com.pacbio.secondary.vis.gui.app

Class VioletAppBase

java.lang.Object

com.pacbio.secondary.vis.gui.app.VioletAppBase

Direct Known Subclasses:

VioletApp

public class VioletAppBase
extends java.lang.Object

Base class of main application

Author:

mmilletti

Nested Class Summary

Nested Classes

Modifier and Type	Class and Description
static class	VioletAppBase.APP_TYPE

Field Summary

Fields

Modifier and Type	Field and Description
protected PropertiesHelper	app_options
protected VioletAppBase.APP_TYPE	app_type
protected CommandLineOptions	cmd_options
protected DataStorage	data_storage
protected java.lang.String	last_busy
protected java.lang.String	last_data
protected java.lang.String	last_message
protected java.lang.String	last_progress
protected VioletFrame	main_frame
protected int	OPEN_REMOTEDATA_NO_ERROR
protected RegionsOfInterestStorage	rois_storage

Constructor Summary

Constructors

Constructor and Description
VioletAppBase()

Method Summary

Methods

Modifier and Type	Method and Description
PropertiesHelper	getAppOptions()
java.lang.String	getAppTitle()
VioletAppBase.APP_TYPE	getAppType()
CommandLineOptions	getCommandLineOptions()
DataStorage	getDataStorage()
DetailsOptions	getDetailsOptions()
GeneDB	getGeneDB()
java.lang.String	getHDFServiceURL()
int	getHostCodebaseHttpPort()
java.lang.String	getHostName()
IdeogramDB	getIdeogramDB()
java.lang.String	getJNLPServiceURL()
ReferenceInfo	getReferenceInfo()
RegionsOfInterestStorage	getRegionsOfInterestStorage()
java.util.Vector<VariableResolutionDataSet>	getSlots()
java.lang.String	getSMRTPortalHomeURL()
java.lang.String	getSMRTViewHomeURL()
VioletFrame	getVioletFrame()
java.lang.String	getVisServiceURL()
protected boolean	isScreenResolutionMaximizable()
protected boolean	isScreenResolutionValid()
protected boolean	isServerInWhiteList(java.lang.String host)
boolean	isStandAlone() Determine if both client and server are running on same machine.
protected void	setApplicationLookAndFeel(int laf_index)
protected void	setApplicationLookAndFeelOld(int laf_index)
void	setAppOptions(PropertiesHelper p)
void	setCurrentContig(int contig_index)
void	setDetailsOptions(DetailsOptions opts)
void	setRegionsOfInterestStorage(RegionsOfInterestStorage stg)
void	setStatusBarBusy(java.lang.String msg, boolean busy_state)
void	setStatusBarDataInfoText(java.lang.String msg, boolean warning)
void	setStatusBarProgress(java.lang.String msg, int min, int max, int value)
void	setStatusBarText(java.lang.String msg)
void	setVioletFrame(VioletFrame frame)
void	showErrorMessageOnDataLoadFailure(int ret)
void	updateLockedPanels(java.lang.String cmd, boolean bisLocked)

Methods inherited from class java.lang.Object

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

Field Detail

app_type

protected VioletAppBase.APP_TYPE app_type

main_frame

protected VioletFrame main_frame

data_storage

protected DataStorage data_storage

cmd_options

protected CommandLineOptions cmd_options

rois_storage

protected RegionsOfInterestStorage rois_storage

app_options

protected PropertiesHelper app_options

last_message

protected java.lang.String last_message

last_progress

protected java.lang.String last_progress

last_busy

protected java.lang.String last_busy

last_data

protected java.lang.String last_data

OPEN_REMOTEDATA_NO_ERROR

protected final int OPEN_REMOTEDATA_NO_ERROR

See Also:

Constant Field Values

Constructor Detail

VioletAppBase

public VioletAppBase()

Method Detail

isScreenResolutionValid

protected boolean isScreenResolutionValid()

isScreenResolutionMaximizable

protected boolean isScreenResolutionMaximizable()

isServerInWhiteList

protected boolean isServerInWhiteList(java.lang.String host)

setApplicationLookAndFeel

protected void setApplicationLookAndFeel(int laf_index)

setApplicationLookAndFeelOld

protected void setApplicationLookAndFeelOld(int laf_index)

setCurrentContig

public void setCurrentContig(int contig_index)

showErrorMessageOnDataLoadFailure

public void showErrorMessageOnDataLoadFailure(int ret)

getHostCodebaseHttpPort

public int getHostCodebaseHttpPort()

getSMRTViewHomeURL

public java.lang.String getSMRTViewHomeURL()

getSMRTPortalHomeURL

public java.lang.String getSMRTPortalHomeURL()

getVisServiceURL

public java.lang.String getVisServiceURL()

getHDFServiceURL

public java.lang.String getHDFServiceURL()

getJNLPServiceURL

public java.lang.String getJNLPServiceURL()

getHostName

public java.lang.String getHostName()

getCommandLineOptions

public CommandLineOptions getCommandLineOptions()

getAppType

public VioletAppBase.APP_TYPE getAppType()

getDataStorage

public DataStorage getDataStorage()

getRegionsOfInterestStorage

public RegionsOfInterestStorage getRegionsOfInterestStorage()

setRegionsOfInterestStorage

public void setRegionsOfInterestStorage(RegionsOfInterestStorage stg)

getDetailsOptions

public DetailsOptions getDetailsOptions()

setDetailsOptions

public void setDetailsOptions(DetailsOptions opts)

getReferenceInfo

public ReferenceInfo getReferenceInfo()

getSlots

public java.util.Vector<VariableResolutionDataSet> getSlots()

getIdeogramDB

public IdeogramDB getIdeogramDB()

getGeneDB

public GeneDB getGeneDB()

getVioletFrame

public VioletFrame getVioletFrame()

setVioletFrame

public void setVioletFrame(VioletFrame frame)

getAppOptions

public PropertiesHelper getAppOptions()

setAppOptions

public void setAppOptions(PropertiesHelper p)

updateLockedPanels

public void updateLockedPanels(java.lang.String cmd,
                      boolean bisLocked)

Parameters:

cmd -

b -

getAppTitle

public java.lang.String getAppTitle()

Returns:

title for this app

setStatusBarText

public void setStatusBarText(java.lang.String msg)

setStatusBarDataInfoText

public void setStatusBarDataInfoText(java.lang.String msg,
                            boolean warning)

setStatusBarBusy

public void setStatusBarBusy(java.lang.String msg,
                    boolean busy_state)

setStatusBarProgress

public void setStatusBarProgress(java.lang.String msg,
                        int min,
                        int max,
                        int value)

isStandAlone

public boolean isStandAlone()

Determine if both client and server are running on same machine. Used to toggle between local/remote file browser dialog

Returns: