Package org.biojavax.bio.phylo.io.nexus

Interface NexusBlockParser

All Known Implementing Classes:

CharactersBlockParser, DataBlockParser, DistancesBlockParser, NexusBlockParser.Abstract, TaxaBlockParser, TreesBlockParser

public interface NexusBlockParser

Parses Nexus blocks. Each instance should parse tokens into events that can be fired at some kind of NexusBlockListener. An Abstract parser is provided from which all implementations should derive.

Since:

1.6

Author:

Richard Holland, Tobias Thierer, Jim Balhoff

Nested Class Summary

Nested Classes

Modifier and Type	Interface	Description
static class	NexusBlockParser.Abstract	All block parsers should derive from this abstract parser.

Field Summary

Fields

Modifier and Type	Field	Description
static String	UNKNOWN_BLOCK	The name for an unknown block parser.

Method Summary

Modifier and Type	Method	Description
void	beginComment()	Opening a comment tag.
void	commentText(String comment)	Receiving free text inside a comment tag.
void	endBlock()	Notifies the parser that a block is ending.
void	endComment()	Closing a comment tag.
void	endTokenGroup()	Closing a line (semi-colon encountered).
NexusBlockListener	getBlockListener()	Obtain the listener for this parser.
void	parseToken(String token)	Notifies the parser of the next token.
void	startBlock(String blockName)	Notifies the parser that a new block is starting.
boolean	wantsBracketsAndBraces()	Does the listener want to know about brackets and braces as separate tokens?

Field Detail

UNKNOWN_BLOCK

static final String UNKNOWN_BLOCK

The name for an unknown block parser.

See Also:

Constant Field Values

Method Detail

startBlock

void startBlock(String blockName)

Notifies the parser that a new block is starting.

Parameters:

blockName - the name of the block.

endBlock

void endBlock()

Notifies the parser that a block is ending.

parseToken

void parseToken(String token)
         throws ParseException

Notifies the parser of the next token. Comment tokens will already have been parsed out and sent separately to the text() method of the listener. Quoted strings will have been parsed and underscores converted. What this token contains is the full string, after removal of quotes if necessary. The token will never be only whitespace.

Parameters:

token - the token to parse.

Throws:

ParseException - if the token is unparseable.

beginComment

void beginComment()

Opening a comment tag.

endComment

void endComment()

Closing a comment tag.

endTokenGroup

void endTokenGroup()

Closing a line (semi-colon encountered). This indicates that anything received after it is on the next logical line of the block.

commentText

void commentText(String comment)
          throws ParseException

Receiving free text inside a comment tag.

Parameters:

comment - the text of the comment.

Throws:

ParseException

getBlockListener

NexusBlockListener getBlockListener()

Obtain the listener for this parser.

Returns:

the listener.

wantsBracketsAndBraces

boolean wantsBracketsAndBraces()

Does the listener want to know about brackets and braces as separate tokens?

Returns:

true if it does.