public DisplayPlus(
final ImageCache stitchedCache,
AcquisitionEngine eng,
JSONObject summaryMD,
boolean invX,
boolean invY,
boolean swapXY) {
eng_ = eng;
invertX_ = invX;
invertY_ = invY;
swapXY_ = swapXY;
try {
MultiStagePosition pos0 = MMStudioMainFrame.getInstance().getPositionList().getPosition(0);
pos0x_ = pos0.getX();
pos0y_ = pos0.getY();
tileWidth_ = MDUtils.getHeight(summaryMD);
tileHeight_ = MDUtils.getWidth(summaryMD);
} catch (Exception e) {
ReportingUtils.showError("Couldnt get grid info");
}
vad_ =
new VirtualAcquisitionDisplay(stitchedCache, eng, WINDOW_TITLE) {
public void showImage(final JSONObject tags, boolean waitForDisplay)
throws InterruptedException, InvocationTargetException {
// Since this is multichannel camera, only show when last channel arrives
try {
if (MDUtils.getChannelIndex(tags) == super.getNumChannels() - 1) {
super.showImage(tags, waitForDisplay);
} else {
ImagePlus ip = super.getHyperImage();
if (ip != null) {
// canvas never gets painted so need to set painpending false
ip.getCanvas().setPaintPending(false);
}
}
} catch (JSONException ex) {
}
}
};
DisplayControls controls = new Controls();
// Add in custom controls
try {
JavaUtils.setRestrictedFieldValue(
vad_, VirtualAcquisitionDisplay.class, "controls_", controls);
} catch (NoSuchFieldException ex) {
ReportingUtils.showError("Couldn't create display controls");
}
vad_.show();
// Zoom to 100%
vad_.getImagePlus().getWindow().getCanvas().unzoom();
// add mouse listeners for moving grids
addMouseListeners();
stitchedCache.addImageCacheListener(this);
}
private void readIndexMap() throws IOException {
MappedByteBuffer mapOffset = makeReadOnlyBuffer(8, 8);
if (mapOffset.getInt() != MultipageTiffWriter.INDEX_MAP_OFFSET_HEADER) {
ReportingUtils.logError("Image map offset header incorrect");
indexMap_ = null;
return;
}
long offset = unsignInt(mapOffset.getInt());
MappedByteBuffer mapHeader = makeReadOnlyBuffer(offset, 8);
int headerCode = mapHeader.getInt();
if (headerCode != MultipageTiffWriter.INDEX_MAP_HEADER) {
ReportingUtils.logError("Image index map header incorrect");
indexMap_ = null;
return;
}
int numMappings = mapHeader.getInt();
MappedByteBuffer mapData = makeReadOnlyBuffer(offset + 8, 24 * numMappings);
for (int i = 0; i < numMappings; i++) {
int channel = mapData.getInt();
int slice = mapData.getInt();
int frame = mapData.getInt();
int position = mapData.getInt();
long imageOffset = mapData.getLong();
indexMap_.put(MDUtils.generateLabel(channel, slice, frame, position), imageOffset);
}
}
@Override
public void imageReceived(TaggedImage taggedImage) {
try {
// duplicate so image storage doesnt see incorrect tags
JSONObject newTags = new JSONObject(taggedImage.tags.toString());
MDUtils.setPositionIndex(newTags, 0);
taggedImage = new TaggedImage(taggedImage.pix, newTags);
} catch (JSONException ex) {
ReportingUtils.showError("Couldn't manipulate image tags for display");
}
vad_.imageReceived(taggedImage);
}
public void addToIndexMap(TaggedImage img, long offset) {
indexMap_.put(MDUtils.getLabel(img.tags), offset);
}