de.fzi.kadmos.webutils.core
Class KADMOSAlignmentServiceImpl

java.lang.Object
  de.fzi.kadmos.webutils.core.KADMOSAlignmentServiceImpl

All Implemented Interfaces:

KADMOSAlignmentService

public class KADMOSAlignmentServiceImpl
extends Object
implements KADMOSAlignmentService

Implementation of the endpoint interface KADMOSAlignmentService.

Since:

1.1.0

Version:

1.3.0

Author:

Matthias Stumpp

Field Summary

protected org.apache.commons.logging.Log

logger Logger.

Constructor Summary

KADMOSAlignmentServiceImpl()

Method Summary

String	align(String ontology1, String ontology2, String inputAlignment, List<ArgumentType> parameters) Implementation of the endpoint service interface KADMOSAlignmentService.
protected String	getAlignmentURLPrefix() Returns URL to be prefixed to created alignment files in order to make them remotely accessible.
protected String	getServletContextRealPath() Returns real path of the ServletContext.
protected boolean	isRemoteAccessibility(String url) Checks whether a file represented by an URL is accessible.
protected File	makeFileFromAlignment(String alignment, String fileName, String fileType) Creates a file of a String representing an alignment.
protected String	makeRemoteAccessibleFileFromAlignment(String alignment, String fileName, String fileType) Creates a remotely accessible file of a String representing an alignment.

Methods inherited from class java.lang.Object

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

Field Detail

logger

protected org.apache.commons.logging.Log logger

Logger.

Constructor Detail

KADMOSAlignmentServiceImpl

public KADMOSAlignmentServiceImpl()

Method Detail

align

public String align(String ontology1,
                    String ontology2,
                    String inputAlignment,
                    List<ArgumentType> parameters)
             throws KADMOSFault

Implementation of the endpoint service interface KADMOSAlignmentService.

Specified by:

align in interface KADMOSAlignmentService

Throws:

KADMOSFault

getServletContextRealPath

protected String getServletContextRealPath()
                                    throws KADMOSFault

Returns real path of the ServletContext.

Returns:

String representing real path of the ServletContext.

Throws:

KADMOSFault - Exception if ServletContest in unknown.

isRemoteAccessibility

protected boolean isRemoteAccessibility(String url)

Checks whether a file represented by an URL is accessible.

Parameters:

URL - of file to be checked.

Returns:

Boolean, true is file exists, false otherwise.

makeRemoteAccessibleFileFromAlignment

protected String makeRemoteAccessibleFileFromAlignment(String alignment,
                                                       String fileName,
                                                       String fileType)
                                                throws KADMOSFault

Creates a remotely accessible file of a String representing an alignment.

Parameters:

alignment - String representing an alignment previously created.

fileName - Name of the file to be returned.

fileType - Type of the file to be returned.

Returns:

String String representing the URI pointing to the remotely accessible file containing the alignment.

Throws:

KADMOSFault - Exception thrown during file creation.

makeFileFromAlignment

protected File makeFileFromAlignment(String alignment,
                                     String fileName,
                                     String fileType)
                              throws KADMOSFault

Creates a file of a String representing an alignment.

Parameters:

alignment - String representing an alignment previously created.

fileName - Name of the file to be returned.

fileType - Type of the file to be returned.

Returns:

File File containing the alignment.

Throws:

KADMOSFault - Exception thrown during file creation.

getAlignmentURLPrefix

protected String getAlignmentURLPrefix()
                                throws KADMOSFault

Returns URL to be prefixed to created alignment files in order to make them remotely accessible.

Returns:

String URL to be prefixed to created alignment files in order to make them remotely accessible.

Throws:

KADMOSFault - Exception thrown during creating URLPrefix.