Package fr.ens.biologie.genomique.eoulsan.util

Class EoulsanTranslatorUtils

java.lang.Object

fr.ens.biologie.genomique.eoulsan.util.EoulsanTranslatorUtils

public class EoulsanTranslatorUtils
extends Object

This class define Kenetre translator utility glue methods for Eoulsan.

Since:

2.6

Author:

Laurent Jourdren

Method Summary

Modifier and Type	Method	Description
static DataFile	getLinksFileFromSettings(Settings settings)	Get the links file from the settings.
static fr.ens.biologie.genomique.kenetre.translator.Translator	loadTranslator(DataFile linksFile)	Create a translator annotation from a link file.
static fr.ens.biologie.genomique.kenetre.translator.Translator	loadTranslator(DataFile annotationFile, DataFile linksFile)	Create a translator annotation from an additional annotation file and a link file.

Methods inherited from class java.lang.Object

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

Method Detail

loadTranslator

public static fr.ens.biologie.genomique.kenetre.translator.Translator loadTranslator(DataFile annotationFile,
                                                                                     DataFile linksFile)
                                                                              throws IOException

Create a translator annotation from an additional annotation file and a link file.

Parameters:

annotationFile - the annotation file to use

linksFile - the additional annotation hypertext links file

Returns:

a Translator object with the additional annotation

Throws:

IOException - if an error occurs while reading additional annotation

loadTranslator

public static fr.ens.biologie.genomique.kenetre.translator.Translator loadTranslator(DataFile linksFile)
                                                                              throws IOException

Create a translator annotation from a link file.

Parameters:

linksFile - the additional annotation hypertext links file

Returns:

a Translator object with the additional annotation

Throws:

IOException - if an error occurs while reading additional annotation

getLinksFileFromSettings

public static DataFile getLinksFileFromSettings(Settings settings)

Get the links file from the settings.

Parameters:

settings - the settings object

Returns:

a DataFile with the path to the link file or null if the link file has not been defined in the settings