model
Class S3DetObject

java.lang.Object
  extended by model.S3DetObject

public class S3DetObject
extends java.lang.Object

This class represents an object of the S3Det information.


Constructor Summary
S3DetObject()
           
 
Method Summary
 ClusterCoordinates[] getClusterCoords()
          Returns the cluster coordinates.
 int[] getConservedPositions()
          Returns the conserved positions.
 java.lang.String getFilename()
          Returns the file name.
 java.util.HashMap<java.lang.String,java.lang.Integer> getName2ClusterIndex()
          Returns the name-to-clusterIndex HashMap.
 int getNumberOfSelectedAxes()
          Returns the total number of selected axes.
 java.util.HashMap<java.lang.Integer,PredictedPosition> getPos2PredPosition()
          Returns the Position-To-PredictedPosition HashMap.
 PredictedPosition[] getPredictedPositions()
          Returns the predicted positions.
 ResidueCoordinates[] getResCoords()
          Returns the residue coordinates.
 SequenceCluster[] getSeqClusters()
          Returns the sequence clusters.
 SequenceCoordinates[] getSeqCoords()
          Returns the sequence coordinates.
 void setClusterCoords(ClusterCoordinates[] clusterCoords)
          Sets the cluster coordinates.
 void setConservedPositions(int[] conservedPositions)
          Sets the conserved positions.
 void setFilename(java.lang.String filename)
          Sets the file name.
 void setName2ClusterIndex(java.util.HashMap<java.lang.String,java.lang.Integer> name2ClusterIndex)
          Sets the name-to-clusterIndex HashMap.
 void setNumberOfSelectedAxes(int numberOfSelectedAxes)
          Sets the total number of selected axes.
 void setPos2PredPosition(java.util.HashMap<java.lang.Integer,PredictedPosition> pos2PredPosition)
          Sets the Position-To-PredictedPosition HashMap.
 void setPredictedPositions(PredictedPosition[] predictedPositions)
          Sets the predicted positions.
 void setResCoords(ResidueCoordinates[] resCoords)
          Sets the residue coordinates.
 void setSeqClusters(SequenceCluster[] seqClusters)
          Sets the sequence clusters.
 void setSeqCoords(SequenceCoordinates[] seqCoords)
          Sets the sequence coordinates.
 
Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait
 

Constructor Detail

S3DetObject

public S3DetObject()
Method Detail

getFilename

public java.lang.String getFilename()
Returns the file name.

Returns:
filename String

setFilename

public void setFilename(java.lang.String filename)
Sets the file name.

Parameters:
filename -

getSeqCoords

public SequenceCoordinates[] getSeqCoords()
Returns the sequence coordinates.

Returns:
seqCoords SequenceCoordinates

setSeqCoords

public void setSeqCoords(SequenceCoordinates[] seqCoords)
Sets the sequence coordinates.

Parameters:
seqCoords -

getResCoords

public ResidueCoordinates[] getResCoords()
Returns the residue coordinates.

Returns:
resCoords ResidueCoordinates

setResCoords

public void setResCoords(ResidueCoordinates[] resCoords)
Sets the residue coordinates.

Parameters:
resCoords -

getSeqClusters

public SequenceCluster[] getSeqClusters()
Returns the sequence clusters.

Returns:
seqClusters SequenceCluster[]

setSeqClusters

public void setSeqClusters(SequenceCluster[] seqClusters)
Sets the sequence clusters.

Parameters:
seqClusters -

getClusterCoords

public ClusterCoordinates[] getClusterCoords()
Returns the cluster coordinates.

Returns:
clusterCoords ClusterCoordinates

setClusterCoords

public void setClusterCoords(ClusterCoordinates[] clusterCoords)
Sets the cluster coordinates.

Parameters:
clusterCoords -

getPredictedPositions

public PredictedPosition[] getPredictedPositions()
Returns the predicted positions.

Returns:
predictedPositions PredictedPosition[]

setPredictedPositions

public void setPredictedPositions(PredictedPosition[] predictedPositions)
Sets the predicted positions.

Parameters:
predictedPositions -

getConservedPositions

public int[] getConservedPositions()
Returns the conserved positions.

Returns:
conservedPositions Integer[]

setConservedPositions

public void setConservedPositions(int[] conservedPositions)
Sets the conserved positions.

Parameters:
conservedPositions -

getNumberOfSelectedAxes

public int getNumberOfSelectedAxes()
Returns the total number of selected axes.

Returns:
numberOfSelectedAxes Integer

setNumberOfSelectedAxes

public void setNumberOfSelectedAxes(int numberOfSelectedAxes)
Sets the total number of selected axes.

Parameters:
numberOfSelectedAxes -

getPos2PredPosition

public java.util.HashMap<java.lang.Integer,PredictedPosition> getPos2PredPosition()
Returns the Position-To-PredictedPosition HashMap.

Returns:
pred2PredPosition

setPos2PredPosition

public void setPos2PredPosition(java.util.HashMap<java.lang.Integer,PredictedPosition> pos2PredPosition)
Sets the Position-To-PredictedPosition HashMap.

Parameters:
pos2PredPosition - HashMap

getName2ClusterIndex

public java.util.HashMap<java.lang.String,java.lang.Integer> getName2ClusterIndex()
Returns the name-to-clusterIndex HashMap.

Returns:
name2ClusterIndex HashMap

setName2ClusterIndex

public void setName2ClusterIndex(java.util.HashMap<java.lang.String,java.lang.Integer> name2ClusterIndex)
Sets the name-to-clusterIndex HashMap.

Parameters:
name2ClusterIndex - HashMap