org.sbgn

Class SbgnUtil

java.lang.Object

org.sbgn.SbgnUtil

public class SbgnUtil
extends Object

Constructor Summary

Constructors

Constructor and Description
SbgnUtil()

Method Summary

Modifier and Type	Method and Description
static String	getResource(String res) Gets the resource.
static boolean	isValid(File f) Check if a given file validates against the given xsd.
static Sbgn	readFromFile(File f) Read an sbgn file (without validating against the schema)
static void	writeToFile(Sbgn sbgn, File f) Write sbgn to a file

Methods inherited from class java.lang.Object

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

Constructor Detail

SbgnUtil

public SbgnUtil()

Method Detail

readFromFile

public static Sbgn readFromFile(File f)
                         throws JAXBException

Read an sbgn file (without validating against the schema)

Parameters:

f - file to read from

Returns:

Sbgn data structure

Throws:

JAXBException - if there is an IO error, or the file is not SBGNML.

getResource

public static String getResource(String res)
                          throws IOException

Gets the resource.

Parameters:

res - the resource

Returns:

the resource

Throws:

IOException - the IO exception

isValid

public static boolean isValid(File f)
                       throws JAXBException,
                              SAXException,
                              IOException

Check if a given file validates against the given xsd. If validation fails, an error message is printed to System.err.

Parameters:

f - the file to validate

Returns:

true if the file is valid

Throws:

SAXException - if there are problems reading xsd

JAXBException - if there are problems reading f that are not due to validation problems (for example, disk error or file not found)

IOException - when the resource SBGN.xsd could not be loaded

writeToFile

public static void writeToFile(Sbgn sbgn,
                               File f)
                        throws JAXBException

Write sbgn to a file

Parameters:

sbgn - Sbgn data structure to write

f - output file

Throws:

JAXBException - if there is an IO error