public class classScoreCMD extends Object
Modifier and Type | Field and Description |
---|---|
protected GeneAnnotations |
geneData |
protected GeneSetTerms |
goData |
protected Settings |
settings |
protected StatusViewer |
statusMessenger |
Constructor and Description |
---|
classScoreCMD() |
Modifier and Type | Method and Description |
---|---|
protected GeneSetPvalRun |
analyze() |
String |
getSaveFileName() |
SettingsHolder |
getSettings() |
StatusViewer |
getStatusMessenger() |
protected void |
initialize() |
boolean |
isSaveAllGenes() |
boolean |
isUseCommandLineInterface() |
static void |
main(String[] args) |
protected void |
printHelp(String command) |
protected boolean |
processCommandLine(String commandName,
String[] args) |
protected boolean |
run(String[] args) |
protected Settings settings
protected StatusViewer statusMessenger
protected GeneSetTerms goData
protected GeneAnnotations geneData
protected boolean run(String[] args) throws Exception
args
- IOException
Exception
public String getSaveFileName()
public SettingsHolder getSettings()
public StatusViewer getStatusMessenger()
public boolean isSaveAllGenes()
public boolean isUseCommandLineInterface()
protected GeneSetPvalRun analyze() throws IOException
IllegalArgumentException
IOException
protected void initialize()
ubic.erminej.gui.MainFrame.readDataFilesForStartup
protected void printHelp(String command)
command
- The name of the command as used at the command line.Copyright © 2002-2013 UBC Centre for High-Throughput Biology. All Rights Reserved.