Authors belong to:
- University of LYON http://www.universite-lyon.fr/
- - Léon Bérard cancer center http://oncora1.lyon.fnclcc.fr
+ - Léon Bérard cancer center http://www.centreleonberard.fr
- CREATIS CNRS laboratory http://www.creatis.insa-lyon.fr
This software is distributed WITHOUT ANY WARRANTY; without even
- BSD See included LICENSE.txt file
- CeCILL-B http://www.cecill.info/licences/Licence_CeCILL-B_V1-en.html
- ======================================================================-====*/
+ ===========================================================================**/
// vv
#include "vvToolExtractLung.h"
connect(mPatientMaskInputWidget, SIGNAL(accepted()), this, SLOT(PatientMaskInputIsSelected()));
// Default values
- cmdline_parser_clitkExtractLung_init(&mArgsInfo);
+ mArgsInfo = new ArgsInfoType;
+ cmdline_parser_clitkExtractLung_init(mArgsInfo);
+ SetGUIFromArgsInfo();
+ m_IsThreadInterrupted = false;
// Create a new ExtractLung filter
- mFilter = FilterType::New();
+ mFilter = new FilterType; // used in AddInputSelector
// Add input selector
AddInputSelector("Select CT thorax image", mFilter);
SetToolIconFilename(":/common/icons/lung-overlay.png");
SetToolTip("Extract lung mask from thorax CT.");
SetToolExperimental(true);
+ // SetToolInMenu("Segmentation");
}
//------------------------------------------------------------------------------
//------------------------------------------------------------------------------
void vvToolExtractLung::InputIsSelected(vvSlicerManager *m)
{
- DD("InputIsSelected");
// Hide selector
HideInputSelector(); // splitter
mToolInputSelectionWidget->hide();
//------------------------------------------------------------------------------
void vvToolExtractLung::PatientMaskInputIsSelected()
{
- DD("PatientMaskInputIsSelected");
- mMaskLoaderBox->setEnabled(false);
- mOptionsBox->setEnabled(true);
-
// Get Patient mask and BG value
mPatient = mPatientMaskInputWidget->GetImage();
mPatientBackgroundValue = mPatientMaskInputWidget->GetBackgroundValue();
+
+ // Check patient dimension
+ if (mPatient->GetNumberOfDimensions() != 3) {
+ QMessageBox::information(this,tr("*Error*"), "Mask image must be 3D");
+ return;
+ }
+
+ mMaskLoaderBox->setEnabled(false);
+ mOptionsBox->setEnabled(true);
+}
+//------------------------------------------------------------------------------
+
+
+//------------------------------------------------------------------------------
+void vvToolExtractLung::SetGUIFromArgsInfo()
+{
+ mAirUpperThresholdSlider->SetText("Upper threshold for air");
+ mAirUpperThresholdSlider->SetMinimum(-1200);
+ mAirUpperThresholdSlider->SetMaximum(2000);
+ DD(mArgsInfo->upper_arg);
+ mAirUpperThresholdSlider->SetValue(mArgsInfo->upper_arg);
+
+ mAirLowerThresholdSlider->SetText("Lower threshold for air");
+ mAirLowerThresholdSlider->SetMinimum(-1200);
+ mAirLowerThresholdSlider->SetMaximum(2000);
+ mAirLowerThresholdSlider->SetValue(mArgsInfo->lower_arg);
+
}
//------------------------------------------------------------------------------
//------------------------------------------------------------------------------
void vvToolExtractLung::GetArgsInfoFromGUI()
{
- DD("GetArgsInfoFromGUI");
- mArgsInfo.patientBG_arg = 0; //mPatientBackgroundValueSpinBox->value();
- mArgsInfo.verboseOption_flag = true;
- mArgsInfo.verboseStep_flag = true;
- mArgsInfo.writeStep_flag = false;
- mArgsInfo.input_given = 0;
- mArgsInfo.patient_given = 0;
- mArgsInfo.output_given = 0;
- mArgsInfo.outputTrachea_given = 0;
- mArgsInfo.remove1_given = 0;
+ // mArgsInfo->patientBG_arg = mPatientMaskInputWidget->GetBackgroundValue();
+ mArgsInfo->verboseOption_flag = true; // DEBUG. TO CHANGE
+ mArgsInfo->verboseStep_flag = true; // DEBUG. TO CHANGE
+ mArgsInfo->writeStep_flag = false;
+ mArgsInfo->input_given = 0;
+ // mArgsInfo->patient_given = 0;
+ mArgsInfo->output_given = 0;
+ mArgsInfo->outputTrachea_given = 0;
+ // mArgsInfo->remove1_given = 0;
+
+ mArgsInfo->upper_arg = mAirUpperThresholdSlider->GetValue();
+ mArgsInfo->lower_arg = mAirLowerThresholdSlider->GetValue();
+ if (mRadioButtonLowerThan->isChecked()) mArgsInfo->lower_given = 1;
}
//------------------------------------------------------------------------------
//------------------------------------------------------------------------------
void vvToolExtractLung::apply()
{
- DD("apply");
+ // Change cursor to wait
QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
+ // Read options from GUI and put it in the ArgsInfo struct
GetArgsInfoFromGUI();
+
+ // Check options
+ if (mArgsInfo->lower_given) {
+ if (mArgsInfo->lower_arg > mArgsInfo->upper_arg) {
+ QApplication::restoreOverrideCursor();
+ QMessageBox::information(this,tr("Error"), "Lower threshold cannot be greater than upper threshold.");
+ return;
+ }
+ }
- mFilter->SetIOVerbose(true);
+ // Create new filter
+ if (mFilter) delete mFilter;
+ mFilter = new FilterType; // needed when thread cancel the filter
+ // mFilter->StopOnErrorOff();
+ // mFilter->SetIOVerbose(true);
mFilter->AddInputVVImage(mCurrentImage); // CT
mFilter->AddInputVVImage(mPatient); // patient mask
- mFilter->SetArgsInfo(mArgsInfo);
+ mFilter->SetArgsInfo(*mArgsInfo);
- DD("mfilter->Update");
+ // Created threaded execution
vvThreadedFilter thread;
- // thread.SetFilter((clitk::FilterBase*)&(*mFilter));
- // thread.SetFilter((clitk::FilterBase*)&(*mFilter));
- thread.SetFilter(&(*mFilter));
- // connect(a, SIGNAL(rejected()), this, SLOT(FilterHasBeenCanceled()));
- thread.Update();
- // if (a->HasError()) { DD(a->GetError()); return; }
- // mFilter->Update();
- DD("after thread");
-
- // Check error
- if (mFilter->HasError()) {
- QMessageBox::information(this,tr("*Error* while finding lung"), mFilter->GetLastError().c_str());
- reject();
+ connect(&thread, SIGNAL(ThreadInterrupted()), this, SLOT(ThreadInterrupted()));
+ thread.SetFilter(mFilter);
+
+ try {
+ thread.Update();
+ }
+ catch(std::runtime_error e) {
+ DD("Error exception handling");
+ DD(m_IsThreadInterrupted);
+ // Check if the thread has been canceled. In this case, return
+ if (m_IsThreadInterrupted) {
+ m_IsThreadInterrupted = false;
+ QApplication::restoreOverrideCursor();
return;
}
+ disconnect(&thread, SIGNAL(ThreadInterrupted()), this, SLOT(ThreadInterrupted()));
+
+ // Check error during filter
+ // if (mFilter->HasError()) {
+ QApplication::restoreOverrideCursor();
+ QMessageBox::information(this,tr("Error"), e.what());//mFilter->GetLastError().c_str());
+ return;
+ // }
+ } // end exception
// Get output
std::vector<vvImage::Pointer> output = mFilter->GetOutputVVImages();
- DD(output.size());
-
if (output.size() == 0) {
std::cerr << "Error : no output ?" << std::endl;
+ QApplication::restoreOverrideCursor();
close();
return;
}
// Set Lung into VV
- DD("lung");
vvImage::Pointer lung = output[0];
std::ostringstream osstream;
osstream << "Lung_" << mCurrentSlicerManager->GetSlicer(0)->GetFileName() << ".mhd";
// Set trachea into VV
if (output.size() == 2) {
- DD("trachea");
vvImage::Pointer trachea = output[1];
std::ostringstream osstream;
osstream << "Trachea_" << mCurrentSlicerManager->GetSlicer(0)->GetFileName() << ".mhd";
//------------------------------------------------------------------------------
+//------------------------------------------------------------------------------
+void vvToolExtractLung::ThreadInterrupted()
+{
+ m_IsThreadInterrupted = true;
+}
+//------------------------------------------------------------------------------
+
git://git.creatis.insa-lyon.fr / clitk.git / blobdiff