diff --git a/Applications/Diffusion/CMakeLists.txt b/Applications/Diffusion/CMakeLists.txt index 2198111025..f6af42f8ae 100644 --- a/Applications/Diffusion/CMakeLists.txt +++ b/Applications/Diffusion/CMakeLists.txt @@ -1,102 +1,103 @@ #if(MITK_USE_Python) project(MitkDiffusion) set(DIFFUSIONAPP_NAME MitkDiffusion) set(_app_options) if(MITK_SHOW_CONSOLE_WINDOW) list(APPEND _app_options SHOW_CONSOLE) endif() # Create a cache entry for the provisioning file which is used to export # the file name in the MITKConfig.cmake file. This will keep external projects # which rely on this file happy. set(DIFFUSIONIMAGINGAPP_PROVISIONING_FILE "${CMAKE_RUNTIME_OUTPUT_DIRECTORY}/${DIFFUSIONAPP_NAME}.provisioning" CACHE INTERNAL "${DIFFUSIONAPP_NAME} provisioning file" FORCE) # should be identical to the list in /CMake/mitkBuildConfigurationmitkDiffusion.cmake # remember to set plugins which should be automatically toggled in target_libraries.cmake set(_plugins org.commontk.configadmin org.commontk.eventadmin org.blueberry.core.runtime org.blueberry.core.expressions org.blueberry.core.commands org.blueberry.ui.qt org.blueberry.ui.qt.log org.blueberry.ui.qt.help org.mitk.core.services org.mitk.gui.common org.mitk.planarfigure org.mitk.core.ext org.mitk.gui.qt.application org.mitk.gui.qt.ext org.mitk.gui.qt.diffusionimagingapp org.mitk.gui.qt.common org.mitk.gui.qt.stdmultiwidgeteditor org.mitk.gui.qt.datamanager org.mitk.gui.qt.measurementtoolbox org.mitk.gui.qt.segmentation + org.mitk.gui_qt.multilabelsegmentation org.mitk.gui.qt.volumevisualization org.mitk.gui.qt.diffusionimaging org.mitk.gui.qt.diffusionimaging.connectomics org.mitk.gui.qt.diffusionimaging.fiberfox org.mitk.gui.qt.diffusionimaging.fiberprocessing org.mitk.gui.qt.diffusionimaging.ivim org.mitk.gui.qt.diffusionimaging.odfpeaks org.mitk.gui.qt.diffusionimaging.preprocessing org.mitk.gui.qt.diffusionimaging.reconstruction org.mitk.gui.qt.diffusionimaging.tractography org.mitk.gui.qt.diffusionimaging.registration # org.mitk.gui.qt.diffusionimaging.python org.mitk.gui.qt.diffusionimaging.denoising # org.mitk.gui.qt.matchpoint.algorithm.browser # org.mitk.gui.qt.matchpoint.algorithm.control # org.mitk.gui.qt.matchpoint.mapper org.mitk.gui.qt.imagenavigator org.mitk.gui.qt.moviemaker org.mitk.gui.qt.basicimageprocessing org.mitk.gui.qt.properties org.mitk.gui.qt.viewnavigator ) # Plug-ins listed below will not be # - added as a build-time dependency to the executable # - listed in the provisioning file for the executable # - installed if they are external plug-ins set(_exclude_plugins org.blueberry.test org.blueberry.uitest org.mitk.gui.qt.coreapplication org.mitk.gui.qt.extapplication ) set(_src_files MitkDiffusion.cpp ) qt5_add_resources(_src_files splashscreen.qrc) mitkFunctionCreateBlueBerryApplication( NAME ${DIFFUSIONAPP_NAME} DESCRIPTION "MITK Diffusion" PLUGINS ${_plugins} EXCLUDE_PLUGINS ${_exclude_plugins} SOURCES ${_src_files} ${_app_options} ) mitk_use_modules(TARGET ${DIFFUSIONAPP_NAME} MODULES MitkAppUtil) # Add meta dependencies (e.g. on auto-load modules from depending modules) if(TARGET ${CMAKE_PROJECT_NAME}-autoload) add_dependencies(${DIFFUSIONAPP_NAME} ${CMAKE_PROJECT_NAME}-autoload) endif() # Add a build time dependency to legacy BlueBerry bundles. if(MITK_MODULES_ENABLED_PLUGINS) add_dependencies(${DIFFUSIONAPP_NAME} ${MITK_MODULES_ENABLED_PLUGINS}) endif() # endif() # MITK_USE_PYTHON diff --git a/Applications/Diffusion/target_libraries.cmake b/Applications/Diffusion/target_libraries.cmake index 8600df31e5..f208e9035d 100644 --- a/Applications/Diffusion/target_libraries.cmake +++ b/Applications/Diffusion/target_libraries.cmake @@ -1,34 +1,35 @@ # A list of plug-in targets which should be automatically enabled # (or be available in external projects) for this application set(target_libraries org_blueberry_ui_qt org_blueberry_ui_qt_help org_mitk_planarfigure org_mitk_gui_qt_diffusionimagingapp org_mitk_gui_qt_ext org_mitk_gui_qt_datamanager org_mitk_gui_qt_segmentation + org_mitk_gui_qt_multilabelsegmentation org_mitk_gui_qt_volumevisualization org_mitk_gui_qt_diffusionimaging org_mitk_gui_qt_diffusionimaging_connectomics org_mitk_gui_qt_diffusionimaging_fiberfox org_mitk_gui_qt_diffusionimaging_fiberprocessing org_mitk_gui_qt_diffusionimaging_ivim org_mitk_gui_qt_diffusionimaging_odfpeaks org_mitk_gui_qt_diffusionimaging_preprocessing org_mitk_gui_qt_diffusionimaging_reconstruction org_mitk_gui_qt_diffusionimaging_tractography org_mitk_gui_qt_diffusionimaging_registration # org_mitk_gui_qt_diffusionimaging_python org_mitk_gui_qt_diffusionimaging_denoising # org_mitk_gui_qt_matchpoint_algorithm_browser # org_mitk_gui_qt_matchpoint_algorithm_control # org_mitk_gui_qt_matchpoint_mapper org_mitk_gui_qt_imagenavigator org_mitk_gui_qt_moviemaker org_mitk_gui_qt_measurementtoolbox org_mitk_gui_qt_basicimageprocessing org_mitk_gui_qt_viewnavigator ) diff --git a/Plugins/org.mitk.gui.qt.diffusionimaging.connectomics/src/internal/QmitkConnectomicsDataViewControls.ui b/Plugins/org.mitk.gui.qt.diffusionimaging.connectomics/src/internal/QmitkConnectomicsDataViewControls.ui index 5a68d94544..382ace7e5f 100644 --- a/Plugins/org.mitk.gui.qt.diffusionimaging.connectomics/src/internal/QmitkConnectomicsDataViewControls.ui +++ b/Plugins/org.mitk.gui.qt.diffusionimaging.connectomics/src/internal/QmitkConnectomicsDataViewControls.ui @@ -1,269 +1,269 @@ QmitkConnectomicsDataViewControls 0 0 - 231 + 286 639 0 0 QmitkTemplate 25 - Data + Input Data 0 0 0 0 QLabel { color: rgb(255, 0, 0) } Select a parcellation and a tractogram! Image 1: - Image 2: - Network Creation Options 0 0 0 0 Create a network from a parcellation and a fiber image Networkify Create Correlation Matrix - - - - Create Synthetic Networks - - - true Synthetic Network Options 0 0 0 0 - + - - + + - + - Parameter 1 + Parameter 2 - + false + + 3 + - 9999 + 999.899999999999977 - + - + - Parameter 2 + Parameter 1 - + false - - 3 - - 999.899999999999977 + 9999 + + + + Create Synthetic Networks + + + 0 0 Anatomical labeling 0 0 0 0 Qt::Vertical 20 40 QmitkFreeSurferParcellationWidget QWidget
QmitkFreeSurferParcellationWidget.h
1 diff --git a/Plugins/org.mitk.gui.qt.diffusionimaging.connectomics/src/internal/QmitkConnectomicsStatisticsView.cpp b/Plugins/org.mitk.gui.qt.diffusionimaging.connectomics/src/internal/QmitkConnectomicsStatisticsView.cpp index c9a5fcf462..8d6b270242 100644 --- a/Plugins/org.mitk.gui.qt.diffusionimaging.connectomics/src/internal/QmitkConnectomicsStatisticsView.cpp +++ b/Plugins/org.mitk.gui.qt.diffusionimaging.connectomics/src/internal/QmitkConnectomicsStatisticsView.cpp @@ -1,256 +1,212 @@ /*=================================================================== 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. ===================================================================*/ -// ####### Blueberry includes ####### #include #include - -// ####### Qmitk includes ####### #include "QmitkConnectomicsStatisticsView.h" - -// ####### Qt includes ####### #include #include - -// ####### ITK includes ####### #include - -// ####### MITK includes ####### #include #include #include #include - -// Includes for image casting between ITK and MITK #include "mitkImageCast.h" #include "mitkITKImageImport.h" #include "mitkImageAccessByItk.h" - +#include #include const std::string QmitkConnectomicsStatisticsView::VIEW_ID = "org.mitk.views.connectomicsstatistics"; QmitkConnectomicsStatisticsView::QmitkConnectomicsStatisticsView() -: QmitkAbstractView() -, m_Controls( nullptr ) + : QmitkAbstractView() + , m_Controls( nullptr ) { } QmitkConnectomicsStatisticsView::~QmitkConnectomicsStatisticsView() { } void QmitkConnectomicsStatisticsView::CreateQtPartControl( QWidget *parent ) { // build up qt view, unless already done if ( !m_Controls ) {// create GUI widgets from the Qt Designer's .ui file m_Controls = new Ui::QmitkConnectomicsStatisticsViewControls; m_Controls-> setupUi( parent ); connect( m_Controls-> networkBalloonsNodeLabelsComboBox, SIGNAL( currentIndexChanged( int ) ), this, SLOT( OnNetworkBalloonsNodeLabelsComboBoxCurrentIndexChanged( ) ) ); + + + m_Controls->m_NetworkBox->SetDataStorage(this->GetDataStorage()); + mitk::TNodePredicateDataType::Pointer isNetwork = mitk::TNodePredicateDataType::New(); + m_Controls->m_NetworkBox->SetPredicate( isNetwork ); + connect( (QObject*)(m_Controls->m_NetworkBox), SIGNAL(currentIndexChanged(int)), this, SLOT(UpdateGui())); } this-> WipeDisplay(); } void QmitkConnectomicsStatisticsView::SetFocus() { m_Controls->networkStatisticsPlainTextEdit->setFocus(); } void QmitkConnectomicsStatisticsView::WipeDisplay() { - m_Controls->lblWarning->setVisible( true ); - m_Controls->inputImageOneNameLabel->setText( mitk::ConnectomicsConstantsManager::CONNECTOMICS_GUI_DASH ); - m_Controls->inputImageOneNameLabel->setVisible( false ); m_Controls->inputImageOneLabel->setVisible( false ); m_Controls->networkStatisticsPlainTextEdit->clear(); m_Controls->betweennessNetworkHistogramCanvas->SetHistogram( nullptr ); m_Controls->degreeNetworkHistogramCanvas->SetHistogram( nullptr ); m_Controls->shortestPathNetworkHistogramCanvas->SetHistogram( nullptr ); m_Controls->betweennessNetworkHistogramCanvas->update(); m_Controls->degreeNetworkHistogramCanvas->update(); m_Controls->shortestPathNetworkHistogramCanvas->update(); m_Controls->betweennessNetworkHistogramCanvas->Clear(); m_Controls->degreeNetworkHistogramCanvas->Clear(); m_Controls->shortestPathNetworkHistogramCanvas->Clear(); m_Controls->betweennessNetworkHistogramCanvas->Replot(); m_Controls->degreeNetworkHistogramCanvas->Replot(); m_Controls->shortestPathNetworkHistogramCanvas->Replot(); m_Controls-> networkBalloonsNodeLabelsComboBox-> QComboBox::clear(); m_Controls-> networkBalloonsPlainTextEdit-> clear(); } void QmitkConnectomicsStatisticsView::OnNetworkBalloonsNodeLabelsComboBoxCurrentIndexChanged( ) { QList nodes = this->GetDataManagerSelection(); if( nodes.size() != 1 ) { return; } mitk::DataNode::Pointer node = *nodes.begin(); if( node.IsNotNull() ) - { + { mitk::ConnectomicsNetwork* network = - dynamic_cast< mitk::ConnectomicsNetwork* >( node-> GetData() ); + dynamic_cast< mitk::ConnectomicsNetwork* >( node-> GetData() ); if( network ) - { + { std::string tempCurrentText = m_Controls-> networkBalloonsNodeLabelsComboBox-> - QComboBox::currentText().toStdString(); // get text of currently selected item. + QComboBox::currentText().toStdString(); // get text of currently selected item. if( tempCurrentText.size() > 3 && tempCurrentText.rfind( ":" ) != tempCurrentText.npos ) { // update chosenNode property. tempCurrentText = tempCurrentText.substr( tempCurrentText.rfind( ":" ) + 2 ); node-> SetProperty( mitk::connectomicsRenderingNodeChosenNodeName.c_str(), mitk::StringProperty::New( tempCurrentText.c_str() ) ); auto renderWindowPart = this->GetRenderWindowPart(); if (renderWindowPart) { renderWindowPart->ForceImmediateUpdate(); //RequestUpdate() is too slow. } } std::stringstream balloonTextStream; node-> Update(); if( node-> GetProperty( mitk::connectomicsRenderingBalloonTextName.c_str() ) != nullptr && node-> GetProperty( mitk::connectomicsRenderingBalloonNodeStatsName.c_str() ) != nullptr && tempCurrentText != "-1" ) { balloonTextStream << node-> GetProperty( mitk::connectomicsRenderingBalloonTextName.c_str() ) -> GetValueAsString() << node-> GetProperty( mitk::connectomicsRenderingBalloonNodeStatsName.c_str() ) -> GetValueAsString() << std::endl; QString balloonQString ( balloonTextStream.str().c_str() ); // setPlainText() overwrites, insertPlainText() appends. m_Controls-> networkBalloonsPlainTextEdit-> setPlainText( balloonQString ); } if( tempCurrentText == "-1" ) { m_Controls-> networkBalloonsPlainTextEdit-> setPlainText( "" ); } } } return; } -void QmitkConnectomicsStatisticsView::OnSelectionChanged(berry::IWorkbenchPart::Pointer /*part*/, const QList& nodes) +void QmitkConnectomicsStatisticsView::UpdateGui() { this->WipeDisplay(); - // Valid options are either - // 1 image (parcellation) - // - // 1 image (parcellation) - // 1 fiber bundle - // - // 1 network - if( nodes.size() > 2 ) - { - return; - } - - bool currentFormatUnknown(true); - // iterate all selected objects, adjust warning visibility - for (mitk::DataNode::Pointer node: nodes) + if (m_Controls->m_NetworkBox->GetSelectedNode().IsNotNull()) { - currentFormatUnknown = true; - - if( node.IsNotNull() ) - { // network section - mitk::ConnectomicsNetwork* network = dynamic_cast( node->GetData() ); - if( network ) - { - currentFormatUnknown = false; - if( nodes.size() != 1 ) - { - // only valid option is a single network - this->WipeDisplay(); - return; - } - - m_Controls->lblWarning->setVisible( false ); - m_Controls->inputImageOneNameLabel->setText(node->GetName().c_str()); - m_Controls->inputImageOneNameLabel->setVisible( true ); - m_Controls->inputImageOneLabel->setVisible( true ); - - { - std::stringstream statisticsStream; - - mitk::ConnectomicsStatisticsCalculator::Pointer calculator = mitk::ConnectomicsStatisticsCalculator::New(); - - calculator->SetNetwork( network ); - calculator->Update(); - - statisticsStream << "# Vertices: " << calculator->GetNumberOfVertices() << "\n"; - statisticsStream << "# Edges: " << calculator->GetNumberOfEdges() << "\n"; - statisticsStream << "Average Degree: " << calculator->GetAverageDegree() << "\n"; - statisticsStream << "Density: " << calculator->GetConnectionDensity() << "\n"; - statisticsStream << "Small Worldness: " << calculator->GetSmallWorldness() << "\n"; - statisticsStream << "Average Path Length: " << calculator->GetAveragePathLength() << "\n"; - statisticsStream << "Efficiency: " << (1 / calculator->GetAveragePathLength() ) << "\n"; - statisticsStream << "# Connected Components: " << calculator->GetNumberOfConnectedComponents() << "\n"; - statisticsStream << "Average Component Size: " << calculator->GetAverageComponentSize() << "\n"; - statisticsStream << "Largest Component Size: " << calculator->GetLargestComponentSize() << "\n"; - statisticsStream << "Average Clustering Coefficient: " << calculator->GetAverageClusteringCoefficientsC() << "\n"; - statisticsStream << "Average Vertex Betweenness Centrality: " << calculator->GetAverageVertexBetweennessCentrality() << "\n"; - statisticsStream << "Average Edge Betweenness Centrality: " << calculator->GetAverageEdgeBetweennessCentrality() << "\n"; - statisticsStream << "# Isolated Points: " << calculator->GetNumberOfIsolatedPoints() << "\n"; - statisticsStream << "# End Points: " << calculator->GetNumberOfEndPoints() << "\n"; - statisticsStream << "Diameter: " << calculator->GetDiameter() << "\n"; - statisticsStream << "Radius: " << calculator->GetRadius() << "\n"; - statisticsStream << "Average Eccentricity: " << calculator->GetAverageEccentricity() << "\n"; - statisticsStream << "# Central Points: " << calculator->GetNumberOfCentralPoints() << "\n"; - - QString statisticsString( statisticsStream.str().c_str() ); - m_Controls-> networkStatisticsPlainTextEdit-> setPlainText( statisticsString ); - } - - mitk::ConnectomicsNetwork::Pointer connectomicsNetwork( network ); - mitk::ConnectomicsHistogramsContainer *histogramContainer = histogramCache[ connectomicsNetwork ]; - if(histogramContainer) - { - m_Controls->betweennessNetworkHistogramCanvas->SetHistogram( histogramContainer->GetBetweennessHistogram() ); - m_Controls->degreeNetworkHistogramCanvas->SetHistogram( histogramContainer->GetDegreeHistogram() ); - m_Controls->shortestPathNetworkHistogramCanvas->SetHistogram( histogramContainer->GetShortestPathHistogram() ); - m_Controls->betweennessNetworkHistogramCanvas->DrawProfiles(); - m_Controls->degreeNetworkHistogramCanvas->DrawProfiles(); - m_Controls->shortestPathNetworkHistogramCanvas->DrawProfiles(); - } - - // For the balloon overlay: - if( node-> GetProperty( mitk::connectomicsRenderingBalloonAllNodeLabelsName.c_str() ) != nullptr ) - { // QComboBox with node label names and numbers. - QString allNodesLabel = node-> - GetProperty( mitk::connectomicsRenderingBalloonAllNodeLabelsName.c_str() )-> - GetValueAsString().c_str(); - QStringList allNodesLabelList = allNodesLabel.simplified().split( "," ); - allNodesLabelList.sort( Qt::CaseInsensitive ); - m_Controls-> networkBalloonsNodeLabelsComboBox-> QComboBox::addItem( "no node chosen: -1" ); - m_Controls-> networkBalloonsNodeLabelsComboBox-> QComboBox::addItems( allNodesLabelList ); - } - } - } // end network section - - if ( currentFormatUnknown ) + mitk::ConnectomicsNetwork* network = dynamic_cast( m_Controls->m_NetworkBox->GetSelectedNode()->GetData() ); + + m_Controls->inputImageOneLabel->setVisible( true ); + + std::stringstream statisticsStream; + + mitk::ConnectomicsStatisticsCalculator::Pointer calculator = mitk::ConnectomicsStatisticsCalculator::New(); + + calculator->SetNetwork( network ); + calculator->Update(); + + statisticsStream << "# Vertices: " << calculator->GetNumberOfVertices() << "\n"; + statisticsStream << "# Edges: " << calculator->GetNumberOfEdges() << "\n"; + statisticsStream << "Average Degree: " << calculator->GetAverageDegree() << "\n"; + statisticsStream << "Density: " << calculator->GetConnectionDensity() << "\n"; + statisticsStream << "Small Worldness: " << calculator->GetSmallWorldness() << "\n"; + statisticsStream << "Average Path Length: " << calculator->GetAveragePathLength() << "\n"; + statisticsStream << "Efficiency: " << (1 / calculator->GetAveragePathLength() ) << "\n"; + statisticsStream << "# Connected Components: " << calculator->GetNumberOfConnectedComponents() << "\n"; + statisticsStream << "Average Component Size: " << calculator->GetAverageComponentSize() << "\n"; + statisticsStream << "Largest Component Size: " << calculator->GetLargestComponentSize() << "\n"; + statisticsStream << "Average Clustering Coefficient: " << calculator->GetAverageClusteringCoefficientsC() << "\n"; + statisticsStream << "Average Vertex Betweenness Centrality: " << calculator->GetAverageVertexBetweennessCentrality() << "\n"; + statisticsStream << "Average Edge Betweenness Centrality: " << calculator->GetAverageEdgeBetweennessCentrality() << "\n"; + statisticsStream << "# Isolated Points: " << calculator->GetNumberOfIsolatedPoints() << "\n"; + statisticsStream << "# End Points: " << calculator->GetNumberOfEndPoints() << "\n"; + statisticsStream << "Diameter: " << calculator->GetDiameter() << "\n"; + statisticsStream << "Radius: " << calculator->GetRadius() << "\n"; + statisticsStream << "Average Eccentricity: " << calculator->GetAverageEccentricity() << "\n"; + statisticsStream << "# Central Points: " << calculator->GetNumberOfCentralPoints() << "\n"; + + QString statisticsString( statisticsStream.str().c_str() ); + m_Controls-> networkStatisticsPlainTextEdit-> setPlainText( statisticsString ); + + mitk::ConnectomicsNetwork::Pointer connectomicsNetwork( network ); + mitk::ConnectomicsHistogramsContainer *histogramContainer = histogramCache[ connectomicsNetwork ]; + if(histogramContainer) { - this->WipeDisplay(); - return; + m_Controls->betweennessNetworkHistogramCanvas->SetHistogram( histogramContainer->GetBetweennessHistogram() ); + m_Controls->degreeNetworkHistogramCanvas->SetHistogram( histogramContainer->GetDegreeHistogram() ); + m_Controls->shortestPathNetworkHistogramCanvas->SetHistogram( histogramContainer->GetShortestPathHistogram() ); + m_Controls->betweennessNetworkHistogramCanvas->DrawProfiles(); + m_Controls->degreeNetworkHistogramCanvas->DrawProfiles(); + m_Controls->shortestPathNetworkHistogramCanvas->DrawProfiles(); + } + + // For the balloon overlay: + if( m_Controls->m_NetworkBox->GetSelectedNode()->GetProperty( mitk::connectomicsRenderingBalloonAllNodeLabelsName.c_str() ) != nullptr ) + { // QComboBox with node label names and numbers. + QString allNodesLabel = m_Controls->m_NetworkBox->GetSelectedNode()-> + GetProperty( mitk::connectomicsRenderingBalloonAllNodeLabelsName.c_str() )-> + GetValueAsString().c_str(); + QStringList allNodesLabelList = allNodesLabel.simplified().split( "," ); + allNodesLabelList.sort( Qt::CaseInsensitive ); + m_Controls-> networkBalloonsNodeLabelsComboBox-> QComboBox::addItem( "no node chosen: -1" ); + m_Controls-> networkBalloonsNodeLabelsComboBox-> QComboBox::addItems( allNodesLabelList ); } - } // end for loop + } +} + +void QmitkConnectomicsStatisticsView::OnSelectionChanged(berry::IWorkbenchPart::Pointer /*part*/, const QList& ) +{ } diff --git a/Plugins/org.mitk.gui.qt.diffusionimaging.connectomics/src/internal/QmitkConnectomicsStatisticsView.h b/Plugins/org.mitk.gui.qt.diffusionimaging.connectomics/src/internal/QmitkConnectomicsStatisticsView.h index c216290956..b1f0aea112 100644 --- a/Plugins/org.mitk.gui.qt.diffusionimaging.connectomics/src/internal/QmitkConnectomicsStatisticsView.h +++ b/Plugins/org.mitk.gui.qt.diffusionimaging.connectomics/src/internal/QmitkConnectomicsStatisticsView.h @@ -1,80 +1,81 @@ /*=================================================================== 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. ===================================================================*/ #ifndef QmitkConnectomicsStatisticsView_h #define QmitkConnectomicsStatisticsView_h #include #include #include "ui_QmitkConnectomicsStatisticsViewControls.h" #include "mitkConnectomicsHistogramCache.h" // ####### ITK includes ####### #include /*! \brief QmitkConnectomicsStatisticsView This view provides the statistics GUI. */ class QmitkConnectomicsStatisticsView : public QmitkAbstractView { // this is needed for all Qt objects that should have a Qt meta-object // (everything that derives from QObject and wants to have signal/slots) Q_OBJECT public: static const std::string VIEW_ID; QmitkConnectomicsStatisticsView(); virtual ~QmitkConnectomicsStatisticsView(); virtual void CreateQtPartControl(QWidget *parent) override; /// /// Sets the focus to an internal widget. /// virtual void SetFocus() override; protected slots: void OnNetworkBalloonsNodeLabelsComboBoxCurrentIndexChanged( ); + void UpdateGui(); protected: // ####### Functions ####### /// \brief called by QmitkAbstractView when DataManager's selection has changed virtual void OnSelectionChanged(berry::IWorkbenchPart::Pointer part, const QList& nodes) override; /// \brief Wipe display and empty statistics void WipeDisplay(); // ####### Variables ####### Ui::QmitkConnectomicsStatisticsViewControls* m_Controls; /// Cache for histograms mitk::ConnectomicsHistogramCache histogramCache; }; #endif // _QMITKBRAINNETWORKANALYSISVIEW_H_INCLUDED diff --git a/Plugins/org.mitk.gui.qt.diffusionimaging.connectomics/src/internal/QmitkConnectomicsStatisticsViewControls.ui b/Plugins/org.mitk.gui.qt.diffusionimaging.connectomics/src/internal/QmitkConnectomicsStatisticsViewControls.ui index b3d941a458..15bae3b3f2 100644 --- a/Plugins/org.mitk.gui.qt.diffusionimaging.connectomics/src/internal/QmitkConnectomicsStatisticsViewControls.ui +++ b/Plugins/org.mitk.gui.qt.diffusionimaging.connectomics/src/internal/QmitkConnectomicsStatisticsViewControls.ui @@ -1,296 +1,287 @@ QmitkConnectomicsStatisticsViewControls 0 0 557 1218 0 0 QmitkTemplate 25 - Data + Input Data 0 0 0 0 - - - QLabel { color: rgb(255, 0, 0) } - - - Select a network! - - - - Network: - - - - - - + Network Statistics 0 0 0 0 true 0 0 true Informational Balloons. 0 0 0 0 false PointingHandCursor Qt::RightToLeft true false false -1 12 QComboBox::InsertAlphabetically 0 0 MS Shell Dlg 2 8 IBeamCursor false true Histograms 0 0 0 0 0 0 50 150 50 150 50 150 Qt::Vertical 20 40 + + QmitkDataStorageComboBox + QComboBox +
QmitkDataStorageComboBox.h
+ QmitkNetworkHistogramCanvas QWidget
internal/QmitkNetworkHistogramCanvas.h
1 networkBalloonsNodeLabelsComboBox currentIndexChanged(int) networkBalloonsNodeLabelsComboBox setCurrentIndex(int) 360 409 360 409 diff --git a/Plugins/org.mitk.gui.qt.diffusionimaging/src/internal/QmitkControlVisualizationPropertiesView.cpp b/Plugins/org.mitk.gui.qt.diffusionimaging/src/internal/QmitkControlVisualizationPropertiesView.cpp index 3eb07f66bd..3af7534c2d 100644 --- a/Plugins/org.mitk.gui.qt.diffusionimaging/src/internal/QmitkControlVisualizationPropertiesView.cpp +++ b/Plugins/org.mitk.gui.qt.diffusionimaging/src/internal/QmitkControlVisualizationPropertiesView.cpp @@ -1,1274 +1,1291 @@ /*=================================================================== 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 "QmitkControlVisualizationPropertiesView.h" #include "mitkNodePredicateDataType.h" #include "mitkDataNodeObject.h" #include "mitkOdfNormalizationMethodProperty.h" #include "mitkOdfScaleByProperty.h" #include "mitkResliceMethodProperty.h" #include "mitkRenderingManager.h" #include "mitkTbssImage.h" #include "mitkPlanarFigure.h" #include "mitkFiberBundle.h" #include "QmitkDataStorageComboBox.h" #include "mitkPlanarFigureInteractor.h" #include #include #include #include #include #include "usModuleRegistry.h" #include #include #include "mitkPlaneGeometry.h" #include #include #include #include "berryIWorkbenchWindow.h" #include "berryIWorkbenchPage.h" #include "berryISelectionService.h" #include "berryConstants.h" #include "berryPlatformUI.h" #include "itkRGBAPixel.h" #include #include "qwidgetaction.h" #include "qcolordialog.h" #include #include #include #define ROUND(a) ((a)>0 ? (int)((a)+0.5) : -(int)(0.5-(a))) const std::string QmitkControlVisualizationPropertiesView::VIEW_ID = "org.mitk.views.controlvisualizationpropertiesview"; using namespace berry; QmitkControlVisualizationPropertiesView::QmitkControlVisualizationPropertiesView() : QmitkAbstractView(), m_Controls(nullptr), m_CurrentSelection(0), m_IconTexOFF(new QIcon(":/QmitkDiffusionImaging/texIntOFFIcon.png")), m_IconTexON(new QIcon(":/QmitkDiffusionImaging/texIntONIcon.png")), m_IconGlyOFF_T(new QIcon(":/QmitkDiffusionImaging/glyphsoff_T.png")), m_IconGlyON_T(new QIcon(":/QmitkDiffusionImaging/glyphson_T.png")), m_IconGlyOFF_C(new QIcon(":/QmitkDiffusionImaging/glyphsoff_C.png")), m_IconGlyON_C(new QIcon(":/QmitkDiffusionImaging/glyphson_C.png")), m_IconGlyOFF_S(new QIcon(":/QmitkDiffusionImaging/glyphsoff_S.png")), m_IconGlyON_S(new QIcon(":/QmitkDiffusionImaging/glyphson_S.png")), m_GlyIsOn_T(false), m_GlyIsOn_C(false), m_GlyIsOn_S(false), m_CurrentPickingNode(0), m_ColorPropertyObserverTag(0), m_OpacityPropertyObserverTag(0) { currentThickSlicesMode = 1; m_MyMenu = nullptr; int numThread = itk::MultiThreader::GetGlobalMaximumNumberOfThreads(); if (numThread > 12) numThread = 12; itk::MultiThreader::SetGlobalDefaultNumberOfThreads(numThread); } QmitkControlVisualizationPropertiesView::~QmitkControlVisualizationPropertiesView() { } void QmitkControlVisualizationPropertiesView::OnThickSlicesModeSelected( QAction* action ) { currentThickSlicesMode = action->data().toInt(); switch( currentThickSlicesMode ) { case 0: // toInt() returns 0 'otherwise'. return; // dummy code/todo: implement stuff. case 1: this->m_Controls->m_TSMenu->setText("MIP"); break; case 2: this->m_Controls->m_TSMenu->setText("SUM"); break; case 3: this->m_Controls->m_TSMenu->setText("WEIGH"); break; default: return; // dummy code/todo: implement stuff. } if (auto renderWindowPart = this->GetRenderWindowPart(OPEN)) { /// TODO There is no way to access the individual crosshair planes through the render window part API. /// There could be a new 'mitk::DataNode* mitk::ILinkedRenderWindowPart::GetSlicingPlane(const std::string& name) const' /// function for this purpose. For the time being, I comment out the lines below, but they are valid /// and they have to be re-enabled after the crosshair planes can be accessed again. // mitk::DataNode* n; // n = renderWindowPart->GetSlicingPlane("axial"); // if (n) { n->SetProperty( "reslice.thickslices", mitk::ResliceMethodProperty::New( currentThickSlicesMode ) ); } // n = renderWindowPart->GetSlicingPlane("sagittal"); // if (n) { n->SetProperty( "reslice.thickslices", mitk::ResliceMethodProperty::New( currentThickSlicesMode ) ); } // n = renderWindowPart->GetSlicingPlane("coronal"); // if (n) { n->SetProperty( "reslice.thickslices", mitk::ResliceMethodProperty::New( currentThickSlicesMode ) ); } mitk::BaseRenderer::Pointer renderer; renderer = renderWindowPart->GetQmitkRenderWindow("axial")->GetRenderer(); if (renderer.IsNotNull()) { renderer->SendUpdateSlice(); } renderer = renderWindowPart->GetQmitkRenderWindow("sagittal")->GetRenderer(); if (renderer.IsNotNull()) { renderer->SendUpdateSlice(); } renderer = renderWindowPart->GetQmitkRenderWindow("coronal")->GetRenderer(); if (renderer.IsNotNull()) { renderer->SendUpdateSlice(); } renderer->GetRenderingManager()->RequestUpdateAll(); } } void QmitkControlVisualizationPropertiesView::OnTSNumChanged( int num ) { if (auto renderWindowPart = this->GetRenderWindowPart(OPEN)) { /// TODO There is no way to access the individual crosshair planes through the render window part API. /// There could be a new 'mitk::DataNode* mitk::ILinkedRenderWindowPart::GetSlicingPlane(const std::string& name) const' /// function for this purpose. For the time being, I comment out the lines below, but they are valid /// and they have to be re-enabled after the crosshair planes can be accessed again. // if(num==0) // { // mitk::DataNode* n; // n = renderWindowPart->GetSlicingPlane("axial"); // if(n) n->SetProperty( "reslice.thickslices", mitk::ResliceMethodProperty::New( 0 ) ); // if(n) n->SetProperty( "reslice.thickslices.num", mitk::IntProperty::New( num ) ); // if(n) n->SetProperty( "reslice.thickslices.showarea", mitk::BoolProperty::New( false ) ); // // n = renderWindowPart->GetSlicingPlane("sagittal"); // if(n) n->SetProperty( "reslice.thickslices", mitk::ResliceMethodProperty::New( 0 ) ); // if(n) n->SetProperty( "reslice.thickslices.num", mitk::IntProperty::New( num ) ); // if(n) n->SetProperty( "reslice.thickslices.showarea", mitk::BoolProperty::New( false ) ); // // n = renderWindowPart->GetSlicingPlane("coronal"); // if(n) n->SetProperty( "reslice.thickslices", mitk::ResliceMethodProperty::New( 0 ) ); // if(n) n->SetProperty( "reslice.thickslices.num", mitk::IntProperty::New( num ) ); // if(n) n->SetProperty( "reslice.thickslices.showarea", mitk::BoolProperty::New( false ) ); // } // else // { // mitk::DataNode* n; // n = renderWindowPart->GetSlicingPlane("axial"); // if(n) n->SetProperty( "reslice.thickslices", mitk::ResliceMethodProperty::New( currentThickSlicesMode ) ); // if(n) n->SetProperty( "reslice.thickslices.num", mitk::IntProperty::New( num ) ); // if(n) n->SetProperty( "reslice.thickslices.showarea", mitk::BoolProperty::New( (num>0) ) ); // // n = renderWindowPart->GetSlicingPlane("sagittal"); // if(n) n->SetProperty( "reslice.thickslices", mitk::ResliceMethodProperty::New( currentThickSlicesMode ) ); // if(n) n->SetProperty( "reslice.thickslices.num", mitk::IntProperty::New( num ) ); // if(n) n->SetProperty( "reslice.thickslices.showarea", mitk::BoolProperty::New( (num>0) ) ); // // n = renderWindowPart->GetSlicingPlane("coronal"); // if(n) n->SetProperty( "reslice.thickslices", mitk::ResliceMethodProperty::New( currentThickSlicesMode ) ); // if(n) n->SetProperty( "reslice.thickslices.num", mitk::IntProperty::New( num ) ); // if(n) n->SetProperty( "reslice.thickslices.showarea", mitk::BoolProperty::New( (num>0) ) ); // } m_TSLabel->setText(QString::number( num*2 + 1 )); mitk::BaseRenderer::Pointer renderer; renderer = renderWindowPart->GetQmitkRenderWindow("axial")->GetRenderer(); if(renderer.IsNotNull()) { renderer->SendUpdateSlice(); } renderer = nullptr; renderer = renderWindowPart->GetQmitkRenderWindow("sagittal")->GetRenderer(); if(renderer.IsNotNull()) { renderer->SendUpdateSlice(); } renderer = nullptr; renderer = renderWindowPart->GetQmitkRenderWindow("coronal")->GetRenderer(); if(renderer.IsNotNull()) { renderer->SendUpdateSlice(); } renderer->GetRenderingManager()->RequestUpdateAll(mitk::RenderingManager::REQUEST_UPDATE_2DWINDOWS); } } void QmitkControlVisualizationPropertiesView::CreateQtPartControl(QWidget *parent) { if (!m_Controls) { // create GUI widgets m_Controls = new Ui::QmitkControlVisualizationPropertiesViewControls; m_Controls->setupUi(parent); this->CreateConnections(); // hide warning (ODFs in rotated planes) m_Controls->m_lblRotatedPlanesWarning->hide(); m_MyMenu = new QMenu(parent); m_Controls->m_TSMenu->setMenu( m_MyMenu ); QIcon iconFiberFade(":/QmitkDiffusionImaging/MapperEfx2D.png"); m_Controls->m_FiberFading2D->setIcon(iconFiberFade); #ifndef DIFFUSION_IMAGING_EXTENDED int size = m_Controls->m_AdditionalScaling->count(); for(int t=0; tm_AdditionalScaling->itemText(t).toStdString() == "Scale by ASR") { m_Controls->m_AdditionalScaling->removeItem(t); } } #endif m_Controls->m_NormalizationFrame->setVisible(false); m_Controls->m_Crosshair->setVisible(false); mitk::IRenderWindowPart* renderWindow = this->GetRenderWindowPart(); if (renderWindow) { m_SliceChangeListener.RenderWindowPartActivated(renderWindow); connect(&m_SliceChangeListener, SIGNAL(SliceChanged()), this, SLOT(OnSliceChanged())); } + + connect(m_Controls->m_SetColor1, SIGNAL(clicked()), this, SLOT(SetColor())); + connect(m_Controls->m_SetColor2, SIGNAL(clicked()), this, SLOT(SetColor())); + } +} + +void QmitkControlVisualizationPropertiesView::SetColor() +{ + if(m_SelectedNode) + { + QColor c = QColorDialog::getColor(); + float rgb[3]; + rgb[0] = c.redF(); + rgb[1] = c.greenF(); + rgb[2] = c.blueF(); + m_SelectedNode->SetColor(rgb); + mitk::RenderingManager::GetInstance()->RequestUpdateAll(); } } void QmitkControlVisualizationPropertiesView::SetFocus() { m_Controls->m_TSMenu->setFocus(); } void QmitkControlVisualizationPropertiesView::SliceRotation(const itk::EventObject&) { // test if plane rotated if( m_GlyIsOn_T || m_GlyIsOn_C || m_GlyIsOn_S ) { if( this->IsPlaneRotated() ) { // show label m_Controls->m_lblRotatedPlanesWarning->show(); } else { //hide label m_Controls->m_lblRotatedPlanesWarning->hide(); } } } void QmitkControlVisualizationPropertiesView::NodeRemoved(const mitk::DataNode* /*node*/) { } #include void QmitkControlVisualizationPropertiesView::CreateConnections() { if ( m_Controls ) { connect( (QObject*)(m_Controls->m_VisibleOdfsON_T), SIGNAL(clicked()), this, SLOT(VisibleOdfsON_T()) ); connect( (QObject*)(m_Controls->m_VisibleOdfsON_S), SIGNAL(clicked()), this, SLOT(VisibleOdfsON_S()) ); connect( (QObject*)(m_Controls->m_VisibleOdfsON_C), SIGNAL(clicked()), this, SLOT(VisibleOdfsON_C()) ); connect( (QObject*)(m_Controls->m_ShowMaxNumber), SIGNAL(editingFinished()), this, SLOT(ShowMaxNumberChanged()) ); connect( (QObject*)(m_Controls->m_NormalizationDropdown), SIGNAL(currentIndexChanged(int)), this, SLOT(NormalizationDropdownChanged(int)) ); connect( (QObject*)(m_Controls->m_ScalingFactor), SIGNAL(valueChanged(double)), this, SLOT(ScalingFactorChanged(double)) ); connect( (QObject*)(m_Controls->m_AdditionalScaling), SIGNAL(currentIndexChanged(int)), this, SLOT(AdditionalScaling(int)) ); connect((QObject*) m_Controls->m_ResetColoring, SIGNAL(clicked()), (QObject*) this, SLOT(ResetColoring())); connect((QObject*) m_Controls->m_ResetColoring2, SIGNAL(clicked()), (QObject*) this, SLOT(ResetColoring())); connect((QObject*) m_Controls->m_FiberFading2D, SIGNAL(clicked()), (QObject*) this, SLOT( Fiber2DfadingEFX() ) ); connect((QObject*) m_Controls->m_FiberThicknessSlider, SIGNAL(sliderReleased()), (QObject*) this, SLOT( FiberSlicingThickness2D() ) ); connect((QObject*) m_Controls->m_FiberThicknessSlider, SIGNAL(valueChanged(int)), (QObject*) this, SLOT( FiberSlicingUpdateLabel(int) )); connect((QObject*) m_Controls->m_Crosshair, SIGNAL(clicked()), (QObject*) this, SLOT(SetInteractor())); connect((QObject*) m_Controls->m_LineWidth, SIGNAL(editingFinished()), (QObject*) this, SLOT(LineWidthChanged())); connect((QObject*) m_Controls->m_TubeWidth, SIGNAL(editingFinished()), (QObject*) this, SLOT(TubeRadiusChanged())); connect( (QObject*) m_Controls->m_OdfColorBox, SIGNAL(currentIndexChanged(int)), (QObject*) this, SLOT(OnColourisationModeChanged() ) ); connect((QObject*) m_Controls->m_Clip0, SIGNAL(toggled(bool)), (QObject*) this, SLOT(Toggle3DClipping(bool))); connect((QObject*) m_Controls->m_Clip1, SIGNAL(toggled(bool)), (QObject*) this, SLOT(Toggle3DClipping(bool))); connect((QObject*) m_Controls->m_Clip2, SIGNAL(toggled(bool)), (QObject*) this, SLOT(Toggle3DClipping(bool))); connect((QObject*) m_Controls->m_Clip3, SIGNAL(toggled(bool)), (QObject*) this, SLOT(Toggle3DClipping(bool))); connect((QObject*) m_Controls->m_FlipClipBox, SIGNAL(stateChanged(int)), (QObject*) this, SLOT(Toggle3DClipping())); connect((QObject*) m_Controls->m_FlipPeaksButton, SIGNAL(clicked()), (QObject*) this, SLOT(FlipPeaks())); } } // set diffusion image channel to b0 volume void QmitkControlVisualizationPropertiesView::NodeAdded(const mitk::DataNode *node) { mitk::DataNode* notConst = const_cast(node); bool isDiffusionImage( mitk::DiffusionPropertyHelper::IsDiffusionWeightedImage( dynamic_cast(node->GetData())) ); if (isDiffusionImage) { mitk::Image::Pointer dimg = dynamic_cast(notConst->GetData()); // if there is no b0 image in the dataset, the GetB0Indices() returns a vector of size 0 // and hence we cannot set the Property directly to .front() int displayChannelPropertyValue = 0; mitk::BValueMapProperty* bmapproperty = static_cast (dimg->GetProperty(mitk::DiffusionPropertyHelper::BVALUEMAPPROPERTYNAME.c_str()).GetPointer() ); mitk::DiffusionPropertyHelper::BValueMapType map = bmapproperty->GetBValueMap(); if( map[0].size() > 0) { displayChannelPropertyValue = map[0].front(); } notConst->SetIntProperty("DisplayChannel", displayChannelPropertyValue ); } } /* OnSelectionChanged is registered to SelectionService, therefore no need to implement SelectionService Listener explicitly */ void QmitkControlVisualizationPropertiesView::OnSelectionChanged(berry::IWorkbenchPart::Pointer /*part*/, const QList& nodes) { m_Controls->m_BundleControlsFrame->setVisible(false); m_Controls->m_ImageControlsFrame->setVisible(false); m_Controls->m_PeakImageFrame->setVisible(false); if (nodes.size()>1) // only do stuff if one node is selected return; m_Controls->m_NumberGlyphsFrame->setVisible(false); m_Controls->m_GlyphFrame->setVisible(false); m_Controls->m_TSMenu->setVisible(false); m_SelectedNode = nullptr; int numOdfImages = 0; for (mitk::DataNode::Pointer node: nodes) { if(node.IsNull()) continue; mitk::BaseData* nodeData = node->GetData(); if(nodeData == nullptr) continue; m_SelectedNode = node; if (dynamic_cast(nodeData)) { m_Controls->m_PeakImageFrame->setVisible(true); if (m_Color.IsNotNull()) m_Color->RemoveObserver(m_ColorPropertyObserverTag); itk::ReceptorMemberCommand::Pointer command = itk::ReceptorMemberCommand::New(); command->SetCallbackFunction( this, &QmitkControlVisualizationPropertiesView::SetCustomColor ); m_Color = dynamic_cast(node->GetProperty("color", nullptr)); if (m_Color.IsNotNull()) m_ColorPropertyObserverTag = m_Color->AddObserver( itk::ModifiedEvent(), command ); } else if (dynamic_cast(nodeData)) { int Fiber3DClippingPlaneId = -1; m_SelectedNode->GetPropertyValue("Fiber3DClippingPlaneId",Fiber3DClippingPlaneId); switch(Fiber3DClippingPlaneId) { case 0: m_Controls->m_Clip0->setChecked(1); break; case 1: m_Controls->m_Clip1->setChecked(1); break; case 2: m_Controls->m_Clip2->setChecked(1); break; case 3: m_Controls->m_Clip3->setChecked(1); break; default : m_Controls->m_Clip0->setChecked(1); } // handle fiber property observers if (m_Color.IsNotNull()) m_Color->RemoveObserver(m_ColorPropertyObserverTag); itk::ReceptorMemberCommand::Pointer command = itk::ReceptorMemberCommand::New(); command->SetCallbackFunction( this, &QmitkControlVisualizationPropertiesView::SetCustomColor ); m_Color = dynamic_cast(node->GetProperty("color", nullptr)); if (m_Color.IsNotNull()) m_ColorPropertyObserverTag = m_Color->AddObserver( itk::ModifiedEvent(), command ); m_Controls->m_BundleControlsFrame->setVisible(true); if(m_CurrentPickingNode != 0 && node.GetPointer() != m_CurrentPickingNode) { m_Controls->m_Crosshair->setEnabled(false); } else { m_Controls->m_Crosshair->setEnabled(true); } int width; node->GetIntProperty("shape.linewidth", width); m_Controls->m_LineWidth->setValue(width); float radius; node->GetFloatProperty("shape.tuberadius", radius); m_Controls->m_TubeWidth->setValue(radius); float range; node->GetFloatProperty("Fiber2DSliceThickness",range); mitk::FiberBundle::Pointer fib = dynamic_cast(node->GetData()); mitk::BaseGeometry::Pointer geo = fib->GetGeometry(); mitk::ScalarType max = geo->GetExtentInMM(0); max = std::max(max, geo->GetExtentInMM(1)); max = std::max(max, geo->GetExtentInMM(2)); m_Controls->m_FiberThicknessSlider->setMaximum(max * 10); m_Controls->m_FiberThicknessSlider->setValue(range * 10); } else if(dynamic_cast(nodeData) || dynamic_cast(nodeData)) { m_Controls->m_ImageControlsFrame->setVisible(true); m_Controls->m_NumberGlyphsFrame->setVisible(true); m_Controls->m_GlyphFrame->setVisible(true); m_Controls->m_NormalizationFrame->setVisible(true); if(m_NodeUsedForOdfVisualization.IsNotNull()) { m_NodeUsedForOdfVisualization->SetBoolProperty("VisibleOdfs_S", false); m_NodeUsedForOdfVisualization->SetBoolProperty("VisibleOdfs_C", false); m_NodeUsedForOdfVisualization->SetBoolProperty("VisibleOdfs_T", false); } m_NodeUsedForOdfVisualization = node; m_NodeUsedForOdfVisualization->SetBoolProperty("VisibleOdfs_S", m_GlyIsOn_S); m_NodeUsedForOdfVisualization->SetBoolProperty("VisibleOdfs_C", m_GlyIsOn_C); m_NodeUsedForOdfVisualization->SetBoolProperty("VisibleOdfs_T", m_GlyIsOn_T); if (dynamic_cast(nodeData)) { m_Controls->m_NormalizationDropdown->setVisible(false); m_Controls->m_NormalizationLabel->setVisible(false); } else { m_Controls->m_NormalizationDropdown->setVisible(true); m_Controls->m_NormalizationLabel->setVisible(true); } int val; node->GetIntProperty("ShowMaxNumber", val); m_Controls->m_ShowMaxNumber->setValue(val); m_Controls->m_NormalizationDropdown ->setCurrentIndex(dynamic_cast(node->GetProperty("Normalization")) ->GetValueAsId()); float fval; node->GetFloatProperty("Scaling",fval); m_Controls->m_ScalingFactor->setValue(fval); m_Controls->m_AdditionalScaling ->setCurrentIndex(dynamic_cast(node->GetProperty("ScaleBy"))->GetValueAsId()); bool switchTensorViewValue = false; node->GetBoolProperty( "DiffusionCore.Rendering.OdfVtkMapper.SwitchTensorView", switchTensorViewValue ); bool colourisationModeBit = false; node->GetBoolProperty("DiffusionCore.Rendering.OdfVtkMapper.ColourisationModeBit", colourisationModeBit ); m_Controls->m_OdfColorBox->setCurrentIndex(colourisationModeBit); numOdfImages++; } else if(dynamic_cast(nodeData)) { PlanarFigureFocus(); } else if( dynamic_cast(nodeData) ) { m_Controls->m_ImageControlsFrame->setVisible(true); m_Controls->m_TSMenu->setVisible(true); } } if( nodes.empty() ) { return; } mitk::DataNode::Pointer node = nodes.at(0); if( node.IsNull() ) { return; } QMenu *myMenu = m_MyMenu; myMenu->clear(); QActionGroup* thickSlicesActionGroup = new QActionGroup(myMenu); thickSlicesActionGroup->setExclusive(true); int currentTSMode = 0; { mitk::ResliceMethodProperty::Pointer m = dynamic_cast(node->GetProperty( "reslice.thickslices" )); if( m.IsNotNull() ) currentTSMode = m->GetValueAsId(); } int maxTS = 30; for (auto node: nodes) { mitk::Image* image = dynamic_cast(node->GetData()); if (image) { int size = std::max(image->GetDimension(0), std::max(image->GetDimension(1), image->GetDimension(2))); if (size>maxTS) { maxTS=size; } } } maxTS /= 2; int currentNum = 0; { mitk::IntProperty::Pointer m = dynamic_cast(node->GetProperty( "reslice.thickslices.num" )); if( m.IsNotNull() ) { currentNum = m->GetValue(); if(currentNum < 0) { currentNum = 0; } if(currentNum > maxTS) { currentNum = maxTS; } } } if(currentTSMode==0) { currentNum=0; } QSlider *m_TSSlider = new QSlider(myMenu); m_TSSlider->setMinimum(0); m_TSSlider->setMaximum(maxTS-1); m_TSSlider->setValue(currentNum); m_TSSlider->setOrientation(Qt::Horizontal); connect( m_TSSlider, SIGNAL( valueChanged(int) ), this, SLOT( OnTSNumChanged(int) ) ); QHBoxLayout* _TSLayout = new QHBoxLayout; _TSLayout->setContentsMargins(4,4,4,4); _TSLayout->addWidget(m_TSSlider); _TSLayout->addWidget(m_TSLabel=new QLabel(QString::number(currentNum*2+1),myMenu)); QWidget* _TSWidget = new QWidget; _TSWidget->setLayout(_TSLayout); QActionGroup* thickSliceModeActionGroup = new QActionGroup(myMenu); thickSliceModeActionGroup->setExclusive(true); QWidgetAction *m_TSSliderAction = new QWidgetAction(myMenu); m_TSSliderAction->setDefaultWidget(_TSWidget); myMenu->addAction(m_TSSliderAction); QAction* mipThickSlicesAction = new QAction(myMenu); mipThickSlicesAction->setActionGroup(thickSliceModeActionGroup); mipThickSlicesAction->setText("MIP (max. intensity proj.)"); mipThickSlicesAction->setCheckable(true); mipThickSlicesAction->setChecked(currentThickSlicesMode==1); mipThickSlicesAction->setData(1); myMenu->addAction( mipThickSlicesAction ); QAction* sumThickSlicesAction = new QAction(myMenu); sumThickSlicesAction->setActionGroup(thickSliceModeActionGroup); sumThickSlicesAction->setText("SUM (sum intensity proj.)"); sumThickSlicesAction->setCheckable(true); sumThickSlicesAction->setChecked(currentThickSlicesMode==2); sumThickSlicesAction->setData(2); myMenu->addAction( sumThickSlicesAction ); QAction* weightedThickSlicesAction = new QAction(myMenu); weightedThickSlicesAction->setActionGroup(thickSliceModeActionGroup); weightedThickSlicesAction->setText("WEIGHTED (gaussian proj.)"); weightedThickSlicesAction->setCheckable(true); weightedThickSlicesAction->setChecked(currentThickSlicesMode==3); weightedThickSlicesAction->setData(3); myMenu->addAction( weightedThickSlicesAction ); mitk::RenderingManager::GetInstance()->RequestUpdateAll(); connect( thickSliceModeActionGroup, SIGNAL(triggered(QAction*)), this, SLOT(OnThickSlicesModeSelected(QAction*)) ); } void QmitkControlVisualizationPropertiesView::VisibleOdfsON_S() { m_GlyIsOn_S = m_Controls->m_VisibleOdfsON_S->isChecked(); if (m_NodeUsedForOdfVisualization.IsNull()) { MITK_WARN << "ODF visualization activated but m_NodeUsedForOdfVisualization is nullptr"; return; } m_NodeUsedForOdfVisualization->SetBoolProperty("VisibleOdfs_S", m_GlyIsOn_S); mitk::RenderingManager::GetInstance()->RequestUpdateAll(); } void QmitkControlVisualizationPropertiesView::Visible() { mitk::IRenderWindowPart* renderWindow = this->GetRenderWindowPart(); if (renderWindow) { m_SliceChangeListener.RenderWindowPartActivated(renderWindow); connect(&m_SliceChangeListener, SIGNAL(SliceChanged()), this, SLOT(OnSliceChanged())); } } void QmitkControlVisualizationPropertiesView::Hidden() { } void QmitkControlVisualizationPropertiesView::Activated() { mitk::IRenderWindowPart* renderWindow = this->GetRenderWindowPart(); if (renderWindow) { m_SliceChangeListener.RenderWindowPartActivated(renderWindow); connect(&m_SliceChangeListener, SIGNAL(SliceChanged()), this, SLOT(OnSliceChanged())); } } void QmitkControlVisualizationPropertiesView::Deactivated() { } void QmitkControlVisualizationPropertiesView::FlipPeaks() { if (m_SelectedNode.IsNull() || dynamic_cast(m_SelectedNode->GetData())==nullptr) return; std::string name = m_SelectedNode->GetName(); mitk::Image::Pointer image = dynamic_cast(m_SelectedNode->GetData()); typedef mitk::ImageToItk< mitk::PeakImage::ItkPeakImageType > CasterType; CasterType::Pointer caster = CasterType::New(); caster->SetInput(image); caster->Update(); mitk::PeakImage::ItkPeakImageType::Pointer itkImg = caster->GetOutput(); itk::FlipPeaksFilter< float >::Pointer flipper = itk::FlipPeaksFilter< float >::New(); flipper->SetInput(itkImg); flipper->SetFlipX(m_Controls->m_FlipPeaksX->isChecked()); flipper->SetFlipY(m_Controls->m_FlipPeaksY->isChecked()); flipper->SetFlipZ(m_Controls->m_FlipPeaksZ->isChecked()); flipper->Update(); mitk::Image::Pointer resultImage = dynamic_cast(mitk::PeakImage::New().GetPointer()); mitk::CastToMitkImage(flipper->GetOutput(), resultImage); resultImage->SetVolume(flipper->GetOutput()->GetBufferPointer()); m_SelectedNode->SetData(resultImage); m_SelectedNode->SetName(name); mitk::RenderingManager::GetInstance()->RequestUpdateAll(); } void QmitkControlVisualizationPropertiesView::Toggle3DClipping(bool enabled) { if (!enabled || m_SelectedNode.IsNull() || dynamic_cast(m_SelectedNode->GetData())==nullptr) return; m_SelectedNode->SetBoolProperty( "Fiber3DClippingPlaneFlip", m_Controls->m_FlipClipBox->isChecked() ); if (m_Controls->m_Clip0->isChecked()) { m_SelectedNode->SetIntProperty( "Fiber3DClippingPlaneId", 0 ); Set3DClippingPlane(true, m_SelectedNode, ""); } else if (m_Controls->m_Clip1->isChecked()) { m_SelectedNode->SetIntProperty( "Fiber3DClippingPlaneId", 1 ); Set3DClippingPlane(false, m_SelectedNode, "axial"); } else if (m_Controls->m_Clip2->isChecked()) { m_SelectedNode->SetIntProperty( "Fiber3DClippingPlaneId", 2 ); Set3DClippingPlane(false, m_SelectedNode, "sagittal"); } else if (m_Controls->m_Clip3->isChecked()) { m_SelectedNode->SetIntProperty( "Fiber3DClippingPlaneId", 3 ); Set3DClippingPlane(false, m_SelectedNode, "coronal"); } mitk::RenderingManager::GetInstance()->RequestUpdateAll(); } void QmitkControlVisualizationPropertiesView::OnSliceChanged() { mitk::DataStorage::SetOfObjects::ConstPointer nodes = this->GetDataStorage()->GetAll(); for (unsigned int i=0; iSize(); ++i) { mitk::DataNode::Pointer node = nodes->GetElement(i); int plane_id = -1; node->GetIntProperty("Fiber3DClippingPlaneId", plane_id); if (plane_id==1) Set3DClippingPlane(false, node, "axial"); else if (plane_id==2) Set3DClippingPlane(false, node, "sagittal"); else if (plane_id==3) Set3DClippingPlane(false, node, "coronal"); } mitk::RenderingManager::GetInstance()->RequestUpdateAll(); } void QmitkControlVisualizationPropertiesView::Set3DClippingPlane(bool disable, mitk::DataNode* node, std::string plane) { mitk::IRenderWindowPart* renderWindow = this->GetRenderWindowPart(); if (renderWindow && node && dynamic_cast(node->GetData())) { mitk::Vector3D planeNormal; planeNormal.Fill(0.0); if (!disable) { mitk::SliceNavigationController* slicer = renderWindow->GetQmitkRenderWindow(QString(plane.c_str()))->GetSliceNavigationController(); mitk::PlaneGeometry::ConstPointer planeGeo = slicer->GetCurrentPlaneGeometry(); //generate according cutting planes based on the view position planeNormal = planeGeo->GetNormal(); float tmp1 = planeGeo->GetOrigin()[0] * planeNormal[0]; float tmp2 = planeGeo->GetOrigin()[1] * planeNormal[1]; float tmp3 = planeGeo->GetOrigin()[2] * planeNormal[2]; float distance = tmp1 + tmp2 + tmp3; //attention, correct normalvector planeNormal *= distance; if (distance<0) node->SetBoolProperty( "Fiber3DClippingPlaneSecondFlip", true ); else node->SetBoolProperty( "Fiber3DClippingPlaneSecondFlip", false ); } node->SetProperty( "Fiber3DClippingPlane", mitk::Vector3DProperty::New( planeNormal ) ); dynamic_cast(node->GetData())->RequestUpdate(); } } void QmitkControlVisualizationPropertiesView::VisibleOdfsON_T() { m_GlyIsOn_T = m_Controls->m_VisibleOdfsON_T->isChecked(); if (m_NodeUsedForOdfVisualization.IsNull()) { MITK_WARN << "ODF visualization activated but m_NodeUsedForOdfVisualization is nullptr"; return; } m_NodeUsedForOdfVisualization->SetBoolProperty("VisibleOdfs_T", m_GlyIsOn_T); mitk::RenderingManager::GetInstance()->RequestUpdateAll(); } void QmitkControlVisualizationPropertiesView::VisibleOdfsON_C() { m_GlyIsOn_C = m_Controls->m_VisibleOdfsON_C->isChecked(); if (m_NodeUsedForOdfVisualization.IsNull()) { MITK_WARN << "ODF visualization activated but m_NodeUsedForOdfVisualization is nullptr"; return; } m_NodeUsedForOdfVisualization->SetBoolProperty("VisibleOdfs_C", m_GlyIsOn_C); mitk::RenderingManager::GetInstance()->RequestUpdateAll(); } bool QmitkControlVisualizationPropertiesView::IsPlaneRotated() { mitk::Image* currentImage = dynamic_cast( m_NodeUsedForOdfVisualization->GetData() ); if( currentImage == nullptr ) { MITK_ERROR << " Casting problems. Returning false"; return false; } mitk::Vector3D imageNormal0 = currentImage->GetSlicedGeometry()->GetAxisVector(0); mitk::Vector3D imageNormal1 = currentImage->GetSlicedGeometry()->GetAxisVector(1); mitk::Vector3D imageNormal2 = currentImage->GetSlicedGeometry()->GetAxisVector(2); imageNormal0.Normalize(); imageNormal1.Normalize(); imageNormal2.Normalize(); auto renderWindowPart = this->GetRenderWindowPart(); double eps = 0.000001; // for all 2D renderwindows of the render window part check alignment { mitk::PlaneGeometry::ConstPointer displayPlane = dynamic_cast ( renderWindowPart->GetQmitkRenderWindow("axial")->GetRenderer()->GetCurrentWorldPlaneGeometry() ); if (displayPlane.IsNull()) { return false; } mitk::Vector3D normal = displayPlane->GetNormal(); normal.Normalize(); int test = 0; if( fabs(fabs(dot_product(normal.GetVnlVector(),imageNormal0.GetVnlVector()))-1) > eps ) { test++; } if( fabs(fabs(dot_product(normal.GetVnlVector(),imageNormal1.GetVnlVector()))-1) > eps ) { test++; } if( fabs(fabs(dot_product(normal.GetVnlVector(),imageNormal2.GetVnlVector()))-1) > eps ) { test++; } if (test==3) { return true; } } { mitk::PlaneGeometry::ConstPointer displayPlane = dynamic_cast ( renderWindowPart->GetQmitkRenderWindow("sagittal")->GetRenderer()->GetCurrentWorldPlaneGeometry() ); if (displayPlane.IsNull()) { return false; } mitk::Vector3D normal = displayPlane->GetNormal(); normal.Normalize(); int test = 0; if( fabs(fabs(dot_product(normal.GetVnlVector(),imageNormal0.GetVnlVector()))-1) > eps ) { test++; } if( fabs(fabs(dot_product(normal.GetVnlVector(),imageNormal1.GetVnlVector()))-1) > eps ) { test++; } if( fabs(fabs(dot_product(normal.GetVnlVector(),imageNormal2.GetVnlVector()))-1) > eps ) { test++; } if (test==3) { return true; } } { mitk::PlaneGeometry::ConstPointer displayPlane = dynamic_cast ( renderWindowPart->GetQmitkRenderWindow("coronal")->GetRenderer()->GetCurrentWorldPlaneGeometry() ); if (displayPlane.IsNull()) { return false; } mitk::Vector3D normal = displayPlane->GetNormal(); normal.Normalize(); int test = 0; if( fabs(fabs(dot_product(normal.GetVnlVector(),imageNormal0.GetVnlVector()))-1) > eps ) { test++; } if( fabs(fabs(dot_product(normal.GetVnlVector(),imageNormal1.GetVnlVector()))-1) > eps ) { test++; } if( fabs(fabs(dot_product(normal.GetVnlVector(),imageNormal2.GetVnlVector()))-1) > eps ) { test++; } if (test==3) { return true; } } return false; } void QmitkControlVisualizationPropertiesView::ShowMaxNumberChanged() { int maxNr = m_Controls->m_ShowMaxNumber->value(); if ( maxNr < 1 ) { m_Controls->m_ShowMaxNumber->setValue( 1 ); maxNr = 1; } if ( dynamic_cast(m_SelectedNode->GetData()) || dynamic_cast(m_SelectedNode->GetData()) ) { m_SelectedNode->SetIntProperty("ShowMaxNumber", maxNr); } mitk::RenderingManager::GetInstance()->RequestUpdateAll(); } void QmitkControlVisualizationPropertiesView::NormalizationDropdownChanged(int normDropdown) { typedef mitk::OdfNormalizationMethodProperty PropType; PropType::Pointer normMeth = PropType::New(); switch(normDropdown) { case 0: normMeth->SetNormalizationToMinMax(); break; case 1: normMeth->SetNormalizationToMax(); break; case 2: normMeth->SetNormalizationToNone(); break; case 3: normMeth->SetNormalizationToGlobalMax(); break; default: normMeth->SetNormalizationToMinMax(); } if ( dynamic_cast(m_SelectedNode->GetData()) || dynamic_cast(m_SelectedNode->GetData()) ) { m_SelectedNode->SetProperty("Normalization", normMeth.GetPointer()); } mitk::RenderingManager::GetInstance()->RequestUpdateAll(); } void QmitkControlVisualizationPropertiesView::ScalingFactorChanged(double scalingFactor) { if ( dynamic_cast(m_SelectedNode->GetData()) || dynamic_cast(m_SelectedNode->GetData()) ) { m_SelectedNode->SetFloatProperty("Scaling", scalingFactor); } if (auto renderWindowPart = this->GetRenderWindowPart()) { renderWindowPart->RequestUpdate(); } } void QmitkControlVisualizationPropertiesView::AdditionalScaling(int additionalScaling) { typedef mitk::OdfScaleByProperty PropType; PropType::Pointer scaleBy = PropType::New(); switch(additionalScaling) { case 0: scaleBy->SetScaleByNothing(); break; case 1: scaleBy->SetScaleByGFA(); //m_Controls->params_frame->setVisible(true); break; #ifdef DIFFUSION_IMAGING_EXTENDED case 2: scaleBy->SetScaleByPrincipalCurvature(); // commented in for SPIE paper, Principle curvature scaling //m_Controls->params_frame->setVisible(true); break; #endif default: scaleBy->SetScaleByNothing(); } if ( dynamic_cast(m_SelectedNode->GetData()) || dynamic_cast(m_SelectedNode->GetData()) ) { m_SelectedNode->SetProperty("ScaleBy", scaleBy.GetPointer()); } mitk::RenderingManager::GetInstance()->RequestUpdateAll(); } void QmitkControlVisualizationPropertiesView::Fiber2DfadingEFX() { if (m_SelectedNode && dynamic_cast(m_SelectedNode->GetData()) ) { bool currentMode; m_SelectedNode->GetBoolProperty("Fiber2DfadeEFX", currentMode); m_SelectedNode->SetProperty("Fiber2DfadeEFX", mitk::BoolProperty::New(!currentMode)); dynamic_cast(m_SelectedNode->GetData())->RequestUpdate2D(); mitk::RenderingManager::GetInstance()->RequestUpdateAll(); } } void QmitkControlVisualizationPropertiesView::FiberSlicingThickness2D() { if (m_SelectedNode && dynamic_cast(m_SelectedNode->GetData())) { float fibThickness = m_Controls->m_FiberThicknessSlider->value() * 0.1; float currentThickness = 0; m_SelectedNode->GetFloatProperty("Fiber2DSliceThickness", currentThickness); if ( fabs(fibThickness-currentThickness) < 0.001 ) { return; } m_SelectedNode->SetProperty("Fiber2DSliceThickness", mitk::FloatProperty::New(fibThickness)); dynamic_cast(m_SelectedNode->GetData())->RequestUpdate2D(); mitk::RenderingManager::GetInstance()->RequestUpdateAll(); } } void QmitkControlVisualizationPropertiesView::FiberSlicingUpdateLabel(int value) { QString label = "Range %1 mm"; label = label.arg(value * 0.1); m_Controls->label_range->setText(label); FiberSlicingThickness2D(); } void QmitkControlVisualizationPropertiesView::SetCustomColor(const itk::EventObject& /*e*/) { if(m_SelectedNode && dynamic_cast(m_SelectedNode->GetData())) { float color[3]; m_SelectedNode->GetColor(color); mitk::FiberBundle::Pointer fib = dynamic_cast(m_SelectedNode->GetData()); fib->SetFiberColors(color[0]*255, color[1]*255, color[2]*255); mitk::RenderingManager::GetInstance()->RequestUpdateAll(); } else if (m_SelectedNode && dynamic_cast(m_SelectedNode->GetData())) { float color[3]; m_SelectedNode->GetColor(color); mitk::PeakImage::Pointer img = dynamic_cast(m_SelectedNode->GetData()); img->SetCustomColor(color[0]*255, color[1]*255, color[2]*255); mitk::RenderingManager::GetInstance()->RequestUpdateAll(); } } void QmitkControlVisualizationPropertiesView::ResetColoring() { if(m_SelectedNode && dynamic_cast(m_SelectedNode->GetData())) { mitk::FiberBundle::Pointer fib = dynamic_cast(m_SelectedNode->GetData()); fib->ColorFibersByOrientation(); mitk::RenderingManager::GetInstance()->RequestUpdateAll(); } else if(m_SelectedNode && dynamic_cast(m_SelectedNode->GetData())) { mitk::PeakImage::Pointer fib = dynamic_cast(m_SelectedNode->GetData()); fib->ColorByOrientation(); mitk::RenderingManager::GetInstance()->RequestUpdateAll(); } } void QmitkControlVisualizationPropertiesView::PlanarFigureFocus() { if(m_SelectedNode) { mitk::PlanarFigure* _PlanarFigure = 0; _PlanarFigure = dynamic_cast (m_SelectedNode->GetData()); if (_PlanarFigure && _PlanarFigure->GetPlaneGeometry()) { QmitkRenderWindow* selectedRenderWindow = 0; bool PlanarFigureInitializedWindow = false; auto renderWindowPart = this->GetRenderWindowPart(OPEN); QmitkRenderWindow* axialRenderWindow = renderWindowPart->GetQmitkRenderWindow("axial"); if (m_SelectedNode->GetBoolProperty("PlanarFigureInitializedWindow", PlanarFigureInitializedWindow, axialRenderWindow->GetRenderer())) { selectedRenderWindow = axialRenderWindow; } QmitkRenderWindow* sagittalRenderWindow = renderWindowPart->GetQmitkRenderWindow("sagittal"); if (!selectedRenderWindow && m_SelectedNode->GetBoolProperty( "PlanarFigureInitializedWindow", PlanarFigureInitializedWindow, sagittalRenderWindow->GetRenderer())) { selectedRenderWindow = sagittalRenderWindow; } QmitkRenderWindow* coronalRenderWindow = renderWindowPart->GetQmitkRenderWindow("coronal"); if (!selectedRenderWindow && m_SelectedNode->GetBoolProperty( "PlanarFigureInitializedWindow", PlanarFigureInitializedWindow, coronalRenderWindow->GetRenderer())) { selectedRenderWindow = coronalRenderWindow; } QmitkRenderWindow* _3DRenderWindow = renderWindowPart->GetQmitkRenderWindow("3d"); if (!selectedRenderWindow && m_SelectedNode->GetBoolProperty( "PlanarFigureInitializedWindow", PlanarFigureInitializedWindow, _3DRenderWindow->GetRenderer())) { selectedRenderWindow = _3DRenderWindow; } const mitk::PlaneGeometry* _PlaneGeometry = _PlanarFigure->GetPlaneGeometry(); mitk::VnlVector normal = _PlaneGeometry->GetNormalVnl(); mitk::PlaneGeometry::ConstPointer worldGeometry1 = axialRenderWindow->GetRenderer()->GetCurrentWorldPlaneGeometry(); mitk::PlaneGeometry::ConstPointer _Plane1 = dynamic_cast( worldGeometry1.GetPointer() ); mitk::VnlVector normal1 = _Plane1->GetNormalVnl(); mitk::PlaneGeometry::ConstPointer worldGeometry2 = sagittalRenderWindow->GetRenderer()->GetCurrentWorldPlaneGeometry(); mitk::PlaneGeometry::ConstPointer _Plane2 = dynamic_cast( worldGeometry2.GetPointer() ); mitk::VnlVector normal2 = _Plane2->GetNormalVnl(); mitk::PlaneGeometry::ConstPointer worldGeometry3 = coronalRenderWindow->GetRenderer()->GetCurrentWorldPlaneGeometry(); mitk::PlaneGeometry::ConstPointer _Plane3 = dynamic_cast( worldGeometry3.GetPointer() ); mitk::VnlVector normal3 = _Plane3->GetNormalVnl(); normal[0] = fabs(normal[0]); normal[1] = fabs(normal[1]); normal[2] = fabs(normal[2]); normal1[0] = fabs(normal1[0]); normal1[1] = fabs(normal1[1]); normal1[2] = fabs(normal1[2]); normal2[0] = fabs(normal2[0]); normal2[1] = fabs(normal2[1]); normal2[2] = fabs(normal2[2]); normal3[0] = fabs(normal3[0]); normal3[1] = fabs(normal3[1]); normal3[2] = fabs(normal3[2]); double ang1 = angle(normal, normal1); double ang2 = angle(normal, normal2); double ang3 = angle(normal, normal3); if(ang1 < ang2 && ang1 < ang3) { selectedRenderWindow = axialRenderWindow; } else { if(ang2 < ang3) { selectedRenderWindow = sagittalRenderWindow; } else { selectedRenderWindow = coronalRenderWindow; } } // make node visible if (selectedRenderWindow) { const mitk::Point3D& centerP = _PlaneGeometry->GetOrigin(); selectedRenderWindow->GetSliceNavigationController()->ReorientSlices( centerP, _PlaneGeometry->GetNormal()); } } // set interactor for new node (if not already set) mitk::PlanarFigureInteractor::Pointer figureInteractor = dynamic_cast(m_SelectedNode->GetDataInteractor().GetPointer()); if(figureInteractor.IsNull()) { figureInteractor = mitk::PlanarFigureInteractor::New(); us::Module* planarFigureModule = us::ModuleRegistry::GetModule( "MitkPlanarFigure" ); figureInteractor->LoadStateMachine("PlanarFigureInteraction.xml", planarFigureModule ); figureInteractor->SetEventConfig( "PlanarFigureConfig.xml", planarFigureModule ); figureInteractor->SetDataNode( m_SelectedNode ); } m_SelectedNode->SetProperty("planarfigure.iseditable",mitk::BoolProperty::New(true)); } } void QmitkControlVisualizationPropertiesView::SetInteractor() { // BUG 19179 // typedef std::vector Container; // Container _NodeSet = this->GetDataManagerSelection(); // mitk::DataNode* node = 0; // mitk::FiberBundle* bundle = 0; // mitk::FiberBundleInteractor::Pointer bundleInteractor = 0; // // finally add all nodes to the model // for(Container::const_iterator it=_NodeSet.begin(); it!=_NodeSet.end() // ; it++) // { // node = const_cast(*it); // bundle = dynamic_cast(node->GetData()); // if(bundle) // { // bundleInteractor = dynamic_cast(node->GetInteractor()); // if(bundleInteractor.IsNotNull()) // mitk::GlobalInteraction::GetInstance()->RemoveInteractor(bundleInteractor); // if(!m_Controls->m_Crosshair->isChecked()) // { // m_Controls->m_Crosshair->setChecked(false); // this->GetActiveStdMultiWidget()->GetRenderWindow4()->setCursor(Qt::ArrowCursor); // m_CurrentPickingNode = 0; // } // else // { // m_Controls->m_Crosshair->setChecked(true); // bundleInteractor = mitk::FiberBundleInteractor::New("FiberBundleInteractor", node); // mitk::GlobalInteraction::GetInstance()->AddInteractor(bundleInteractor); // this->GetActiveStdMultiWidget()->GetRenderWindow4()->setCursor(Qt::CrossCursor); // m_CurrentPickingNode = node; // } // } // } } void QmitkControlVisualizationPropertiesView::TubeRadiusChanged() { if(m_SelectedNode && dynamic_cast(m_SelectedNode->GetData())) { float newRadius = m_Controls->m_TubeWidth->value(); if (newRadius>0) m_SelectedNode->SetBoolProperty( "light.enable_light", true); else m_SelectedNode->SetBoolProperty( "light.enable_light", false); m_SelectedNode->SetFloatProperty("shape.tuberadius", newRadius); mitk::RenderingManager::GetInstance()->RequestUpdateAll(); } } void QmitkControlVisualizationPropertiesView::LineWidthChanged() { if(m_SelectedNode && dynamic_cast(m_SelectedNode->GetData())) { int newWidth = m_Controls->m_LineWidth->value(); int currentWidth = 0; m_SelectedNode->GetIntProperty("shape.linewidth", currentWidth); if (currentWidth==newWidth) return; m_SelectedNode->SetIntProperty("shape.linewidth", newWidth); dynamic_cast(m_SelectedNode->GetData())->RequestUpdate(); mitk::RenderingManager::GetInstance()->RequestUpdateAll(); } } void QmitkControlVisualizationPropertiesView::Welcome() { berry::PlatformUI::GetWorkbench()->GetIntroManager() ->ShowIntro(GetSite()->GetWorkbenchWindow(), false); } void QmitkControlVisualizationPropertiesView::OnColourisationModeChanged() { if( m_SelectedNode && m_NodeUsedForOdfVisualization.IsNotNull() ) { m_SelectedNode->SetProperty( "DiffusionCore.Rendering.OdfVtkMapper.ColourisationModeBit", mitk::BoolProperty::New( m_Controls->m_OdfColorBox->currentIndex() ) ); mitk::RenderingManager::GetInstance()->RequestUpdateAll(); } else { MITK_DEBUG << "QmitkControlVisualizationPropertiesView::OnColourisationModeChanged() was called but m_NodeUsedForOdfVisualization was Null."; } } diff --git a/Plugins/org.mitk.gui.qt.diffusionimaging/src/internal/QmitkControlVisualizationPropertiesView.h b/Plugins/org.mitk.gui.qt.diffusionimaging/src/internal/QmitkControlVisualizationPropertiesView.h index 3d2e8d6f4f..be31412d47 100644 --- a/Plugins/org.mitk.gui.qt.diffusionimaging/src/internal/QmitkControlVisualizationPropertiesView.h +++ b/Plugins/org.mitk.gui.qt.diffusionimaging/src/internal/QmitkControlVisualizationPropertiesView.h @@ -1,150 +1,151 @@ /*=================================================================== 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. ===================================================================*/ #ifndef _QMITKControlVisualizationPropertiesView_H_INCLUDED #define _QMITKControlVisualizationPropertiesView_H_INCLUDED #include #include #include "berryISelectionListener.h" #include "berryIStructuredSelection.h" #include "berryISizeProvider.h" #include "ui_QmitkControlVisualizationPropertiesViewControls.h" #include "mitkEnumerationProperty.h" #include #include /*! * \ingroup org_mitk_gui_qt_diffusionquantification_internal * * \brief QmitkControlVisualizationPropertiesView * * Document your class here. */ class QmitkControlVisualizationPropertiesView : public QmitkAbstractView, public mitk::ILifecycleAwarePart { friend struct CvpSelListener; // this is needed for all Qt objects that should have a MOC object (everything that derives from QObject) Q_OBJECT public: static const std::string VIEW_ID; QmitkControlVisualizationPropertiesView(); virtual ~QmitkControlVisualizationPropertiesView(); virtual void CreateQtPartControl(QWidget *parent) override; /// \brief Creation of the connections of main and control widget virtual void CreateConnections(); protected slots: void VisibleOdfsON_S(); void VisibleOdfsON_T(); void VisibleOdfsON_C(); void ShowMaxNumberChanged(); void NormalizationDropdownChanged(int); void ScalingFactorChanged(double); void AdditionalScaling(int); void OnThickSlicesModeSelected( QAction* action ); void OnTSNumChanged(int num); void ResetColoring(); void PlanarFigureFocus(); void Fiber2DfadingEFX(); void FiberSlicingThickness2D(); void FiberSlicingUpdateLabel(int); void LineWidthChanged(); void TubeRadiusChanged(); void SetInteractor(); void Toggle3DClipping(bool enabled=true); void FlipPeaks(); void Welcome(); void OnSliceChanged(); + void SetColor(); /// \brief Slot function for switching colourisation mode of glyphs. void OnColourisationModeChanged(); protected: virtual void SetFocus() override; virtual void Activated() override; virtual void Deactivated() override; virtual void Visible() override; virtual void Hidden() override; virtual void NodeRemoved(const mitk::DataNode* node) override; /// \brief called by QmitkAbstractView when DataManager's selection has changed virtual void OnSelectionChanged(berry::IWorkbenchPart::Pointer part, const QList& nodes) override; virtual void NodeAdded(const mitk::DataNode *node) override; void SetCustomColor(const itk::EventObject& /*e*/); bool IsPlaneRotated(); void SliceRotation(const itk::EventObject&); void Set3DClippingPlane(bool disable, mitk::DataNode *node, std::string plane); Ui::QmitkControlVisualizationPropertiesViewControls* m_Controls; QScopedPointer m_SelListener; berry::IStructuredSelection::ConstPointer m_CurrentSelection; mitk::DataNode::Pointer m_NodeUsedForOdfVisualization; QIcon* m_IconTexOFF; QIcon* m_IconTexON; QIcon* m_IconGlyOFF_T; QIcon* m_IconGlyON_T; QIcon* m_IconGlyOFF_C; QIcon* m_IconGlyON_C; QIcon* m_IconGlyOFF_S; QIcon* m_IconGlyON_S; bool m_TexIsOn; bool m_GlyIsOn_T; bool m_GlyIsOn_C; bool m_GlyIsOn_S; int currentThickSlicesMode; QLabel* m_TSLabel; QMenu* m_MyMenu; // for planarfigure and bundle handling: mitk::DataNode::Pointer m_SelectedNode; mitk::DataNode* m_CurrentPickingNode; unsigned long m_ColorPropertyObserverTag; unsigned long m_OpacityPropertyObserverTag; mitk::ColorProperty::Pointer m_Color; mitk::FloatProperty::Pointer m_Opacity; QmitkSliceNavigationListener m_SliceChangeListener; }; #endif // _QMITKControlVisualizationPropertiesView_H_INCLUDED diff --git a/Plugins/org.mitk.gui.qt.diffusionimaging/src/internal/QmitkControlVisualizationPropertiesViewControls.ui b/Plugins/org.mitk.gui.qt.diffusionimaging/src/internal/QmitkControlVisualizationPropertiesViewControls.ui index eff9c055bb..84d90de329 100644 --- a/Plugins/org.mitk.gui.qt.diffusionimaging/src/internal/QmitkControlVisualizationPropertiesViewControls.ui +++ b/Plugins/org.mitk.gui.qt.diffusionimaging/src/internal/QmitkControlVisualizationPropertiesViewControls.ui @@ -1,890 +1,938 @@ QmitkControlVisualizationPropertiesViewControls 0 0 567 619 0 100 0 0 QmitkTemplate 0 0 0 0 QFrame::NoFrame QFrame::Raised 0 0 0 0 0 0 QFrame::NoFrame QFrame::Raised 0 0 0 0 Multislice Projection MIP QToolButton::MenuButtonPopup Qt::NoArrow QFrame::NoFrame QFrame::Plain 0 0 0 0 Toggle visibility of ODF glyphs (axial) :/QmitkDiffusionImaging/glyphsoff_T.png :/QmitkDiffusionImaging/glyphson_T.png:/QmitkDiffusionImaging/glyphsoff_T.png true false Toggle visibility of ODF glyphs (sagittal) :/QmitkDiffusionImaging/glyphsoff_S.png :/QmitkDiffusionImaging/glyphson_S.png:/QmitkDiffusionImaging/glyphsoff_S.png true false Toggle visibility of ODF glyphs (coronal) :/QmitkDiffusionImaging/glyphsoff_C.png :/QmitkDiffusionImaging/glyphson_C.png:/QmitkDiffusionImaging/glyphsoff_C.png true false #Glyphs 9999 Qt::Horizontal 20 20 QFrame::NoFrame QFrame::Raised 0 0 0 0 0 QFrame::NoFrame QFrame::Raised 0 0 0 0 QFrame::NoFrame QFrame::Plain 0 0 0 0 ODF normalization false Min-Max Max None ODF Normalization: ODF normalization false ODF Value Principal Direction Color ODFs/Tensors by: QFrame::NoFrame QFrame::Plain 0 0 0 0 ODF Scale: false None FA/GFA * Additional scaling factor 3 999999999.000000000000000 0.100000000000000 1.000000000000000 QFrame::NoFrame QFrame::Raised 0 0 0 0 QFrame::NoFrame QFrame::Raised 0 0 0 0 + + + + Reset to Default Coloring + + + + + + + :/QmitkDiffusionImaging/color64.gif:/QmitkDiffusionImaging/color64.gif + + + Reset to Default Coloring :/QmitkDiffusionImaging/reset.png:/QmitkDiffusionImaging/reset.png Position Crosshair by 3D-Click :/QmitkDiffusionImaging/crosshair.png:/QmitkDiffusionImaging/crosshair.png true false 2D Fiberfading on/off Qt::Horizontal 40 20 QFrame::NoFrame QFrame::Raised 0 0 0 0 2D Clipping 100 10 10 10 Qt::Horizontal 90 0 10000 16777215 Range QFrame::NoFrame QFrame::Raised 0 0 0 0 1 10 Tube Radius Line Width 4 0.100000000000000 3D Fiber Clipping 0 0 0 0 0 Sagittal No clipping true Coronal Axial Flipp Clipping Direction 50 false false <!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:'Ubuntu'; font-size:11pt; font-weight:400; font-style:normal;"> <p align="center" style=" margin-top:0px; margin-bottom:0px; margin-left:0px; margin-right:0px; -qt-block-indent:0; text-indent:0px;"><span style=" color:#ff0000;">One or more slices are rotated. ODF Visualisation is not possible in rotated planes. Use 'Reinit' on the image node to reset. </span></p></body></html> Qt::AutoText true QFrame::NoFrame QFrame::Raised 0 0 0 0 - - - - z - - - - - - - x - - - - - - - - 0 - 0 - - - - Flip Peaks - - - - + Qt::Horizontal 40 20 - - - - y + + + + QFrame::NoFrame + + + QFrame::Raised + + + 0 + + + 0 + + + 0 + + + 0 + + + + + + 0 + 0 + + + + Flip Peaks + + + + + + + x + + + + + + + y + + + + + + + z + + + + Reset to Default Coloring :/QmitkDiffusionImaging/reset.png:/QmitkDiffusionImaging/reset.png + + + + Reset to Default Coloring + + + + + + + :/QmitkDiffusionImaging/color64.gif:/QmitkDiffusionImaging/color64.gif + + + Qt::Vertical 20 40 QmitkDataStorageComboBox.h - - - -