diff --git a/Plugins/org.blueberry.ui.qt/src/internal/berryQtStylePreferencePage.cpp b/Plugins/org.blueberry.ui.qt/src/internal/berryQtStylePreferencePage.cpp index 6adf98efe3..74433d85a0 100644 --- a/Plugins/org.blueberry.ui.qt/src/internal/berryQtStylePreferencePage.cpp +++ b/Plugins/org.blueberry.ui.qt/src/internal/berryQtStylePreferencePage.cpp @@ -1,275 +1,274 @@ /*=================================================================== BlueBerry Platform 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 "berryQtStylePreferencePage.h" #include #include #include "berryWorkbenchPlugin.h" #include #include #include namespace berry { QtStylePreferencePage::QtStylePreferencePage() { } void QtStylePreferencePage::Init(IWorkbench::Pointer ) { } void QtStylePreferencePage::CreateQtControl(QWidget* parent) { mainWidget = new QWidget(parent); controls.setupUi(mainWidget); berry::IPreferencesService* prefService = berry::WorkbenchPlugin::GetDefault()->GetPreferencesService(); ctkPluginContext* context = berry::WorkbenchPlugin::GetDefault()->GetPluginContext(); ctkServiceReference styleManagerRef = context->getServiceReference(); if (styleManagerRef) { styleManager = context->getService(styleManagerRef); } m_StylePref = prefService->GetSystemPreferences()->Node(berry::QtPreferences::QT_STYLES_NODE); Update(); //connect(controls.m_StylesCombo, SIGNAL(currentIndexChanged(int)), this, SLOT(StyleChanged(int))); connect(controls.m_FontComboBox, SIGNAL(currentIndexChanged(int)), this, SLOT(FontChanged(int))); connect(controls.m_FontSizeSpinBox, SIGNAL(valueChanged(int)), this, SLOT(FontChanged(int))); connect(controls.m_PathList, SIGNAL(itemSelectionChanged()), this, SLOT(UpdatePathListButtons())); connect(controls.m_AddButton, SIGNAL(clicked(bool)), this, SLOT(AddPathClicked(bool))); connect(controls.m_EditButton, SIGNAL(clicked(bool)), this, SLOT(EditPathClicked(bool))); connect(controls.m_RemoveButton, SIGNAL(clicked(bool)), this, SLOT(RemovePathClicked(bool))); } void QtStylePreferencePage::FillStyleCombo(const berry::IQtStyleManager::Style& currentStyle) { controls.m_StylesCombo->clear(); styles.clear(); styleManager->GetStyles(styles); qSort(styles); for (int i = 0; i < styles.size(); ++i) { controls.m_StylesCombo->addItem(styles.at(i).name, QVariant(styles.at(i).fileName)); } controls.m_StylesCombo->setCurrentIndex(styles.indexOf(currentStyle)); } void QtStylePreferencePage::FillFontCombo(const QString& currentFont) { controls.m_FontComboBox->clear(); QStringList fonts; styleManager->GetFonts(fonts); for (int i = 0; i < fonts.size(); ++i) { controls.m_FontComboBox->addItem(fonts.at(i)); } controls.m_FontComboBox->setCurrentIndex(fonts.indexOf(currentFont)); if (currentFont == QString("<>")) { controls.m_FontSizeSpinBox->setEnabled(false); } else { controls.m_FontSizeSpinBox->setEnabled(true); } } void QtStylePreferencePage::AddPath(const QString& path, bool updateCombo) { if (!controls.m_PathList->findItems(path, Qt::MatchCaseSensitive).isEmpty()) return; new QListWidgetItem(path, controls.m_PathList); styleManager->AddStyles(path); if (updateCombo) FillStyleCombo(oldStyle); } void QtStylePreferencePage::StyleChanged(int /*index*/) { QString fileName = controls.m_StylesCombo->itemData(controls.m_StylesCombo->currentIndex()).toString(); styleManager->SetStyle(fileName); } void QtStylePreferencePage::FontChanged(int /*index*/) { QString fontName = controls.m_FontComboBox->currentText(); int fontSize = controls.m_FontSizeSpinBox->value(); if (fontName == QString("<>")) { controls.m_FontSizeSpinBox->setEnabled(false); } else { controls.m_FontSizeSpinBox->setEnabled(true); } styleManager->SetFont(fontName); styleManager->SetFontSize(fontSize); styleManager->UpdateWorkbenchFont(); } void QtStylePreferencePage::AddPathClicked(bool /*checked*/) { QListWidgetItem* item = controls.m_PathList->currentItem(); QString initialDir; if (item) initialDir = item->text(); QString dir = QFileDialog::getExistingDirectory(mainWidget, "", initialDir); if (!dir.isEmpty()) this->AddPath(dir, true); } void QtStylePreferencePage::RemovePathClicked(bool /*checked*/) { QList selection = controls.m_PathList->selectedItems(); QListIterator it(selection); while (it.hasNext()) { QListWidgetItem* item = it.next(); QString dir = item->text(); controls.m_PathList->takeItem(controls.m_PathList->row(item)); delete item; styleManager->RemoveStyles(dir); } if (!styleManager->Contains(oldStyle.fileName)) { oldStyle = styleManager->GetDefaultStyle(); } FillStyleCombo(oldStyle); } void QtStylePreferencePage::EditPathClicked(bool checked) { QListWidgetItem* item = controls.m_PathList->currentItem(); QString initialDir = item->text(); QString dir = QFileDialog::getExistingDirectory(mainWidget, "", initialDir); if (!dir.isEmpty()) { this->RemovePathClicked(checked); this->AddPath(dir, true); } } void QtStylePreferencePage::UpdatePathListButtons() { int s = controls.m_PathList->selectedItems().size(); if (s == 0) { controls.m_EditButton->setEnabled(false); controls.m_RemoveButton->setEnabled(false); } else if (s == 1) { controls.m_EditButton->setEnabled(true); controls.m_RemoveButton->setEnabled(true); } else { controls.m_EditButton->setEnabled(false); controls.m_RemoveButton->setEnabled(true); } } QWidget* QtStylePreferencePage::GetQtControl() const { return mainWidget; } bool QtStylePreferencePage::PerformOk() { /* IPreferencesService* prefService = WorkbenchPlugin::GetDefault()->GetPreferencesService(); IPreferences::Pointer stylePref = prefService->GetSystemPreferences()->Node(QtPreferences::QT_STYLES_NODE); stylePref->Put(QtPreferences::QT_STYLE_NAME, defaultStyle->fileName); */ QString fileName = controls.m_StylesCombo->itemData(controls.m_StylesCombo->currentIndex()).toString(); styleManager->SetStyle(fileName); m_StylePref->Put(berry::QtPreferences::QT_STYLE_NAME, fileName); QString paths; for (int i = 0; i < controls.m_PathList->count(); ++i) { QString path = controls.m_PathList->item(i)->text() + ";"; paths += path; } m_StylePref->Put(berry::QtPreferences::QT_STYLE_SEARCHPATHS, paths); m_StylePref->Put(berry::QtPreferences::QT_FONT_NAME, controls.m_FontComboBox->currentText()); m_StylePref->Put(berry::QtPreferences::QT_FONT_SIZE, QString::number(controls.m_FontSizeSpinBox->value())); return true; } void QtStylePreferencePage::PerformCancel() { Update(); } void QtStylePreferencePage::Update() { // get current style preferences QString paths = m_StylePref->Get(berry::QtPreferences::QT_STYLE_SEARCHPATHS, ""); QString styleName = m_StylePref->Get(berry::QtPreferences::QT_STYLE_NAME, ""); QString fontName = m_StylePref->Get(berry::QtPreferences::QT_FONT_NAME, ""); int fontSize = m_StylePref->Get(berry::QtPreferences::QT_FONT_SIZE, "").toInt(); // clean style manager //styleManager->RemoveStyles(); + //styleManager->SetStyle(styleName); + FillStyleCombo(styleManager->GetStyle()); + + //styleManager->SetFont(fontName); + + FillFontCombo(styleManager->GetFont()); + + //styleManager->SetFontSize(fontSize); + controls.m_FontSizeSpinBox->setValue(fontSize); + //styleManager->UpdateWorkbenchFont(); + // use style preferences to set style QStringList pathList = paths.split(";", QString::SkipEmptyParts); QStringListIterator it(pathList); while (it.hasNext()) { AddPath(it.next(), false); } - - //styleManager->SetStyle(styleName); - oldStyle = styleManager->GetStyle(); - FillStyleCombo(oldStyle); - - styleManager->SetFont(fontName); - - styleManager->SetFontSize(fontSize); - controls.m_FontSizeSpinBox->setValue(fontSize); - styleManager->UpdateWorkbenchFont(); - - FillFontCombo(styleManager->GetFont()); } } diff --git a/Plugins/org.mitk.gui.qt.measurementtoolbox/src/internal/QmitkImageStatisticsView.cpp b/Plugins/org.mitk.gui.qt.measurementtoolbox/src/internal/QmitkImageStatisticsView.cpp index abfa4ccb47..e403667a1b 100644 --- a/Plugins/org.mitk.gui.qt.measurementtoolbox/src/internal/QmitkImageStatisticsView.cpp +++ b/Plugins/org.mitk.gui.qt.measurementtoolbox/src/internal/QmitkImageStatisticsView.cpp @@ -1,1377 +1,1375 @@ /*=================================================================== 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 "QmitkImageStatisticsView.h" // Qt includes #include #include #include // berry includes #include // mitk includes #include "mitkNodePredicateDataType.h" #include "mitkNodePredicateOr.h" #include "mitkPlanarFigureInteractor.h" #include "mitkImageTimeSelector.h" #include #include // itk includes #include "itksys/SystemTools.hxx" #include #include "itkImageRegionConstIteratorWithIndex.h" #include //blueberry includes #include #include const std::string QmitkImageStatisticsView::VIEW_ID = "org.mitk.views.imagestatistics"; const int QmitkImageStatisticsView::STAT_TABLE_BASE_HEIGHT = 180; QmitkImageStatisticsView::QmitkImageStatisticsView(QObject* /*parent*/, const char* /*name*/) : m_Controls( nullptr ), m_TimeStepperAdapter( nullptr ), m_SelectedImage( nullptr ), m_SelectedImageMask( nullptr ), m_SelectedPlanarFigure( nullptr ), m_ImageObserverTag( -1 ), m_ImageMaskObserverTag( -1 ), m_PlanarFigureObserverTag( -1 ), m_TimeObserverTag( -1 ), m_CurrentStatisticsValid( false ), m_StatisticsUpdatePending( false ), m_DataNodeSelectionChanged ( false ), m_Visible(false) { this->m_CalculationThread = new QmitkImageStatisticsCalculationThread; } QmitkImageStatisticsView::~QmitkImageStatisticsView() { if ( m_SelectedImage != nullptr ) m_SelectedImage->RemoveObserver( m_ImageObserverTag ); if ( m_SelectedImageMask != nullptr ) m_SelectedImageMask->RemoveObserver( m_ImageMaskObserverTag ); if ( m_SelectedPlanarFigure != nullptr ) m_SelectedPlanarFigure->RemoveObserver( m_PlanarFigureObserverTag ); while(this->m_CalculationThread->isRunning()) // wait until thread has finished { itksys::SystemTools::Delay(100); } delete this->m_CalculationThread; } void QmitkImageStatisticsView::CreateQtPartControl(QWidget *parent) { if (m_Controls == nullptr) { m_Controls = new Ui::QmitkImageStatisticsViewControls; m_Controls->setupUi(parent); CreateConnections(); m_Controls->m_ErrorMessageLabel->hide(); m_Controls->m_StatisticsWidgetStack->setCurrentIndex(0); m_Controls->m_BinSizeFrame->setEnabled(false); - - this->OnPageSuccessfullyLoaded(); } } void QmitkImageStatisticsView::OnPageSuccessfullyLoaded() { berry::IPreferencesService* prefService = berry::WorkbenchPlugin::GetDefault()->GetPreferencesService(); m_StylePref = prefService->GetSystemPreferences()->Node(berry::QtPreferences::QT_STYLES_NODE); QString styleName = m_StylePref->Get(berry::QtPreferences::QT_STYLE_NAME, ""); if (styleName == ":/org.blueberry.ui.qt/darkstyle.qss") { this->m_Controls->m_JSHistogram->SetTheme(QmitkChartWidget::ChartStyle::darkstyle); } else { this->m_Controls->m_JSHistogram->SetTheme(QmitkChartWidget::ChartStyle::lightstyle); } } void QmitkImageStatisticsView::CreateConnections() { if ( m_Controls ) { connect( (QObject*)(this->m_Controls->m_ButtonCopyHistogramToClipboard), SIGNAL(clicked()),(QObject*) this, SLOT(OnClipboardHistogramButtonClicked()) ); connect( (QObject*)(this->m_Controls->m_ButtonCopyStatisticsToClipboard), SIGNAL(clicked()),(QObject*) this, SLOT(OnClipboardStatisticsButtonClicked()) ); connect( (QObject*)(this->m_Controls->m_IgnoreZerosCheckbox), SIGNAL(clicked()),(QObject*) this, SLOT(OnIgnoreZerosCheckboxClicked()) ); connect( (QObject*) this->m_CalculationThread, SIGNAL(finished()),this, SLOT( OnThreadedStatisticsCalculationEnds()),Qt::QueuedConnection); connect( (QObject*) this, SIGNAL(StatisticsUpdate()),this, SLOT( RequestStatisticsUpdate()), Qt::QueuedConnection); connect( (QObject*) this->m_Controls->m_StatisticsTable, SIGNAL(cellDoubleClicked(int,int)),this, SLOT( JumpToCoordinates(int,int)) ); connect((QObject*)(this->m_Controls->m_barRadioButton), SIGNAL(clicked()), (QObject*)(this), SLOT(OnBarRadioButtonSelected())); connect((QObject*)(this->m_Controls->m_lineRadioButton), SIGNAL(clicked()), (QObject*)(this), SLOT(OnLineRadioButtonSelected())); connect( (QObject*) (this->m_Controls->m_HistogramBinSizeSpinbox), SIGNAL(editingFinished()), this, SLOT(OnHistogramBinSizeBoxValueChanged())); connect((QObject*)(this->m_Controls->m_UseDefaultBinSizeBox), SIGNAL(clicked()), (QObject*) this, SLOT(OnDefaultBinSizeBoxChanged())); connect((QObject*)(this->m_Controls->m_ShowSubchartCheckBox), SIGNAL(clicked()), (QObject*) this, SLOT(OnShowSubchartBoxChanged())); connect((QObject*)(this->m_Controls->m_JSHistogram), SIGNAL(PageSuccessfullyLoaded()), (QObject*) this, SLOT(OnPageSuccessfullyLoaded())); } } void QmitkImageStatisticsView::OnDefaultBinSizeBoxChanged() { m_Controls->m_BinSizeFrame->setEnabled(!m_Controls->m_UseDefaultBinSizeBox->isChecked()); if (m_CalculationThread != nullptr){ m_Controls->m_HistogramBinSizeSpinbox->setValue(m_CalculationThread->GetHistogramBinSize()); m_CalculationThread->SetUseDefaultNBins(m_Controls->m_UseDefaultBinSizeBox->isChecked()); } this->UpdateStatistics(); } void QmitkImageStatisticsView::OnShowSubchartBoxChanged() { bool showSubchart = this->m_Controls->m_ShowSubchartCheckBox->isChecked(); this->m_Controls->m_JSHistogram->Reload(showSubchart); } void QmitkImageStatisticsView::OnBarRadioButtonSelected() { this->m_Controls->m_JSHistogram->SetChartTypeForAllDataAndReload(QmitkChartWidget::ChartType::bar); } void QmitkImageStatisticsView::OnLineRadioButtonSelected() { this->m_Controls->m_JSHistogram->SetChartTypeForAllDataAndReload(QmitkChartWidget::ChartType::line); } void QmitkImageStatisticsView::PartClosed(const berry::IWorkbenchPartReference::Pointer& ) { } void QmitkImageStatisticsView::OnTimeChanged(const itk::EventObject& e) { if (this->m_SelectedDataNodes.isEmpty() || this->m_SelectedImage == nullptr) return; const mitk::SliceNavigationController::GeometryTimeEvent* timeEvent = dynamic_cast(&e); assert(timeEvent != nullptr); int timestep = timeEvent->GetPos(); if (this->m_SelectedImage->GetTimeSteps() > 1) { for (int x = 0; x < this->m_Controls->m_StatisticsTable->columnCount(); x++) { for (int y = 0; y < this->m_Controls->m_StatisticsTable->rowCount(); y++) { QTableWidgetItem* item = this->m_Controls->m_StatisticsTable->item(y, x); if (item == nullptr) break; if (x == timestep) { item->setBackgroundColor(Qt::yellow); } else { if (y % 2 == 0) item->setBackground(this->m_Controls->m_StatisticsTable->palette().base()); else item->setBackground(this->m_Controls->m_StatisticsTable->palette().alternateBase()); } } } this->m_Controls->m_StatisticsTable->viewport()->update(); } if ((this->m_SelectedImage->GetTimeSteps() == 1 && timestep == 0) || this->m_SelectedImage->GetTimeSteps() > 1) { // display histogram for selected timestep this->m_Controls->m_JSHistogram->Clear(); QmitkImageStatisticsCalculationThread::HistogramType::ConstPointer histogram = (QmitkImageStatisticsCalculationThread::HistogramType::ConstPointer)this->m_CalculationThread->GetTimeStepHistogram(timestep); if (histogram.IsNotNull()) { bool closedFigure = this->m_CalculationThread->GetStatisticsUpdateSuccessFlag(); if (closedFigure) { auto imageNameLabel = m_Controls->m_SelectedFeatureImageLabel->text().toStdString(); this->m_Controls->m_JSHistogram->AddData2D(ConvertHistogramToMap(histogram), imageNameLabel); if (this->m_Controls->m_lineRadioButton->isChecked()) { this->m_Controls->m_JSHistogram->SetChartType(imageNameLabel, QmitkChartWidget::ChartType::line); } else { this->m_Controls->m_JSHistogram->SetChartType(imageNameLabel, QmitkChartWidget::ChartType::bar); } this->m_Controls->m_JSHistogram->SetXAxisLabel("Grey value"); this->m_Controls->m_JSHistogram->SetYAxisLabel("Frequency"); this->m_Controls->m_JSHistogram->Show(this->m_Controls->m_ShowSubchartCheckBox->isChecked()); } } } } void QmitkImageStatisticsView::JumpToCoordinates(int row ,int col) { if(m_SelectedDataNodes.isEmpty()) { MITK_WARN("QmitkImageStatisticsView") << "No data node selected for statistics calculation." ; return; } mitk::Point3D world; if (row==5 && !m_WorldMinList.empty()) world = m_WorldMinList[col]; else if (row==4 && !m_WorldMaxList.empty()) world = m_WorldMaxList[col]; else return; mitk::IRenderWindowPart* part = this->GetRenderWindowPart(); if (part) { part->GetQmitkRenderWindow("axial")->GetSliceNavigationController()->SelectSliceByPoint(world); part->GetQmitkRenderWindow("sagittal")->GetSliceNavigationController()->SelectSliceByPoint(world); part->GetQmitkRenderWindow("coronal")->GetSliceNavigationController()->SelectSliceByPoint(world); mitk::SliceNavigationController::GeometryTimeEvent timeEvent(this->m_SelectedImage->GetTimeGeometry(), col); part->GetQmitkRenderWindow("axial")->GetSliceNavigationController()->SetGeometryTime(timeEvent); } } void QmitkImageStatisticsView::OnIgnoreZerosCheckboxClicked() { emit StatisticsUpdate(); } void QmitkImageStatisticsView::OnClipboardHistogramButtonClicked() { if ( m_CurrentStatisticsValid && !( m_SelectedPlanarFigure != nullptr)) { const unsigned int t = this->GetRenderWindowPart()->GetTimeNavigationController()->GetTime()->GetPos(); typedef mitk::ImageStatisticsCalculator::HistogramType HistogramType; const HistogramType *histogram = this->m_CalculationThread->GetTimeStepHistogram(t).GetPointer(); QString clipboard( "Measurement \t Frequency\n" ); for ( HistogramType::ConstIterator it = histogram->Begin(); it != histogram->End(); ++it ) { if( m_Controls->m_HistogramBinSizeSpinbox->value() == 1.0) { clipboard = clipboard.append( "%L1 \t %L2\n" ) .arg( it.GetMeasurementVector()[0], 0, 'f', 0 ) .arg( it.GetFrequency() ); } else { clipboard = clipboard.append( "%L1 \t %L2\n" ) .arg( it.GetMeasurementVector()[0], 0, 'f', 2 ) .arg( it.GetFrequency() ); } } QApplication::clipboard()->setText( clipboard, QClipboard::Clipboard ); } // If a (non-closed) PlanarFigure is selected, display a line profile widget else if ( m_CurrentStatisticsValid && (m_SelectedPlanarFigure != nullptr )) { /*auto intensity = m_Controls->m_JSHistogram->GetFrequency(); auto pixel = m_Controls->m_JSHistogram->GetMeasurement(); QString clipboard( "Pixel \t Intensity\n" ); auto j = pixel.begin(); for (auto i = intensity.begin(); i < intensity.end(); i++) { assert(j != pixel.end()); clipboard = clipboard.append( "%L1 \t %L2\n" ) .arg( (*j).toString()) .arg( (*i).toString()); j++; } QApplication::clipboard()->setText( clipboard, QClipboard::Clipboard ); */ } else { QApplication::clipboard()->clear(); } } void QmitkImageStatisticsView::OnClipboardStatisticsButtonClicked() { QLocale tempLocal; QLocale::setDefault(QLocale(QLocale::English, QLocale::UnitedStates)); if ( m_CurrentStatisticsValid && !( m_SelectedPlanarFigure != nullptr)) { const std::vector &statistics = this->m_CalculationThread->GetStatisticsData(); // Set time borders for for loop ;) unsigned int startT, endT; if(this->m_Controls->m_CheckBox4dCompleteTable->checkState()==Qt::CheckState::Unchecked) { startT = this->GetRenderWindowPart()->GetTimeNavigationController()->GetTime()-> GetPos(); endT = startT+1; } else { startT = 0; endT = statistics.size(); } QVector< QVector > statisticsTable; QStringList headline; // Create Headline headline << " " << "Mean" << "Median" << "StdDev" << "RMS" << "Max" << "Min" << "NumberOfVoxels" << "Skewness" << "Kurtosis" << "Uniformity" << "Entropy" << "MPP" << "UPP" << "V [mm³]"; for(int i=0;i row; row.append(headline.at(i)); statisticsTable.append(row); } // Fill Table for(unsigned int t=startT;tGetMean()) << QString::number(statistics[t]->GetMedian()) << QString::number(statistics[t]->GetStd()) << QString::number(statistics[t]->GetRMS()) << QString::number(statistics[t]->GetMax()) << QString::number(statistics[t]->GetMin()) << QString::number(statistics[t]->GetN()) << QString::number(statistics[t]->GetSkewness()) << QString::number(statistics[t]->GetKurtosis()) << QString::number(statistics[t]->GetUniformity()) << QString::number(statistics[t]->GetEntropy()) << QString::number(statistics[t]->GetMPP()) << QString::number(statistics[t]->GetUPP()) << QString::number(m_Controls->m_StatisticsTable->item(7, 0)->data(Qt::DisplayRole).toDouble()); for(int z=0;zsetText(clipboard, QClipboard::Clipboard); } else { QApplication::clipboard()->clear(); } QLocale::setDefault(tempLocal); } void QmitkImageStatisticsView::OnSelectionChanged( berry::IWorkbenchPart::Pointer /*part*/, const QList &nodes ) { if (this->m_Visible) { this->SelectionChanged( nodes ); } else { this->m_DataNodeSelectionChanged = true; } } void QmitkImageStatisticsView::SelectionChanged(const QList &selectedNodes) { //Clear Histogram if data node is deselected m_Controls->m_JSHistogram->Clear(); if( this->m_StatisticsUpdatePending ) { this->m_DataNodeSelectionChanged = true; return; // not ready for new data now! } if (selectedNodes.size() == this->m_SelectedDataNodes.size()) { int i = 0; for (; i < selectedNodes.size(); ++i) { if (selectedNodes.at(i) != this->m_SelectedDataNodes.at(i)) { break; } } // node selection did not change if (i == selectedNodes.size()) return; } //reset the feature image and image mask field m_Controls->m_SelectedFeatureImageLabel->setText("None"); m_Controls->m_SelectedMaskLabel->setText("None"); this->ReinitData(); if (selectedNodes.isEmpty()) { m_Controls->m_lineRadioButton->setEnabled(true); m_Controls->m_barRadioButton->setEnabled(true); m_Controls->m_HistogramBinSizeSpinbox->setEnabled(true); m_Controls->m_HistogramBinSizeCaptionLabel->setEnabled(true); m_Controls->m_UseDefaultBinSizeBox->setEnabled(true); m_Controls->m_InfoLabel->setText(""); m_Controls->groupBox->setEnabled(false); m_Controls->groupBox_3->setEnabled(false); } else { m_Controls->groupBox->setEnabled(true); m_Controls->groupBox_3->setEnabled(true); m_Controls->m_barRadioButton->setChecked(true); } if(selectedNodes.size() == 1 || selectedNodes.size() == 2) { bool isBinary = false; selectedNodes.value(0)->GetBoolProperty("binary",isBinary); mitk::NodePredicateDataType::Pointer isLabelSet = mitk::NodePredicateDataType::New("LabelSetImage"); isBinary |= isLabelSet->CheckNode(selectedNodes.value(0)); if(isBinary) { m_Controls->m_lineRadioButton->setEnabled(true); m_Controls->m_barRadioButton->setEnabled(true); m_Controls->m_HistogramBinSizeSpinbox->setEnabled(true); m_Controls->m_HistogramBinSizeCaptionLabel->setEnabled(true); m_Controls->m_UseDefaultBinSizeBox->setEnabled(true); m_Controls->m_InfoLabel->setText(""); } for (int i= 0; i< selectedNodes.size(); ++i) { this->m_SelectedDataNodes.push_back(selectedNodes.at(i)); } this->m_DataNodeSelectionChanged = false; this->m_Controls->m_ErrorMessageLabel->setText( "" ); this->m_Controls->m_ErrorMessageLabel->hide(); emit StatisticsUpdate(); } else { this->m_DataNodeSelectionChanged = false; } } void QmitkImageStatisticsView::ReinitData() { while( this->m_CalculationThread->isRunning()) // wait until thread has finished { itksys::SystemTools::Delay(100); } if(this->m_SelectedImage != nullptr) { this->m_SelectedImage->RemoveObserver( this->m_ImageObserverTag); this->m_SelectedImage = nullptr; } if(this->m_SelectedImageMask != nullptr) { this->m_SelectedImageMask->RemoveObserver( this->m_ImageMaskObserverTag); this->m_SelectedImageMask = nullptr; } if(this->m_SelectedPlanarFigure != nullptr) { this->m_SelectedPlanarFigure->RemoveObserver( this->m_PlanarFigureObserverTag); this->m_SelectedPlanarFigure = nullptr; } this->m_SelectedDataNodes.clear(); this->m_StatisticsUpdatePending = false; m_Controls->m_ErrorMessageLabel->setText( "" ); m_Controls->m_ErrorMessageLabel->hide(); this->InvalidateStatisticsTableView(); m_Controls->m_StatisticsWidgetStack->setCurrentIndex( 0 ); } void QmitkImageStatisticsView::OnThreadedStatisticsCalculationEnds() { std::stringstream message; message << ""; m_Controls->m_ErrorMessageLabel->setText( message.str().c_str() ); m_Controls->m_ErrorMessageLabel->hide(); this->WriteStatisticsToGUI(); } void QmitkImageStatisticsView::UpdateStatistics() { mitk::IRenderWindowPart* renderPart = this->GetRenderWindowPart(); if ( renderPart == nullptr ) { this->m_StatisticsUpdatePending = false; return; } m_WorldMinList.clear(); m_WorldMaxList.clear(); // classify selected nodes mitk::NodePredicateDataType::Pointer isImage = mitk::NodePredicateDataType::New("Image"); mitk::NodePredicateDataType::Pointer isLabelSet = mitk::NodePredicateDataType::New("LabelSetImage"); mitk::NodePredicateOr::Pointer imagePredicate = mitk::NodePredicateOr::New(isImage, isLabelSet); std::string maskName; std::string maskType; std::string featureImageName; unsigned int maskDimension = 0; // reset data from last run ITKCommandType::Pointer changeListener = ITKCommandType::New(); changeListener->SetCallbackFunction( this, &QmitkImageStatisticsView::SelectedDataModified ); mitk::DataNode::Pointer planarFigureNode; for( int i= 0 ; i < this->m_SelectedDataNodes.size(); ++i) { mitk::PlanarFigure::Pointer planarFig = dynamic_cast(this->m_SelectedDataNodes.at(i)->GetData()); if( imagePredicate->CheckNode(this->m_SelectedDataNodes.at(i)) ) { bool isMask = false; this->m_SelectedDataNodes.at(i)->GetPropertyValue("binary", isMask); isMask |= isLabelSet->CheckNode(this->m_SelectedDataNodes.at(i)); if( this->m_SelectedImageMask == nullptr && isMask) { this->m_SelectedImageMask = dynamic_cast(this->m_SelectedDataNodes.at(i)->GetData()); this->m_ImageMaskObserverTag = this->m_SelectedImageMask->AddObserver(itk::ModifiedEvent(), changeListener); maskName = this->m_SelectedDataNodes.at(i)->GetName(); maskType = m_SelectedImageMask->GetNameOfClass(); maskDimension = 3; } else if( !isMask ) { if(this->m_SelectedImage == nullptr) { this->m_SelectedImage = static_cast(this->m_SelectedDataNodes.at(i)->GetData()); this->m_ImageObserverTag = this->m_SelectedImage->AddObserver(itk::ModifiedEvent(), changeListener); } featureImageName = this->m_SelectedDataNodes.at(i)->GetName(); } } else if (planarFig.IsNotNull()) { if(this->m_SelectedPlanarFigure == nullptr) { this->m_SelectedPlanarFigure = planarFig; this->m_PlanarFigureObserverTag = this->m_SelectedPlanarFigure->AddObserver(mitk::EndInteractionPlanarFigureEvent(), changeListener); maskName = this->m_SelectedDataNodes.at(i)->GetName(); maskType = this->m_SelectedPlanarFigure->GetNameOfClass(); maskDimension = 2; planarFigureNode = m_SelectedDataNodes.at(i); } } else { std::stringstream message; message << "" << "Invalid data node type!" << ""; m_Controls->m_ErrorMessageLabel->setText( message.str().c_str() ); m_Controls->m_ErrorMessageLabel->show(); } } if(maskName == "") { maskName = "None"; maskType = ""; maskDimension = 0; } if(featureImageName == "") { featureImageName = "None"; } if (m_SelectedPlanarFigure != nullptr && m_SelectedImage == nullptr) { mitk::DataStorage::SetOfObjects::ConstPointer parentSet = this->GetDataStorage()->GetSources(planarFigureNode); for (unsigned int i=0; iSize(); i++) { mitk::DataNode::Pointer node = parentSet->ElementAt(i); if( imagePredicate->CheckNode(node) ) { bool isMask = false; node->GetPropertyValue("binary", isMask); isMask |= isLabelSet->CheckNode(node); if( !isMask ) { if(this->m_SelectedImage == nullptr) { this->m_SelectedImage = static_cast(node->GetData()); this->m_ImageObserverTag = this->m_SelectedImage->AddObserver(itk::ModifiedEvent(), changeListener); } } } } } unsigned int timeStep = renderPart->GetTimeNavigationController()->GetTime()->GetPos(); if ( m_SelectedImage != nullptr && m_SelectedImage->IsInitialized()) { // Check if a the selected image is a multi-channel image. If yes, statistics // cannot be calculated currently. if ( m_SelectedImage->GetPixelType().GetNumberOfComponents() > 1 ) { std::stringstream message; message << "Multi-component images not supported."; m_Controls->m_ErrorMessageLabel->setText( message.str().c_str() ); m_Controls->m_ErrorMessageLabel->show(); this->InvalidateStatisticsTableView(); m_Controls->m_StatisticsWidgetStack->setCurrentIndex( 0 ); m_CurrentStatisticsValid = false; this->m_StatisticsUpdatePending = false; m_Controls->m_lineRadioButton->setEnabled(true); m_Controls->m_barRadioButton->setEnabled(true); m_Controls->m_HistogramBinSizeSpinbox->setEnabled(true); m_Controls->m_HistogramBinSizeCaptionLabel->setEnabled(true); m_Controls->m_UseDefaultBinSizeBox->setEnabled(true); m_Controls->m_InfoLabel->setText(""); return; } std::stringstream maskLabel; maskLabel << maskName; if ( maskDimension > 0 ) { maskLabel << " [" << maskDimension << "D " << maskType << "]"; } m_Controls->m_SelectedMaskLabel->setText( maskLabel.str().c_str() ); m_Controls->m_SelectedFeatureImageLabel->setText(featureImageName.c_str()); // check time step validity if(m_SelectedImage->GetDimension() <= 3 && timeStep > m_SelectedImage->GetDimension(3)-1) { timeStep = m_SelectedImage->GetDimension(3)-1; } // Add the used mask time step to the mask label so the user knows which mask time step was used // if the image time step is bigger than the total number of mask time steps (see // ImageStatisticsCalculator::ExtractImageAndMask) if (m_SelectedImageMask != nullptr) { unsigned int maskTimeStep = timeStep; if (maskTimeStep >= m_SelectedImageMask->GetTimeSteps()) { maskTimeStep = m_SelectedImageMask->GetTimeSteps() - 1; } m_Controls->m_SelectedMaskLabel->setText(m_Controls->m_SelectedMaskLabel->text() + QString(" (t=") + QString::number(maskTimeStep) + QString(")")); } // check if the segmentation mask is empty if (m_SelectedImageMask != NULL) { typedef itk::Image ItkImageType; typedef itk::ImageRegionConstIteratorWithIndex< ItkImageType > IteratorType; ItkImageType::Pointer itkImage; mitk::CastToItkImage( m_SelectedImageMask, itkImage ); bool empty = true; IteratorType it( itkImage, itkImage->GetLargestPossibleRegion() ); while ( !it.IsAtEnd() ) { ItkImageType::ValueType val = it.Get(); if ( val != 0 ) { empty = false; break; } ++it; } if ( empty ) { std::stringstream message; message << "Empty segmentation mask selected..."; m_Controls->m_ErrorMessageLabel->setText( message.str().c_str() ); m_Controls->m_ErrorMessageLabel->show(); return; } } //// initialize thread and trigger it this->m_CalculationThread->SetIgnoreZeroValueVoxel( m_Controls->m_IgnoreZerosCheckbox->isChecked() ); this->m_CalculationThread->Initialize( m_SelectedImage, m_SelectedImageMask, m_SelectedPlanarFigure ); this->m_CalculationThread->SetTimeStep( timeStep ); std::stringstream message; message << "Calculating statistics..."; m_Controls->m_ErrorMessageLabel->setText( message.str().c_str() ); m_Controls->m_ErrorMessageLabel->show(); try { // Compute statistics // this->m_CalculationThread->SetUseDefaultBinSize(m_Controls->m_UseDefaultBinSizeBox->isChecked()); this->m_CalculationThread->start(); } catch ( const mitk::Exception& e) { std::stringstream message; message << "" << e.GetDescription() << ""; m_Controls->m_ErrorMessageLabel->setText( message.str().c_str() ); m_Controls->m_ErrorMessageLabel->show(); this->m_StatisticsUpdatePending = false; } catch ( const std::runtime_error &e ) { // In case of exception, print error message on GUI std::stringstream message; message << "" << e.what() << ""; m_Controls->m_ErrorMessageLabel->setText( message.str().c_str() ); m_Controls->m_ErrorMessageLabel->show(); this->m_StatisticsUpdatePending = false; } catch ( const std::exception &e ) { MITK_ERROR << "Caught exception: " << e.what(); // In case of exception, print error message on GUI std::stringstream message; message << "Error! Unequal Dimensions of Image and Segmentation. No recompute possible "; m_Controls->m_ErrorMessageLabel->setText( message.str().c_str() ); m_Controls->m_ErrorMessageLabel->show(); this->m_StatisticsUpdatePending = false; } AdaptBinSizeCheckboxStepsize(m_SelectedImage); } else { this->m_StatisticsUpdatePending = false; } } void QmitkImageStatisticsView::SelectedDataModified() { if( !m_StatisticsUpdatePending ) { emit StatisticsUpdate(); } } void QmitkImageStatisticsView::NodeRemoved(const mitk::DataNode *node) { while(this->m_CalculationThread->isRunning()) // wait until thread has finished { itksys::SystemTools::Delay(100); } if (node->GetData() == m_SelectedImage) { m_SelectedImage = nullptr; } } void QmitkImageStatisticsView::RequestStatisticsUpdate() { if ( !m_StatisticsUpdatePending ) { if(this->m_DataNodeSelectionChanged) { this->SelectionChanged(this->GetCurrentSelection()); } else { this->m_StatisticsUpdatePending = true; this->UpdateStatistics(); } } if (this->GetRenderWindowPart()) this->GetRenderWindowPart()->RequestUpdate(); } void QmitkImageStatisticsView::OnHistogramBinSizeBoxValueChanged() { if (m_Controls->m_HistogramBinSizeSpinbox->value() != m_HistogramBinSize) { m_HistogramBinSize = m_Controls->m_HistogramBinSizeSpinbox->value(); this->m_CalculationThread->SetHistogramBinSize(m_Controls->m_HistogramBinSizeSpinbox->value()); this->UpdateStatistics(); } } void QmitkImageStatisticsView::WriteStatisticsToGUI() { m_Controls->m_JSHistogram->Clear(); //Disconnect OnLineRadioButtonSelected() to prevent reloading chart when radiobutton is checked programmatically disconnect((QObject*)(this->m_Controls->m_JSHistogram), SIGNAL(PageSuccessfullyLoaded()), 0, 0); connect((QObject*)(this->m_Controls->m_JSHistogram), SIGNAL(PageSuccessfullyLoaded()), (QObject*) this, SLOT(OnPageSuccessfullyLoaded())); m_Controls->m_lineRadioButton->setEnabled(true); m_Controls->m_barRadioButton->setEnabled(true); m_Controls->m_HistogramBinSizeSpinbox->setEnabled(true); m_Controls->m_HistogramBinSizeCaptionLabel->setEnabled(true); m_Controls->m_InfoLabel->setText(""); if (m_DataNodeSelectionChanged) { this->m_StatisticsUpdatePending = false; this->RequestStatisticsUpdate(); return; // stop visualization of results and calculate statistics of new selection } if (this->m_CalculationThread->GetStatisticsUpdateSuccessFlag()) { if (this->m_CalculationThread->GetStatisticsChangedFlag()) { // Do not show any error messages m_Controls->m_ErrorMessageLabel->hide(); m_CurrentStatisticsValid = true; } if (m_SelectedImage != nullptr) { //all statistics are now computed also on planar figures (lines, paths...)! // If a (non-closed) PlanarFigure is selected, display a line profile widget if (m_SelectedPlanarFigure != nullptr) { // Check if the (closed) planar figure is out of bounds and so no image mask could be calculated--> Intensity Profile can not be calculated bool outOfBounds = false; if (m_SelectedPlanarFigure->IsClosed() && m_SelectedImageMask == nullptr) { outOfBounds = true; const QString message("Planar figure is on a rotated image plane or outside the image bounds."); m_Controls->m_InfoLabel->setText(message); } // check whether PlanarFigure is initialized const mitk::PlaneGeometry *planarFigurePlaneGeometry = m_SelectedPlanarFigure->GetPlaneGeometry(); if (!(planarFigurePlaneGeometry == nullptr || outOfBounds)) { unsigned int timeStep = this->GetRenderWindowPart()->GetTimeNavigationController()->GetTime()->GetPos(); mitk::Image::Pointer image; if (this->m_CalculationThread->GetStatisticsImage()->GetDimension() == 4) { mitk::ImageTimeSelector::Pointer timeSelector = mitk::ImageTimeSelector::New(); timeSelector->SetInput(this->m_CalculationThread->GetStatisticsImage()); timeSelector->SetTimeNr(timeStep); timeSelector->Update(); image = timeSelector->GetOutput(); } else { image = this->m_CalculationThread->GetStatisticsImage(); } mitk::IntensityProfile::ConstPointer intensityProfile = (mitk::IntensityProfile::ConstPointer)mitk::ComputeIntensityProfile(image, m_SelectedPlanarFigure); auto intensityProfileList = ConvertIntensityProfileToVector(intensityProfile); auto lineDataLabel = "Intensity profile " + m_Controls->m_SelectedMaskLabel->text().toStdString(); m_Controls->m_JSHistogram->SetChartType(lineDataLabel, QmitkChartWidget::ChartType::line); m_Controls->m_JSHistogram->AddData1D(intensityProfileList, lineDataLabel); m_Controls->m_JSHistogram->SetXAxisLabel("Distance"); m_Controls->m_JSHistogram->SetYAxisLabel("Intensity"); m_Controls->m_JSHistogram->Show(m_Controls->m_ShowSubchartCheckBox->isChecked()); m_Controls->m_lineRadioButton->setChecked(true); m_Controls->m_lineRadioButton->setEnabled(false); m_Controls->m_barRadioButton->setEnabled(false); m_Controls->m_HistogramBinSizeSpinbox->setEnabled(false); m_Controls->m_HistogramBinSizeCaptionLabel->setEnabled(false); m_Controls->m_UseDefaultBinSizeBox->setEnabled(false); //Reconnect OnLineRadioButtonSelected() connect((QObject*)(this->m_Controls->m_JSHistogram), SIGNAL(PageSuccessfullyLoaded()), (QObject*) this, SLOT(OnLineRadioButtonSelected())); auto statisticsVector = this->m_CalculationThread->GetStatisticsData(); //only one entry (current timestep) this->FillLinearProfileStatisticsTableView(statisticsVector.front().GetPointer(), this->m_CalculationThread->GetStatisticsImage()); QString message("Only linegraph available for an intensity profile!"); if (this->m_CalculationThread->GetStatisticsImage()->GetDimension() == 4) { message += "Only current timestep displayed!"; } message += ""; m_Controls->m_InfoLabel->setText(message); m_CurrentStatisticsValid = true; } else { // Clear statistics, histogram, and GUI this->InvalidateStatisticsTableView(); m_Controls->m_StatisticsWidgetStack->setCurrentIndex(0); m_CurrentStatisticsValid = false; m_Controls->m_ErrorMessageLabel->hide(); m_Controls->m_SelectedMaskLabel->setText("None"); this->m_StatisticsUpdatePending = false; m_Controls->m_lineRadioButton->setEnabled(true); m_Controls->m_barRadioButton->setEnabled(true); m_Controls->m_HistogramBinSizeSpinbox->setEnabled(true); m_Controls->m_HistogramBinSizeCaptionLabel->setEnabled(true); if (!outOfBounds) m_Controls->m_InfoLabel->setText(""); return; } } else { m_Controls->m_StatisticsWidgetStack->setCurrentIndex(0); m_Controls->m_HistogramBinSizeSpinbox->setValue(this->m_CalculationThread->GetHistogramBinSize()); auto histogram = this->m_CalculationThread->GetTimeStepHistogram(this->m_CalculationThread->GetTimeStep()).GetPointer(); auto imageLabelName = m_Controls->m_SelectedFeatureImageLabel->text().toStdString(); m_Controls->m_JSHistogram->AddData2D(ConvertHistogramToMap(histogram), imageLabelName); m_Controls->m_JSHistogram->SetChartType(imageLabelName, QmitkChartWidget::ChartType::bar); this->m_Controls->m_JSHistogram->SetXAxisLabel("Gray value"); this->m_Controls->m_JSHistogram->SetYAxisLabel("Frequency"); m_Controls->m_UseDefaultBinSizeBox->setEnabled(true); m_Controls->m_JSHistogram->Show(this->m_Controls->m_ShowSubchartCheckBox->isChecked()); auto currentTime = this->GetRenderWindowPart()->GetTimeNavigationController()->GetTime()->GetPos(); this->AdaptBinSizeCheckBoxMinMax((this->m_CalculationThread->GetStatisticsData()).at(currentTime).GetPointer(), this->m_CalculationThread->GetStatisticsImage()->GetPixelType().GetComponentType()); this->FillStatisticsTableView(this->m_CalculationThread->GetStatisticsData(), this->m_CalculationThread->GetStatisticsImage()); } m_CurrentStatisticsValid = true; } } else { m_Controls->m_SelectedMaskLabel->setText("None"); m_Controls->m_ErrorMessageLabel->setText(m_CalculationThread->GetLastErrorMessage().c_str()); m_Controls->m_ErrorMessageLabel->show(); // Clear statistics and histogram this->InvalidateStatisticsTableView(); m_Controls->m_StatisticsWidgetStack->setCurrentIndex(0); m_CurrentStatisticsValid = false; } berry::IPreferencesService* prefService = berry::WorkbenchPlugin::GetDefault()->GetPreferencesService(); m_StylePref = prefService->GetSystemPreferences()->Node(berry::QtPreferences::QT_STYLES_NODE); this->m_StatisticsUpdatePending = false; } void QmitkImageStatisticsView::FillStatisticsTableView( const std::vector &statistics, const mitk::Image *image ) { this->m_Controls->m_StatisticsTable->setColumnCount(image->GetTimeSteps()); this->m_Controls->m_StatisticsTable->horizontalHeader()->setVisible(image->GetTimeSteps() > 1); // Set Checkbox for complete copy of statistic table if(image->GetTimeSteps()>1) { this->m_Controls->m_CheckBox4dCompleteTable->setEnabled(true); } else { this->m_Controls->m_CheckBox4dCompleteTable->setEnabled(false); this->m_Controls->m_CheckBox4dCompleteTable->setChecked(false); } for (unsigned int t = 0; t < image->GetTimeSteps(); t++) { this->m_Controls->m_StatisticsTable->setHorizontalHeaderItem(t, new QTableWidgetItem(QString::number(t))); if (statistics.at(t)->GetMaxIndex().size()==3) { mitk::Point3D index, max, min; index[0] = statistics.at(t)->GetMaxIndex()[0]; index[1] = statistics.at(t)->GetMaxIndex()[1]; index[2] = statistics.at(t)->GetMaxIndex()[2]; m_SelectedImage->GetGeometry()->IndexToWorld(index, max); this->m_WorldMaxList.push_back(max); index[0] = statistics.at(t)->GetMinIndex()[0]; index[1] = statistics.at(t)->GetMinIndex()[1]; index[2] = statistics.at(t)->GetMinIndex()[2]; m_SelectedImage->GetGeometry()->IndexToWorld(index, min); this->m_WorldMinList.push_back(min); } auto statisticsVector = AssembleStatisticsIntoVector(statistics.at(t).GetPointer(), image); unsigned int count = 0; for (const auto& entry : statisticsVector) { auto item = new QTableWidgetItem(entry); this->m_Controls->m_StatisticsTable->setItem(count, t, item); count++; } } this->m_Controls->m_StatisticsTable->resizeColumnsToContents(); int height = STAT_TABLE_BASE_HEIGHT; if (this->m_Controls->m_StatisticsTable->horizontalHeader()->isVisible()) height += this->m_Controls->m_StatisticsTable->horizontalHeader()->height(); if (this->m_Controls->m_StatisticsTable->horizontalScrollBar()->isVisible()) height += this->m_Controls->m_StatisticsTable->horizontalScrollBar()->height(); this->m_Controls->m_StatisticsTable->setMinimumHeight(height); // make sure the current timestep's column is highlighted (and the correct histogram is displayed) unsigned int t = this->GetRenderWindowPart()->GetTimeNavigationController()->GetTime()-> GetPos(); mitk::SliceNavigationController::GeometryTimeEvent timeEvent(this->m_SelectedImage->GetTimeGeometry(), t); this->OnTimeChanged(timeEvent); t = std::min(image->GetTimeSteps() - 1, t); // See bug 18340 /*QString hotspotMean; hotspotMean.append(QString("%1").arg(s[t].GetHotspotStatistics().GetMean(), 0, 'f', decimals)); hotspotMean += " ("; for (int i=0; im_Controls->m_StatisticsTable->setItem( 7, t, new QTableWidgetItem( hotspotMean ) ); QString hotspotMax; hotspotMax.append(QString("%1").arg(s[t].GetHotspotStatistics().GetMax(), 0, 'f', decimals)); hotspotMax += " ("; for (int i=0; im_Controls->m_StatisticsTable->setItem( 8, t, new QTableWidgetItem( hotspotMax ) ); QString hotspotMin; hotspotMin.append(QString("%1").arg(s[t].GetHotspotStatistics().GetMin(), 0, 'f', decimals)); hotspotMin += " ("; for (int i=0; im_Controls->m_StatisticsTable->setItem( 9, t, new QTableWidgetItem( hotspotMin ) );*/ } std::vector QmitkImageStatisticsView::AssembleStatisticsIntoVector(mitk::ImageStatisticsCalculator::StatisticsContainer::ConstPointer statistics, mitk::Image::ConstPointer image, bool noVolumeDefined) const { std::vector result; unsigned int decimals = 2; //statistics of higher order should have 5 decimal places because they used to be very small unsigned int decimalsHigherOrderStatistics = 5; if (image->GetPixelType().GetComponentType() == itk::ImageIOBase::DOUBLE || image->GetPixelType().GetComponentType() == itk::ImageIOBase::FLOAT) { decimals = 5; } result.push_back(GetFormattedString(statistics->GetMean(), decimals)); result.push_back(GetFormattedString(statistics->GetMedian(), decimals)); result.push_back(GetFormattedString(statistics->GetStd(), decimals)); result.push_back(GetFormattedString(statistics->GetRMS(), decimals)); result.push_back(GetFormattedString(statistics->GetMax(), decimals) + " " + GetFormattedIndex(statistics->GetMaxIndex())); result.push_back(GetFormattedString(statistics->GetMin(), decimals) + " " + GetFormattedIndex(statistics->GetMinIndex())); //to prevent large negative values of empty image statistics if (statistics->GetN() != std::numeric_limits::min()) { result.push_back(GetFormattedString(statistics->GetN(), 0)); const mitk::BaseGeometry *geometry = image->GetGeometry(); if (geometry != NULL && !noVolumeDefined) { const mitk::Vector3D &spacing = image->GetGeometry()->GetSpacing(); double volume = spacing[0] * spacing[1] * spacing[2] * static_cast(statistics->GetN()); result.push_back(GetFormattedString(volume, decimals)); } else { result.push_back("NA"); } } else { result.push_back("NA"); result.push_back("NA"); } result.push_back(GetFormattedString(statistics->GetSkewness(), decimalsHigherOrderStatistics)); result.push_back(GetFormattedString(statistics->GetKurtosis(), decimalsHigherOrderStatistics)); result.push_back(GetFormattedString(statistics->GetUniformity(), decimalsHigherOrderStatistics)); result.push_back(GetFormattedString(statistics->GetEntropy(), decimalsHigherOrderStatistics)); result.push_back(GetFormattedString(statistics->GetMPP(), decimals)); result.push_back(GetFormattedString(statistics->GetUPP(), decimalsHigherOrderStatistics)); return result; } void QmitkImageStatisticsView::FillLinearProfileStatisticsTableView(mitk::ImageStatisticsCalculator::StatisticsContainer::ConstPointer statistics, const mitk::Image *image) { this->m_Controls->m_StatisticsTable->setColumnCount(1); this->m_Controls->m_StatisticsTable->horizontalHeader()->setVisible(false); m_PlanarFigureStatistics = this->AssembleStatisticsIntoVector(statistics, image, true); for (unsigned int i = 0; i< m_PlanarFigureStatistics.size(); i++) { this->m_Controls->m_StatisticsTable->setItem( i, 0, new QTableWidgetItem(m_PlanarFigureStatistics[i] )); } this->m_Controls->m_StatisticsTable->resizeColumnsToContents(); int height = STAT_TABLE_BASE_HEIGHT; if (this->m_Controls->m_StatisticsTable->horizontalHeader()->isVisible()) height += this->m_Controls->m_StatisticsTable->horizontalHeader()->height(); if (this->m_Controls->m_StatisticsTable->horizontalScrollBar()->isVisible()) height += this->m_Controls->m_StatisticsTable->horizontalScrollBar()->height(); this->m_Controls->m_StatisticsTable->setMinimumHeight(height); } void QmitkImageStatisticsView::InvalidateStatisticsTableView() { this->m_Controls->m_StatisticsTable->horizontalHeader()->setVisible(false); this->m_Controls->m_StatisticsTable->setColumnCount(1); for ( int i = 0; i < this->m_Controls->m_StatisticsTable->rowCount(); ++i ) { { this->m_Controls->m_StatisticsTable->setItem( i, 0, new QTableWidgetItem( "NA" ) ); } } this->m_Controls->m_StatisticsTable->setMinimumHeight(STAT_TABLE_BASE_HEIGHT); } void QmitkImageStatisticsView::Activated() { } void QmitkImageStatisticsView::Deactivated() { } void QmitkImageStatisticsView::Visible() { m_Visible = true; mitk::IRenderWindowPart* renderWindow = GetRenderWindowPart(); if (renderWindow) { itk::ReceptorMemberCommand::Pointer cmdTimeEvent = itk::ReceptorMemberCommand::New(); cmdTimeEvent->SetCallbackFunction(this, &QmitkImageStatisticsView::OnTimeChanged); // It is sufficient to add the observer to the axial render window since the GeometryTimeEvent // is always triggered by all views. m_TimeObserverTag = renderWindow->GetQmitkRenderWindow("axial")-> GetSliceNavigationController()-> AddObserver(mitk::SliceNavigationController::GeometryTimeEvent(nullptr, 0), cmdTimeEvent); } if (m_DataNodeSelectionChanged) { if (this->IsCurrentSelectionValid()) { this->SelectionChanged(this->GetCurrentSelection()); } else { this->SelectionChanged(this->GetDataManagerSelection()); } m_DataNodeSelectionChanged = false; } } void QmitkImageStatisticsView::Hidden() { m_Visible = false; // The slice navigation controller observer is removed here instead of in the destructor. // If it was called in the destructor, the application would freeze because the view's // destructor gets called after the render windows have been destructed. if ( m_TimeObserverTag != 0 ) { mitk::IRenderWindowPart* renderWindow = GetRenderWindowPart(); if (renderWindow) { renderWindow->GetQmitkRenderWindow("axial")->GetSliceNavigationController()-> RemoveObserver( m_TimeObserverTag ); } m_TimeObserverTag = 0; } } void QmitkImageStatisticsView::SetFocus() { } void QmitkImageStatisticsView::AdaptBinSizeCheckboxStepsize(mitk::Image::ConstPointer image) { auto componentType = image->GetPixelType().GetComponentType(); if (componentType == itk::ImageIOBase::DOUBLE || componentType == itk::ImageIOBase::FLOAT) { m_Controls->m_HistogramBinSizeSpinbox->setDecimals(2); m_Controls->m_HistogramBinSizeSpinbox->setSingleStep(.01); } else { m_Controls->m_HistogramBinSizeSpinbox->setDecimals(0); m_Controls->m_HistogramBinSizeSpinbox->setSingleStep(1); } } void QmitkImageStatisticsView::AdaptBinSizeCheckBoxMinMax(mitk::ImageStatisticsCalculator::StatisticsContainer::ConstPointer statistics, int componentType) { auto minValue = statistics->GetMin(); auto maxValue = statistics->GetMax(); //10 bins are minimum as defined in ImageStatisticsCalculator::GetStatistics const unsigned int minHistogramBins = 10; //10000 bins are just a maximum arbitrary number to keep computation time reasonable const unsigned int maxHistogramBins = 10000; double minHistogramBinSize = static_cast((maxValue - minValue) / maxHistogramBins); double maxHistogramBinSize = static_cast((maxValue - minValue) / minHistogramBins); if (componentType == itk::ImageIOBase::DOUBLE || componentType == itk::ImageIOBase::FLOAT) { //smallest value for double/float images const double minHistogramBinSizeValid = 0.01; m_Controls->m_HistogramBinSizeSpinbox->setMinimum(std::max(minHistogramBinSize, minHistogramBinSizeValid)); m_Controls->m_HistogramBinSizeSpinbox->setMaximum(maxHistogramBinSize); } else { //smallest valid value for int/short images const double minHistogramBinSizeValid = 1; m_Controls->m_HistogramBinSizeSpinbox->setMinimum(std::max(static_cast(minHistogramBinSize), static_cast(minHistogramBinSizeValid))); m_Controls->m_HistogramBinSizeSpinbox->setMaximum(static_cast(maxHistogramBinSize)); } } std::map QmitkImageStatisticsView::ConvertHistogramToMap(itk::Statistics::Histogram::ConstPointer histogram) const { std::map histogramMap; auto endIt = histogram->End(); auto it = histogram->Begin(); // generating Lists of measurement and frequencies for (; it != endIt; ++it) { double frequency = it.GetFrequency(); double measurement = it.GetMeasurementVector()[0]; histogramMap.emplace(measurement, frequency); } return histogramMap; } std::vector QmitkImageStatisticsView::ConvertIntensityProfileToVector(mitk::IntensityProfile::ConstPointer intensityProfile) const { std::vector intensityProfileList; auto end = intensityProfile->End(); for (auto it = intensityProfile->Begin(); it != end; ++it) { intensityProfileList.push_back(it.GetMeasurementVector()[0]); } return intensityProfileList; } QString QmitkImageStatisticsView::GetFormattedString(double value, unsigned int decimals) const { typedef mitk::ImageStatisticsCalculator::StatisticsContainer::RealType RealType; RealType maxVal = std::numeric_limits::max(); if (value == maxVal) { return QString("NA"); } else { return QString("%1").arg(value, 0, 'f', decimals); } } QString QmitkImageStatisticsView::GetFormattedIndex(const vnl_vector& vector) const { if (vector.empty()) { return QString(); } QString formattedIndex("("); for (const auto& entry : vector) { formattedIndex += QString::number(entry); formattedIndex += ","; } formattedIndex.chop(1); formattedIndex += ")"; return formattedIndex; }