de.unibi.techfak.jpredictor.operator
Class Operator.SearchThread

java.lang.Object
  java.lang.Thread
      de.unibi.techfak.jpredictor.operator.Operator.SearchThread

All Implemented Interfaces:

java.lang.Runnable

Enclosing class:

Operator

 class Operator.SearchThread
extends java.lang.Thread

Class which gets a MotifList and either a CharSequence or a SequenceReader (from which the CharSequences are obtained) and which searches the motifs in the list in all sequences by calling for every motif the searchAll-method.
Set the method which is designed to receive the results by setting methodToCall to METHOD_SEARCH, METHOD_CALC or METHOD_SCORE.

Nested Class Summary

Nested classes/interfaces inherited from class java.lang.Thread

java.lang.Thread.State, java.lang.Thread.UncaughtExceptionHandler

Field Summary

(package private) java.lang.CharSequence	cs
(package private) int	methodToCall
(package private) MotifList	ml
(package private) SequenceReader	reader
(package private) int	windowShift
(package private) int	windowWidth

Fields inherited from class java.lang.Thread

MAX_PRIORITY, MIN_PRIORITY, NORM_PRIORITY

Constructor Summary

Operator.SearchThread()

Method Summary

void

run()

Methods inherited from class java.lang.Thread

activeCount, checkAccess, countStackFrames, currentThread, destroy, dumpStack, enumerate, getAllStackTraces, getContextClassLoader, getDefaultUncaughtExceptionHandler, getId, getName, getPriority, getStackTrace, getState, getThreadGroup, getUncaughtExceptionHandler, holdsLock, interrupt, interrupted, isAlive, isDaemon, isInterrupted, join, join, join, resume, setContextClassLoader, setDaemon, setDefaultUncaughtExceptionHandler, setName, setPriority, setUncaughtExceptionHandler, sleep, sleep, start, stop, stop, suspend, toString, yield

Methods inherited from class java.lang.Object

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

Field Detail

reader

SequenceReader reader

cs

java.lang.CharSequence cs

ml

MotifList ml

windowWidth

int windowWidth

windowShift

int windowShift

methodToCall

int methodToCall

Constructor Detail

Operator.SearchThread

Operator.SearchThread()

Method Detail

run

public void run()

Specified by:

run in interface java.lang.Runnable

Overrides:

run in class java.lang.Thread