Package eu.isas.searchgui.processbuilders

Class TideIndexProcessBuilder

java.lang.Object

eu.isas.searchgui.processbuilders.SearchGUIProcessBuilder

eu.isas.searchgui.processbuilders.TideIndexProcessBuilder

All Implemented Interfaces:

Runnable

public class TideIndexProcessBuilder
extends SearchGUIProcessBuilder

ProcessBuilder for the Tide index generation.

Author:

Harald Barsnes, Marc Vaudel

Field Summary

Fields

Modifier and Type	Field	Description
static final String	EXECUTABLE_FILE_NAME	The name of the Tide executable.

Fields inherited from class eu.isas.searchgui.processbuilders.SearchGUIProcessBuilder

exceptionHandler, waitingHandler

Constructor Summary

Constructors

Constructor	Description
TideIndexProcessBuilder(File tideFolder, File tideTempFolder, File tideIndexLocation, File fastaFile, com.compomics.util.parameters.identification.search.SearchParameters searchParameters, com.compomics.util.waiting.WaitingHandler waitingHandler, com.compomics.util.exceptions.ExceptionHandler exceptionHandler)	Constructor.

Method Summary

Modifier and Type	Method	Description
String	getCurrentlyProcessedFileName()	Returns the file name of the currently processed file.
String	getType()	Returns the type of the process.

Methods inherited from class eu.isas.searchgui.processbuilders.SearchGUIProcessBuilder

endProcess, run, startProcess

Methods inherited from class java.lang.Object

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

Field Details

EXECUTABLE_FILE_NAME

public static final String EXECUTABLE_FILE_NAME

The name of the Tide executable.

See Also:

• Constant Field Values

Constructor Details

TideIndexProcessBuilder

public TideIndexProcessBuilder(File tideFolder,
 File tideTempFolder,
 File tideIndexLocation,
 File fastaFile,
 com.compomics.util.parameters.identification.search.SearchParameters searchParameters,
 com.compomics.util.waiting.WaitingHandler waitingHandler,
 com.compomics.util.exceptions.ExceptionHandler exceptionHandler)
                        throws IOException

Constructor.

Parameters:

tideFolder - the Tide folder

tideTempFolder - the Tide temp folder

tideIndexLocation - the file where to store the index

fastaFile - the FASTA file

searchParameters - the search parameters

waitingHandler - the waiting handler

exceptionHandler - the handler of exceptions

Throws:

IOException - thrown of there are problems creating the Tide parameter file

Method Details

getType

public String getType()

Description copied from class: SearchGUIProcessBuilder

Returns the type of the process.

Specified by:

getType in class SearchGUIProcessBuilder

Returns:

the type of the process

getCurrentlyProcessedFileName

public String getCurrentlyProcessedFileName()

Description copied from class: SearchGUIProcessBuilder

Returns the file name of the currently processed file.

Specified by:

getCurrentlyProcessedFileName in class SearchGUIProcessBuilder

Returns:

the file name of the currently processed file