org.genepi.means
Class RbsFinder

java.lang.Object
  extended by org.genepi.Task
      extended by org.genepi.means.TinaShell
          extended by org.genepi.means.RbsFinder
All Implemented Interfaces:
FeatureHandler

public class RbsFinder
extends TinaShell


Field Summary
 
Fields inherited from class org.genepi.means.TinaShell
cmd, isFramed, itResults, progName, seqMother, shellCommand
 
Fields inherited from class org.genepi.Task
inputs, outputs
 
Constructor Summary
RbsFinder()
           
 
Method Summary
 void attrPattern(java.lang.String pat)
           
 void attrRbsRegionLen(java.lang.String ml)
           
protected  void extractRecords()
          Cette methode parse le fichier TINA resultat et instancie les intervalles correspondants
protected  void prepare()
          Dump le tina en entree
protected  void setScriptName()
           
 
Methods inherited from class org.genepi.means.TinaShell
execute, featureReady
 
Methods inherited from class org.genepi.Task
afterExec, beforeExec, flush, getConfiguration, getInputs, getOutputs, getOwningKS, message, process, setConfiguration, setInputs, setOwningKS
 
Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait
 

Constructor Detail

RbsFinder

public RbsFinder()
Method Detail

attrRbsRegionLen

public void attrRbsRegionLen(java.lang.String ml)

attrPattern

public void attrPattern(java.lang.String pat)

setScriptName

protected void setScriptName()
Specified by:
setScriptName in class TinaShell

prepare

protected void prepare()
Dump le tina en entree

Specified by:
prepare in class TinaShell

extractRecords

protected void extractRecords()
                       throws MeanException
Cette methode parse le fichier TINA resultat et instancie les intervalles correspondants

Specified by:
extractRecords in class TinaShell
Throws:
MeanException