1 /*=========================================================================
2 Program: vv http://www.creatis.insa-lyon.fr/rio/vv
5 - University of LYON http://www.universite-lyon.fr/
6 - Léon Bérard cancer center http://oncora1.lyon.fnclcc.fr
7 - CREATIS CNRS laboratory http://www.creatis.insa-lyon.fr
9 This software is distributed WITHOUT ANY WARRANTY; without even
10 the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR
11 PURPOSE. See the copyright notices for more information.
13 It is distributed under dual licence
15 - BSD See included LICENSE.txt file
16 - CeCILL-B http://www.cecill.info/licences/Licence_CeCILL-B_V1-en.html
17 ======================================================================-====*/
20 #include "vvToolExtractLung.h"
21 #include "vvToolStructureSetManager.h"
23 #include "vvImageReader.h"
24 #include "vvImageWriter.h"
25 #include "vvLabelImageLoaderWidget.h"
26 #include "vvProgressDialog.h"
29 #include <QMessageBox>
31 //------------------------------------------------------------------------------
32 // Create the tool and automagically (I like this word) insert it in
33 // the main window menu.
34 ADD_TOOL(vvToolExtractLung);
35 //------------------------------------------------------------------------------
38 //------------------------------------------------------------------------------
39 vvToolExtractLung::vvToolExtractLung(vvMainWindowBase * parent, Qt::WindowFlags f):
40 vvToolWidgetBase(parent,f),
41 vvToolBase<vvToolExtractLung>(parent),
42 Ui::vvToolExtractLung()
45 Ui_vvToolExtractLung::setupUi(mToolWidget);
46 mMaskLoaderBox->setEnabled(false);
47 mOptionsBox->setEnabled(false);
48 connect(mPatientMaskInputWidget, SIGNAL(accepted()), this, SLOT(PatientMaskInputIsSelected()));
51 cmdline_parser_clitkExtractLung_init(&mArgsInfo);
53 // Create a new ExtractLung filter
54 mFilter = FilterType::New();
57 AddInputSelector("Select image", mFilter);
59 //------------------------------------------------------------------------------
62 //------------------------------------------------------------------------------
63 vvToolExtractLung::~vvToolExtractLung()
66 //------------------------------------------------------------------------------
69 //------------------------------------------------------------------------------
70 void vvToolExtractLung::Initialize() {
71 SetToolName("ExtractLung");
72 SetToolMenuName("Extract lungs");
73 SetToolIconFilename(":/common/icons/lung-overlay.png");
74 SetToolTip("Extract lung mask from thorax CT.");
75 SetToolExperimental(true);
77 //------------------------------------------------------------------------------
80 //------------------------------------------------------------------------------
81 void vvToolExtractLung::InputIsSelected(vvSlicerManager *m)
83 DD("InputIsSelected");
85 HideInputSelector(); // splitter
86 mToolInputSelectionWidget->hide();
87 mCurrentSlicerManager = m;
88 mCurrentImage = m->GetImage();
89 mMaskLoaderBox->setEnabled(true);
90 mLabelInput->setText(m->GetFileName().c_str());
92 //------------------------------------------------------------------------------
95 //------------------------------------------------------------------------------
96 void vvToolExtractLung::PatientMaskInputIsSelected()
98 DD("PatientMaskInputIsSelected");
99 mMaskLoaderBox->setEnabled(false);
100 mOptionsBox->setEnabled(true);
102 // Get Patient mask and BG value
103 mPatient = mPatientMaskInputWidget->GetImage();
104 mPatientBackgroundValue = mPatientMaskInputWidget->GetBackgroundValue();
106 //------------------------------------------------------------------------------
109 //------------------------------------------------------------------------------
110 void vvToolExtractLung::GetArgsInfoFromGUI()
112 DD("GetArgsInfoFromGUI");
113 mArgsInfo.patientBG_arg = 0; //mPatientBackgroundValueSpinBox->value();
114 mArgsInfo.verboseOption_flag = true;
115 mArgsInfo.verboseStep_flag = true;
116 mArgsInfo.writeStep_flag = false;
117 mArgsInfo.input_given = 0;
118 mArgsInfo.patient_given = 0;
119 mArgsInfo.output_given = 0;
120 mArgsInfo.outputTrachea_given = 0;
121 mArgsInfo.remove1_given = 0;
123 //------------------------------------------------------------------------------
126 //------------------------------------------------------------------------------
127 void vvToolExtractLung::apply()
130 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
132 GetArgsInfoFromGUI();
134 mFilter->SetIOVerbose(true);
135 mFilter->AddInputVVImage(mCurrentImage); // CT
136 mFilter->AddInputVVImage(mPatient); // patient mask
137 mFilter->SetArgsInfo(mArgsInfo);
139 DD("mfilter->Update");
140 // vvThreadedFilter a;
141 // a->SetFilter(mFilter)
142 // connect(a, SIGNAL(rejected()), this, SLOT(FilterHasBeenCanceled()));
144 // if (a->HasError()) { DD(a->GetError()); return; }
148 if (mFilter->HasError()) {
149 QMessageBox::information(this,tr("*Error* while finding lung"), mFilter->GetLastError().c_str());
155 std::vector<vvImage::Pointer> output = mFilter->GetOutputVVImages();
160 vvImage::Pointer lung = output[0];
161 std::ostringstream osstream;
162 osstream << "Lung_" << mCurrentSlicerManager->GetSlicer(0)->GetFileName() << ".mhd";
163 vvSlicerManager * v = AddImage(lung,osstream.str());
165 vvToolStructureSetManager::AddImage(mCurrentSlicerManager, "Right lung", lung, 1, false); // Right is greater than Left
166 vvToolStructureSetManager::AddImage(mCurrentSlicerManager, "Left lung", lung, 2, false);
168 // Set trachea into VV
169 if (output.size() == 2) {
171 vvImage::Pointer trachea = output[1];
172 std::ostringstream osstream;
173 osstream << "Trachea_" << mCurrentSlicerManager->GetSlicer(0)->GetFileName() << ".mhd";
174 vvSlicerManager * v = AddImage(trachea,osstream.str());
176 vvToolStructureSetManager::AddImage(mCurrentSlicerManager, "Trachea", trachea, 0);
180 QApplication::restoreOverrideCursor();
183 //------------------------------------------------------------------------------
186 //------------------------------------------------------------------------------
187 bool vvToolExtractLung::close()
189 return vvToolWidgetBase::close();
191 //------------------------------------------------------------------------------