@Override
public DataReductionInfo export(DataReductionSlice drslice) throws Exception {
final Collection<IRegion> regions = getPlottingSystem().getRegions();
for (IRegion region : regions) {
if (!isRegionTypeSupported(region.getRegionType())) continue;
final RectangularROI bounds = (RectangularROI) region.getROI();
if (bounds == null) continue;
if (!region.isVisible()) continue;
final int yInc = bounds.getPoint()[1] < bounds.getEndPoint()[1] ? 1 : -1;
final int xInc = bounds.getPoint()[0] < bounds.getEndPoint()[0] ? 1 : -1;
final Dataset slice =
DatasetUtils.convertToDataset(
drslice
.getData()
.getSlice(
new int[] {(int) bounds.getPoint()[1], (int) bounds.getPoint()[0]},
new int[] {(int) bounds.getEndPoint()[1], (int) bounds.getEndPoint()[0]},
new int[] {yInc, xInc}));
slice.setName(region.getName().replace(' ', '_'));
drslice.appendData(slice);
}
return new DataReductionInfo(Status.OK_STATUS);
}
@Override
protected Collection<? extends ITrace> createProfile(
final IImageTrace image,
IRegion region,
IROI rbs,
boolean tryUpdate,
boolean isDrag,
IProgressMonitor monitor) {
if (monitor.isCanceled()) return null;
if (image == null) return null;
if ((region.getRegionType() != RegionType.BOX)
&& (region.getRegionType() != RegionType.PERIMETERBOX)) return null;
Dataset slice = createZoom(image, region, rbs, tryUpdate, isDrag, monitor);
Dataset yData = slice.sum(0);
yData.setName("Intensity");
Dataset xData = slice.sum(1);
xData.setName("Intensity");
final RectangularROI bounds = (RectangularROI) (rbs == null ? region.getROI() : rbs);
final Dataset y_indices =
DatasetFactory.createRange(
bounds.getPoint()[0], bounds.getPoint()[0] + bounds.getLength(0), 1, Dataset.FLOAT);
y_indices.setName("X Location");
topSystem.updatePlot1D(y_indices, Arrays.asList(new IDataset[] {yData}), monitor);
topSystem.repaint();
final Dataset x_indices =
DatasetFactory.createRange(
bounds.getPoint()[1] + bounds.getLength(1), bounds.getPoint()[1], -1, Dataset.FLOAT);
x_indices.setName("Y Location");
final Collection<ITrace> right =
rightSystem.updatePlot1D(xData, Arrays.asList(new IDataset[] {x_indices}), monitor);
rightSystem.repaint();
Display.getDefault()
.syncExec(
new Runnable() {
@Override
public void run() {
topSystem.setTitle("");
rightSystem.setTitle("");
ILineTrace line = (ILineTrace) right.iterator().next();
line.setTraceColor(ColorConstants.red);
}
});
return profilePlottingSystem.getTraces();
}
protected Dataset createZoom(
final IImageTrace image,
IRegion region,
IROI rbs,
boolean tryUpdate,
boolean isDrag,
IProgressMonitor monitor) {
if (!(region.getROI() instanceof RectangularROI)) return null;
final RectangularROI bounds = (RectangularROI) (rbs == null ? region.getROI() : rbs);
if (bounds == null) return null;
if (!region.isVisible()) return null;
if (monitor.isCanceled()) return null;
final int yInc = bounds.getPoint()[1] < bounds.getEndPoint()[1] ? 1 : -1;
final int xInc = bounds.getPoint()[0] < bounds.getEndPoint()[0] ? 1 : -1;
Dataset im = DatasetUtils.convertToDataset(image.getData());
Dataset slice = DatasetUtils.convertToDataset(ToolUtils.getClippedSlice(im, bounds));
slice.setName(region.getName());
// Calculate axes to have real values not size
Dataset yLabels = null;
Dataset xLabels = null;
if (image.getAxes() != null && image.getAxes().size() > 0) {
Dataset xl = DatasetUtils.convertToDataset(image.getAxes().get(0));
if (xl != null) xLabels = ZoomTool.getLabelsFromLabels(xl, bounds, 0);
Dataset yl = DatasetUtils.convertToDataset(image.getAxes().get(1));
if (yl != null) yLabels = ZoomTool.getLabelsFromLabels(yl, bounds, 1);
}
if (yLabels == null)
yLabels =
DatasetFactory.createRange(
IntegerDataset.class, bounds.getPoint()[1], bounds.getEndPoint()[1], yInc);
if (xLabels == null)
xLabels =
DatasetFactory.createRange(
IntegerDataset.class, bounds.getPoint()[0], bounds.getEndPoint()[0], xInc);
final IImageTrace zoom_trace =
(IImageTrace)
profilePlottingSystem.updatePlot2D(
slice, Arrays.asList(new IDataset[] {xLabels, yLabels}), monitor);
registerTraces(region, Arrays.asList(new ITrace[] {zoom_trace}));
Display.getDefault()
.syncExec(
new Runnable() {
public void run() {
zoom_trace.setPaletteData(image.getPaletteData());
}
});
return slice;
}
private void clearListeners(IPlottingSystem plotSystem, IRegionListener listener) {
if (plotSystem == null) return;
Collection<IRegion> regions = plotSystem.getRegions();
if (regions != null && regions.size() > 0) {
Iterator<IRegion> it = regions.iterator();
while (it.hasNext()) {
IRegion region = it.next();
region.removeROIListener(this);
}
}
plotSystem.removeRegionListener(listener);
}
/**
* Add a region listener
*
* @param plotSystem
*/
public void addRegionListener(IPlottingSystem plotSystem) {
if (plotSystem == null) return;
Collection<IRegion> regions = plotSystem.getRegions();
if (regions != null && regions.size() > 0) {
Iterator<IRegion> it = regions.iterator();
while (it.hasNext()) {
IRegion region = it.next();
region.addROIListener(this);
}
}
plotSystem.addRegionListener(regionListener);
}
/** Creates the widget and its controls */
public void createWidget() {
regionComposite = new Composite(parent, SWT.NONE);
GridData gridData = new GridData(SWT.FILL, SWT.LEFT, true, true);
regionComposite.setLayout(new GridLayout(1, false));
regionComposite.setLayoutData(gridData);
Collection<IRegion> regions = plottingSystem.getRegions();
if (regions.size() > 0) {
IRegion region = (IRegion) regions.toArray()[0];
createRegionComposite(regionComposite, region.getRegionType());
region.addROIListener(ROIWidget.this);
} else {
createRegionComposite(regionComposite, RegionType.PERIMETERBOX);
}
}
@Override
public void roiDragged(ROIEvent evt) {
if (roiViewer == null) return;
roiViewer.cancelEditing();
IRegion region = (IRegion) evt.getSource();
if (region == null) return;
IROI roi = evt.getROI();
if (roi != null) {
roiViewer.setTableValues(roi);
if (nameText != null && !nameText.isDisposed()) nameText.setText(region.getName());
regionName = region.getName();
}
roiChanged = true;
this.region = region;
}
/** Update the widget with the correct roi information */
public void update() {
this.plottingSystem = PlottingFactory.getPlottingSystem(viewName);
if (plottingSystem != null) {
Collection<IRegion> regions = plottingSystem.getRegions();
if (regions.size() > 0) {
IRegion region = (IRegion) regions.toArray()[0];
if (roiViewer == null) createRegionComposite(regionComposite, region.getRegionType());
roiViewer.setTableValues(region.getROI());
if (nameText != null) nameText.setText(region.getName());
regionName = region.getName();
this.region = region;
region.addROIListener(ROIWidget.this);
}
}
}
/**
* Method to set the input of this widget given an IRegion
*
* @param region
*/
public void setEditingRegion(IRegion region) {
if (region == null || roiViewer == null) return;
if (region.getROI() != null) roiViewer.setTableValues(region.getROI());
if (nameText != null && !nameText.isDisposed()) nameText.setText(region.getName());
regionName = region.getName();
}