Class AFPChainXMLConverter
- java.lang.Object
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- org.biojava.nbio.structure.align.xml.AFPChainXMLConverter
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public class AFPChainXMLConverter extends java.lang.Object
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Constructor Summary
Constructors Constructor Description AFPChainXMLConverter()
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Method Summary
All Methods Static Methods Concrete Methods Modifier and Type Method Description 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 void
toXML(AFPChain afpChain, java.io.StringWriter swriter, Atom[] ca1, Atom[] ca2)
Write the XML representation to a StringWriterstatic java.lang.String
toXML(AFPChain afpChain, Atom[] ca1, Atom[] ca2)
Convert an afpChain to a simple XML representation
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Method Detail
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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
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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
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printXMLEQRInferPositions
public static void printXMLEQRInferPositions(PrettyXMLWriter xml, AFPChain afpChain, int bk, Atom[] ca1, Atom[] ca2) throws java.io.IOException
- Throws:
java.io.IOException
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toXML
public static java.lang.String toXML(AFPChain afpChain) throws java.io.IOException
- Throws:
java.io.IOException
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printXMLHeader
public static void printXMLHeader(PrettyXMLWriter xml, AFPChain afpChain) throws java.io.IOException
- Throws:
java.io.IOException
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