org.biojava.bio.structure.align.xml
Class AFPChainXMLConverter

java.lang.Object
  org.biojava.bio.structure.align.xml.AFPChainXMLConverter

public class AFPChainXMLConverter
extends java.lang.Object

Constructor Summary

AFPChainXMLConverter()

Method Summary

static void	printXMLEQRInferPositions(PrettyXMLWriter xml, AFPChain afpChain, int bk, Atom[] ca1, Atom[] ca2)
static void	printXMLHeader(PrettyXMLWriter xml, AFPChain afpChain)
static java.lang.String	toXML(AFPChain afpChain)
static java.lang.String	toXML(AFPChain afpChain, Atom[] ca1, Atom[] ca2) Convert an afpChain to a simple XML representation
static void	toXML(AFPChain afpChain, java.io.StringWriter swriter, Atom[] ca1, Atom[] ca2) Write the XML representation to a StringWriter

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Detail

AFPChainXMLConverter

public AFPChainXMLConverter()

Method Detail

toXML

public static java.lang.String toXML(AFPChain afpChain,
                                     Atom[] ca1,
                                     Atom[] ca2)
                              throws java.io.IOException

Convert an afpChain to a simple XML representation

Parameters:

afpChain -

Returns:

XML representation of the AFPCHain

Throws:

java.io.IOException

toXML

public static void toXML(AFPChain afpChain,
                         java.io.StringWriter swriter,
                         Atom[] ca1,
                         Atom[] ca2)
                  throws java.io.IOException

Write the XML representation to a StringWriter

Parameters:

afpChain -

swriter -

Throws:

java.io.IOException

printXMLEQRInferPositions

public static void printXMLEQRInferPositions(PrettyXMLWriter xml,
                                             AFPChain afpChain,
                                             int bk,
                                             Atom[] ca1,
                                             Atom[] ca2)
                                      throws java.io.IOException

Throws:

java.io.IOException

toXML

public static java.lang.String toXML(AFPChain afpChain)
                              throws java.io.IOException

Throws:

java.io.IOException

printXMLHeader

public static void printXMLHeader(PrettyXMLWriter xml,
                                  AFPChain afpChain)
                           throws java.io.IOException

Throws:

java.io.IOException