From 152c742cc0002aaec310a800b5016dc3fa6c662f Mon Sep 17 00:00:00 2001 From: David Sarrut Date: Thu, 12 Jul 2012 10:25:19 +0200 Subject: [PATCH] Add dicom rt struct reader (with progress dialog) --- vv/vvToolROIManager.cxx | 153 +++++++++++++++++----------------------- vv/vvToolROIManager.h | 4 +- 2 files changed, 65 insertions(+), 92 deletions(-) diff --git a/vv/vvToolROIManager.cxx b/vv/vvToolROIManager.cxx index 809a3c5..b678400 100644 --- a/vv/vvToolROIManager.cxx +++ b/vv/vvToolROIManager.cxx @@ -26,6 +26,7 @@ #include "vvMeshReader.h" #include "vvStructSelector.h" #include "vvToolManager.h" +#include "vvProgressDialog.h" // clitk #include "clitkDicomRTStruct2ImageFilter.h" @@ -67,8 +68,8 @@ vvToolROIManager::vvToolROIManager(vvMainWindowBase * parent, Qt::WindowFlags f) mTree->header()->resizeSection(0, 30); mGroupBoxROI->setEnabled(false); - // Temporary disable "Load dicom" button - // frame_4->hide(); + // Disable "Load dicom" button -> not useful + frame_4->hide(); // Set default LUT mDefaultLUTColor = vtkSmartPointer::New(); @@ -200,8 +201,8 @@ void vvToolROIManager::InitializeNewTool(bool ReadStateFlag) this, SLOT(AnImageIsBeingClosed(vvSlicerManager *))); connect(mMainWindow, SIGNAL(SelectedImageHasChanged(vvSlicerManager *)), this, SLOT(SelectedImageHasChanged(vvSlicerManager *))); - connect(mOpenBinaryButton, SIGNAL(clicked()), this, SLOT(OpenBinaryImage())); - connect(mOpenDicomButton, SIGNAL(clicked()), this, SLOT(OpenDicomImage())); + connect(mOpenBinaryButton, SIGNAL(clicked()), this, SLOT(Open())); + // connect(mOpenDicomButton, SIGNAL(clicked()), this, SLOT(OpenDicomImage())); connect(mTree, SIGNAL(itemSelectionChanged()), this, SLOT(SelectedItemChangedInTree())); connect(mCheckBoxShow, SIGNAL(toggled(bool)), this, SLOT(VisibleROIToggled(bool))); connect(mOpacitySlider, SIGNAL(valueChanged(int)), this, SLOT(OpacityChanged(int))); @@ -236,7 +237,7 @@ void vvToolROIManager::InputIsSelected(vvSlicerManager *m) mLabelInputInfo->setText(QString("%1").arg(m->GetFileName().c_str())); // Auto display browser to select new contours - if (mOpenFileBrowserFlag) OpenBinaryImage(); + if (mOpenFileBrowserFlag) Open(); } //------------------------------------------------------------------------------ @@ -292,7 +293,7 @@ void vvToolROIManager::SelectedImageHasChanged(vvSlicerManager * m) { //------------------------------------------------------------------------------ -void vvToolROIManager::OpenBinaryImage() +void vvToolROIManager::Open() { // Open images QString Extensions = "Images or Dicom-Struct files ( *.mha *.mhd *.hdr *.his *.dcm RS*)"; @@ -300,9 +301,14 @@ void vvToolROIManager::OpenBinaryImage() QStringList filename = QFileDialog::getOpenFileNames(this,tr("Open binary image"), mMainWindowBase->GetInputPathName(),Extensions); - if (filename.size() > 1) OpenBinaryImage(filename); if (filename.size() == 0) return; - + if (filename.size() > 1) { OpenBinaryImage(filename); return; } + + // Try to read dicom rt ? + clitk::DicomRT_StructureSet::Pointer s = clitk::DicomRT_StructureSet::New(); + if (s->IsDicomRTStruct(filename[0].toStdString())) OpenDicomImage(filename[0].toStdString()); + else OpenBinaryImage(filename); + } //------------------------------------------------------------------------------ @@ -333,9 +339,7 @@ void vvToolROIManager::OpenBinaryImage(QStringList & filename) vvImage::Pointer binaryImage = reader->GetOutput(); AddImage(binaryImage, filename[i].toStdString(), mBackgroundValueSpinBox->value(), (!mBGModeCheckBox->isChecked())); - // mOpenedBinaryImage.push_back(binaryImage); mOpenedBinaryImageFilenames.push_back(filename[i]); - //mMapImageToIndex[binaryImage]=mOpenedBinaryImageFilenames.size()-1; } // Update the contours @@ -345,81 +349,49 @@ void vvToolROIManager::OpenBinaryImage(QStringList & filename) //------------------------------------------------------------------------------ -void vvToolROIManager::OpenDicomImage() +void vvToolROIManager::OpenDicomImage(std::string filename) { - DD("OpenDicomImage"); - QString Extensions = "Dicom Files ( *.dcm RS*)"; - Extensions += ";;All Files (*)"; - QString file = QFileDialog::getOpenFileName(this,tr("Merge Images"), - mMainWindow->GetInputPathName(), - Extensions); - if (file.isNull()) return; - - // AddDCStructContour(index, file); + // GUI selector of roi vvMeshReader reader; - reader.SetFilename(file.toStdString()); + reader.SetFilename(filename); vvStructSelector selector; selector.SetStructures(reader.GetROINames()); - // selector.EnablePropagationCheckBox(); FIXME Disable - - // FIXME : change text -> allow to save binary image - + if (selector.exec()) { QApplication::setOverrideCursor(QCursor(Qt::WaitCursor)); - reader.SetSelectedItems(selector.getSelectedItems()); - reader.SetImage(mCurrentSlicerManager->GetImage()); - // reader.Update(); - // Read and display information + vvProgressDialog p("Reading ROI...", true); + p.SetCancelButtonEnabled(false); + + // Read information clitk::DicomRT_StructureSet::Pointer s = clitk::DicomRT_StructureSet::New(); - s->Read(file.toStdString()); - s->Print(std::cout); - - // FIXME -> selection - - DD("here"); - clitk::DicomRTStruct2ImageFilter filter; - filter.SetCropMaskEnabled(true); // FIXME - filter.SetImage(mCurrentImage); // Used FIXME -> change to set IMAGE - filter.SetROI(s->GetROIFromROINumber(1)); // FIXME selection - filter.SetWriteOutputFlag(false); - filter.Update(); - - DD("debug"); - typedef itk::Image ImageType; - typedef itk::VTKImageToImageFilter ConnectorType; - ConnectorType::Pointer connector = ConnectorType::New(); - connector->SetInput(filter.GetOutput()); - connector->Update(); - clitk::writeImage(connector->GetOutput(), "toto.mha"); - - // Get image - DD("filter done"); - vvImage::Pointer binaryImage = vvImage::New(); - binaryImage->AddVtkImage(filter.GetOutput()); - - // DEBUG write image - DD("write debug"); - vvImageWriter::Pointer writer = vvImageWriter::New(); - writer->SetOutputFileName("bidon.mha"); - writer->SetInput(binaryImage); - writer->Update(); + s->Read(filename); + + // Loop on selected struct + std::vector list = selector.getSelectedItems(); + for (uint i=0; iGetROIFromROINumber(list[i])); + filter.SetWriteOutputFlag(false); + filter.Update(); + + // Get image + vvImage::Pointer binaryImage = vvImage::New(); + binaryImage->AddVtkImage(filter.GetOutput()); - // Add to gui - DD("gui"); - AddImage(binaryImage, file.toStdString(), mBackgroundValueSpinBox->value(), - (!mBGModeCheckBox->isChecked())); - mOpenedBinaryImageFilenames.push_back(file); + // Add to gui + AddImage(binaryImage, s->GetROIFromROINumber(list[i])->GetName(), 0, true); + mOpenedBinaryImageFilenames.push_back(filename.c_str()); + } - // std::vector contours=reader.GetOutput(); - // for (std::vector::iterator i=contours.begin(); - // i!=contours.end(); i++) - // AddContour(index,*i,selector.PropagationEnabled()); QApplication::restoreOverrideCursor(); } - - - + // Update the contours + UpdateAllContours(); } //------------------------------------------------------------------------------ @@ -737,9 +709,9 @@ void vvToolROIManager::ChangeContourColor() { //------------------------------------------------------------------------------ void vvToolROIManager::ChangeContourWidth(int n) { if (mCurrentROIActor == NULL) return; - mCurrentROIActor->SetContourWidth(n); - mCurrentROIActor->UpdateColor(); - mCurrentSlicerManager->Render(); + mCurrentROIActor->SetContourWidth(n); + mCurrentROIActor->UpdateColor(); + mCurrentSlicerManager->Render(); } //------------------------------------------------------------------------------ @@ -772,8 +744,9 @@ void vvToolROIManager::ReloadCurrentROI() { reader->SetInputFilename(mCurrentROI->GetFilename()); reader->Update(vvImageReader::IMAGE); if (reader->GetLastError() != "") { - QMessageBox::information(mMainWindowBase, tr("Sorry, error. Could not reload"), - reader->GetLastError().c_str()); + // No message just ignore (because can be from dicom) + // QMessageBox::information(mMainWindowBase, tr("Sorry, error. Could not reload"), + // reader->GetLastError().c_str()); return; } @@ -890,32 +863,32 @@ void vvToolROIManager::ReadXMLInformation_ROI() if (value == "Overlay" && m_XmlReader->isStartElement()) { QXmlStreamAttributes attributes = m_XmlReader->attributes(); if (!m_XmlReader->hasError()) - r = attributes.value("Red").toString().toFloat(); + r = attributes.value("Red").toString().toFloat(); + if (!m_XmlReader->hasError()) + g = attributes.value("Green").toString().toFloat(); if (!m_XmlReader->hasError()) - g = attributes.value("Green").toString().toFloat(); + b = attributes.value("Blue").toString().toFloat(); if (!m_XmlReader->hasError()) - b = attributes.value("Blue").toString().toFloat(); + visible = attributes.value("Visible").toString().toInt(); if (!m_XmlReader->hasError()) - visible = attributes.value("Visible").toString().toInt(); + opacity = attributes.value("Opacity").toString().toFloat(); if (!m_XmlReader->hasError()) - opacity = attributes.value("Opacity").toString().toFloat(); - if (!m_XmlReader->hasError()) - depth = attributes.value("Depth").toString().toFloat(); + depth = attributes.value("Depth").toString().toFloat(); } if (value == "Contour" && m_XmlReader->isStartElement()) { QXmlStreamAttributes attributes = m_XmlReader->attributes(); if (!m_XmlReader->hasError()) - cr = attributes.value("Red").toString().toFloat(); + cr = attributes.value("Red").toString().toFloat(); if (!m_XmlReader->hasError()) - cg = attributes.value("Green").toString().toFloat(); + cg = attributes.value("Green").toString().toFloat(); if (!m_XmlReader->hasError()) - cb = attributes.value("Blue").toString().toFloat(); + cb = attributes.value("Blue").toString().toFloat(); if (!m_XmlReader->hasError()) - cvisible = attributes.value("Visible").toString().toInt(); + cvisible = attributes.value("Visible").toString().toInt(); if (!m_XmlReader->hasError()) - width = attributes.value("Width").toString().toFloat(); + width = attributes.value("Width").toString().toFloat(); } param->SetOverlayColor(r,g,b); param->SetVisible(visible); diff --git a/vv/vvToolROIManager.h b/vv/vvToolROIManager.h index 1f0f81c..03cbff9 100644 --- a/vv/vvToolROIManager.h +++ b/vv/vvToolROIManager.h @@ -52,9 +52,9 @@ class vvToolROIManager: public slots: void AnImageIsBeingClosed(vvSlicerManager *); void SelectedImageHasChanged(vvSlicerManager *); - void OpenBinaryImage(); + void Open(); void OpenBinaryImage(QStringList & filenames); - void OpenDicomImage(); + void OpenDicomImage(std::string filaneme); void SelectedItemChangedInTree(); void VisibleROIToggled(bool b); void VisibleContourROIToggled(bool b); -- 2.47.1