org.genepi.means
Class Blastx

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

public class Blastx
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
Blastx()
           
 
Method Summary
 void attrLimitRes(java.lang.String l)
           
protected  void extractRecords()
           
 void featureReady(int from, int to, boolean sens, java.util.Hashtable annot)
          RedŽfinition de l'interface FeatureHandler necessaire pour mapper les coordonnŽe proteique->nuclŽique (*3).
protected  void prepare()
          Dump des donnees en entree en TINA.
protected  void setScriptName()
           
 
Methods inherited from class org.genepi.means.TinaShell
execute
 
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

Blastx

public Blastx()
Method Detail

attrLimitRes

public void attrLimitRes(java.lang.String l)

setScriptName

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

prepare

protected void prepare()
Dump des donnees en entree en TINA.

Specified by:
prepare in class TinaShell

extractRecords

protected void extractRecords()
                       throws MeanException
Specified by:
extractRecords in class TinaShell
Throws:
MeanException

featureReady

public void featureReady(int from,
                         int to,
                         boolean sens,
                         java.util.Hashtable annot)
RedŽfinition de l'interface FeatureHandler necessaire pour mapper les coordonnŽe proteique->nuclŽique (*3).

Specified by:
featureReady in interface FeatureHandler
Overrides:
featureReady in class TinaShell