chemaxon.marvin.io
Class PositionedInputStream

java.lang.Object
  java.io.InputStream
      java.io.FilterInputStream
          java.io.BufferedInputStream
              chemaxon.marvin.io.PositionedInputStream

All Implemented Interfaces:

java.io.Closeable

Direct Known Subclasses:

MolInputStream

public class PositionedInputStream
extends java.io.BufferedInputStream

Positioned input stream that has the ability to set / get the stream position as well as put back some parts already read.

Since:

Marvin 4.0, 02/25/2005

Version:

5.2, 10/18/2008

Author:

Nora Mate, Peter Csizmadia, Jozsef Kovacs

Field Summary

protected chemaxon.marvin.io.Encoding	encoding The encoding.
protected java.nio.ByteBuffer	lineByteBuffer Lines are read into this buffer.
protected int	lineCurrentColumn Column position of the next character to read.

Fields inherited from class java.io.BufferedInputStream

buf, count, marklimit, markpos, pos

Fields inherited from class java.io.FilterInputStream

in

Constructor Summary

	PositionedInputStream(java.io.InputStream is) Constructor.
	PositionedInputStream(java.io.InputStream is, int size) Constructor.
	PositionedInputStream(java.io.InputStream is, int size, java.lang.String enc) Constructor.
protected	PositionedInputStream(java.io.InputStream is, int size, java.lang.String enc, int initialChunkSize) Constructor.
	PositionedInputStream(java.io.InputStream is, java.lang.String enc) Constructor.

Method Summary

protected int	bufincRead() Reads a character and writes into the buffer.
java.lang.String	endGrabLines() Ends grabbing lines.
chemaxon.marvin.io.Encoding	getEncoding() Gets the encoding.
long	getFilePointer() Get the file pointer.
java.lang.String	getGrabbedLines() Gets the grabbed lines.
int	getLineCount() Gets the current line number.
protected int	getWord(java.nio.ByteBuffer bb, int i)
boolean	isSeekable() Tests whether the stream is seekable.
long	length() Gets the file length.
void	putBackLine() Puts back the last line into the stream.
void	putBackLine(int col) Puts back the last line into the stream.
int	read() Reads a character.
int	read(byte[] b, int off, int len) Reads a byte array.
java.lang.String	readLine() Reads a line.
void	reset() Repositions this stream to the position at the time the mark method was last called on this input stream.
protected void	resetFilePointer() Resets file pointer to zero.
void	seek(long p, int lcount) Sets the file-pointer offset, measured from the beginning of this file, at which the next read or write occurs.
protected void	setByteOrder(java.nio.ByteBuffer bb)
void	setDesiredBufferSize(int size) Sets desired buffer size.
void	setEncoding(chemaxon.marvin.io.Encoding enc) Sets the encoding.
void	setEncoding(java.lang.String enc) Sets the encoding.
protected void	setWord(java.nio.ByteBuffer bb, int i, int c)
long	skip(long n) Skips over and discards n bytes of data.
boolean	skipLine() Skips the next line.
void	startGrabLines() Starts grabbing lines.

Methods inherited from class java.io.BufferedInputStream

available, close, mark, markSupported

Methods inherited from class java.io.FilterInputStream

read

Methods inherited from class java.lang.Object

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

Field Detail

lineByteBuffer

protected java.nio.ByteBuffer lineByteBuffer

Lines are read into this buffer.

See Also:

readLine()

lineCurrentColumn

protected int lineCurrentColumn

Column position of the next character to read.

encoding

protected chemaxon.marvin.io.Encoding encoding

The encoding.

Since:

Marvin 5.0, 11/10/2007

Constructor Detail

PositionedInputStream

public PositionedInputStream(java.io.InputStream is)
                      throws java.io.IOException

Constructor. It tries to read 1024 bytes into the buffer and to recognize the character encoding.

Parameters:

is - the original input stream

Throws:

java.io.IOException

PositionedInputStream

public PositionedInputStream(java.io.InputStream is,
                             int size)
                      throws java.io.IOException

Constructor. It tries to read 1024 bytes into the buffer and to recognize the character encoding.

Parameters:

is - the original input stream

size - the buffer size

Throws:

java.io.IOException

PositionedInputStream

public PositionedInputStream(java.io.InputStream is,
                             java.lang.String enc)
                      throws java.io.IOException

Constructor. It tries to read 1024 bytes into the buffer and to recognize the character encoding if it is not specified (null).

Parameters:

is - the original input stream

enc - the character encoding or null

Throws:

java.io.IOException

Since:

Marvin 3.5.5

PositionedInputStream

public PositionedInputStream(java.io.InputStream is,
                             int size,
                             java.lang.String enc)
                      throws java.io.IOException

Constructor. It tries to read 1024 bytes into the buffer and to recognize the character encoding if it is not specified (null).

Parameters:

is - the original input stream

size - the buffer size

enc - the character encoding or null

Throws:

java.io.IOException

Since:

Marvin 3.5.5

PositionedInputStream

protected PositionedInputStream(java.io.InputStream is,
                                int size,
                                java.lang.String enc,
                                int initialChunkSize)
                         throws java.io.IOException

Constructor.

Parameters:

is - the original input stream

size - the buffer size

enc - the character encoding or null

initialChunkSize - number of bytes to read in advance for encoding recognition

Throws:

java.io.IOException

Since:

Marvin 5.0, 11/10/2007

Method Detail

setDesiredBufferSize

public void setDesiredBufferSize(int size)

Sets desired buffer size.

Parameters:

size - the desired buffer size

read

public int read()
         throws java.io.IOException

Reads a character. Warning! This method does not update the line number.

Overrides:

read in class java.io.BufferedInputStream

Returns:

the character

Throws:

java.io.IOException - read error occured

bufincRead

protected final int bufincRead()
                        throws java.io.IOException

Reads a character and writes into the buffer. Increases the buffer size if it becomes full.

Returns:

the character

Throws:

java.io.IOException - in case of read error

read

public int read(byte[] b,
                int off,
                int len)
         throws java.io.IOException

Reads a byte array. Warning! This method does not update the line number.

Overrides:

read in class java.io.BufferedInputStream

Parameters:

b - the buffer into which the data is read.

off - the start offset of the data

len - maximum number of bytes to read

Returns:

the total number of bytes read into the buffer, or -1 if there is no more data because the end of the stream has been reached.

Throws:

java.io.IOException - read error occured

skip

public long skip(long n)
          throws java.io.IOException

Skips over and discards n bytes of data. Warning! This method does not update the line number.

Overrides:

skip in class java.io.BufferedInputStream

Parameters:

n - the number of bytes

Returns:

the number of skipped bytes

Throws:

java.io.IOException - read error occured

reset

public void reset()
           throws java.io.IOException

Repositions this stream to the position at the time the mark method was last called on this input stream.

Overrides:

reset in class java.io.BufferedInputStream

Throws:

java.io.IOException - if this stream has not been marked or if the mark has been invalidated.

startGrabLines

public final void startGrabLines()

Starts grabbing lines. Lines will be grabbed while reading them at each readLine call. The resulting text will be separated by \n characters (UNIX line separator).

Since:

Marvin 4.0, 01/05/2005

See Also:

endGrabLines(), getGrabbedLines()

endGrabLines

public final java.lang.String endGrabLines()

Ends grabbing lines.

Returns:

the grabbed lines

Since:

Marvin 4.0, 01/05/2005

getGrabbedLines

public final java.lang.String getGrabbedLines()

Gets the grabbed lines.

Returns:

the grabbed lines

Since:

Marvin 4.0, 01/05/2005

readLine

public java.lang.String readLine()
                          throws java.io.IOException

Reads a line.

Returns:

the line without the line separator character(s)

Throws:

java.io.IOException - If an I/O error has occurred.

skipLine

public boolean skipLine()
                 throws java.io.IOException

Skips the next line. The skipped line is not stored and cannot be put back into the stream. Moreover, line grabbing is disabled.

Returns:

true if a line was skipped successfully, false at end of file

Throws:

java.io.IOException - If an I/O error has occurred.

Since:

Marvin 5.1.3, 10/18/2008

getWord

protected int getWord(java.nio.ByteBuffer bb,
                      int i)

setWord

protected void setWord(java.nio.ByteBuffer bb,
                       int i,
                       int c)

getLineCount

public final int getLineCount()

Gets the current line number. Only lines read with readLine() are counted.

Returns:

the line number

putBackLine

public final void putBackLine()
                       throws java.io.IOException

Puts back the last line into the stream. Also repositions the file pointer.

Throws:

java.io.IOException - If an I/O error has occurred.

See Also:

readLine(), getFilePointer()

putBackLine

public final void putBackLine(int col)
                       throws java.io.IOException

Puts back the last line into the stream. Also repositions the file pointer.

Parameters:

col - put back the substring starting at this column

Throws:

java.io.IOException - If an I/O error has occurred.

Since:

Marvin 5.0.1, 01/12/2008

See Also:

readLine(), getFilePointer()

resetFilePointer

protected final void resetFilePointer()

Resets file pointer to zero.

getFilePointer

public final long getFilePointer()

Get the file pointer.

Returns:

the file pointer

isSeekable

public boolean isSeekable()

Tests whether the stream is seekable.

Returns:

true if the stream is seekable, false otherwise

Since:

Marvin 4.1, 04/13/2006

seek

public void seek(long p,
                 int lcount)
          throws java.io.IOException

Sets the file-pointer offset, measured from the beginning of this file, at which the next read or write occurs.

Parameters:

p - the offset position

lcount - the line count at the specified position

Throws:

java.io.IOException - if pos is less than 0 or if an I/O error occurs.

Since:

Marvin 4.1, 04/13/2006

length

public long length()
            throws java.io.IOException

Gets the file length.

Returns:

the file length

Throws:

java.io.IOException - if the file length cannot be determined

Since:

Marvin 4.1, 04/18/2006

getEncoding

public final chemaxon.marvin.io.Encoding getEncoding()

Gets the encoding.

Returns:

the encoding or null

Since:

Marvin 5.0, 11/20/2007

setEncoding

public final void setEncoding(chemaxon.marvin.io.Encoding enc)

Sets the encoding.

Parameters:

enc - the encoding

Since:

Marvin 5.0, 11/20/2007

setEncoding

public final void setEncoding(java.lang.String enc)

Sets the encoding.

Parameters:

enc - the encoding

Throws:

java.nio.charset.IllegalCharsetNameException - if the encoding is illegal

java.nio.charset.UnsupportedCharsetException - if the encoding is unsupported

setByteOrder

protected void setByteOrder(java.nio.ByteBuffer bb)