com.pacbio.secondary.vis.data.session

Class SessionDataHelper

java.lang.Object

com.pacbio.secondary.vis.data.session.SessionDataHelper

All Implemented Interfaces:

java.io.Serializable

public class SessionDataHelper
extends java.lang.Object
implements java.io.Serializable

Helper class for writing/reading user session data to xml Session data is embedded inside an app's project file using base64 encoding Member variables of this class should not be removed for compatibility with previous versions New member variables can be added, their value is not affected when reading from previous versions' serialized data

Author:

mmilletti

See Also:

Serialized Form

Field Summary

Fields

Modifier and Type	Field and Description
protected PropertiesHelper	app_options
protected int	currentContig
protected Interval	details_interval
protected DetailsOptions	details_options
protected int	details_tracks_height
protected EpiProPalette	epipro_palette
protected VioletApp	main_app
protected int	num_tracks
protected Interval	region_interval
protected int	region_tracks_height
protected java.util.ArrayList<java.awt.Color>	slots_colors
protected java.util.ArrayList<java.lang.Double>	slots_max_values
protected java.util.ArrayList<Interval>	view_intervals

Constructor Summary

Constructors

Modifier	Constructor and Description
protected	SessionDataHelper() deserialization only
	SessionDataHelper(VioletApp app) Save session data from app into this class

Method Summary

Methods

Modifier and Type	Method and Description
PropertiesHelper	getApp_options()
protected java.lang.String[]	getCmdLineOptionsWithTracks() adds tracks info programmatically.
DetailsOptions	getDetails_options()
static void	main(java.lang.String[] args) local test method
static SessionDataHelper	readSessionData(java.io.File file)
static SessionDataHelper	readSessionDataFromByteArray(byte[] data)
void	restoreAllGenomicViews(VioletFrame frame) Restores views data into app
void	restoreAppOptions(VioletApp app) Restores app options into app
void	restoreDetailsOptions(GenomicViewDetails view) Restores details options into app
void	setDetails_options(DetailsOptions details_options)
boolean	writeJNLP(java.io.File file)
boolean	writeSessionData(java.io.File file)
protected byte[]	writeSessionDataToByteArray()

Methods inherited from class java.lang.Object

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

Field Detail

main_app

protected transient VioletApp main_app

details_options

protected DetailsOptions details_options

app_options

protected PropertiesHelper app_options

currentContig

protected int currentContig

num_tracks

protected int num_tracks

region_interval

protected Interval region_interval

details_interval

protected Interval details_interval

view_intervals

protected java.util.ArrayList<Interval> view_intervals

slots_colors

protected java.util.ArrayList<java.awt.Color> slots_colors

slots_max_values

protected java.util.ArrayList<java.lang.Double> slots_max_values

details_tracks_height

protected int details_tracks_height

region_tracks_height

protected int region_tracks_height

epipro_palette

protected EpiProPalette epipro_palette

Constructor Detail

SessionDataHelper

protected SessionDataHelper()

deserialization only

SessionDataHelper

public SessionDataHelper(VioletApp app)

Save session data from app into this class

Parameters:

main_app -

Method Detail

restoreAppOptions

public void restoreAppOptions(VioletApp app)

Restores app options into app

Parameters:

app -

restoreDetailsOptions

public void restoreDetailsOptions(GenomicViewDetails view)

Restores details options into app

Parameters:

app -

restoreAllGenomicViews

public void restoreAllGenomicViews(VioletFrame frame)

Restores views data into app

Parameters:

app -

writeSessionData

public boolean writeSessionData(java.io.File file)

Parameters:

file -

Returns:

true on success

writeSessionDataToByteArray

protected byte[] writeSessionDataToByteArray()

Returns:

readSessionData

public static SessionDataHelper readSessionData(java.io.File file)

Parameters:

file -

Returns:

SessionData on success, null on failure

readSessionDataFromByteArray

public static SessionDataHelper readSessionDataFromByteArray(byte[] data)

Parameters:

data - input byte array

Returns:

SessionData on success, null on failure

getDetails_options

public DetailsOptions getDetails_options()

setDetails_options

public void setDetails_options(DetailsOptions details_options)

getApp_options

public PropertiesHelper getApp_options()

writeJNLP

public boolean writeJNLP(java.io.File file)

Parameters:

file -

Returns:

true on success

getCmdLineOptionsWithTracks

protected java.lang.String[] getCmdLineOptionsWithTracks()

adds tracks info programmatically. either if they were manually loaded or if they were passed as tracks or template info through jnlp template

Returns:

new args list

main

public static void main(java.lang.String[] args)

local test method

Parameters:

args -