MultipleAlignmentXMLParser (biojava 6.0.5 API)

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

```
public class MultipleAlignmentXMLParser
extends java.lang.Object
```
Parse an XML file representing a MultipleAlignmentEnsemble, so that the original alignment can be recovered.
Atoms need to be downloaded, either manually or using the method getAtomArrays() in MultipleAlignmentEnsemble.

Since:

4.1.1

Author:

Aleix Lafita

Constructor Summary

Constructors
Constructor Description

MultipleAlignmentXMLParser()

Method Summary

All Methods Static Methods Concrete Methods
Modifier and Type	Method	Description
`static java.util.List<MultipleAlignmentEnsemble>`	`parseXMLfile(java.lang.String xml)`	Creates a list of MultipleAlignment ensembles from an XML file.

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

- Constructor Detail
  - MultipleAlignmentXMLParser
```
public MultipleAlignmentXMLParser()
```
- Method Detail
  - parseXMLfile
```
public static java.util.List<MultipleAlignmentEnsemble> parseXMLfile(java.lang.String xml)
                                                              throws javax.xml.parsers.ParserConfigurationException,
                                                                     org.xml.sax.SAXException,
                                                                     java.io.IOException
```
    Creates a list of MultipleAlignment ensembles from an XML file. This recovers only the information that was previously stored. If the Atoms are needed, the method getAtomArrays() will automatically download the structures from the stored structure identifiers.
    
    Parameters:
    
    xml - String XML file containing any number of ensembles
    
    Returns:
    
    List of ensembles in the file
    
    Throws:
    
    javax.xml.parsers.ParserConfigurationException
    
    org.xml.sax.SAXException
    
    java.io.IOException