java.lang.Object
- org.biojava.nbio.structure.align.xml.MultipleAlignmentXMLConverter

```
public class MultipleAlignmentXMLConverter
extends java.lang.Object
```
Helper methods to convert all the hierarchy levels of a MultipleAlignment into an XML format.
To convert a MultipleAlignment to an XML String use the MultipleAlignmentWriter.toXML(MultipleAlignmentEnsemble) method.

Since:

4.1.1

Author:

Aleix Lafita

Constructor Summary

Constructors
Constructor Description

MultipleAlignmentXMLConverter()

Method Summary

All Methods Static Methods Concrete Methods
Modifier and Type	Method	Description
`static void`	`printXMLalignment(PrettyXMLWriter xml, MultipleAlignment msa)`
`static void`	`printXMLblock(PrettyXMLWriter xml, Block b)`
`static void`	`printXMLblockSet(PrettyXMLWriter xml, BlockSet bs)`
`static void`	`printXMLensemble(PrettyXMLWriter xml, MultipleAlignmentEnsemble ensemble)`
`static void`	`printXMLheader(PrettyXMLWriter xml, MultipleAlignmentEnsemble ensemble)`
`static void`	`printXMLmatrix4d(PrettyXMLWriter xml, javax.vecmath.Matrix4d transform)`
`static void`	`printXMLscoresCache(PrettyXMLWriter xml, ScoresCache cache)`

Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Detail
- MultipleAlignmentXMLConverter
```
public MultipleAlignmentXMLConverter()
```

Method Detail

printXMLensemble

public static void printXMLensemble(PrettyXMLWriter xml,
                                    MultipleAlignmentEnsemble ensemble)
                             throws java.io.IOException

Throws:: java.io.IOException

printXMLalignment

public static void printXMLalignment(PrettyXMLWriter xml,
                                     MultipleAlignment msa)
                              throws java.io.IOException

Throws:: java.io.IOException

printXMLblockSet

public static void printXMLblockSet(PrettyXMLWriter xml,
                                    BlockSet bs)
                             throws java.io.IOException

Throws:: java.io.IOException

printXMLblock

public static void printXMLblock(PrettyXMLWriter xml,
                                 Block b)
                          throws java.io.IOException

Throws:: java.io.IOException

printXMLmatrix4d

public static void printXMLmatrix4d(PrettyXMLWriter xml,
                                    javax.vecmath.Matrix4d transform)
                             throws java.io.IOException

Throws:: java.io.IOException

printXMLscoresCache

public static void printXMLscoresCache(PrettyXMLWriter xml,
                                       ScoresCache cache)
                                throws java.io.IOException

Throws:: java.io.IOException

printXMLheader

public static void printXMLheader(PrettyXMLWriter xml,
                                  MultipleAlignmentEnsemble ensemble)
                           throws java.io.IOException

Throws:: java.io.IOException

Class MultipleAlignmentXMLConverter

Constructor Summary

Method Summary

Methods inherited from class java.lang.Object

Constructor Detail

MultipleAlignmentXMLConverter

Method Detail

printXMLensemble

printXMLalignment

printXMLblockSet

printXMLblock

printXMLmatrix4d

printXMLscoresCache

printXMLheader