uk.ac.man.entitytagger
Class EntityTagger

java.lang.Object
  uk.ac.man.entitytagger.EntityTagger

public class EntityTagger
extends java.lang.Object

Main species recognition class

Author:

Martin *

Field Summary

static java.lang.String

LINNAEUS_VERSION

Constructor Summary

EntityTagger()

Method Summary

static void	doServer(Matcher matcher, int port, int numConns, java.util.logging.Logger logger, boolean enableCache, int report)
static java.lang.String	getDefaultHelpMessage()
static Matcher	getMatcher(ArgParser ap, java.util.logging.Logger logger) returns a entity recognition Matcher based on the input parameters in ap (provided by the user on the command-line or in a configuration file)
static Matcher	getMatcher(ArgParser ap, java.util.logging.Logger logger, java.lang.String tag) returns a entity recognition Matcher based on the input parameters in ap (provided by the user on the command-line or in a configuration file)
static Postprocessor	getPostprocessor(ArgParser ap, java.util.logging.Logger logger, java.util.Map<java.lang.String,java.lang.String> comments)
static Postprocessor	getPostprocessor(ArgParser ap, java.util.logging.Logger logger, java.util.Map<java.lang.String,java.lang.String> comments, java.lang.String tag)
static java.util.Map<java.lang.String,java.lang.String>	loadComments(java.io.File[] files, java.util.logging.Logger logger)
static void	main(java.lang.String[] args)

Methods inherited from class java.lang.Object

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

Field Detail

LINNAEUS_VERSION

public static final java.lang.String LINNAEUS_VERSION

See Also:

Constant Field Values

Constructor Detail

EntityTagger

public EntityTagger()

Method Detail

getPostprocessor

public static Postprocessor getPostprocessor(ArgParser ap,
                                             java.util.logging.Logger logger,
                                             java.util.Map<java.lang.String,java.lang.String> comments)

getPostprocessor

public static Postprocessor getPostprocessor(ArgParser ap,
                                             java.util.logging.Logger logger,
                                             java.util.Map<java.lang.String,java.lang.String> comments,
                                             java.lang.String tag)

getMatcher

public static Matcher getMatcher(ArgParser ap,
                                 java.util.logging.Logger logger)

returns a entity recognition Matcher based on the input parameters in ap (provided by the user on the command-line or in a configuration file)

Parameters:

ap - an ArgParser object containing arguments used to construct the matcher

logger - A logger to which information messages will be logged. Nothing will be logged if this is null.

Returns:

a matcher that can be used to find and normalize species names in text

getMatcher

public static Matcher getMatcher(ArgParser ap,
                                 java.util.logging.Logger logger,
                                 java.lang.String tag)

returns a entity recognition Matcher based on the input parameters in ap (provided by the user on the command-line or in a configuration file)

Parameters:

ap - an ArgParser object containing arguments used to construct the matcher

logger - A logger to which information messages will be logged. Nothing will be logged if this is null.

tag - Allows the use of multiple different matchers. For example, if tag == "Genes", properties will need to have the postfix "Genes" to be read. This allows the method to be called multiple times with different tags for different matching options.

Returns:

a matcher that can be used to find and normalize species names in text

getDefaultHelpMessage

public static java.lang.String getDefaultHelpMessage()

main

public static void main(java.lang.String[] args)

Parameters:

args -

doServer

public static void doServer(Matcher matcher,
                            int port,
                            int numConns,
                            java.util.logging.Logger logger,
                            boolean enableCache,
                            int report)

loadComments

public static java.util.Map<java.lang.String,java.lang.String> loadComments(java.io.File[] files,
                                                                            java.util.logging.Logger logger)