com.wcohen.ss.abbvGapsHmm

Class AbbvGapsHmmForwardEvaluator.ForwardEvalParam

java.lang.Object

com.wcohen.ss.abbvGapsHmm.AbbvGapsHMMEvaluator.EvalParam

com.wcohen.ss.abbvGapsHmm.AbbvGapsHmmForwardEvaluator.ForwardEvalParam

Enclosing class:

AbbvGapsHmmForwardEvaluator

protected class AbbvGapsHmmForwardEvaluator.ForwardEvalParam
extends AbbvGapsHMMEvaluator.EvalParam

Field Summary

Fields inherited from class com.wcohen.ss.abbvGapsHmm.AbbvGapsHMMEvaluator.EvalParam

_current, _currentStringPos, _eval_end, _eval_mat_size, _eval_start, _length, _partialWord, _partialWordIsAtStart

Constructor Summary

Constructors

Constructor and Description
ForwardEvalParam(String str)

Method Summary

Modifier and Type	Method and Description
void	advanceEvalRange() Advance within evaluation range
int	getCurrentPartialWordLen()
int	getCurrentPartialWordMatchPosition()
void	initEvalRange() Init evaluation range
boolean	isCurrentPartialWordMatchPositionAtWordStart()
boolean	isInEvalRange() Is in evaluation range
boolean	isInStringMatchingRange()
int	offset(int offset)
void	setPartialWord(String str, boolean isAtWordStart)

Methods inherited from class com.wcohen.ss.abbvGapsHmm.AbbvGapsHMMEvaluator.EvalParam

getEvalMatrixSize, getEvalStringPos, getRangeEnd, getRangeStart, isAtRangeEnd, isAtRangeStart, val

Methods inherited from class java.lang.Object

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

Constructor Detail

ForwardEvalParam

public ForwardEvalParam(String str)

Method Detail

advanceEvalRange

public void advanceEvalRange()

Description copied from class: AbbvGapsHMMEvaluator.EvalParam

Advance within evaluation range

Specified by:

advanceEvalRange in class AbbvGapsHMMEvaluator.EvalParam

isInEvalRange

public boolean isInEvalRange()

Description copied from class: AbbvGapsHMMEvaluator.EvalParam

Is in evaluation range

Specified by:

isInEvalRange in class AbbvGapsHMMEvaluator.EvalParam

isInStringMatchingRange

public boolean isInStringMatchingRange()

Specified by:

isInStringMatchingRange in class AbbvGapsHMMEvaluator.EvalParam

offset

public int offset(int offset)

Specified by:

offset in class AbbvGapsHMMEvaluator.EvalParam

isCurrentPartialWordMatchPositionAtWordStart

public boolean isCurrentPartialWordMatchPositionAtWordStart()

Specified by:

isCurrentPartialWordMatchPositionAtWordStart in class AbbvGapsHMMEvaluator.EvalParam

initEvalRange

public void initEvalRange()

Description copied from class: AbbvGapsHMMEvaluator.EvalParam

Init evaluation range

Specified by:

initEvalRange in class AbbvGapsHMMEvaluator.EvalParam

setPartialWord

public void setPartialWord(String str,
                           boolean isAtWordStart)

Specified by:

setPartialWord in class AbbvGapsHMMEvaluator.EvalParam

getCurrentPartialWordLen

public int getCurrentPartialWordLen()

Specified by:

getCurrentPartialWordLen in class AbbvGapsHMMEvaluator.EvalParam

getCurrentPartialWordMatchPosition

public int getCurrentPartialWordMatchPosition()

Specified by:

getCurrentPartialWordMatchPosition in class AbbvGapsHMMEvaluator.EvalParam