org.utgenome.gwt.utgb.client.track.lib
Class GenomeTrack

java.lang.Object
  org.utgenome.gwt.utgb.client.track.TrackBase
      org.utgenome.gwt.utgb.client.track.lib.GenomeTrack

All Implemented Interfaces:

Track, TrackEntry, TrackGroupPropertyChangeListener

Direct Known Subclasses:

BEDTrack, CSEGTrack, RefSeqTrack, ScaleBarTrack

public class GenomeTrack
extends TrackBase

GenomeTrack for visualizing data on genome sequences using an image URL or an HTML page embedded in IFRAME tag.

 -track
  -class: genome track
  -property:
   -type: image (or frame)
   -track base URL: http://somewhere/cgi/drawGenes?ref=%ref&chr=%chr&start=%start&end=%end&pixelwidth=%pixelwidth
 

In the track base URL parameter, you can use several keyword parameters starting with %. For the details of available parameters, see also ReadTrack page.

Author:

leo

Nested Class Summary

Nested classes/interfaces inherited from class org.utgenome.gwt.utgb.client.track.TrackBase

TrackBase.TrackFrameConfig

Nested classes/interfaces inherited from interface org.utgenome.gwt.utgb.client.track.Track

Track.TrackFactory

Field Summary

static String	CONFIG_TRACK_BASE_URL
static String	CONFIG_TRACK_TYPE
protected com.google.gwt.user.client.ui.Frame	frame
protected boolean	isWidgetReady
protected com.google.gwt.user.client.ui.FlexTable	layoutPanel
protected int	leftMargin
protected Set<String>	queryParams
protected com.google.gwt.user.client.ui.Image	trackImage
protected String	type

Fields inherited from class org.utgenome.gwt.utgb.client.track.TrackBase

_frame, _trackGroup, _trackInfo, frameConfig

Constructor Summary

GenomeTrack()

GenomeTrack(String string)

Method Summary

void	draw() draw the track widget
static Track.TrackFactory	factory()
protected String	getTrackURL()
com.google.gwt.user.client.ui.Widget	getWidget()
void	onChange(TrackGroupPropertyChange change, TrackWindow newWindow) Handle change event.
void	onChangeTrackConfig(TrackConfigChange change) An event handler when some cofigurations of the track changes
void	restoreProperties(CanonicalProperties properties) Override this method to restore internal state of the track
void	saveProperties(CanonicalProperties saveData) Override this method to save internal state of the track into a Properties object
void	setUp(TrackFrame trackFrame, TrackGroup group) This method is invoked when TrackFrame and TrackGroup for this track become ready, that is, the track is drawable.

Methods inherited from class org.utgenome.gwt.utgb.client.track.TrackBase

beforeChangeTrackWindow, error, getBrowserService, getClassName, getConfig, getCoordinate, getDefaultWindowHeight, getFrame, getMinimumWindowHeight, getName, getTrackGroup, getTrackGroupProperty, getTrackGroupProperty, getTrackInfo, getTrackWindow, isInitialized, isTrack, isTrackGroup, loadView, onChangeTrackGroupProperty, onChangeTrackHeight, onChangeTrackWindow, refresh, resolvePropertyValues, setCenterOfTrackWindow, setConfig, setFrame, setTrackGroup, setTrackGroupProperty, toView, toXML, toXML

Methods inherited from class java.lang.Object

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

Field Detail

type

protected String type

leftMargin

protected int leftMargin

layoutPanel

protected com.google.gwt.user.client.ui.FlexTable layoutPanel

trackImage

protected com.google.gwt.user.client.ui.Image trackImage

frame

protected com.google.gwt.user.client.ui.Frame frame

isWidgetReady

protected boolean isWidgetReady

queryParams

protected Set<String> queryParams

CONFIG_TRACK_BASE_URL

public static final String CONFIG_TRACK_BASE_URL

See Also:

Constant Field Values

CONFIG_TRACK_TYPE

public static final String CONFIG_TRACK_TYPE

See Also:

Constant Field Values

Constructor Detail

GenomeTrack

public GenomeTrack()

GenomeTrack

public GenomeTrack(String string)

Method Detail

factory

public static Track.TrackFactory factory()

getWidget

public com.google.gwt.user.client.ui.Widget getWidget()

Returns:

the track widget

draw

public void draw()

Description copied from interface: Track

draw the track widget

Specified by:

draw in interface Track

Overrides:

draw in class TrackBase

getTrackURL

protected String getTrackURL()

setUp

public void setUp(TrackFrame trackFrame,
                  TrackGroup group)

Description copied from interface: Track

This method is invoked when TrackFrame and TrackGroup for this track become ready, that is, the track is drawable. Override this method to write initialization codes for your tracks.

Specified by:

setUp in interface Track

Overrides:

setUp in class TrackBase

group - the TrackGroup of this track

onChange

public void onChange(TrackGroupPropertyChange change,
                     TrackWindow newWindow)

Description copied from interface: TrackGroupPropertyChangeListener

Handle change event.

Specified by:

onChange in interface Track

Specified by:

onChange in interface TrackGroupPropertyChangeListener

Overrides:

onChange in class TrackBase

Parameters:

change - property changes. null value means no property change

newWindow - window changes. null value means no window changes

onChangeTrackConfig

public void onChangeTrackConfig(TrackConfigChange change)

Description copied from interface: Track

An event handler when some cofigurations of the track changes

Specified by:

onChangeTrackConfig in interface Track

Overrides:

onChangeTrackConfig in class TrackBase

saveProperties

public void saveProperties(CanonicalProperties saveData)

Description copied from class: TrackBase

Override this method to save internal state of the track into a Properties object

Specified by:

saveProperties in interface Track

Overrides:

saveProperties in class TrackBase

restoreProperties

public void restoreProperties(CanonicalProperties properties)

Description copied from class: TrackBase

Override this method to restore internal state of the track

Specified by:

restoreProperties in interface Track

Overrides:

restoreProperties in class TrackBase