diff --git a/Plugins/org.mitk.gui.qt.igt.app.echotrack/src/internal/NavigationStepWidgets/QmitkUSNavigationStepCombinedModality.ui b/Plugins/org.mitk.gui.qt.igt.app.echotrack/src/internal/NavigationStepWidgets/QmitkUSNavigationStepCombinedModality.ui index a65c698b89..e7f25ad991 100644 --- a/Plugins/org.mitk.gui.qt.igt.app.echotrack/src/internal/NavigationStepWidgets/QmitkUSNavigationStepCombinedModality.ui +++ b/Plugins/org.mitk.gui.qt.igt.app.echotrack/src/internal/NavigationStepWidgets/QmitkUSNavigationStepCombinedModality.ui @@ -1,398 +1,398 @@ QmitkUSNavigationStepCombinedModality 0 0 286 339 0 300 Form Available Combined Modalities - Qt::AlignCenter + Qt::AlignLeading|Qt::AlignLeft|Qt::AlignVCenter 0 0 0 0 Create New Combined Modality :/USNavigation/plus.png:/USNavigation/plus.png false Delete Selected Combined Modality :/USNavigation/minus.png:/USNavigation/minus.png false Edit Selected Combined Modality :/USNavigation/preferences.png:/USNavigation/preferences.png false Disconnect Selected Combined Modality :/USNavigation/process-stop.png:/USNavigation/process-stop.png Qt::Horizontal 40 20 Qt::Horizontal 40 20 false Activate Selected Combined Modality :/USNavigation/accept.png:/USNavigation/accept.png Qt::Vertical QSizePolicy::Fixed 20 13 8 <html><head/><body><p>Select a Combined Modality from the list above or create a new one first. A calibration file must be loaded if the Combined Modality isn't calibrated already. Calibrations can be managed by hitting the <span style=" text-decoration: underline;">Edit</span> button above.</p><p>You can proceed by hitting the <span style=" text-decoration: underline;">Next</span> button.</p></body></html> true Qt::Vertical QSizePolicy::Fixed 20 13 false Calibration true Selected device is not calibrated. Qt::AlignCenter true 0 0 0 0 &Load Calibration :/USNavigation/document-open.png:/USNavigation/document-open.png QmitkUSCombinedModalityCreationWidget QWidget
src/internal/Widgets/QmitkUSCombinedModalityCreationWidget.h
1
QmitkServiceListWidget QWidget
QmitkServiceListWidget.h
1
QmitkUSCombinedModalityEditWidget QWidget
src/internal/Widgets/QmitkUSCombinedModalityEditWidget.h
1
calibrationLoadButton clicked() QmitkUSNavigationStepCombinedModality OnLoadCalibration() 142 268 142 149 combinedModalityCreateButton clicked() QmitkUSNavigationStepCombinedModality OnCombinedModalityCreateNewButtonClicked() 52 73 142 149 combinedModalityDeleteButton clicked() QmitkUSNavigationStepCombinedModality OnDeleteButtonClicked() 112 73 142 149 combinedModalityDistconnectButton clicked() QmitkUSNavigationStepCombinedModality OnDisconnectButtonClicked() 232 73 142 149 combinedModalitEditButton clicked() QmitkUSNavigationStepCombinedModality OnCombinedModalityEditButtonClicked() 172 73 142 149 combinedModalityActivateButton clicked() QmitkUSNavigationStepCombinedModality OnActivateButtonClicked() 235 60 142 149 OnCombinedModalityCreateNewButtonClicked() OnDeleteButtonClicked() OnLoadCalibration() OnDisconnectButtonClicked() OnCombinedModalityEditButtonClicked() OnActivateButtonClicked()
diff --git a/Plugins/org.mitk.gui.qt.igt.app.echotrack/src/internal/SettingsWidgets/QmitkUSNavigationCombinedSettingsWidget.ui b/Plugins/org.mitk.gui.qt.igt.app.echotrack/src/internal/SettingsWidgets/QmitkUSNavigationCombinedSettingsWidget.ui index a17a457684..a390e4d978 100644 --- a/Plugins/org.mitk.gui.qt.igt.app.echotrack/src/internal/SettingsWidgets/QmitkUSNavigationCombinedSettingsWidget.ui +++ b/Plugins/org.mitk.gui.qt.igt.app.echotrack/src/internal/SettingsWidgets/QmitkUSNavigationCombinedSettingsWidget.ui @@ -1,256 +1,256 @@ QmitkUSNavigationCombinedSettingsWidget 0 0 400 546 Form Global QFormLayout::AllNonFixedFieldsGrow Application 0 0 - Punction + Puncture Marker Placement Interaction Concept 0 0 Click, Move and Click Qt::Horizontal Experiment Mode Enable Experiment Mode Results Path Qt::Horizontal Needle Name Reference Name true true Punction QFormLayout::AllNonFixedFieldsGrow Marker Placement QFormLayout::ExpandingFieldsGrow Tumour Segmentation 0 0 Simple Segmentation Security Distance (cm) 0.500000000000000 2.000000000000000 Number of Targets 1 4 3 Planning Use Planning Step true ctkDirectoryButton QWidget
ctkDirectoryButton.h
1
diff --git a/Plugins/org.mitk.gui.qt.igt.app.echotrack/src/internal/USNavigationMarkerPlacement.cpp b/Plugins/org.mitk.gui.qt.igt.app.echotrack/src/internal/USNavigationMarkerPlacement.cpp index 90211ba207..eadd81d9fb 100644 --- a/Plugins/org.mitk.gui.qt.igt.app.echotrack/src/internal/USNavigationMarkerPlacement.cpp +++ b/Plugins/org.mitk.gui.qt.igt.app.echotrack/src/internal/USNavigationMarkerPlacement.cpp @@ -1,724 +1,724 @@ /*=================================================================== The Medical Imaging Interaction Toolkit (MITK) Copyright (c) German Cancer Research Center, Division of Medical and Biological Informatics. All rights reserved. This software is distributed WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See LICENSE.txt or http://www.mitk.org for details. ===================================================================*/ #include "USNavigationMarkerPlacement.h" #include "ui_USNavigationMarkerPlacement.h" #include "NavigationStepWidgets/QmitkUSNavigationStepCombinedModality.h" #include "NavigationStepWidgets/QmitkUSNavigationStepTumourSelection.h" #include "NavigationStepWidgets/QmitkUSNavigationStepZoneMarking.h" #include "NavigationStepWidgets/QmitkUSNavigationStepPlacementPlanning.h" #include "NavigationStepWidgets/QmitkUSNavigationStepMarkerIntervention.h" #include "NavigationStepWidgets/QmitkUSNavigationStepPunctuationIntervention.h" #include "SettingsWidgets/QmitkUSNavigationCombinedSettingsWidget.h" #include "mitkIRenderingManager.h" #include "mitkNodeDisplacementFilter.h" #include "mitkUSCombinedModality.h" #include "mitkOverlay2DLayouter.h" #include #include "IO/mitkUSNavigationStepTimer.h" #include "IO/mitkUSNavigationExperimentLogging.h" #include #include #include #include #include #include #include "QmitkRenderWindow.h" #include "QmitkStdMultiWidgetEditor.h" #include "QmitkStdMultiWidget.h" // scene serialization #include #include #include #include #include const std::string USNavigationMarkerPlacement::VIEW_ID = "org.mitk.views.usmarkerplacement"; const char* USNavigationMarkerPlacement::DATANAME_TUMOUR = "Tumour"; const char* USNavigationMarkerPlacement::DATANAME_TARGETSURFACE = "Target Surface"; const char* USNavigationMarkerPlacement::DATANAME_ZONES = "Zones"; const char* USNavigationMarkerPlacement::DATANAME_TARGETS = "Targets"; const char* USNavigationMarkerPlacement::DATANAME_TARGETS_PATHS = "Target Paths"; const char* USNavigationMarkerPlacement::DATANAME_REACHED_TARGETS = "Reached Targets"; USNavigationMarkerPlacement::USNavigationMarkerPlacement() : m_UpdateTimer(new QTimer(this)), m_ImageAndNavigationDataLoggingTimer(new QTimer(this)), m_StdMultiWidget(0), m_ReinitAlreadyDone(false), m_IsExperimentRunning(false), m_NavigationStepTimer(mitk::USNavigationStepTimer::New()), m_ExperimentLogging(mitk::USNavigationExperimentLogging::New()), m_AblationZonesDisplacementFilter(mitk::NodeDisplacementFilter::New()), m_IconRunning(QPixmap(":/USNavigation/record.png")), m_IconNotRunning(QPixmap(":/USNavigation/record-gray.png")), m_USImageLoggingFilter(mitk::USImageLoggingFilter::New()), m_NavigationDataRecorder(mitk::NavigationDataRecorder::New()), m_SceneNumber(1), m_WarnOverlay(mitk::TextOverlay2D::New()), m_ListenerDeviceChanged(this, &USNavigationMarkerPlacement::OnCombinedModalityPropertyChanged), m_NeedleIndex(0), m_MarkerIndex(1), ui(new Ui::USNavigationMarkerPlacement) { connect(m_UpdateTimer, SIGNAL(timeout()), this, SLOT(OnTimeout())); connect(m_ImageAndNavigationDataLoggingTimer, SIGNAL(timeout()), this, SLOT(OnImageAndNavigationDataLoggingTimeout())); // scale running (and not running) icon the specific height m_IconRunning = m_IconRunning.scaledToHeight(20, Qt::SmoothTransformation); m_IconNotRunning = m_IconNotRunning.scaledToHeight(20, Qt::SmoothTransformation); // set prefix for experiment logging (only keys with this prefix are taken // into consideration m_ExperimentLogging->SetKeyPrefix("USNavigation::"); m_UpdateTimer->start(33); //every 33 Milliseconds = 30 Frames/Second } USNavigationMarkerPlacement::~USNavigationMarkerPlacement() { //this->OnResetStandardLayout(); // make sure that the experiment got finished before destructing the object if (m_IsExperimentRunning) { this->OnFinishExperiment(); } // remove listener for ultrasound device changes if (m_CombinedModality.IsNotNull() && m_CombinedModality->GetUltrasoundDevice().IsNotNull()) { m_CombinedModality->GetUltrasoundDevice()->RemovePropertyChangedListener(m_ListenerDeviceChanged); } delete ui; } void USNavigationMarkerPlacement::OnChangeAblationZone(int id, int newSize) { if ((m_AblationZonesVector.size() < id) || (id < 0)) { return; } MITK_INFO << "Ablation Zone " << id << " changed, new size: " << newSize; // create a vtk sphere with given radius vtkSphereSource *vtkData = vtkSphereSource::New(); vtkData->SetRadius(newSize / 2); vtkData->SetCenter(0, 0, 0); vtkData->SetPhiResolution(20); vtkData->SetThetaResolution(20); vtkData->Update(); mitk::Surface::Pointer zoneSurface = dynamic_cast(m_AblationZonesVector.at(id)->GetData()); zoneSurface->SetVtkPolyData(vtkData->GetOutput()); vtkData->Delete(); } void USNavigationMarkerPlacement::OnAddAblationZone(int size) { m_AblationZonesDisplacementFilter->SetInitialReferencePose(m_CombinedModality->GetNavigationDataSource()->GetOutput(m_MarkerIndex)); mitk::DataNode::Pointer NewAblationZone = mitk::DataNode::New(); mitk::Point3D origin = m_CombinedModality->GetNavigationDataSource()->GetOutput(m_NeedleIndex)->GetPosition(); MITK_INFO("USNavigationLogging") << "Ablation Zone Added, initial size: " << size << ", origin: " << origin; mitk::Surface::Pointer zone = mitk::Surface::New(); // create a vtk sphere with given radius vtkSphereSource *vtkData = vtkSphereSource::New(); vtkData->SetRadius(size / 2); vtkData->SetCenter(0, 0, 0); vtkData->SetPhiResolution(20); vtkData->SetThetaResolution(20); vtkData->Update(); zone->SetVtkPolyData(vtkData->GetOutput()); vtkData->Delete(); // set vtk sphere and origin to data node (origin must be set // again, because of the new sphere set as data) NewAblationZone->SetData(zone); NewAblationZone->GetData()->GetGeometry()->SetOrigin(origin); mitk::Color SphereColor = mitk::Color(); //default color SphereColor[0] = 102; SphereColor[1] = 0; SphereColor[2] = 204; NewAblationZone->SetColor(SphereColor); NewAblationZone->SetOpacity(0.3); // set name of zone std::stringstream name; name << "Ablation Zone" << m_AblationZonesVector.size(); NewAblationZone->SetName(name.str()); // add zone to filter m_AblationZonesDisplacementFilter->AddNode(NewAblationZone); m_AblationZonesVector.push_back(NewAblationZone); this->GetDataStorage()->Add(NewAblationZone); } void USNavigationMarkerPlacement::CreateQtPartControl(QWidget *parent) { m_Parent = parent; ui->setupUi(parent); connect(ui->navigationProcessWidget, SIGNAL(SignalCombinedModalityChanged(itk::SmartPointer)), this, SLOT(OnCombinedModalityChanged(itk::SmartPointer))); connect(ui->navigationProcessWidget, SIGNAL(SignalSettingsChanged(itk::SmartPointer)), this, SLOT(OnSettingsChanged(itk::SmartPointer))); connect(ui->navigationProcessWidget, SIGNAL(SignalActiveNavigationStepChanged(int)), this, SLOT(OnActiveNavigationStepChanged(int))); connect(ui->startExperimentButton, SIGNAL(clicked()), this, SLOT(OnStartExperiment())); connect(ui->finishExperimentButton, SIGNAL(clicked()), this, SLOT(OnFinishExperiment())); connect(ui->m_enableNavigationLayout, SIGNAL(clicked()), this, SLOT(OnChangeLayoutClicked())); connect(ui->navigationProcessWidget, SIGNAL(SignalIntermediateResult(const itk::SmartPointer)), this, SLOT(OnIntermediateResultProduced(const itk::SmartPointer))); ui->navigationProcessWidget->SetDataStorage(this->GetDataStorage()); // indicate that no experiment is running at start ui->runningLabel->setPixmap(m_IconNotRunning); ui->navigationProcessWidget->SetSettingsWidget(new QmitkUSNavigationCombinedSettingsWidget(m_Parent)); } void USNavigationMarkerPlacement::OnCombinedModalityPropertyChanged(const std::string& key, const std::string&) { if (key == mitk::USDevice::GetPropertyKeys().US_PROPKEY_BMODE_DEPTH) { m_ReinitAlreadyDone = false; this->ReinitOnImage(); // make sure that the overlay is not added twice if (m_OverlayManager.IsNotNull()) { m_OverlayManager->RemoveOverlay(m_WarnOverlay.GetPointer()); } if (m_CombinedModality.IsNotNull() && !m_CombinedModality->GetIsCalibratedForCurrentStatus()) { if (m_OverlayManager.IsNotNull()) { m_OverlayManager->AddOverlay(m_WarnOverlay.GetPointer()); } MITK_WARN << "No calibration available for the selected ultrasound image depth."; } } } void USNavigationMarkerPlacement::SetFocus() { this->ReinitOnImage(); } void USNavigationMarkerPlacement::OnTimeout() { if (!m_StdMultiWidget) { OnEnableNavigationLayout(); this->CreateOverlays(); } if (m_CombinedModality.IsNotNull() && !this->m_CombinedModality->GetIsFreezed()) // if the combined modality is freezed: do nothing { ui->navigationProcessWidget->UpdateNavigationProgress(); m_AblationZonesDisplacementFilter->Update(); // update the 3D window only every fourth time to speed up the rendering (at least in 2D) this->RequestRenderWindowUpdate(mitk::RenderingManager::REQUEST_UPDATE_2DWINDOWS); // make sure that a reinit was performed on the image this->ReinitOnImage(); } } void USNavigationMarkerPlacement::OnEnableNavigationLayout() { MITK_INFO << "Navigation Layout"; // try to get the standard multi widget if it couldn't be got before mitk::IRenderWindowPart* renderWindow = this->GetRenderWindowPart(); QmitkStdMultiWidgetEditor* multiWidgetEditor = dynamic_cast(renderWindow); // if there is a standard multi widget now, disable the level window and // change the layout to 2D up and 3d down if (multiWidgetEditor) { m_StdMultiWidget = multiWidgetEditor->GetStdMultiWidget(); if (m_StdMultiWidget) { m_StdMultiWidget->DisableStandardLevelWindow(); m_StdMultiWidget->changeLayoutTo2DUpAnd3DDown(); this->GetDataStorage()->GetNamedNode("stdmulti.widget1.plane")->SetVisibility(false); this->GetDataStorage()->GetNamedNode("stdmulti.widget3.plane")->SetVisibility(false); } } } void USNavigationMarkerPlacement::OnResetStandardLayout() { MITK_INFO << "Resetting Layout"; //reset render windows mitk::DataNode::Pointer widget1 = this->GetDataStorage()->GetNamedNode("stdmulti.widget1.plane"); if (widget1.IsNotNull()) { widget1->SetVisibility(true); } mitk::DataNode::Pointer widget3 = this->GetDataStorage()->GetNamedNode("stdmulti.widget3.plane"); if (widget3.IsNotNull()) { widget3->SetVisibility(true); } m_StdMultiWidget->changeLayoutToDefault(); } void USNavigationMarkerPlacement::OnChangeLayoutClicked() { if (ui->m_enableNavigationLayout->isChecked()) OnEnableNavigationLayout(); else OnResetStandardLayout(); } void USNavigationMarkerPlacement::OnImageAndNavigationDataLoggingTimeout() { // update filter for logging navigation data and ultrasound images if (m_CombinedModality.IsNotNull()) { m_NavigationDataRecorder->Update(); //get last messages for logging filer and store them std::vector messages = m_LoggingBackend.GetNavigationMessages(); std::string composedMessage = ""; for (int i = 0; i < messages.size(); i++) { composedMessage += messages.at(i); } m_USImageLoggingFilter->AddMessageToCurrentImage(composedMessage); m_LoggingBackend.ClearNavigationMessages(); //update logging filter m_USImageLoggingFilter->Update(); } } void USNavigationMarkerPlacement::OnStartExperiment() { // get name for the experiment by a QInputDialog bool ok; if (m_ExperimentName.isEmpty()) { //default: current date m_ExperimentName = QString::number(QDateTime::currentDateTime().date().year()) + "_" + QString::number(QDateTime::currentDateTime().date().month()) + "_" + QString::number(QDateTime::currentDateTime().date().day()) + "_experiment_" + QString::number(QDateTime::currentDateTime().time().hour()) + "." + QString::number(QDateTime::currentDateTime().time().minute()); } m_ExperimentName = QInputDialog::getText(m_Parent, QString("Experiment Name"), QString("Name of the Experiment"), QLineEdit::Normal, m_ExperimentName, &ok); MITK_INFO("USNavigationLogging") << "Experiment started: " << m_ExperimentName.toStdString(); if (ok && !m_ExperimentName.isEmpty()) { // display error message and call the function recursivly if a directory // with the given name already exists QDir experimentResultsDir(m_ResultsDirectory + QDir::separator() + m_ExperimentName); if (experimentResultsDir.exists()) { QMessageBox::critical(m_Parent, "Results Directory Exists", "The result directory already exists.\nPlease choose an other name."); this->OnStartExperiment(); } else { QDir(m_ResultsDirectory).mkdir(m_ExperimentName); m_ExperimentResultsSubDirectory = m_ResultsDirectory + QDir::separator() + m_ExperimentName; // experiment is running now ui->runningLabel->setPixmap(m_IconRunning); ui->navigationProcessWidget->EnableInteraction(true); // (re)start timer for navigation step durations m_NavigationStepTimer->Reset(); m_NavigationStepTimer->SetOutputFileName(QString(m_ExperimentResultsSubDirectory + QDir::separator() + QString("durations.cvs")).toStdString()); m_NavigationStepTimer->SetActiveIndex(0, m_NavigationSteps.at(0)->GetTitle().toStdString()); ui->finishExperimentButton->setEnabled(true); ui->startExperimentButton->setDisabled(true); // initialize and register logging backend QString loggingFilename = m_ExperimentResultsSubDirectory + QDir::separator() + "logging.txt"; m_LoggingBackend.SetOutputFileName(loggingFilename.toStdString()); mbilog::RegisterBackend(&m_LoggingBackend); // initialize and start navigation data recorder form xml recording m_NavigationDataRecorder->StartRecording(); m_IsExperimentRunning = true; m_ImageAndNavigationDataLoggingTimer->start(1000); // (re)start experiment logging and set output file name m_ExperimentLogging->Reset(); m_ExperimentLogging->SetFileName(QString(m_ExperimentResultsSubDirectory + QDir::separator() + "experiment-logging.xml").toStdString()); } } } void USNavigationMarkerPlacement::OnFinishExperiment() { this->WaitCursorOn(); MITK_INFO("USNavigationLogging") << "Experiment finished!"; MITK_INFO("USNavigationLogging") << "Position/Orientation of needle tip: " << (dynamic_cast(m_CombinedModality->GetTrackingDevice()->GetOutput(0)))->GetPosition(); MITK_INFO("USNavigationLogging") << "Position of target: " << m_TargetNodeDisplacementFilter->GetRawDisplacementNavigationData(0)->GetPosition(); MITK_INFO("USNavigationLogging") << "Total duration: " << m_NavigationStepTimer->GetTotalDuration(); ui->navigationProcessWidget->FinishCurrentNavigationStep(); m_ImageAndNavigationDataLoggingTimer->stop(); ui->runningLabel->setPixmap(m_IconNotRunning); ui->navigationProcessWidget->EnableInteraction(false); m_NavigationStepTimer->Stop(); // make sure that the navigation process will be start from beginning at the // next experiment ui->navigationProcessWidget->ResetNavigationProcess(); ui->finishExperimentButton->setDisabled(true); ui->startExperimentButton->setEnabled(true); MITK_INFO("USNavigationLogging") << "Writing logging data to " << m_ExperimentResultsSubDirectory.toStdString(); // save ultrasound images to the file system QDir(m_ExperimentResultsSubDirectory).mkdir("ImageStream"); m_USImageLoggingFilter->Update(); m_USImageLoggingFilter->SetImageFilesExtension(".jpg"); m_USImageLoggingFilter->SaveImages(QString(m_ExperimentResultsSubDirectory + QDir::separator() + "ImageStream" + QDir::separator()).toStdString()); m_USImageLoggingFilter = mitk::USImageLoggingFilter::New(); m_NavigationDataRecorder->StopRecording(); // Write data to csv and xml file mitk::IOUtil::SaveBaseData(m_NavigationDataRecorder->GetNavigationDataSet(), (QString(m_ExperimentResultsSubDirectory + QDir::separator() + "navigation-data.xml").toStdString().c_str())); mitk::IOUtil::SaveBaseData(m_NavigationDataRecorder->GetNavigationDataSet(), (QString(m_ExperimentResultsSubDirectory + QDir::separator() + "navigation-data.csv").toStdString().c_str())); //write logged navigation data messages to separate file std::stringstream csvNavigationMessagesFilename; csvNavigationMessagesFilename << m_ExperimentResultsSubDirectory.toStdString() << QDir::separator().toLatin1() << "CSVNavigationMessagesLogFile.csv"; MITK_INFO("USNavigationLogging") << "Writing logged navigation messages to separate csv file: " << csvNavigationMessagesFilename.str(); m_LoggingBackend.WriteCSVFileWithNavigationMessages(csvNavigationMessagesFilename.str()); mbilog::UnregisterBackend(&m_LoggingBackend); m_IsExperimentRunning = false; m_ImageAndNavigationDataLoggingTimer->stop(); m_CombinedModality = 0; // reset scene number for next experiment m_SceneNumber = 1; this->WaitCursorOff(); MITK_INFO("USNavigationLogging") << "Finished!"; } void USNavigationMarkerPlacement::OnCombinedModalityChanged(itk::SmartPointer combinedModality) { // remove old listener for ultrasound device changes if (m_CombinedModality.IsNotNull() && m_CombinedModality->GetUltrasoundDevice().IsNotNull()) { m_CombinedModality->GetUltrasoundDevice()->RemovePropertyChangedListener(m_ListenerDeviceChanged); } m_CombinedModality = combinedModality; m_ReinitAlreadyDone = false; // add a listener for ultrasound device changes if (m_CombinedModality.IsNotNull() && m_CombinedModality->GetUltrasoundDevice().IsNotNull()) { m_CombinedModality->GetUltrasoundDevice()->AddPropertyChangedListener(m_ListenerDeviceChanged); } // update navigation data recorder for using the new combined modality mitk::NavigationDataSource::Pointer navigationDataSource = combinedModality->GetNavigationDataSource(); m_NavigationDataRecorder->ConnectTo(navigationDataSource); m_NavigationDataRecorder->ResetRecording(); // TODO check for correct connection // for (unsigned int n = 0; n < navigationDataSource->GetNumberOfIndexedOutputs(); ++n) // { // m_NavigationDataRecorder->AddNavigationData(navigationDataSource->GetOutput(n)); // } // update ultrasound image logging filter for using the new combined modality mitk::USDevice::Pointer ultrasoundImageSource = combinedModality->GetUltrasoundDevice(); for (unsigned int n = 0; n < ultrasoundImageSource->GetNumberOfIndexedOutputs(); ++n) { m_USImageLoggingFilter->SetInput(n, ultrasoundImageSource->GetOutput(n)); } // update ablation zone filter for using the new combined modality for (unsigned int n = 0; n < navigationDataSource->GetNumberOfIndexedOutputs(); ++n) { m_AblationZonesDisplacementFilter->SetInput(n, navigationDataSource->GetOutput(n)); } m_AblationZonesDisplacementFilter->SelectInput(m_MarkerIndex); // make sure that a reinit is done for the new images this->ReinitOnImage(); } void USNavigationMarkerPlacement::OnSettingsChanged(itk::SmartPointer settings) { std::string applicationName; if (!settings->GetStringProperty("settings.application", applicationName)) { // set default application if the string property is not available applicationName = "Marker Placement"; } // create navigation step widgets according to the selected application if (applicationName != m_CurrentApplicationName) { m_CurrentApplicationName = applicationName; QmitkUSNavigationProcessWidget::NavigationStepVector navigationSteps; - if (applicationName == "Punction") + if (applicationName == "Puncture") { QmitkUSNavigationStepCombinedModality* stepCombinedModality = new QmitkUSNavigationStepCombinedModality(m_Parent); QmitkUSNavigationStepTumourSelection* stepTumourSelection = new QmitkUSNavigationStepTumourSelection(m_Parent); stepTumourSelection->SetTargetSelectionOptional(true); m_TargetNodeDisplacementFilter = stepTumourSelection->GetTumourNodeDisplacementFilter(); QmitkUSNavigationStepZoneMarking* stepZoneMarking = new QmitkUSNavigationStepZoneMarking(m_Parent); QmitkUSNavigationStepPunctuationIntervention* stepIntervention = new QmitkUSNavigationStepPunctuationIntervention(m_Parent); connect(stepIntervention, SIGNAL(AddAblationZoneClicked(int)), this, SLOT(OnAddAblationZone(int))); connect(stepIntervention, SIGNAL(AblationZoneChanged(int, int)), this, SLOT(OnChangeAblationZone(int, int))); m_NavigationStepNames = std::vector(); navigationSteps.push_back(stepCombinedModality); m_NavigationStepNames.push_back("Combined Modality Initialization"); navigationSteps.push_back(stepTumourSelection); m_NavigationStepNames.push_back("Target Selection"); navigationSteps.push_back(stepZoneMarking); m_NavigationStepNames.push_back("Critical Structure Marking"); navigationSteps.push_back(stepIntervention); m_NavigationStepNames.push_back("Intervention"); } else if (applicationName == "Marker Placement") { QmitkUSNavigationStepCombinedModality* stepCombinedModality = new QmitkUSNavigationStepCombinedModality(m_Parent); QmitkUSNavigationStepTumourSelection* stepTumourSelection = new QmitkUSNavigationStepTumourSelection(m_Parent); m_TargetNodeDisplacementFilter = stepTumourSelection->GetTumourNodeDisplacementFilter(); QmitkUSNavigationStepZoneMarking* stepZoneMarking = new QmitkUSNavigationStepZoneMarking(m_Parent); QmitkUSNavigationStepPlacementPlanning* stepPlacementPlanning = new QmitkUSNavigationStepPlacementPlanning(m_Parent); QmitkUSNavigationStepMarkerIntervention* stepMarkerIntervention = new QmitkUSNavigationStepMarkerIntervention(m_Parent); m_NavigationStepNames = std::vector(); navigationSteps.push_back(stepCombinedModality); m_NavigationStepNames.push_back("Combined Modality Initialization"); navigationSteps.push_back(stepTumourSelection); m_NavigationStepNames.push_back("Target Selection"); navigationSteps.push_back(stepZoneMarking); m_NavigationStepNames.push_back("Critical Structure Marking"); navigationSteps.push_back(stepPlacementPlanning); m_NavigationStepNames.push_back("Placement Planning"); navigationSteps.push_back(stepMarkerIntervention); m_NavigationStepNames.push_back("Marker Intervention"); } // set navigation step widgets to the process widget ui->navigationProcessWidget->SetNavigationSteps(navigationSteps); for (QmitkUSNavigationProcessWidget::NavigationStepIterator it = m_NavigationSteps.begin(); it != m_NavigationSteps.end(); ++it) { delete *it; } m_NavigationSteps.clear(); m_NavigationSteps = navigationSteps; } // initialize gui according to the experiment mode setting bool experimentMode = false; settings->GetBoolProperty("settings.experiment-mode", experimentMode); ui->startExperimentButton->setVisible(experimentMode); ui->finishExperimentButton->setVisible(experimentMode); ui->runningLabel->setVisible(experimentMode); if (experimentMode && !m_IsExperimentRunning) { ui->navigationProcessWidget->ResetNavigationProcess(); ui->navigationProcessWidget->EnableInteraction(false); ui->runningLabel->setPixmap(m_IconNotRunning); } else if (!experimentMode) { if (m_IsExperimentRunning) { this->OnFinishExperiment(); } ui->navigationProcessWidget->EnableInteraction(true); } // get the results directory from the settings and use home directory if // there is no results directory configured std::string resultsDirectory; if (settings->GetStringProperty("settings.experiment-results-directory", resultsDirectory)) { m_ResultsDirectory = QString::fromStdString(resultsDirectory); } else { m_ResultsDirectory = QDir::homePath(); } // make sure that the results directory exists QDir resultsDirectoryQDir = QDir(m_ResultsDirectory); if (!resultsDirectoryQDir.exists()) { resultsDirectoryQDir.mkpath(m_ResultsDirectory); } MITK_INFO << "Results Directory: " << m_ResultsDirectory.toStdString(); } void USNavigationMarkerPlacement::OnActiveNavigationStepChanged(int index) { // update navigation step timer each time the active navigation step changes m_NavigationStepTimer->SetActiveIndex(index, m_NavigationSteps.at(index)->GetTitle().toStdString()); if (m_NavigationStepNames.size() <= index) { MITK_INFO("USNavigationLogging") << "Someting went wrong: unknown navigation step!"; } else { MITK_INFO("USNavigationLogging") << "Navigation step finished/changed, next step: " << this->m_NavigationStepNames.at(index).toStdString() << "; duration until now: " << m_NavigationStepTimer->GetTotalDuration(); } } void USNavigationMarkerPlacement::OnIntermediateResultProduced(const itk::SmartPointer resultsNode) { // intermediate results only matter during an experiment if (!m_IsExperimentRunning) { return; } this->WaitCursorOn(); // set results node to the experiment logging (for saving contents to the // file system) m_ExperimentLogging->SetResult(resultsNode); std::string resultsName; if (!resultsNode->GetName(resultsName)) { MITK_WARN << "Could not get name of current results node."; return; } // save the mitk scene std::string scenefile = QString(m_ExperimentResultsSubDirectory + QDir::separator() + QString("Scene %1 - ").arg(m_SceneNumber++, 2, 10, QChar('0')) + QString::fromStdString(resultsName).replace(":", "_") + ".mitk").toStdString(); MITK_INFO << "Saving Scene File: " << scenefile; mitk::SceneIO::Pointer sceneIO = mitk::SceneIO::New(); mitk::NodePredicateNot::Pointer isNotHelperObject = mitk::NodePredicateNot::New(mitk::NodePredicateProperty::New("helper object", mitk::BoolProperty::New(true))); mitk::DataStorage::SetOfObjects::ConstPointer nodesToBeSaved = this->GetDataStorage()->GetSubset(isNotHelperObject); this->Convert2DImagesTo3D(nodesToBeSaved); sceneIO->SaveScene(nodesToBeSaved, this->GetDataStorage(), scenefile); this->WaitCursorOff(); } void USNavigationMarkerPlacement::ReinitOnImage() { if (!m_ReinitAlreadyDone && m_CombinedModality.IsNotNull()) { // make sure that the output is already calibrated correctly // (if the zoom level was changed recently) m_CombinedModality->Modified(); m_CombinedModality->Update(); mitk::Image::Pointer image = m_CombinedModality->GetOutput(); if (image.IsNotNull() && image->IsInitialized()) { // make a reinit on the ultrasound image mitk::IRenderWindowPart* renderWindow = this->GetRenderWindowPart(); if (renderWindow != NULL && image->GetTimeGeometry()->IsValid()) { renderWindow->GetRenderingManager()->InitializeViews( image->GetTimeGeometry(), mitk::RenderingManager::REQUEST_UPDATE_ALL, true); renderWindow->GetRenderingManager()->RequestUpdateAll(); } this->RequestRenderWindowUpdate(); m_ReinitAlreadyDone = true; } } } void USNavigationMarkerPlacement::Convert2DImagesTo3D(mitk::DataStorage::SetOfObjects::ConstPointer nodes) { for (mitk::DataStorage::SetOfObjects::ConstIterator it = nodes->Begin(); it != nodes->End(); ++it) { if (it->Value()->GetData() && strcmp(it->Value()->GetData()->GetNameOfClass(), "Image") == 0) { // convert image to 3d image if it is 2d at the moment mitk::Image::Pointer image = dynamic_cast(it->Value()->GetData()); if (image.IsNotNull() && image->GetDimension() == 2 && !image->GetGeometry()->Is2DConvertable()) { mitk::Convert2Dto3DImageFilter::Pointer convert2DTo3DImageFilter = mitk::Convert2Dto3DImageFilter::New(); convert2DTo3DImageFilter->SetInput(image); convert2DTo3DImageFilter->Update(); it->Value()->SetData(convert2DTo3DImageFilter->GetOutput()); } } } } void USNavigationMarkerPlacement::CreateOverlays() { // initialize warning overlay (and do not display it, yet) m_WarnOverlay->SetText("Warning: No calibration available for current depth."); // set position and font size for the text overlay // (nonesense postition as a layouter is used, but it ignored // the overlay without setting a position here) mitk::Point2D overlayPosition; overlayPosition.SetElement(0, -50.0f); overlayPosition.SetElement(1, -50.0f); m_WarnOverlay->SetPosition2D(overlayPosition); m_WarnOverlay->SetFontSize(22); m_WarnOverlay->SetColor(1, 0, 0); // overlay should be red mitk::BaseRenderer* renderer = mitk::BaseRenderer::GetByName("stdmulti.widget1"); if (renderer) { m_OverlayManager = renderer->GetOverlayManager(); //add layouter if it doesn't exist yet if (!m_OverlayManager->GetLayouter(renderer, mitk::Overlay2DLayouter::STANDARD_2D_TOP())) { m_OverlayManager->AddLayouter(mitk::Overlay2DLayouter::CreateLayouter(mitk::Overlay2DLayouter::STANDARD_2D_TOP(), renderer).GetPointer()); } /* causes a crash when closing the view and opening it again, so deactivated at the moment TODO!! //set layouter to warn overlay m_OverlayManager->SetLayouter(m_WarnOverlay.GetPointer(), mitk::Overlay2DLayouter::STANDARD_2D_TOP(), renderer); */ } } diff --git a/Plugins/org.mitk.gui.qt.igt.app.echotrack/src/internal/Widgets/QmitkUSNavigationProcessWidget.ui b/Plugins/org.mitk.gui.qt.igt.app.echotrack/src/internal/Widgets/QmitkUSNavigationProcessWidget.ui index 0dbb7100b4..5526f413c9 100644 --- a/Plugins/org.mitk.gui.qt.igt.app.echotrack/src/internal/Widgets/QmitkUSNavigationProcessWidget.ui +++ b/Plugins/org.mitk.gui.qt.igt.app.echotrack/src/internal/Widgets/QmitkUSNavigationProcessWidget.ui @@ -1,199 +1,203 @@ QmitkUSNavigationProcessWidget 0 0 - 400 + 465 757 Form font-size: 10pt; font-weight: bold; - Qt::AlignCenter + Qt::AlignLeading|Qt::AlignLeft|Qt::AlignVCenter - + + 0 + + + false Open Preferences Preferences :/USNavigation/preferences.png:/USNavigation/preferences.png false false Restart the Current Step &Restart Step :/USNavigation/restart.png:/USNavigation/restart.png Qt::Horizontal 40 20 false Go to Previous Step &Prev :/USNavigation/go-previous.png:/USNavigation/go-previous.png false Go to Next Step &Next :/USNavigation/go-next.png:/USNavigation/go-next.png <!DOCTYPE HTML PUBLIC "-//W3C//DTD HTML 4.0//EN" "http://www.w3.org/TR/REC-html40/strict.dtd"> <html><head><meta name="qrichtext" content="1" /><style type="text/css"> p, li { white-space: pre-wrap; } -</style></head><body style=" font-family:'MS Shell Dlg 2'; font-size:7.8pt; font-weight:400; font-style:normal;"> -<p align="center" style=" margin-top:12px; margin-bottom:12px; margin-left:0px; margin-right:0px; -qt-block-indent:0; text-indent:0px;"><span style=" font-size:10pt; font-weight:600;">Settings</span></p></body></html> +</style></head><body style=" font-family:'MS Shell Dlg 2'; font-size:8pt; font-weight:400; font-style:normal;"> +<p style=" margin-top:12px; margin-bottom:12px; margin-left:0px; margin-right:0px; -qt-block-indent:0; text-indent:0px;"><span style=" font-size:10pt; font-weight:600;">Settings</span></p></body></html> Qt::Vertical 20 40 Save :/USNavigation/document-save.png:/USNavigation/document-save.png Cancel :/USNavigation/restart.png:/USNavigation/restart.png OnNextButtonClicked() OnPreviousButtonClicked() OnRestartStepButtonClicked() OnTabChanged(int)