer

reference

Constructor Detail

RawIteratingReader

Method Detail

getReference

setReference

setReader

setReader

getFormat

close

hasNext

acceptLastRecord

next

nextRecord

isEndOfRecord