public LayerMapView(DataSetLayerOverview dataSetLayerOverview) {
String[] chromosomes =
new String[] {
"1", "2", "3", "4", "5", "6", "7", "8", "9", "10", "11", "12", "13", "14", "15", "16",
"17", "18", "19", "X"
};
List<String> validNames = Arrays.asList(new String[] {"positionPeakBP", "geneStartBP"});
selectedPositionColumnX = validNames.get(0);
selectedPositionColumnY = validNames.get(1);
expressionQtlTrackX =
new ExpressionQtlTrack("eQTL", dataSetLayerOverview.layerKey, selectedPositionColumnX);
expressionQtlTrackY =
new ExpressionQtlTrack("eQTL", dataSetLayerOverview.layerKey, selectedPositionColumnY);
final GenomeDisplayTrack<?>[] tracksX =
new GenomeDisplayTrack[] {
new BasepairPositionTrack(),
new ChromosomeBandTrack(),
new ContigTrack(),
new TranscriptTrack(),
expressionQtlTrackX
};
this.scrollerX = new GenomeDisplayScroller(tracksX, chromosomes[0], false, "scrollX");
final GenomeDisplayTrack<?>[] tracksY =
new GenomeDisplayTrack[] {
new BasepairPositionTrack(),
new ChromosomeBandTrack(),
new ContigTrack(),
new TranscriptTrack(),
expressionQtlTrackY
};
this.scrollerY = new GenomeDisplayScroller(tracksY, chromosomes[0], true, "scrollY");
contents = new GenomeDisplayScroller2D(dataSetLayerOverview, "scroll2d");
contents.selectedPositionColumnX = selectedPositionColumnX;
contents.selectedPositionColumnY = selectedPositionColumnY;
initWidget(uiBinder.createAndBindUi(this));
for (String string : chromosomes) {
if (string.equals("X")) chromosome.addItem("X Chromosome", string);
else chromosome.addItem("Chromosome " + string, string);
}
for (String columName : dataSetLayerOverview.columns) {
if (validNames.contains(columName)) {
positionColumnX.addItem(columName);
positionColumnY.addItem(columName);
}
}
positionColumnX.setSelectedIndex(0);
positionColumnY.setSelectedIndex(1);
}
@UiHandler("positionColumnY")
public void onChangePositionColumnY(ChangeEvent event) {
selectedPositionColumnY = positionColumnX.getValue(positionColumnY.getSelectedIndex());
contents.selectedPositionColumnY = selectedPositionColumnY;
expressionQtlTrackY.setPositionColumn(selectedPositionColumnY);
// force refresh
onChangeChromosome(null);
}
@UiHandler("scrollerY")
public void onScrollY(ValueChangeEvent<GenomeRange> event) {
contents.rangeY.pixelLength = contents.getElement().getClientHeight();
contents.rangeY.update(event.getValue());
}
@UiHandler("scrollerX")
public void onScrollX(ValueChangeEvent<GenomeRange> event) {
contents.rangeX.pixelLength = contents.getElement().getClientWidth();
contents.rangeX.update(event.getValue());
}
