void MainWindowActions::deleteDataSlot()
{
if (!patientService()->getActiveImage())
return;
QString text = QString("Do you really want to delete data %1?").arg(patientService()->getActiveImage()->getName());
if (QMessageBox::question(this->parentWidget(), "Data delete", text, QMessageBox::StandardButtons(QMessageBox::Ok | QMessageBox::Cancel))!=QMessageBox::Ok)
return;
mServices->patientModelService->removeData(patientService()->getActiveImageUid());
}
void MainWindow::onWorkflowStateChangedSlot()
{
Desktop desktop = stateService()->getActiveDesktop();
mDockWidgets->restoreFrom(desktop);
viewService()->setActiveLayout(desktop.mLayoutUid, 0);
viewService()->setActiveLayout(desktop.mSecondaryLayoutUid, 1);
patientService()->autoSave();
// moved to help plugin:
// // set initial focus to mainwindow in order to view it in the documentation
// // this is most important when starting up.
// QTimer::singleShot(0, this, SLOT(setFocus())); // avoid loops etc by send async event.
//#ifdef CX_APPLE
// // HACK
// // Toolbars are not correctly refreshed on mac 10.8,
// // Cause is related to QVTKWidget (removing it removes the problem)
// // The following "force refresh by resize" solves repaint, but
// // inactive toolbars are still partly clickable.
// QSize size = this->size();
// this->resize(size.width()-1, size.height());
// this->resize(size);
//#endif
}
void AirwaysFilter::createOutputTypes()
{
StringPropertySelectMeshPtr tempMeshStringAdapter;
//0
tempMeshStringAdapter = StringPropertySelectMesh::New(patientService());
tempMeshStringAdapter->setValueName("Centerline");
tempMeshStringAdapter->setHelp("Generated centerline mesh (vtk-format).");
mOutputTypes.push_back(tempMeshStringAdapter);
//1
tempMeshStringAdapter = StringPropertySelectMesh::New(patientService());
tempMeshStringAdapter->setValueName("Segmentation");
tempMeshStringAdapter->setHelp("Generated surface of the segmented volume.");
mOutputTypes.push_back(tempMeshStringAdapter);
}
void MainWindowActions::saveScreenShot(QPixmap pixmap, QString id)
{
QString ending = "png";
if (!id.isEmpty())
ending = id + "." + ending;
QString path = patientService()->generateFilePath("Screenshots", ending);
QtConcurrent::run(boost::bind(&MainWindowActions::saveScreenShotThreaded, this, pixmap.toImage(), path));
}
void AirwaysFilter::createInputTypes()
{
SelectDataStringPropertyBasePtr temp;
temp = StringPropertySelectImage::New(patientService());
temp->setValueName("Input");
temp->setHelp("Select input to run airway segmentation on.");
mInputTypes.push_back(temp);
}
void MainWindowActions::recordFullscreen()
{
QString path = patientService()->generateFilePath("Screenshots", "mp4");
if(vlc()->isRecording())
vlc()->stopRecording();
else
vlc()->startRecording(path);
}
bool AirwaysFilter::postProcess()
{
if(!mSegmentationOutput)
return false;
std::cout << "POST PROCESS" << std::endl;
// Make contour of segmented volume
double threshold = 1; /// because the segmented image is 0..1
vtkPolyDataPtr rawContour = ContourFilter::execute(
mSegmentationOutput,
threshold,
false, // reduce resolution
true, // smoothing
true, // keep topology
0 // target decimation
);
//outputSegmentation->get_rMd_History()->setRegistration(rMd_i);
//patientService()->insertData(outputSegmentation);
// Add contour internally to cx
MeshPtr contour = ContourFilter::postProcess(
patientService(),
rawContour,
mInputImage,
QColor("green")
);
contour->get_rMd_History()->setRegistration(mTransformation);
// Set output
mOutputTypes[1]->setValue(contour->getUid());
// TODO get centerline somehow
QString uid = mInputImage->getUid() + "_centerline%1";
QString name = mInputImage->getName() + " centerline%1";
MeshPtr centerline = patientService()->createSpecificData<Mesh>(uid, name);
centerline->setVtkPolyData(mCenterlineOutput);
centerline->get_rMd_History()->setParentSpace(mInputImage->getUid());
centerline->get_rMd_History()->setRegistration(mTransformation);
patientService()->insertData(centerline);
mOutputTypes[0]->setValue(centerline->getUid());
return true;
}
void ImportDataDialog::convertToUnsigned()
{
if (!mConvertToUnsignedCheckBox->isChecked())
return;
ImagePtr image = boost::dynamic_pointer_cast<Image>(mData);
if (!image)
return;
ImagePtr converted = convertImageToUnsigned(patientService(), image);
image->setVtkImageData(converted->getBaseVtkImageData());
ImageTF3DPtr TF3D = converted->getTransferFunctions3D()->createCopy();
ImageLUT2DPtr LUT2D = converted->getLookupTable2D()->createCopy();
image->setLookupTable2D(LUT2D);
image->setTransferFunctions3D(TF3D);
patientService()->insertData(image);
}
void MainWindowActions::savePatientFileSlot()
{
if (patientService()->getActivePatientFolder().isEmpty())
{
reportWarning("No patient selected, select or create patient before saving!");
this->newPatientSlot();
return;
}
mServices->session()->save();
}
void MainWindow::updateWindowTitle()
{
QString profileName = stateService()->getApplicationStateName();
QString versionName = stateService()->getVersionName();
QString activePatientFolder = patientService()->getActivePatientFolder();
if (activePatientFolder.endsWith('/'))
activePatientFolder.chop(1);
QString patientName;
if (!activePatientFolder.isEmpty())
{
QFileInfo info(activePatientFolder);
patientName = info.completeBaseName();
}
QString format("%1 %2 - %3 - %4 (not approved for medical use)");
QString title = format
.arg(qApp->applicationDisplayName())
.arg(versionName)
.arg(profileName)
.arg(patientName);
this->setWindowTitle(title);
}
MainWindow::MainWindow() :
mFullScreenAction(NULL),
mStandard3DViewActions(new QActionGroup(this)),
mControlPanel(NULL),
mDockWidgets(new DynamicMainWindowWidgets(this)),
mActions(NULL)
{
this->setObjectName("MainWindow");
mServices = VisServices::create(logicManager()->getPluginContext());
mLayoutInteractor.reset(new LayoutInteractor());
this->setCentralWidget(viewService()->createLayoutWidget(this, 0));
mActions = new MainWindowActions(mServices, this);
this->createActions();
this->createMenus();
this->createToolBars();
this->setStatusBar(new StatusBar());
reporter()->setAudioSource(AudioPtr(new AudioImpl()));
connect(stateService().get(), &StateService::applicationStateChanged, this, &MainWindow::onApplicationStateChangedSlot);
connect(stateService().get(), &StateService::workflowStateChanged, this, &MainWindow::onWorkflowStateChangedSlot);
connect(stateService().get(), &StateService::workflowStateAboutToChange, this, &MainWindow::saveDesktopSlot);
this->updateWindowTitle();
this->setTabPosition(Qt::AllDockWidgetAreas, QTabWidget::North);
this->addAsDockWidget(new PlaybackWidget(this), "Browsing");
this->addAsDockWidget(new VideoConnectionWidget(mServices, this), "Utility");
this->addAsDockWidget(new EraserWidget(mServices->patient(), mServices->view(), this), "Properties");
this->addAsDockWidget(new MetricWidget(mServices->view(), mServices->patient(), this), "Utility");
this->addAsDockWidget(new SlicePropertiesWidget(mServices->patient(), mServices->view(), this), "Properties");
this->addAsDockWidget(new VolumePropertiesWidget(mServices, this), "Properties");
this->addAsDockWidget(new ActiveMeshPropertiesWidget(mServices, this), "Properties");
this->addAsDockWidget(new StreamPropertiesWidget(mServices->patient(), mServices->view(), this), "Properties");
this->addAsDockWidget(new TrackPadWidget(this), "Utility");
this->addAsDockWidget(new ActiveToolPropertiesWidget(mServices->tracking(), mServices->spaceProvider(), this), "Properties");
this->addAsDockWidget(new NavigationWidget(this), "Properties");
this->addAsDockWidget(new ConsoleWidget(this, "ConsoleWidget", "Console"), "Utility");
this->addAsDockWidget(new ConsoleWidget(this, "ConsoleWidget2", "Extra Console"), "Utility");
// this->addAsDockWidget(new ConsoleWidgetCollection(this, "ConsoleWidgets", "Consoles"), "Utility");
this->addAsDockWidget(new FrameTreeWidget(mServices->patient(), this), "Browsing");
this->addAsDockWidget(new ToolManagerWidget(this), "Debugging");
this->addAsDockWidget(new PluginFrameworkWidget(this), "Browsing");
this->addAsDockWidget(new FiltersWidget(VisServices::create(logicManager()->getPluginContext()), this), "Algorithms");
this->addAsDockWidget(new ClippingPropertiesWidget(mServices, this), "Properties");
this->addAsDockWidget(new BrowserWidget(this, mServices), "Browsing");
connect(patientService().get(), &PatientModelService::patientChanged, this, &MainWindow::patientChangedSlot);
connect(qApp, &QApplication::focusChanged, this, &MainWindow::focusChanged);
this->setupGUIExtenders();
// window menu must be created after all dock widgets are created
QMenu* popupMenu = this->createPopupMenu();
popupMenu->setTitle("Window");
this->menuBar()->insertMenu(mHelpMenuAction, popupMenu);
// show after window has been initialized
QTimer::singleShot(0, this, SLOT(delayedShow()));
}
bool AirwaysFilter::execute()
{
std::cout << "EXECUTING AIRWAYS FILTER" << std::endl;
ImagePtr input = this->getCopiedInputImage();
if (!input)
return false;
mInputImage = input;
std::string filename = (patientService()->getActivePatientFolder()+"/"+input->getFilename()).toStdString();
try {
// Import image data from disk
fast::ImageFileImporter::pointer importer = fast::ImageFileImporter::New();
importer->setFilename(filename);
// Need to know the data type
importer->update();
fast::Image::pointer image = importer->getOutputData<fast::Image>();
std::cout << "IMAGE LOADED" << std::endl;
// Set up algorithm
fast::TubeSegmentationAndCenterlineExtraction::pointer tubeExtraction = fast::TubeSegmentationAndCenterlineExtraction::New();
tubeExtraction->setInputConnection(importer->getOutputPort());
tubeExtraction->extractDarkTubes();
if(getCroppingOption(mOptions)->getValue())
tubeExtraction->enableAutomaticCropping(true);
// Set min and max intensity based on HU unit scale
if(image->getDataType() == fast::TYPE_UINT16) {
tubeExtraction->setMinimumIntensity(0);
tubeExtraction->setMaximumIntensity(1124);
} else {
tubeExtraction->setMinimumIntensity(-1024);
tubeExtraction->setMaximumIntensity(100);
}
tubeExtraction->setMinimumRadius(0.5);
tubeExtraction->setMaximumRadius(50);
tubeExtraction->setSensitivity(getSensitivityOption(mOptions)->getValue());
// TODO set blur amount..
// Convert fast segmentation data to VTK data which CX can use
vtkSmartPointer<fast::VTKImageExporter> vtkExporter = fast::VTKImageExporter::New();
vtkExporter->setInputConnection(tubeExtraction->getSegmentationOutputPort());
vtkExporter->Update();
mSegmentationOutput = vtkExporter->GetOutput();
std::cout << "FINISHED AIRWAY SEGMENTATION" << std::endl;
// Get output segmentation data
fast::Segmentation::pointer segmentation = tubeExtraction->getOutputData<fast::Segmentation>(0);
// Get the transformation of the segmentation
Eigen::Affine3f T = fast::SceneGraph::getEigenAffineTransformationFromData(segmentation);
mTransformation.matrix() = T.matrix().cast<double>(); // cast to double
// Get centerline
vtkSmartPointer<fast::VTKLineSetExporter> vtkCenterlineExporter = fast::VTKLineSetExporter::New();
vtkCenterlineExporter->setInputConnection(tubeExtraction->getCenterlineOutputPort());
mCenterlineOutput = vtkCenterlineExporter->GetOutput();
vtkCenterlineExporter->Update();
} catch(fast::Exception& e) {
std::string error = e.what();
reportError("fast::Exception: "+qstring_cast(error));
return false;
} catch(cl::Error& e) {
reportError("cl::Error:"+qstring_cast(e.what()));
return false;
} catch (std::exception& e){
reportError("std::exception:"+qstring_cast(e.what()));
return false;
} catch (...){
reportError("Airway segmentation algorithm threw a unknown exception.");
return false;
}
return true;
}
MainWindow::MainWindow() :
mFullScreenAction(NULL),
mStandard3DViewActions(new QActionGroup(this)),
mControlPanel(NULL),
mDockWidgets(new DynamicMainWindowWidgets(this)),
mActions(NULL)
{
this->setObjectName("MainWindow");
mServices = VisServices::create(logicManager()->getPluginContext());
mLayoutInteractor.reset(new LayoutInteractor());
this->setCentralWidget(viewService()->getLayoutWidget(this, 0));
mActions = new MainWindowActions(mServices, this);
this->createActions();
this->createMenus();
this->createToolBars();
this->setStatusBar(new StatusBar());
reporter()->setAudioSource(AudioPtr(new AudioImpl()));
connect(stateService().get(), &StateService::applicationStateChanged, this, &MainWindow::onApplicationStateChangedSlot);
connect(stateService().get(), &StateService::workflowStateChanged, this, &MainWindow::onWorkflowStateChangedSlot);
connect(stateService().get(), &StateService::workflowStateAboutToChange, this, &MainWindow::saveDesktopSlot);
this->updateWindowTitle();
this->setTabPosition(Qt::AllDockWidgetAreas, QTabWidget::North);
this->addAsDockWidget(new PlaybackWidget(this), "Browsing");
this->addAsDockWidget(new VideoConnectionWidget(mServices, this), "Utility");
this->addAsDockWidget(new EraserWidget(mServices->patientModelService, mServices->visualizationService, this), "Properties");
this->addAsDockWidget(new MetricWidget(mServices->visualizationService, mServices->patientModelService, this), "Utility");
this->addAsDockWidget(new SlicePropertiesWidget(mServices->patientModelService, mServices->visualizationService, this), "Properties");
this->addAsDockWidget(new VolumePropertiesWidget(mServices->patientModelService, mServices->visualizationService, this), "Properties");
this->addAsDockWidget(new MeshInfoWidget(mServices->patientModelService, mServices->visualizationService, this), "Properties");
this->addAsDockWidget(new StreamPropertiesWidget(mServices->patientModelService, mServices->visualizationService, this), "Properties");
this->addAsDockWidget(new TrackPadWidget(this), "Utility");
this->addAsDockWidget(new ToolPropertiesWidget(this), "Properties");
this->addAsDockWidget(new NavigationWidget(this), "Properties");
this->addAsDockWidget(new ConsoleWidget(this, "ConsoleWidget", "Console"), "Utility");
this->addAsDockWidget(new ConsoleWidget(this, "ConsoleWidget2", "Extra Console"), "Utility");
// this->addAsDockWidget(new ConsoleWidgetCollection(this, "ConsoleWidgets", "Consoles"), "Utility");
this->addAsDockWidget(new FrameTreeWidget(mServices->patientModelService, this), "Browsing");
this->addAsDockWidget(new ToolManagerWidget(this), "Debugging");
this->addAsDockWidget(new PluginFrameworkWidget(this), "Browsing");
this->addAsDockWidget(new AllFiltersWidget(VisServices::create(logicManager()->getPluginContext()), this), "Algorithms");
connect(patientService().get(), &PatientModelService::patientChanged, this, &MainWindow::patientChangedSlot);
connect(qApp, &QApplication::focusChanged, this, &MainWindow::focusChanged);
this->setupGUIExtenders();
// window menu must be created after all dock widgets are created
QMenu* popupMenu = this->createPopupMenu();
popupMenu->setTitle("Window");
this->menuBar()->insertMenu(mHelpMenuAction, popupMenu);
// Restore saved window states
// Must be done after all DockWidgets are created
if (restoreGeometry(settings()->value("mainWindow/geometry").toByteArray()))
{
this->show();
}
else
{
this->showMaximized();
}
if (settings()->value("gui/fullscreen").toBool())
this->setWindowState(this->windowState() | Qt::WindowFullScreen);
}
