Package org.biopax.paxtools.io.jsonld

Class JsonldBiopaxConverter

java.lang.Object

org.biopax.paxtools.io.jsonld.JsonldBiopaxConverter

All Implemented Interfaces:

JsonldConverter

public class JsonldBiopaxConverter
extends Object
implements JsonldConverter

Constructor Summary

Constructors

Constructor	Description
JsonldBiopaxConverter()

Method Summary

Modifier and Type	Method	Description
void	convertFromJsonld(InputStream in, OutputStream out)	Convert inputstream in jsonld format to outputsream in owl/rdf format.
void	convertToJsonld(InputStream in, OutputStream os)	Convert inputstream in owl/rdf format to outputsream in jsonld format.
File	preProcessFile(InputStream in)	Converts the BioPAX data (stream) to an equivalent temporary BioPAX RDF/XML file that contains absolute instead of (possibly) relative URIs for all the BioPAX elements out there; and returns that file.

Methods inherited from class java.lang.Object

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

Constructor Details

JsonldBiopaxConverter

public JsonldBiopaxConverter()

Method Details

convertToJsonld

public void convertToJsonld(InputStream in,
 OutputStream os)
                     throws IOException

Description copied from interface: JsonldConverter

Convert inputstream in owl/rdf format to outputsream in jsonld format.

Specified by:

convertToJsonld in interface JsonldConverter

Parameters:

in - input stream (BioPAX RDF/XML data)

os - output stream (to write the JSON-LD result)

Throws:

IOException - when an I/O error occurs

convertFromJsonld

public void convertFromJsonld(InputStream in,
 OutputStream out)

Description copied from interface: JsonldConverter

Convert inputstream in jsonld format to outputsream in owl/rdf format.

Specified by:

convertFromJsonld in interface JsonldConverter

Parameters:

in - input stream (JSON-LD data)

out - output stream (to write the BioPAX RDF/XML result)

preProcessFile

public File preProcessFile(InputStream in)
                    throws IOException

Converts the BioPAX data (stream) to an equivalent temporary BioPAX RDF/XML file that contains absolute instead of (possibly) relative URIs for all the BioPAX elements out there; and returns that file. This is required due to a bug in Jena lib that results in inserting '#' inside the URIs...

Parameters:

in - biopax input stream

Returns:

a temporary file

Throws:

IOException