jprotein.io.net
Class PsiBlastClientOld
java.lang.Object
jprotein.io.net.WebClient
jprotein.io.net.PsiBlastClientOld
- All Implemented Interfaces:
- Format
public class PsiBlastClientOld
- extends WebClient
- implements Format
Constructor Summary |
PsiBlastClientOld(java.lang.String url,
java.lang.String database,
java.lang.String matrix,
int maxResults,
double eValue,
int gap_exist,
int gap_ext,
int iteration)
|
Methods inherited from class java.lang.Object |
equals, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait |
PsiBlastClientOld
public PsiBlastClientOld(java.lang.String url,
java.lang.String database,
java.lang.String matrix,
int maxResults,
double eValue,
int gap_exist,
int gap_ext,
int iteration)
setDatabase
public void setDatabase(java.lang.String database)
setExpectedValue
public void setExpectedValue(double eValue)
setNumIteration
public void setNumIteration(int iteration)
getNumIteration
public int getNumIteration()
setGapCosts
public void setGapCosts(int gap_exist,
int gap_ext)
setMatrix
public void setMatrix(java.lang.String matrix)
setMaxResults
public void setMaxResults(int maxResults)
setQuerySequence
public void setQuerySequence(Sequence sequence)
setQuerySequence
public void setQuerySequence(java.lang.String sequence)
getDatabase
public java.lang.String getDatabase()
getExpectedValue
public double getExpectedValue()
getGapCosts
public java.lang.String getGapCosts()
getMatrix
public java.lang.String getMatrix()
getMaxResults
public int getMaxResults()
setPrevRID
public void setPrevRID(java.lang.String prevRID)
getPrevRID
public java.lang.String getPrevRID()
getPsiThreshhold
public java.lang.String getPsiThreshhold()
getRTOE
public java.lang.String getRTOE()
setRTOE
public void setRTOE(java.lang.String RTOE)
getQuerySequence
public Sequence getQuerySequence()
getData
public java.util.Vector getData()
- Specified by:
getData
in interface Format
initData
public java.util.Vector initData()
parseGI
public void parseGI(java.util.Vector buffer)
sendPutCommand
public void sendPutCommand()
throws java.lang.Exception
- Throws:
java.lang.Exception
sendInitialPsiGetCommand
public java.util.Vector sendInitialPsiGetCommand()
throws java.lang.Exception
- Throws:
java.lang.Exception
sendIterPsiGetCommand
public java.util.Vector sendIterPsiGetCommand()
throws java.lang.Exception
- Throws:
java.lang.Exception
iterPutCommand
public java.util.Vector iterPutCommand()
throws java.lang.Exception
- Throws:
java.lang.Exception