org.biojava.bio.symbol
Class SimpleGappedSymbolList.Block

java.lang.Object
  extended by org.biojava.bio.symbol.SimpleGappedSymbolList.Block
All Implemented Interfaces:
java.io.Serializable
Enclosing class:
SimpleGappedSymbolList

protected static final class SimpleGappedSymbolList.Block
extends java.lang.Object
implements java.io.Serializable

An aligned block.

The alignment is actualy stoored as a list of these objects. Each block is contiguous with the next in the source fields, but may be gapped in the view fields.

Author:
Matthew Pocock
See Also:
Serialized Form

Field Summary
 int sourceEnd
           
 int sourceStart
           
 int viewEnd
           
 int viewStart
           
 
Constructor Summary
SimpleGappedSymbolList.Block(int sourceStart, int sourceEnd, int viewStart, int viewEnd)
           
SimpleGappedSymbolList.Block(SimpleGappedSymbolList.Block block)
           
 
Method Summary
 boolean isSane()
           
 java.lang.String toString()
           
 
Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, wait, wait, wait
 

Field Detail

sourceStart

public int sourceStart

sourceEnd

public int sourceEnd

viewStart

public int viewStart

viewEnd

public int viewEnd
Constructor Detail

SimpleGappedSymbolList.Block

public SimpleGappedSymbolList.Block(int sourceStart,
                                    int sourceEnd,
                                    int viewStart,
                                    int viewEnd)

SimpleGappedSymbolList.Block

public SimpleGappedSymbolList.Block(SimpleGappedSymbolList.Block block)
Method Detail

toString

public java.lang.String toString()
Overrides:
toString in class java.lang.Object

isSane

public boolean isSane()