org.biojava.bio.program.das.dasalignment
Class DASAlignmentClient

java.lang.Object
  extended by org.biojava.bio.program.das.dasalignment.DASAlignmentClient

public class DASAlignmentClient
extends Object

A DAS client that connects to a DAS aligmnent service and returns a Biojava Alignment object.


Constructor Summary
DASAlignmentClient()
          Constructs a DASAlignmentClient object.
DASAlignmentClient(String url)
          Constructs a DASAlignmentClient object.
 
Method Summary
 Alignment[] getAlignments()
          Returns the alignments.
 Alignment[] getAlignments(String query_)
          Returns the alignments.
 String getQuery()
          Returns the query.
 void setQuery(String q)
          Specifies the query.
 
Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait
 

Constructor Detail

DASAlignmentClient

public DASAlignmentClient()
Constructs a DASAlignmentClient object.


DASAlignmentClient

public DASAlignmentClient(String url)
Constructs a DASAlignmentClient object.

Parameters:
url - a String ...
Method Detail

setQuery

public void setQuery(String q)
Specifies the query.

Parameters:
q - a String specifying the query value
See Also:
getQuery()

getQuery

public String getQuery()
Returns the query.

Returns:
a String representing the query value
See Also:
setQuery(java.lang.String)

getAlignments

public Alignment[] getAlignments(String query_)
                          throws IOException
Returns the alignments.

Parameters:
query_ - a String
Returns:
an array of Alignment objects
Throws:
IOException - ...

getAlignments

public Alignment[] getAlignments()
                          throws IOException
Returns the alignments.

Returns:
an array of Alignment objects
Throws:
IOException - ...