/**
* Move to the specified origin (in bins)
*
* @param newBinX new location X
* @param newBinY new location Y
*/
private void moveTo(double newBinX, double newBinY) {
try {
MatrixZoomData zd = getZd();
final double wBins = (superAdapter.getHeatmapPanel().getWidth() / getScaleFactor());
double maxX = zd.getXGridAxis().getBinCount() - wBins;
final double hBins = (superAdapter.getHeatmapPanel().getHeight() / getScaleFactor());
double maxY = zd.getYGridAxis().getBinCount() - hBins;
double x = Math.max(0, Math.min(maxX, newBinX));
double y = Math.max(0, Math.min(maxY, newBinY));
xContext.setBinOrigin(x);
yContext.setBinOrigin(y);
superAdapter.repaint();
} catch (Exception e) {
e.printStackTrace();
}
if (linkedMode) {
broadcastLocation();
}
}
public int[] getCurrentRegionWindowGenomicPositions() {
// address int overflow or exceeding bound issues
int xEndEdge =
xContext.getGenomicPositionOrigin()
+ (int)
((double) getZoom().getBinSize()
* superAdapter.getHeatmapPanel().getWidth()
/ getScaleFactor());
if (xEndEdge < 0 || xEndEdge > xContext.getChromosome().getLength()) {
xEndEdge = xContext.getChromosome().getLength();
}
int yEndEdge =
yContext.getGenomicPositionOrigin()
+ (int)
((double) getZoom().getBinSize()
* superAdapter.getHeatmapPanel().getHeight()
/ getScaleFactor());
if (yEndEdge < 0 || yEndEdge > yContext.getChromosome().getLength()) {
yEndEdge = yContext.getChromosome().getLength();
}
return new int[] {
xContext.getGenomicPositionOrigin(), xEndEdge, yContext.getGenomicPositionOrigin(), yEndEdge
};
}
/**
* Center the bins in view at the current resolution.
*
* @param binX center X
* @param binY center Y
*/
public void center(double binX, double binY) {
double w = superAdapter.getHeatmapPanel().getWidth() / getScaleFactor(); // view width in bins
int newOriginX = (int) (binX - w / 2);
double h = superAdapter.getHeatmapPanel().getHeight() / getScaleFactor(); // view height in bins
int newOriginY = (int) (binY - h / 2);
moveTo(newOriginX, newOriginY);
}
/**
* ************************************************************* Official Method for setting the
* zoom and location for heatmap DO NOT IMPLEMENT A NEW FUNCTION Make the necessary
* customizations, then call this function
* *************************************************************
*
* @param newZoom
* @param genomeX
* @param genomeY
* @param scaleFactor (pass -1 if scaleFactor should be calculated)
* @return
*/
public boolean unsafeActuallySetZoomAndLocation(
String chrXName,
String chrYName,
HiCZoom newZoom,
int genomeX,
int genomeY,
double scaleFactor,
boolean resetZoom,
ZoomCallType zoomCallType,
boolean allowLocationBroadcast) {
if (dataset == null) return false; // No data in view
// Check this zoom operation is possible, if not, fail it here:
// if (superAdapter.testNewZoom(newZoom))
// {
// return false;
// }
// String chr1OriginalName = xContext.getChromosome().getName();
// String chr2OriginalName = yContext.getChromosome().getName();
if (chrXName.length() > 0 && chrYName.length() > 0) {
setChromosomesFromBroadcast(chrXName, chrYName);
// We might end with All->All view, make sure normalization state is updates accordingly...
superAdapter.getMainViewPanel().setNormalizationDisplayState(superAdapter.getHiC());
}
if (newZoom == null) {
System.err.println("Invalid zoom " + newZoom);
}
Chromosome chr1 = xContext.getChromosome();
Chromosome chr2 = yContext.getChromosome();
final Matrix matrix = dataset.getMatrix(chr1, chr2);
if (matrix == null) {
superAdapter.launchGenericMessageDialog(
"Sorry, this region is not available", "Matrix unavailable", JOptionPane.WARNING_MESSAGE);
return false;
}
MatrixZoomData newZD = matrix.getZoomData(newZoom);
if (HiCFileTools.isAllChromosome(chr1)) {
newZD = matrix.getFirstZoomData(Unit.BP);
}
if (newZD == null) {
superAdapter.launchGenericMessageDialog(
"Sorry, this zoom is not available", "Zoom unavailable", JOptionPane.WARNING_MESSAGE);
return false;
}
/* TODO Undo Zoom implementation mss2 _UZI
if(currentZoom != null) {
tempZoomState = new ZoomState(chr1OriginalName, chr2OriginalName, currentZoom.clone(), (int) xContext.getBinOrigin(),
(int) yContext.getBinOrigin(), getScaleFactor(), resetZoom, ZoomCallType.GOTO);
}
*/
currentZoom = newZoom;
xContext.setZoom(currentZoom);
yContext.setZoom(currentZoom);
if (scaleFactor > 0) {
setScaleFactor(scaleFactor);
} else {
int maxBinCount =
Math.max(newZD.getXGridAxis().getBinCount(), newZD.getYGridAxis().getBinCount());
double defaultScaleFactor =
Math.max(
1.0, (double) superAdapter.getHeatmapPanel().getMinimumDimension() / maxBinCount);
setScaleFactor(defaultScaleFactor);
}
int binX = newZD.getXGridAxis().getBinNumberForGenomicPosition(genomeX);
int binY = newZD.getYGridAxis().getBinNumberForGenomicPosition(genomeY);
switch (zoomCallType) {
case INITIAL:
case STANDARD:
center(binX, binY);
break;
case DRAG:
xContext.setBinOrigin(binX);
yContext.setBinOrigin(binY);
break;
case DIRECT:
xContext.setBinOrigin(genomeX);
yContext.setBinOrigin(genomeY);
break;
}
// Notify HeatmapPanel render that zoom has changed. Render should update zoom slider once with
// previous range values
setZoomChanged();
if (resetZoom) {
superAdapter.updateAndResetZoom(newZoom);
} else {
superAdapter.updateZoom(newZoom);
}
superAdapter.refresh();
if (linkedMode && allowLocationBroadcast) {
broadcastLocation();
}
/*
TODO Undo Zoom implementation mss2 _UZI
if(zoomCallType == ZoomCallType.INITIAL || tempZoomState == null || chrXName.equals(Globals.CHR_ALL) || chrYName.equals(Globals.CHR_ALL)
|| tempZoomState.chr1Name.equals(Globals.CHR_ALL) || tempZoomState.chr2Name.equals(Globals.CHR_ALL)){
canRedoZoomChange = false;
canUndoZoomChange = false;
}
else {
// defauts for a normal zoom operation
canRedoZoomChange = false;
canUndoZoomChange = true;
previousZoomState = tempZoomState;
}
*/
return true;
}