org.bridgedb.tools.voidtool

Class VoIDTool

java.lang.Object

org.bridgedb.tools.voidtool.VoIDTool

public class VoIDTool
extends Object

Utility to extract RDF data from derby database and store it as text file. Run with two parameters: [database] and [filename] database already contains the RDF data.

Field Summary

Fields

Modifier and Type	Field and Description
FileWriter	file

Constructor Summary

Constructors

Constructor and Description
VoIDTool(File f1, String fileName) Reads the database file passed and creates a text file with the name passes containing the RDF data from the database.

Method Summary

Modifier and Type	Method and Description
void	appendStrToFile(String fileName, String str) This function adds data to a file without overriding the existing data
void	createRDF() this method creates RDF file from the derby database passed through the CLI Tool
void	initDatabases()
static void	main(String[] args)
static void	printUsage()
void	run()

Methods inherited from class java.lang.Object

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

Field Detail

file

public FileWriter file

Constructor Detail

VoIDTool

public VoIDTool(File f1,
                String fileName)
         throws IOException

Reads the database file passed and creates a text file with the name passes containing the RDF data from the database.

Parameters:

f1 - database file

fileName - name of the file to be create

Throws:

IOException

Method Detail

appendStrToFile

public void appendStrToFile(String fileName,
                            String str)

This function adds data to a file without overriding the existing data

Parameters:

fileName - the file in which the rdf data is to be added.

str - the string that is to be added to the file.

initDatabases

public void initDatabases()
                   throws IDMapperException

Throws:

IDMapperException

createRDF

public void createRDF()
               throws SQLException,
                      IDMapperException

this method creates RDF file from the derby database passed through the CLI Tool

Throws:

SQLException

IDMapperException

run

public void run()
         throws IDMapperException,
                SQLException

Throws:

IDMapperException

SQLException

printUsage

public static void printUsage()

main

public static void main(String[] args)
                 throws IOException,
                        IDMapperException,
                        SQLException

Throws:

IOException

IDMapperException

SQLException