org.biojava.bio.structure.io

Class FileConvert

java.lang.Object

org.biojava.bio.structure.io.FileConvert

public class FileConvert
extends java.lang.Object

Methods to convert a structure object into different file formats.

Since:

1.4

Author:

Andreas Prlic

Constructor Summary

Constructors

Constructor and Description
FileConvert(Structure struc) Constructs a FileConvert object.

Method Summary

Methods

Modifier and Type	Method and Description
boolean	doPrintConnections() returns if the Connections should be added default is true;
void	setPrintConnections(boolean printConnections) enable/disable printing of connections connections are sometimes buggy in PDB files so there are some cases where one might turn this off.
void	toDASStructure(XMLWriter xw) convert a protein Structure to a DAS Structure XML response .
java.lang.String	toPDB() Convert a structure into a PDB file.

Methods inherited from class java.lang.Object

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

Constructor Detail

FileConvert

public FileConvert(Structure struc)

Constructs a FileConvert object.

Parameters:

struc - a Structure object

Method Detail

doPrintConnections

public boolean doPrintConnections()

returns if the Connections should be added default is true;

Returns:

if the printConnections flag is set

setPrintConnections

public void setPrintConnections(boolean printConnections)

enable/disable printing of connections connections are sometimes buggy in PDB files so there are some cases where one might turn this off.

Parameters:

printConnections -

toPDB

public java.lang.String toPDB()

Convert a structure into a PDB file.

Returns:

a String representing a PDB file.

toDASStructure

public void toDASStructure(XMLWriter xw)
                    throws java.io.IOException

convert a protein Structure to a DAS Structure XML response .

Parameters:

xw - a XMLWriter object

Throws:

java.io.IOException - ...