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://www.centreleonberard.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 <QMessageBox>
21 #include <QInputDialog>
23 #include "QTreePushButton.h"
28 #include "vvMainWindow.h"
29 #include "vvHelpDialog.h"
30 #include "vvRegisterForm.h"
31 #include "vvDocumentation.h"
32 #include "vvProgressDialog.h"
33 #include "vvQDicomSeriesSelector.h"
34 #include "vvSlicerManager.h"
35 #include "clitkImageCommon.h"
37 #include "vvInteractorStyleNavigator.h"
38 #include "vvImageWriter.h"
39 #include "vvSegmentationDialog.h"
40 #include "vvSurfaceViewerDialog.h"
41 #include "vvDeformationDialog.h"
42 #include "vvImageWarp.h"
44 #include "vvMidPosition.h"
46 #include "vvStructSelector.h"
47 #include "vvMeshReader.h"
48 #include "vvSaveState.h"
49 #include "vvReadState.h"
50 #include "clitkConfiguration.h"
51 #include "clitkMatrix.h"
55 #include <itkImageFileReader.h>
56 #include <itkByteSwapper.h>
57 #include <itkCommand.h>
58 #include <itkNumericSeriesFileNames.h>
61 #include <vtkImageMapper3D.h>
62 #include <vtkInformation.h>
63 #include <vtkVersion.h>
64 #include <vtkImageData.h>
65 #include <vtkImageActor.h>
66 #include <vtkCornerAnnotation.h>
67 #include <vtkRenderWindow.h>
68 #include <vtkRenderWindowInteractor.h>
69 #include <vtkRenderer.h>
70 #include <vtkRendererCollection.h>
71 #include <vtkWindowToImageFilter.h>
72 #include <vtkBMPWriter.h>
73 #include <vtkTIFFWriter.h>
74 #include <vtkPNMWriter.h>
75 #include <vtkPNGWriter.h>
76 #include <vtkJPEGWriter.h>
77 #include <vtkGenericMovieWriter.h>
78 #ifdef CLITK_EXPERIMENTAL
79 # include <vvAnimatedGIFWriter.h>
81 #ifdef VTK_USE_VIDEO_FOR_WINDOWS
82 # include <vtkAVIWriter.h>
84 #ifdef VTK_USE_FFMPEG_ENCODER
85 # include <vtkFFMPEGWriter.h>
87 #ifdef VTK_USE_MPEG2_ENCODER
88 # include <vtkMPEG2Writer.h>
90 #include <vtkMatrix4x4.h>
91 #include <vtkTransform.h>
100 #define COLUMN_UL_VIEW 1
101 #define COLUMN_UR_VIEW 2
102 #define COLUMN_DL_VIEW 3
103 #define COLUMN_DR_VIEW 4
104 #define COLUMN_CLOSE_IMAGE 5
105 #define COLUMN_RELOAD_IMAGE 6
106 #define COLUMN_IMAGE_NAME 7
108 #ifdef CLITK_PRIVATE_FEATURES
109 #define EXTENSIONS "Images ( *.bmp *.dcm *.png *.jpeg *.jpg *.tif *.mhd *.mha *.hdr *.vox *.his *.xdr *.SCAN *.nii *.nrrd *.nhdr *.refscan *.nii.gz *.usf *.svl)"
111 #define EXTENSIONS "Images ( *.bmp *.dcm *.png *.jpeg *.jpg *.tif *.mhd *.mha *.hdr *.vox *.his *.xdr *.SCAN *.nii *.nrrd *.nhdr *.refscan *.nii.gz)"
116 0,Qt::UserRole full filename
117 1,Qt::CheckStateRole checkbutton UL View
118 1,Qt::UserRole overlay, fusion or vector
119 2,Qt::CheckStateRole checkbutton UR View
120 3,Qt::CheckStateRole checkbutton DL View
121 4,Qt::CheckStateRole checkbutton DR View
123 5,Qt::UserRole mSlicerManager id*/
125 //------------------------------------------------------------------------------
126 vvMainWindow::vvMainWindow():vvMainWindowBase()
128 setupUi(this); // this sets up the GUI
131 mMenuTools = menuTools;
132 // mMenuSegmentation = menuSegmentation;
133 mContextMenu = &contextMenu;
134 mMenuExperimentalTools = menuExperimental;
137 mCurrentSelectedImageId = "";
138 mCurrentPickedImageId = "";
139 mCurrentPickedImageIndex = 0;
141 //Init the contextMenu
142 this->setContextMenuPolicy(Qt::CustomContextMenu);
143 contextActions.resize(0);
144 QAction* actionOpen_new_image = contextMenu.addAction(QIcon(QString::fromUtf8(":/common/icons/fileopen.png")),
145 tr("O&pen new Image"));
146 actionOpen_new_image->setShortcut(QKeySequence(tr("Ctrl+O")));
147 connect(actionOpen_new_image,SIGNAL(triggered()),this,SLOT(OpenImages()));
148 contextActions.push_back(actionOpen_new_image);
149 contextMenu.addSeparator();
151 QAction* actionClose_Image = contextMenu.addAction(QIcon(QString::fromUtf8(":/common/icons/exit.png")),
152 tr("Close Current Image"));
153 connect(actionClose_Image,SIGNAL(triggered()),this,SLOT(CloseImage()));
154 contextActions.push_back(actionClose_Image);
156 QAction* actionReload_image = contextMenu.addAction(QIcon(QString::fromUtf8(":/common/icons/rotateright.png")),
157 tr("Reload Current Image"));
158 connect(actionReload_image,SIGNAL(triggered()),this,SLOT(ReloadImage()));
159 contextActions.push_back(actionReload_image);
161 QAction* actionSave_image = contextMenu.addAction(QIcon(QString::fromUtf8(":/common/icons/filesave.png")),
162 tr("Save Current Image"));
163 connect(actionSave_image,SIGNAL(triggered()),this,SLOT(SaveAs()));
164 contextActions.push_back(actionSave_image);
166 QAction* actionSave_state = contextMenu.addAction(QIcon(QString::fromUtf8(":/common/icons/filesave.png")),
167 tr("Save Current State"));
168 connect(actionSave_state,SIGNAL(triggered()),this,SLOT(SaveCurrentState()));
169 contextActions.push_back(actionSave_state);
171 QAction* actionRead_state = contextMenu.addAction(QIcon(QString::fromUtf8(":/common/icons/filesave.png")),
172 tr("Read Saved State"));
173 connect(actionRead_state,SIGNAL(triggered()),this,SLOT(ReadSavedState()));
174 contextActions.push_back(actionRead_state);
176 contextMenu.addSeparator();
178 contextMenu.addAction(actionAdd_VF_to_current_Image);
179 contextActions.push_back(actionAdd_VF_to_current_Image);
181 //QAction* actionAdd_Overlay_to_current_Image = menuOverlay->addAction(QIcon(QString::fromUtf8(":/common/icons/GPSup.png")),
182 // tr("Add overlay image to current image"));
183 contextMenu.addAction(actionAdd_overlay_image_to_current_image);
184 contextActions.push_back(actionAdd_overlay_image_to_current_image);
186 contextMenu.addAction(actionAdd_fusion_image);
187 contextActions.push_back(actionAdd_fusion_image);
189 #ifdef CLITK_EXPERIMENTAL
190 contextMenu.addAction(actionAdd_USSequence_toCT);
191 contextActions.push_back(actionAdd_USSequence_toCT);
195 contextMenu.addSeparator();
196 QAction* actionResetMatrix = contextMenu.addAction(QIcon(QString::fromUtf8(":/common/icons/identity.png")),
197 tr("Reset transformation to identity"));
198 connect(actionResetMatrix, SIGNAL(triggered()), this,SLOT(ResetTransformationToIdentity()));
202 QMenu * m = new QMenu(menubar);
204 // m->setObjectName(QString::fromUtf8("TOTOTO"));
205 contextMenu.addMenu(m);
206 QAction * a = m->addAction(QIcon(QString::fromUtf8(":/common/icons/GPSup.png")),
208 QAction * b = m->addAction(QIcon(QString::fromUtf8(":/common/icons/GPSup.png")),
212 connect(a,SIGNAL(triggered()),this,SLOT(AddFusionImage()));
216 mSlicerManagers.resize(0);
226 header.append("Name");
228 DataTree->setHeaderLabels(header);
229 DataTree->resizeColumnToContents(COLUMN_TREE);
230 DataTree->resizeColumnToContents(COLUMN_UL_VIEW);
231 DataTree->resizeColumnToContents(COLUMN_UR_VIEW);
232 DataTree->resizeColumnToContents(COLUMN_DL_VIEW);
233 DataTree->resizeColumnToContents(COLUMN_DR_VIEW);
234 DataTree->resizeColumnToContents(COLUMN_CLOSE_IMAGE);
235 DataTree->resizeColumnToContents(COLUMN_RELOAD_IMAGE);
236 DataTree->resizeColumnToContents(COLUMN_IMAGE_NAME);
239 documentation = new vvDocumentation();
240 help_dialog = new vvHelpDialog();
241 dicomSeriesSelector = new vvDicomSeriesSelector();
243 inverseButton->setEnabled(0);
244 actionAdd_overlay_image_to_current_image->setEnabled(0);
245 actionSave_As->setEnabled(0);
246 actionAdd_VF_to_current_Image->setEnabled(0);
247 actionAdd_fusion_image->setEnabled(0);
248 actionAdd_USSequence_toCT->setEnabled(0);
251 verticalSliders.push_back(NOVerticalSlider);
252 verticalSliders.push_back(NEVerticalSlider);
253 verticalSliders.push_back(SOVerticalSlider);
254 verticalSliders.push_back(SEVerticalSlider);
256 for (int i =0; i < 4; i++)
257 verticalSliders[i]->hide();
259 horizontalSliders.push_back(NOHorizontalSlider);
260 horizontalSliders.push_back(NEHorizontalSlider);
261 horizontalSliders.push_back(SOHorizontalSlider);
262 horizontalSliders.push_back(SEHorizontalSlider);
264 for (int i =0; i < 4; i++)
265 horizontalSliders[i]->hide();
268 connect(NOVerticalSlider,SIGNAL(valueChanged(int)),this,SLOT(NOVerticalSliderChanged()));
269 connect(NEVerticalSlider,SIGNAL(valueChanged(int)),this,SLOT(NEVerticalSliderChanged()));
270 connect(SOVerticalSlider,SIGNAL(valueChanged(int)),this,SLOT(SOVerticalSliderChanged()));
271 connect(SEVerticalSlider,SIGNAL(valueChanged(int)),this,SLOT(SEVerticalSliderChanged()));
273 connect(NOHorizontalSlider,SIGNAL(valueChanged(int)),this,SLOT(NOHorizontalSliderMoved()));
274 connect(NEHorizontalSlider,SIGNAL(valueChanged(int)),this,SLOT(NEHorizontalSliderMoved()));
275 connect(SOHorizontalSlider,SIGNAL(valueChanged(int)),this,SLOT(SOHorizontalSliderMoved()));
276 connect(SEHorizontalSlider,SIGNAL(valueChanged(int)),this,SLOT(SEHorizontalSliderMoved()));
279 connect(actionCompute_mid_position_image,SIGNAL(triggered()),this,SLOT(ComputeMidPosition()));
280 connect(actionDeformable_Registration,SIGNAL(triggered()),this,SLOT(ComputeDeformableRegistration()));
281 connect(actionWarp_image_with_vector_field,SIGNAL(triggered()),this,SLOT(WarpImage()));
282 connect(actionLoad_images,SIGNAL(triggered()),this,SLOT(OpenImages()));
283 connect(actionOpen_Dicom,SIGNAL(triggered()),this,SLOT(OpenDicom()));
284 // connect(actionOpen_Dicom_Struct,SIGNAL(triggered()),this,SLOT(OpenDCStructContour()));
285 connect(actionOpen_VTK_contour,SIGNAL(triggered()),this,SLOT(OpenVTKContour()));
286 connect(actionOpen_Multiple_Images_As_One,SIGNAL(triggered()),this,SLOT(MergeImages()));
287 connect(actionSlice_Image_As_Multiple_Images,SIGNAL(triggered()),this,SLOT(SliceImages()));
288 connect(actionOpen_Image_With_Time,SIGNAL(triggered()),this,SLOT(OpenImageWithTime()));
289 connect(actionMerge_images_as_n_dim_t, SIGNAL(triggered()), this, SLOT(MergeImagesWithTime()));
290 connect(actionSave_As,SIGNAL(triggered()),this,SLOT(SaveAs()));
291 connect(actionSave_current_state,SIGNAL(triggered()),this,SLOT(SaveCurrentState()));
292 connect(actionRead_saved_state,SIGNAL(triggered()),this,SLOT(ReadSavedState()));
293 connect(actionExit,SIGNAL(triggered()),this,SLOT(close()));
294 connect(actionAdd_VF_to_current_Image,SIGNAL(triggered()),this,SLOT(OpenField()));
295 connect(actionAdd_fusion_image,SIGNAL(triggered()),this,SLOT(SelectFusionImage()));
296 connect(actionAdd_overlay_image_to_current_image,SIGNAL(triggered()), this,SLOT(SelectOverlayImage()));
297 connect(actionAdd_USSequence_toCT,SIGNAL(triggered()), this,SLOT(SelectFusionSequence()));
298 connect(actionNavigation_Help,SIGNAL(triggered()),this,SLOT(ShowHelpDialog()));
299 connect(actionDocumentation,SIGNAL(triggered()),this,SLOT(ShowDocumentation()));
300 connect(actionRegister_vv,SIGNAL(triggered()),this,SLOT(PopupRegisterForm()));
302 connect(overlayPanel, SIGNAL(FusionSequenceCorrespondancesButtonPressed()), this, SLOT(SelectFusionSequenceCorrespondances()));
305 ///////////////////////////////////////////////
306 connect(actionSegmentation,SIGNAL(triggered()),this,SLOT(SegmentationOnCurrentImage()));
307 connect(actionSurface_Viewer,SIGNAL(triggered()),this,SLOT(SurfaceViewerLaunch()));
308 ///////////////////////////////////////////////
310 actionNorth_East_Window->setEnabled(0);
311 actionNorth_West_Window->setEnabled(0);
312 actionSouth_East_Window->setEnabled(0);
313 actionSouth_West_Window->setEnabled(0);
315 connect(actionNorth_East_Window,SIGNAL(triggered()),this,SLOT(SaveNEScreenshot()));
316 connect(actionNorth_West_Window,SIGNAL(triggered()),this,SLOT(SaveNOScreenshot()));
317 connect(actionSouth_East_Window,SIGNAL(triggered()),this,SLOT(SaveSEScreenshot()));
318 connect(actionSouth_West_Window,SIGNAL(triggered()),this,SLOT(SaveSOScreenshot()));
319 connect(actionSave_all_slices,SIGNAL(triggered()),this,SLOT(SaveScreenshotAllSlices()));
321 connect(DataTree,SIGNAL(itemSelectionChanged()),this,SLOT(ImageInfoChanged()));
322 connect(DataTree,SIGNAL(itemClicked(QTreeWidgetItem*, int)),this,
323 SLOT(DisplayChanged(QTreeWidgetItem*, int)));
325 connect(viewButton,SIGNAL(clicked()),this, SLOT(ChangeViewMode()) );
326 connect(windowSpinBox,SIGNAL(editingFinished()),this,SLOT(WindowLevelEdited()));
327 connect(levelSpinBox,SIGNAL(editingFinished()),this,SLOT(WindowLevelEdited()));
328 connect(colorMapComboBox,SIGNAL(currentIndexChanged(int)),this,SLOT(UpdateColorMap()));
329 connect(presetComboBox,SIGNAL(currentIndexChanged(int)),this,SLOT(UpdateWindowLevel()));
330 connect(slicingPresetComboBox, SIGNAL(currentIndexChanged(int)),this,SLOT(UpdateSlicingPreset()));
331 connect(inverseButton,SIGNAL(clicked()),this,SLOT(SwitchWindowLevel()));
332 connect(applyWindowLevelToAllButton,SIGNAL(clicked()),this,SLOT(ApplyWindowLevelToAllImages()));
334 connect(this,SIGNAL(customContextMenuRequested(QPoint)),this,SLOT(ShowContextMenu(QPoint)));
336 connect(linkPanel,SIGNAL(addLink(QString,QString,bool)),this,SLOT(AddLink(QString,QString,bool)));
337 connect(linkPanel,SIGNAL(removeLink(QString,QString)),this,SLOT(RemoveLink(QString,QString)));
338 connect(overlayPanel,SIGNAL(VFPropertyUpdated(int,int,int,int,double,double,double)),this,SLOT(SetVFProperty(int,int,int,int,double,double,double)));
339 connect(overlayPanel,SIGNAL(OverlayPropertyUpdated(int,int,double,double)),
340 this,SLOT(SetOverlayProperty(int,int,double,double)));
341 connect(overlayPanel,SIGNAL(FusionPropertyUpdated(int,int,int,double,double, bool)),
342 this,SLOT(SetFusionProperty(int,int,int,double,double, bool)));
343 connect(landmarksPanel,SIGNAL(UpdateRenderWindows()),this,SLOT(UpdateRenderWindows()));
344 connect(landmarksPanel,SIGNAL(SelectedPointChanged()),this,SLOT(GoToLandmark()));
346 connect(overlayPanel,SIGNAL(FusionSequencePropertyUpdated(int, bool, unsigned int, bool)),
347 this,SLOT(SetFusionSequenceProperty(int, bool,unsigned int, bool)));
352 playButton->setEnabled(0);
353 frameRateLabel->setEnabled(0);
354 frameRateSpinBox->setEnabled(0);
355 connect(playButton, SIGNAL(clicked()),this,SLOT(PlayPause()));
356 connect(frameRateSpinBox, SIGNAL(valueChanged(int)),this,SLOT(ChangeFrameRate(int)));
358 goToCursorPushButton->setEnabled(0);
359 connect(goToCursorPushButton, SIGNAL(clicked()),this,SLOT(GoToCursor()));
361 NOViewWidget->hide();
362 NEViewWidget->hide();
363 SOViewWidget->hide();
364 SEViewWidget->hide();
366 //Recently opened files
367 std::list<std::string> recent_files = GetRecentlyOpenedImages();
368 recentlyOpenedFilesMenu=NULL;
369 if ( !recent_files.empty() ) {
370 createRecentlyOpenedFilesMenu();
371 updateRecentlyOpenedFilesMenu(recent_files);
374 // Adding all new tools (insertion in the menu)
375 vvToolManager::GetInstance()->InsertToolsInMenu(this);
376 vvToolManager::GetInstance()->EnableToolsInMenu(this, false);
378 if (!CLITK_EXPERIMENTAL)
379 menuExperimental->menuAction()->setVisible(false);
382 QTimer * timerMemory = new QTimer(this);
383 //timerMemory->setInterval(5);
384 connect(timerMemory, SIGNAL(timeout()), this, SLOT(UpdateMemoryUsage()));
385 timerMemory->start(2000);
388 //------------------------------------------------------------------------------
389 void vvMainWindow::show()
391 vvMainWindowBase::show();
392 PopupRegisterForm(true);
394 //------------------------------------------------------------------------------
395 void vvMainWindow::UpdateMemoryUsage()
397 // clitk::PrintMemory(true);
398 if (clitk::GetMemoryUsageInMb() == 0) infoPanel->setMemoryInMb("NA");
399 else infoPanel->setMemoryInMb(QString::number(clitk::GetMemoryUsageInMb())+" MiB");
401 //------------------------------------------------------------------------------
404 //------------------------------------------------------------------------------
405 void vvMainWindow::createRecentlyOpenedFilesMenu()
407 recentlyOpenedFilesMenu = new QMenu("Recently opened files...");
408 recentlyOpenedFilesMenu->setIcon(QIcon(QString::fromUtf8(":/common/icons/open.png")));
409 menuFile->insertMenu(actionOpen_Image_With_Time,recentlyOpenedFilesMenu);
410 menuFile->insertSeparator(actionOpen_Image_With_Time);
412 //------------------------------------------------------------------------------
415 //------------------------------------------------------------------------------
417 void vvMainWindow::updateRecentlyOpenedFilesMenu(const std::list<std::string> &recent_files)
419 if(recentlyOpenedFilesMenu==NULL) {
420 createRecentlyOpenedFilesMenu();
422 recentlyOpenedFilesMenu->clear();
424 for (std::list<std::string>::const_iterator i = recent_files.begin(); i!=recent_files.end(); i++) {
425 QAction* current=new QAction(QIcon(QString::fromUtf8(":/common/icons/open.png")), i->c_str(),this);
426 recentlyOpenedFilesMenu->addAction(current);
427 connect(current,SIGNAL(triggered()),this,SLOT(OpenRecentImage()));
430 //------------------------------------------------------------------------------
433 //------------------------------------------------------------------------------
434 void vvMainWindow::ComputeMidPosition()
437 int index=GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
438 int ref = QInputDialog::getInt(this,"Chose reference phase","Reference phase",0,0,\
439 mSlicerManagers[index]->GetImage()->GetVTKImages().size()-1,1,&ok);
442 midp.slicer_manager = mSlicerManagers[index];
443 midp.reference_image_index = ref;
444 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
447 QMessageBox::warning(this, "Error computing midposition image",midp.error_message.c_str());
449 QFileInfo info(midp.slicer_manager->GetFileName().c_str());
450 AddImage(midp.output,info.path().toStdString()+"/"+info.completeBaseName().toStdString()+"_midposition.mhd");
452 QApplication::restoreOverrideCursor();
455 //------------------------------------------------------------------------------
458 //------------------------------------------------------------------------------
459 void vvMainWindow::AddContour(int image_index, vvMesh::Pointer contour, bool propagation)
461 QTreeWidgetItem *item = new QTreeWidgetItem();
462 item->setData(0,Qt::UserRole,"filename.vtk");
463 item->setData(1,Qt::UserRole,tr("contour"));
465 brush.setColor(QColor(contour->r*255,contour->g*255,contour->b*255));
466 brush.setStyle(Qt::SolidPattern);
467 item->setData(COLUMN_IMAGE_NAME,Qt::BackgroundRole,brush);
468 // item->setData(COLUMN_IMAGE_NAME,Qt::DisplayRole,contour->structure_name.c_str());
470 for (int j = 1; j <= 4; j++)
471 item->setData(j,Qt::CheckStateRole,DataTree->topLevelItem(image_index)->data(j,Qt::CheckStateRole));
473 QTreePushButton* cButton = new QTreePushButton;
474 cButton->setItem(item);
475 cButton->setColumn(COLUMN_CLOSE_IMAGE);
476 cButton->setToolTip(tr("close image"));
477 cButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/exit.png")));
478 connect(cButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
479 this,SLOT(CloseImage(QTreeWidgetItem*, int)));
481 QTreePushButton* rButton = new QTreePushButton;
482 rButton->setItem(item);
483 rButton->setColumn(COLUMN_RELOAD_IMAGE);
484 rButton->setToolTip(tr("reload image"));
485 rButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/rotateright.png")));
486 rButton->setEnabled(false);
488 //connect(rButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
489 //this,SLOT(ReloadImage(QTreeWidgetItem*, int)));
491 DataTree->topLevelItem(image_index)->setExpanded(1);
492 DataTree->topLevelItem(image_index)->addChild(item);
493 DataTree->setItemWidget(item, COLUMN_CLOSE_IMAGE, cButton);
494 DataTree->setItemWidget(item, COLUMN_RELOAD_IMAGE, rButton);
495 QString id = DataTree->topLevelItem(image_index)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString();
496 item->setData(COLUMN_IMAGE_NAME,Qt::UserRole,id.toStdString().c_str());
499 mSlicerManagers[image_index]->AddContour(contour,propagation);
500 mSlicerManagers[image_index]->Render();
502 //------------------------------------------------------------------------------
505 //------------------------------------------------------------------------------
506 void vvMainWindow::OpenVTKContour()
508 if (mSlicerManagers.size() > 0) {
509 QString Extensions = "Images ( *.vtk *.obj)";
510 Extensions += ";;All Files (*)";
511 QString file = QFileDialog::getOpenFileName(this,tr("Open vtkPolyData"),mInputPathName,Extensions);
514 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
515 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
517 reader.SetImage(mSlicerManagers[index]->GetImage());
518 reader.SetModeToVTK();
519 reader.SetFilename(file.toStdString());
521 AddContour(index,reader.GetOutput()[0],false);
522 QApplication::restoreOverrideCursor();
525 //------------------------------------------------------------------------------
528 //------------------------------------------------------------------------------
529 void vvMainWindow::AddDCStructContour(int index, QString file)
532 reader.SetFilename(file.toStdString());
533 vvStructSelector selector;
534 selector.SetStructures(reader.GetROINames());
535 if (!mSlicerManagers[index]->GetVF().IsNull())
536 selector.EnablePropagationCheckBox();
537 if (selector.exec()) {
538 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
539 reader.SetSelectedItems(selector.getSelectedItems());
540 reader.SetImage(mSlicerManagers[index]->GetImage());
541 if (selector.PropagationEnabled())
542 reader.SetPropagationVF(mSlicerManagers[index]->GetVF());
544 std::vector<vvMesh::Pointer> contours=reader.GetOutput();
545 for (std::vector<vvMesh::Pointer>::iterator i=contours.begin();
546 i!=contours.end(); i++)
547 AddContour(index,*i,selector.PropagationEnabled());
548 QApplication::restoreOverrideCursor();
552 //------------------------------------------------------------------------------
553 void vvMainWindow::OpenDCStructContour()
555 if (mSlicerManagers.size() > 0) {
556 QString Extensions = "Dicom Files ( *.dcm RS*)";
557 Extensions += ";;All Files (*)";
558 QString file = QFileDialog::getOpenFileName(this,tr("Merge Images"),mInputPathName,Extensions);
561 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
562 AddDCStructContour(index, file);
565 //------------------------------------------------------------------------------
568 //------------------------------------------------------------------------------
569 void vvMainWindow::ComputeDeformableRegistration()
571 if (mSlicerManagers.size() > 0) {
572 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
573 vvDeformationDialog dialog(index,mSlicerManagers);
575 std::string base_name=itksys::SystemTools::GetFilenameWithoutExtension(mSlicerManagers[dialog.GetInputFileIndex()]->GetFileName());
576 AddField(dialog.GetOutput(),dialog.getFieldFile(),dialog.GetInputFileIndex());
577 WarpImage(dialog.GetSelectedSlicer(),dialog.GetReferenceFrameIndex());
579 std::cout << "Error or user cancellation while computing deformation field..." << std::endl;
580 } else QMessageBox::information(this, "Need to open image","You must open an image first.");
582 //------------------------------------------------------------------------------
585 //------------------------------------------------------------------------------
586 void vvMainWindow::WarpImage()
588 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
589 if (!mSlicerManagers[index]->GetVF().IsNull()) {
591 int ref = QInputDialog::getInt(this,"Chose reference phase","Reference phase",0,0,\
592 mSlicerManagers[index]->GetImage()->GetVTKImages().size()-1,1,&ok);
594 WarpImage(mSlicerManagers[index],ref);
597 QMessageBox::warning(this,tr("No vector field"),tr("Sorry, can't warp without a vector field"));
599 //------------------------------------------------------------------------------
602 //------------------------------------------------------------------------------
603 void vvMainWindow::WarpImage(vvSlicerManager* selected_slicer,int reference_phase)
605 if (!selected_slicer->GetVF().IsNull()) {
606 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
607 QFileInfo info(selected_slicer->GetFileName().c_str());
608 vvImageWarp warp(selected_slicer->GetImage(),selected_slicer->GetVF(),
609 reference_phase,this);
610 if (warp.ComputeWarpedImage()) {
611 AddImage(warp.GetWarpedImage(),info.path().toStdString()+"/"+info.completeBaseName().toStdString()+"_warped.mhd");
612 AddImage(warp.GetDiffImage() ,info.path().toStdString()+"/"+info.completeBaseName().toStdString()+"_diff.mhd");
613 AddImage(warp.GetJacobianImage() ,info.path().toStdString()+"/"+info.completeBaseName().toStdString()+"_jacobian.mhd");
614 QApplication::restoreOverrideCursor();
616 QApplication::restoreOverrideCursor();
617 QMessageBox::warning(this,tr("Different spacings"),tr("The vector field and image spacings must be the same in order to warp."));
620 QMessageBox::warning(this,tr("No vector field"),tr("Sorry, can't warp without a vector field."));
622 //------------------------------------------------------------------------------
625 //------------------------------------------------------------------------------
626 vvMainWindow::~vvMainWindow()
628 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
629 if (mSlicerManagers[i] != NULL)
630 delete mSlicerManagers[i];
632 delete documentation;
634 delete dicomSeriesSelector;
636 //------------------------------------------------------------------------------
638 //------------------------------------------------------------------------------
639 QTabWidget * vvMainWindow::GetTab()
643 //------------------------------------------------------------------------------
646 //------------------------------------------------------------------------------
647 void vvMainWindow::MergeImages()
649 QString Extensions = EXTENSIONS;
650 Extensions += ";;All Files (*)";
651 QStringList files = QFileDialog::getOpenFileNames(this,tr("Merge Images"),mInputPathName,Extensions);
654 mInputPathName = itksys::SystemTools::GetFilenamePath(files[0].toStdString()).c_str();
655 std::vector<std::string> vector;
657 unsigned int currentDim = 0;
658 std::vector<double> currentSpacing;
659 std::vector<int> currentSize;
660 std::vector<double> currentOrigin;
662 for (int i = 0; i < files.size(); i++) {
663 itk::ImageIOBase::Pointer reader = itk::ImageIOFactory::CreateImageIO(
664 files[i].toStdString().c_str(), itk::ImageIOFactory::ReadMode);
665 reader->SetFileName(files[i].toStdString().c_str());
666 reader->ReadImageInformation();
668 //NOViewWidget->hide();
669 //NEViewWidget->hide();
670 //SOViewWidget->hide();
671 //SEViewWidget->hide();
673 currentDim = reader->GetNumberOfDimensions();
675 for (unsigned int j = 0; j < currentDim; j++) {
678 currentSpacing.resize(currentDim);
679 currentSize.resize(currentDim);
680 currentOrigin.resize(currentDim);
682 currentOrigin[j] = reader->GetOrigin(j);
683 currentSpacing[j] = reader->GetSpacing(j);
684 currentSize[j] = reader->GetDimensions(j);
685 } else if (currentDim != reader->GetNumberOfDimensions()
686 || currentSpacing[j] != reader->GetSpacing(j)
687 || currentSize[j] != (int)reader->GetDimensions(j)
688 || currentOrigin[j] != reader->GetOrigin(j)) {
689 QString error = "Cannot read file (too different from others ";
690 error += files[i].toStdString().c_str();
691 QMessageBox::information(this,tr("Reading problem"),error);
697 vector.push_back(files[i].toStdString());
700 if (vector.size() > 0)
701 LoadImages(vector, vvImageReader::MERGED);
703 //------------------------------------------------------------------------------
705 //------------------------------------------------------------------------------
706 void vvMainWindow::SliceImages()
708 QString Extensions = EXTENSIONS;
709 Extensions += ";;All Files (*)";
711 QStringList files = QFileDialog::getOpenFileNames(this,tr("Slice Images"),mInputPathName,Extensions);
714 mInputPathName = itksys::SystemTools::GetFilenamePath(files[0].toStdString()).c_str();
715 std::vector<std::string> vector;
716 for (int i = 0; i < files.size(); i++)
717 vector.push_back(files[i].toStdString());
718 LoadImages(vector, vvImageReader::SLICED);
720 //------------------------------------------------------------------------------
722 //------------------------------------------------------------------------------
723 void vvMainWindow::MergeImagesWithTime()
725 QString Extensions = EXTENSIONS;
726 Extensions += ";;All Files (*)";
727 QStringList files = QFileDialog::getOpenFileNames(this,tr("Merge Images With Time"),mInputPathName,Extensions);
730 mInputPathName = itksys::SystemTools::GetFilenamePath(files[0].toStdString()).c_str();
731 std::vector<std::string> vector;
733 for (int i = 0; i < files.size(); i++)
734 vector.push_back(files[i].toStdString());
735 sort(vector.begin(),vector.end());
736 if (vector.size() > 1)
737 LoadImages(vector, vvImageReader::MERGEDWITHTIME);
739 QMessageBox::warning(this,tr("Reading problem"),"You need to select at least two images to merge images with time.\nIf you only want to open one image, please use the \"Open Image\" function.");
741 //------------------------------------------------------------------------------
744 //------------------------------------------------------------------------------
745 void vvMainWindow::OpenDicom()
747 std::vector<std::string> files;
749 //std::cout << "dicomSeriesSelector " << std::endl;
750 if (dicomSeriesSelector->exec() == QDialog::Accepted) {
751 files = *(dicomSeriesSelector->GetFilenames());
752 LoadImages(files, vvImageReader::DICOM);
755 //------------------------------------------------------------------------------
757 //------------------------------------------------------------------------------
758 void vvMainWindow::OpenImages()
760 QString Extensions = EXTENSIONS;
761 Extensions += ";;All Files (*)";
763 QStringList files = QFileDialog::getOpenFileNames(this,tr("Load Images"),mInputPathName,Extensions);
766 mInputPathName = itksys::SystemTools::GetFilenamePath(files[0].toStdString()).c_str();
767 std::vector<std::string> vector;
768 for (int i = 0; i < files.size(); i++)
769 vector.push_back(files[i].toStdString());
770 LoadImages(vector, vvImageReader::IMAGE);
772 //------------------------------------------------------------------------------
773 void vvMainWindow::OpenRecentImage()
775 QAction * caller = qobject_cast<QAction*>(sender());
776 std::vector<std::string> images;
777 images.push_back(caller->text().toStdString());
778 mInputPathName = itksys::SystemTools::GetFilenamePath(images[0]).c_str();
779 LoadImages(images, vvImageReader::IMAGE);
781 //------------------------------------------------------------------------------
784 //------------------------------------------------------------------------------
785 void vvMainWindow::OpenImageWithTime()
787 QString Extensions = EXTENSIONS;
788 Extensions += ";;All Files (*)";
790 QStringList files = QFileDialog::getOpenFileNames(this,tr("Load Images With Time"),mInputPathName,Extensions);
793 mInputPathName = itksys::SystemTools::GetFilenamePath(files[0].toStdString()).c_str();
794 std::vector<std::string> vector;
795 for (int i = 0; i < files.size(); i++) {
796 vector.push_back(files[i].toStdString());
798 LoadImages(vector, vvImageReader::IMAGEWITHTIME);
800 //------------------------------------------------------------------------------
803 //------------------------------------------------------------------------------
804 void vvMainWindow::LoadImages(std::vector<std::string> files, vvImageReader::LoadedImageType filetype)
806 //Separate the way to open images and dicoms
808 if (filetype == vvImageReader::IMAGE || filetype == vvImageReader::IMAGEWITHTIME)
809 fileSize = files.size();
813 // For SLICED, we need the number of slices (ndim and #slices)
814 std::vector<unsigned int> nSlices;
815 nSlices.resize(files.size());
816 std::fill(nSlices.begin(), nSlices.end(), 1);
817 if (filetype == vvImageReader::SLICED) {
818 for (int i = 0; i < fileSize; i++) {
819 itk::ImageIOBase::Pointer header = clitk::readImageHeader(files[i]);
820 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
823 QString error = "Cannot open file \n";
824 error += files[i].c_str();
825 QMessageBox::information(this,tr("Reading problem"),error);
828 if (header->GetNumberOfDimensions() < 3) {
830 QString error = "Dimension problem. Cannot slice \n";
831 error += files[i].c_str();
832 QMessageBox::information(this,tr("Reading problem"),error);
835 nSlices[i] = header->GetDimensions( header->GetNumberOfDimensions()-1 );
839 //Only add to the list of recently opened files when a single file is opened,
840 //to avoid polluting the list of recently opened files
841 if (files.size() == 1) {
842 QFileInfo finfo=tr(files[0].c_str());
843 AddToRecentlyOpenedImages(finfo.absoluteFilePath().toStdString());
844 updateRecentlyOpenedFilesMenu(GetRecentlyOpenedImages());
846 //init the progress events
847 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
848 vvProgressDialog progress("Opening " + files[0],fileSize>1);
849 qApp->processEvents();
851 int numberofsuccesulreads=0;
852 //open images as 1 or multiples
853 for (int i = 0; i < fileSize; i++) {
854 progress.SetText("Opening " + files[i]);
855 progress.SetProgress(i,fileSize);
856 qApp->processEvents();
858 for (unsigned int j = 0; j < nSlices[i]; j++) {
859 //read the image and put it in mSlicerManagers
860 vvSlicerManager* imageManager = new vvSlicerManager(4);
861 qApp->processEvents();
863 bool SetImageSucceed=false;
865 // Change filename if an image with the same already exist
866 int number = GetImageDuplicateFilenameNumber(files[i] + std::string("_slice"));
868 if (filetype == vvImageReader::IMAGE || filetype == vvImageReader::IMAGEWITHTIME || filetype == vvImageReader::SLICED) {
869 SetImageSucceed = imageManager->SetImage(files[i],filetype, number, j);
871 SetImageSucceed = imageManager->SetImages(files,filetype, number);
873 if (!SetImageSucceed) {
874 QApplication::restoreOverrideCursor();
875 QString error = "Cannot open file \n";
876 error += imageManager->GetLastError().c_str();
877 QMessageBox::information(this,tr("Reading problem"),error);
881 mSlicerManagers.push_back(imageManager);
883 //create an item in the tree with good settings
884 QTreeWidgetItem *item = new QTreeWidgetItem();
885 item->setData(0,Qt::UserRole,files[i].c_str());
886 QFileInfo fileinfo(imageManager->GetFileName().c_str()); //Do not show the path
887 item->setData(COLUMN_IMAGE_NAME,Qt::DisplayRole,fileinfo.fileName());
888 item->setData(1,Qt::UserRole,tr("image"));
889 item->setToolTip(COLUMN_IMAGE_NAME, imageManager->GetListOfAbsoluteFilePathInOneString("image").c_str());
890 qApp->processEvents();
892 //Create the buttons for reload and close
893 qApp->processEvents();
894 QTreePushButton* cButton = new QTreePushButton;
895 cButton->setItem(item);
896 cButton->setColumn(COLUMN_CLOSE_IMAGE);
897 cButton->setToolTip(tr("close image"));
898 cButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/exit.png")));
899 connect(cButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
900 this,SLOT(CloseImage(QTreeWidgetItem*, int)));
902 QTreePushButton* rButton = new QTreePushButton;
903 rButton->setItem(item);
904 rButton->setColumn(COLUMN_RELOAD_IMAGE);
905 rButton->setToolTip(tr("reload image"));
906 rButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/rotateright.png")));
907 connect(rButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
908 this,SLOT(ReloadImage(QTreeWidgetItem*, int)));
910 DataTree->addTopLevelItem(item);
911 DataTree->setItemWidget(item, COLUMN_CLOSE_IMAGE, cButton);
912 DataTree->setItemWidget(item, COLUMN_RELOAD_IMAGE, rButton);
914 //set the id of the image
915 QString id = QDir::current().absoluteFilePath(files[i].c_str()) + QString::number(mSlicerManagers.size()-1);
916 item->setData(COLUMN_IMAGE_NAME,Qt::UserRole,id.toStdString().c_str());
917 mSlicerManagers.back()->SetId(id.toStdString());
919 linkPanel->addImage(imageManager->GetFileName(), id.toStdString());
921 connect(mSlicerManagers.back(), SIGNAL(currentImageChanged(std::string)),
922 this,SLOT(CurrentImageChanged(std::string)));
923 connect(mSlicerManagers.back(), SIGNAL(currentPickedImageChanged(std::string)),
924 this, SLOT(CurrentPickedImageChanged(std::string)));
925 connect(mSlicerManagers.back(), SIGNAL(UpdatePosition(int, double, double, double, double, double, double, double)),
926 this,SLOT(MousePositionChanged(int,double, double, double, double, double, double, double)));
927 connect(mSlicerManagers.back(), SIGNAL(UpdateVector(int, double, double, double, double)),
928 this, SLOT(VectorChanged(int,double,double,double, double)));
929 connect(mSlicerManagers.back(), SIGNAL(UpdateOverlay(int, double, double)),
930 this, SLOT(OverlayChanged(int,double,double)));
931 connect(mSlicerManagers.back(), SIGNAL(UpdateFusion(int, double)),
932 this, SLOT(FusionChanged(int,double)));
933 connect(mSlicerManagers.back(), SIGNAL(WindowLevelChanged()),
934 this,SLOT(WindowLevelChanged()));
935 connect(mSlicerManagers.back(), SIGNAL(UpdateSlice(int,int)),
936 this,SLOT(UpdateSlice(int,int)));
937 connect(mSlicerManagers.back(), SIGNAL(UpdateTSlice(int, int, int)),
938 this,SLOT(UpdateTSlice(int, int, int)));
939 connect(mSlicerManagers.back(), SIGNAL(UpdateTSlice(int, int, int)),
940 this,SLOT(ImageInfoChanged()));
941 connect(mSlicerManagers.back(), SIGNAL(UpdateSliceRange(int,int,int,int,int)),
942 this,SLOT(UpdateSliceRange(int,int,int,int,int)));
943 connect(mSlicerManagers.back(), SIGNAL(UpdateLinkManager(std::string,int,double,double,double,int)),
944 this,SLOT(UpdateLinkManager(std::string,int,double,double,double,int)));
945 connect(mSlicerManagers.back(), SIGNAL(UpdateLinkedNavigation(std::string,vvSlicerManager*,vvSlicer*)),
946 this,SLOT(UpdateLinkedNavigation(std::string,vvSlicerManager*,vvSlicer*)));
947 connect(mSlicerManagers.back(), SIGNAL(ChangeImageWithIndexOffset(vvSlicerManager*,int,int)),
948 this,SLOT(ChangeImageWithIndexOffset(vvSlicerManager*,int,int)));
949 connect(mSlicerManagers.back(),SIGNAL(LandmarkAdded()),landmarksPanel,SLOT(AddPoint()));
951 numberofsuccesulreads++;
956 if (numberofsuccesulreads) {
957 NOViewWidget->show();
958 NEViewWidget->show();
959 SOViewWidget->show();
960 SEViewWidget->show();
965 // Try to guess default WindowLevel
967 mSlicerManagers.back()->GetImage()->GetFirstVTKImageData()->GetScalarRange(range);
968 if ((range[0] == 0) && (range[1] == 1)) {
969 presetComboBox->setCurrentIndex(WL_BINARY);// binary
974 QApplication::restoreOverrideCursor();
976 //------------------------------------------------------------------------------
978 //------------------------------------------------------------------------------
979 void vvMainWindow::UpdateTree()
981 DataTree->resizeColumnToContents(COLUMN_TREE);
982 DataTree->resizeColumnToContents(COLUMN_UL_VIEW);
983 DataTree->resizeColumnToContents(COLUMN_UR_VIEW);
984 DataTree->resizeColumnToContents(COLUMN_DL_VIEW);
985 DataTree->resizeColumnToContents(COLUMN_DR_VIEW);
986 DataTree->resizeColumnToContents(COLUMN_IMAGE_NAME);
987 DataTree->resizeColumnToContents(COLUMN_CLOSE_IMAGE);
988 DataTree->resizeColumnToContents(COLUMN_RELOAD_IMAGE);
990 //------------------------------------------------------------------------------
992 //------------------------------------------------------------------------------
993 void vvMainWindow::CurrentImageChanged(std::string id)
995 if (id == mCurrentSelectedImageId) return; // Do nothing
997 for (int i = 0; i < DataTree->topLevelItemCount(); i++) {
998 if (DataTree->topLevelItem(i)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString().toStdString() == id) {
1001 DataTree->topLevelItem(i)->setSelected(0);
1003 for (int child = 0; child < DataTree->topLevelItem(i)->childCount(); child++)
1004 DataTree->topLevelItem(i)->child(child)->setSelected(0);
1007 DataTree->topLevelItem(selected)->setSelected(1);
1008 mCurrentSelectedImageId = id;
1010 landmarksPanel->SetCurrentLandmarks(mSlicerManagers[selected]->GetLandmarks(),
1011 mSlicerManagers[selected]->GetTSlice());
1012 landmarksPanel->SetCurrentPath(mInputPathName.toStdString());
1013 landmarksPanel->SetCurrentImage(mSlicerManagers[selected]->GetFileName().c_str());
1015 emit SelectedImageHasChanged(mSlicerManagers[selected]);
1017 //------------------------------------------------------------------------------
1019 //------------------------------------------------------------------------------
1020 void vvMainWindow::CurrentPickedImageChanged(std::string id)
1022 if (id == mCurrentPickedImageId) return; // Do nothing
1024 for (int i = 0; i < DataTree->topLevelItemCount(); i++) {
1025 if (DataTree->topLevelItem(i)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString().toStdString() == id) {
1028 DataTree->topLevelItem(i)->setSelected(0);
1030 for (int child = 0; child < DataTree->topLevelItem(i)->childCount(); child++)
1031 DataTree->topLevelItem(i)->child(child)->setSelected(0);
1034 DataTree->topLevelItem(selected)->setSelected(1);
1035 mCurrentPickedImageId = id;
1036 mCurrentPickedImageIndex = selected;
1038 //------------------------------------------------------------------------------
1040 //------------------------------------------------------------------------------
1041 void vvMainWindow::ImageInfoChanged()
1043 contextActions[6]->setEnabled(1);
1044 contextActions[5]->setEnabled(1);
1045 actionSave_As->setEnabled(1);
1046 actionAdd_VF_to_current_Image->setEnabled(1);
1047 actionAdd_fusion_image->setEnabled(1);
1048 actionAdd_overlay_image_to_current_image->setEnabled(1);
1049 actionAdd_USSequence_toCT->setEnabled(1);
1050 actionNorth_East_Window->setEnabled(1);
1051 actionNorth_West_Window->setEnabled(1);
1052 actionSouth_East_Window->setEnabled(1);
1053 actionSouth_West_Window->setEnabled(1);
1054 vvToolManager::GetInstance()->EnableToolsInMenu(this, true);
1055 inverseButton->setEnabled(1);
1057 goToCursorPushButton->setEnabled(1);
1059 if (DataTree->selectedItems().size()) {
1060 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1062 colorMapComboBox->setEnabled(1);
1063 for (int i = 0; i < DataTree->topLevelItem(index)->childCount(); i++) {
1064 if (DataTree->topLevelItem(index)->child(i)->data(1,Qt::UserRole).toString() == "overlay" ||
1065 DataTree->topLevelItem(index)->child(i)->data(1,Qt::UserRole).toString() == "fusion" ||
1066 DataTree->topLevelItem(index)->child(i)->data(1,Qt::UserRole).toString() == "fusionSequence") {
1067 colorMapComboBox->setEnabled(0);
1072 std::vector<double> origin;
1073 std::vector<double> inputSpacing;
1074 std::vector<int> inputSize;
1075 std::vector<double> sizeMM;
1076 vtkSmartPointer<vtkMatrix4x4> transformation;
1079 QString inputSizeInBytes;
1080 QString image = DataTree->selectedItems()[0]->data(COLUMN_IMAGE_NAME,Qt::DisplayRole).toString();
1082 int nframes = mSlicerManagers[index]->GetSlicer(0)->GetTMax();
1084 if (nframes > 1 || playMode == 1) {
1085 playButton->setEnabled(1);
1086 frameRateLabel->setEnabled(1);
1087 frameRateSpinBox->setEnabled(1);
1089 playButton->setEnabled(0);
1090 frameRateLabel->setEnabled(0);
1091 frameRateSpinBox->setEnabled(0);
1098 vvImage::Pointer imageSelected;
1099 if (DataTree->topLevelItem(index) == DataTree->selectedItems()[0]) {
1100 imageSelected = mSlicerManagers[index]->GetSlicer(0)->GetImage();
1101 tSlice = mSlicerManagers[index]->GetSlicer(0)->GetTSlice();
1102 } else if (DataTree->selectedItems()[0]->data(1,Qt::UserRole).toString() == "vector") {
1103 imageSelected = mSlicerManagers[index]->GetSlicer(0)->GetVF();
1104 tSlice = mSlicerManagers[index]->GetSlicer(0)->GetOverlayTSlice();
1105 } else if (DataTree->selectedItems()[0]->data(1,Qt::UserRole).toString() == "overlay") {
1106 imageSelected = mSlicerManagers[index]->GetSlicer(0)->GetOverlay();
1107 tSlice = mSlicerManagers[index]->GetSlicer(0)->GetOverlayTSlice();
1108 } else if (DataTree->selectedItems()[0]->data(1,Qt::UserRole).toString() == "fusion") {
1109 imageSelected = mSlicerManagers[index]->GetSlicer(0)->GetFusion();
1110 tSlice = mSlicerManagers[index]->GetSlicer(0)->GetFusionTSlice();
1112 else if (DataTree->selectedItems()[0]->data(1,Qt::UserRole).toString() == "fusionSequence") {
1113 imageSelected = mSlicerManagers[index]->GetSlicer(0)->GetFusion();
1114 tSlice = mSlicerManagers[index]->GetSlicer(0)->GetFusionTSlice();
1116 else if (DataTree->selectedItems()[0]->data(1,Qt::UserRole).toString() == "contour") {
1117 imageSelected = mSlicerManagers[index]->GetSlicer(0)->GetImage();
1118 tSlice = mSlicerManagers[index]->GetSlicer(0)->GetTSlice();
1121 imageSelected = mSlicerManagers[index]->GetSlicer(0)->GetImage();
1122 tSlice = mSlicerManagers[index]->GetSlicer(0)->GetTSlice();
1125 dimension = imageSelected->GetNumberOfDimensions();
1126 origin.resize(dimension);
1127 inputSpacing.resize(dimension);
1128 inputSize.resize(dimension);
1129 sizeMM.resize(dimension);
1130 pixelType = mSlicerManagers[index]->GetImage()->GetScalarTypeAsITKString().c_str();
1131 for (int i = 0; i < dimension; i++) {
1132 origin[i] = imageSelected->GetOrigin()[i];
1133 inputSpacing[i] = imageSelected->GetSpacing()[i];
1134 inputSize[i] = imageSelected->GetSize()[i];
1135 sizeMM[i] = inputSize[i]*inputSpacing[i];
1136 NPixel *= inputSize[i];
1138 inputSizeInBytes = GetSizeInBytes(imageSelected->GetActualMemorySize()*1000);
1140 QString dim = QString::number(dimension) + " (";
1141 dim += pixelType + ")";
1143 infoPanel->setFileName(image);
1144 std::string creationImageTimeValue("No creation time");
1145 itk::ExposeMetaData< std::string > (*imageSelected->GetFirstMetaDataDictionary(), "creationImageTime", creationImageTimeValue);
1146 infoPanel->setImageCreationTime(QString(creationImageTimeValue.c_str()));
1147 infoPanel->setDimension(dim);
1148 infoPanel->setSizePixel(GetVectorIntAsString(inputSize));
1149 infoPanel->setSizeMM(GetVectorDoubleAsString(sizeMM));
1150 infoPanel->setOrigin(GetVectorDoubleAsString(origin));
1151 infoPanel->setSpacing(GetVectorDoubleAsString(inputSpacing));
1152 infoPanel->setNPixel(QString::number(NPixel)+" ("+inputSizeInBytes+")");
1154 transformation = imageSelected->GetTransform()[tSlice]->GetMatrix();
1155 infoPanel->setTransformation(clitk::Get4x4MatrixDoubleAsString(transformation).c_str());
1157 landmarksPanel->SetCurrentLandmarks(mSlicerManagers[index]->GetLandmarks(),
1158 mSlicerManagers[index]->GetTSlice());
1159 landmarksPanel->SetCurrentPath(mInputPathName.toStdString());
1160 landmarksPanel->SetCurrentImage(mSlicerManagers[index]->GetFileName().c_str());
1162 overlayPanel->getCurrentImageName(mSlicerManagers[index]->GetFileName().c_str());
1163 for (int i = 0; i < 4; i++) {
1164 if (DataTree->selectedItems()[0]->data(i+1,Qt::CheckStateRole).toInt() > 0 || i == 3) {
1165 mSlicerManagers[index]->UpdateInfoOnCursorPosition(i);
1170 // infoPanel->setFileName(image);
1171 // infoPanel->setDimension(dim);
1172 // infoPanel->setSizePixel(GetVectorIntAsString(inputSize));
1173 // infoPanel->setSizeMM(GetVectorDoubleAsString(sizeMM));
1174 // infoPanel->setOrigin(GetVectorDoubleAsString(origin));
1175 // infoPanel->setSpacing(GetVectorDoubleAsString(inputSpacing));
1176 // infoPanel->setNPixel(QString::number(NPixel)+" ("+inputSizeInBytes+")");
1178 // landmarksPanel->SetCurrentLandmarks(mSlicerManagers[index]->GetLandmarks(),
1179 // mSlicerManagers[index]->GetTSlice());
1180 // landmarksPanel->SetCurrentPath(mInputPathName.toStdString());
1181 // landmarksPanel->SetCurrentImage(mSlicerManagers[index]->GetFileName().c_str());
1183 // overlayPanel->getCurrentImageName(mSlicerManagers[index]->GetFileName().c_str());
1184 // for (int i = 0; i < 4; i++) {
1185 // if (DataTree->selectedItems()[0]->data(i+1,Qt::CheckStateRole).toInt() > 0 || i == 3) {
1186 // mSlicerManagers[index]->UpdateInfoOnCursorPosition(i);
1190 WindowLevelChanged();
1192 slicingPresetComboBox->setCurrentIndex(mSlicerManagers[index]->GetSlicingPreset());
1194 if (mSlicerManagers[index]->GetSlicer(0)->GetVF()) {
1195 overlayPanel->getVFName(mSlicerManagers[index]->GetVFName().c_str());
1196 overlayPanel->getVFProperty(mSlicerManagers[index]->GetSlicer(0)->GetVFSubSampling(),
1197 mSlicerManagers[index]->GetSlicer(0)->GetVFScale(),
1198 mSlicerManagers[index]->GetSlicer(0)->GetVFLog());
1200 overlayPanel->getVFName(mSlicerManagers[index]->GetVFName().c_str());
1201 overlayPanel->getVFProperty(-1,-1,-1);
1203 if (mSlicerManagers[index]->GetSlicer(0)->GetOverlay()) {
1204 overlayPanel->getOverlayName(mSlicerManagers[index]->GetOverlayName().c_str());
1206 overlayPanel->getOverlayName(mSlicerManagers[index]->GetOverlayName().c_str());
1209 if (mSlicerManagers[index]->GetSlicer(0)->GetFusion()) {
1210 overlayPanel->getFusionName(mSlicerManagers[index]->GetFusionName().c_str());
1212 overlayPanel->getFusionName(mSlicerManagers[index]->GetFusionName().c_str());
1216 //------------------------------------------------------------------------------
1218 //------------------------------------------------------------------------------
1219 void vvMainWindow::ShowDocumentation()
1221 documentation->show();
1223 //------------------------------------------------------------------------------
1225 //------------------------------------------------------------------------------
1226 void vvMainWindow::PopupRegisterForm(bool checkCanPush)
1228 vvRegisterForm* registerForm = new vvRegisterForm(QUrl("http://www.creatis.insa-lyon.fr/~dsarrut/vvregister/write.php"), getVVSettingsPath(), getSettingsOptionFormat());
1230 registerForm->show();
1232 if(registerForm->canPush()) {
1233 registerForm->show();
1234 registerForm->acquitPushed();//too bad if there is not internet connection anymore.
1238 //------------------------------------------------------------------------------
1240 //------------------------------------------------------------------------------
1241 void vvMainWindow::ShowHelpDialog()
1243 help_dialog->show();
1245 //------------------------------------------------------------------------------
1247 //------------------------------------------------------------------------------
1248 void vvMainWindow::ChangeViewMode()
1250 typedef struct _SIZE{
1251 QSplitter* splitter;
1252 QList<int> size1, size2;
1255 SplitterSize sizes[4];
1256 sizes[0].splitter = OSplitter;
1257 sizes[0].size1.push_back(1);
1258 sizes[0].size1.push_back(0);
1259 sizes[0].size2.push_back(1);
1260 sizes[0].size2.push_back(0);
1261 sizes[0].cols[0] = 2;
1262 sizes[0].cols[1] = 3;
1263 sizes[0].cols[2] = 4;
1265 sizes[1].splitter = ESplitter;
1266 sizes[1].size1.push_back(0);
1267 sizes[1].size1.push_back(1);
1268 sizes[1].size2.push_back(1);
1269 sizes[1].size2.push_back(0);
1270 sizes[1].cols[0] = 1;
1271 sizes[1].cols[1] = 3;
1272 sizes[1].cols[2] = 4;
1274 sizes[2].splitter = OSplitter;
1275 sizes[2].size1.push_back(1);
1276 sizes[2].size1.push_back(0);
1277 sizes[2].size2.push_back(0);
1278 sizes[2].size2.push_back(1);
1279 sizes[2].cols[0] = 1;
1280 sizes[2].cols[1] = 2;
1281 sizes[2].cols[2] = 4;
1283 sizes[3].splitter = ESplitter;
1284 sizes[3].size1.push_back(0);
1285 sizes[3].size1.push_back(1);
1286 sizes[3].size2.push_back(0);
1287 sizes[3].size2.push_back(1);
1288 sizes[3].cols[0] = 1;
1289 sizes[3].cols[1] = 2;
1290 sizes[3].cols[2] = 3;
1292 int slicer = mSlicerManagers[mCurrentPickedImageIndex]->GetSelectedSlicer();
1293 if (viewMode == 1) {
1296 splitter_3->setSizes(sizes[slicer].size1);
1297 sizes[slicer].splitter->setSizes(sizes[slicer].size2);
1298 DataTree->setColumnHidden(sizes[slicer].cols[0],1);
1299 DataTree->setColumnHidden(sizes[slicer].cols[1],1);
1300 DataTree->setColumnHidden(sizes[slicer].cols[2],1);
1308 splitter_3->setSizes(size);
1309 sizes[slicer].splitter->setSizes(size);
1310 DataTree->setColumnHidden(sizes[slicer].cols[0],0);
1311 DataTree->setColumnHidden(sizes[slicer].cols[1],0);
1312 DataTree->setColumnHidden(sizes[slicer].cols[2],0);
1315 UpdateRenderWindows();
1317 ** I don't know why but for both resized QVTKWidget we also need to render
1318 ** the associated Slicer to redraw crosses.
1320 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
1321 // if (DataTree->topLevelItem(i)->data(COLUMN_UL_VIEW,Qt::CheckStateRole).toInt() > 1)
1322 mSlicerManagers[i]->GetSlicer(0)->Render();
1323 mSlicerManagers[i]->GetSlicer(1)->Render();
1324 // if (DataTree->topLevelItem(i)->data(COLUMN_DL_VIEW,Qt::CheckStateRole).toInt() > 1)
1325 mSlicerManagers[i]->GetSlicer(2)->Render();
1326 mSlicerManagers[i]->GetSlicer(3)->Render();
1329 //------------------------------------------------------------------------------
1331 //------------------------------------------------------------------------------
1332 QString vvMainWindow::GetSizeInBytes(unsigned long size)
1334 QString result = "";// QString::number(size);
1335 //result += " bytes (";
1336 if (size > 1000000000) {
1338 result += QString::number(size);
1339 result += "Gb";//)";
1340 } else if (size > 1000000) {
1342 result += QString::number(size);
1343 result += "Mb";//)";
1344 } else if (size > 1000) {
1346 result += QString::number(size);
1347 result += "kb";//)";
1351 //------------------------------------------------------------------------------
1353 //------------------------------------------------------------------------------
1354 QString vvMainWindow::GetVectorDoubleAsString(std::vector<double> vectorDouble)
1357 for (unsigned int i= 0; i < vectorDouble.size(); i++) {
1360 result += QString::number(vectorDouble[i]);
1364 //------------------------------------------------------------------------------
1366 //------------------------------------------------------------------------------
1367 QString vvMainWindow::GetVectorIntAsString(std::vector<int> vectorInt)
1370 for (unsigned int i= 0; i < vectorInt.size(); i++) {
1373 result += QString::number(vectorInt[i]);
1377 //------------------------------------------------------------------------------
1379 //------------------------------------------------------------------------------
1380 //this actually returns the SlicerManager index!
1381 int vvMainWindow::GetSlicerIndexFromItem(QTreeWidgetItem* item)
1383 QString id = item->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString();
1384 for (int i = 0; i < DataTree->topLevelItemCount(); i++) {
1385 if (DataTree->topLevelItem(i)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString() == id)
1390 //------------------------------------------------------------------------------
1392 //------------------------------------------------------------------------------
1393 QTreeWidgetItem* vvMainWindow::GetItemFromSlicerManager(vvSlicerManager* sm)
1395 QString id = sm->GetId().c_str();
1396 for (int i = 0; i < DataTree->topLevelItemCount(); i++) {
1397 if (DataTree->topLevelItem(i)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString() == id)
1398 return DataTree->topLevelItem(i);
1402 //------------------------------------------------------------------------------
1404 //------------------------------------------------------------------------------
1405 void vvMainWindow::DisplayChanged(QTreeWidgetItem *clickedItem, int column)
1407 if ( column >= COLUMN_CLOSE_IMAGE || column <= 0)
1410 // Get parent information (might be the same item)
1411 int slicerManagerIndex = GetSlicerIndexFromItem(clickedItem);
1412 QTreeWidgetItem* clickedParentItem = DataTree->topLevelItem(slicerManagerIndex);
1413 vvSlicer* clickedSlicer = mSlicerManagers[slicerManagerIndex]->GetSlicer(column-1);
1415 // Go over the complete item tree (only 2 levels, parents and children)
1416 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
1417 // Trick to avoid redoing twice the job for a key (sr)
1418 mSlicerManagers[i]->GetSlicer(column-1)->GetRenderWindow()->GetInteractor()->SetKeySym("Crap");
1420 QTreeWidgetItem* currentParentItem = DataTree->topLevelItem(i);
1421 if(currentParentItem != clickedParentItem) {
1422 // Not the branch of the clicked item, uncheck all
1425 currentParentItem->setData(column,Qt::CheckStateRole, 0);
1426 mSlicerManagers[i]->UpdateSlicer(column-1, false);
1429 for (int iChild = 0; iChild < currentParentItem->childCount(); iChild++) {
1430 currentParentItem->child(iChild)->setData(column,Qt::CheckStateRole, 0);
1434 // Branch of the clicked one: get check status from actor visibility in slicer
1435 // and toggle the clicked one
1438 bool vis = clickedSlicer->GetActorVisibility("image", 0);
1439 bool draw = clickedSlicer->GetRenderer()->GetDraw();
1441 // Update slicer (after getting visibility)
1442 mSlicerManagers[slicerManagerIndex]->UpdateSlicer(column-1, true);
1443 mSlicerManagers[slicerManagerIndex]->UpdateInfoOnCursorPosition(column-1);
1444 DisplaySliders(slicerManagerIndex, column-1);
1445 if(clickedParentItem == clickedItem) {
1447 vis = !draw || !vis;
1449 clickedSlicer->SetActorVisibility("image", 0, vis);
1450 clickedParentItem->setData(column, Qt::CheckStateRole, vis?2:0);
1453 std::map<std::string, int> actorTypeCounts;
1454 for (int iChild = 0; iChild < clickedParentItem->childCount(); iChild++) {
1455 QTreeWidgetItem* currentChildItem = clickedParentItem->child(iChild);
1456 std::string actorType = currentChildItem->data(1,Qt::UserRole).toString().toStdString();
1457 vis = clickedSlicer->GetActorVisibility(actorType, actorTypeCounts[actorType]);
1458 if(currentChildItem == clickedItem) {
1459 // Toggle or force visibility if it was not on this branch so far
1460 vis = !draw || !vis;
1461 clickedSlicer->SetActorVisibility(actorType, actorTypeCounts[actorType], vis);
1463 currentChildItem->setData(column, Qt::CheckStateRole, vis?2:0);
1464 actorTypeCounts[actorType]++;
1469 clickedSlicer->Render();
1471 //------------------------------------------------------------------------------
1473 void vvMainWindow::InitSlicers()
1475 if (mSlicerManagers.size()) {
1476 mSlicerManagers.back()->GenerateDefaultLookupTable();
1477 mSlicerManagers.back()->SetSlicerWindow(0,NOViewWidget->GetRenderWindow());
1478 mSlicerManagers.back()->SetSlicerWindow(1,NEViewWidget->GetRenderWindow());
1479 mSlicerManagers.back()->SetSlicerWindow(2,SOViewWidget->GetRenderWindow());
1480 mSlicerManagers.back()->SetSlicerWindow(3,SEViewWidget->GetRenderWindow());
1481 #if VTK_MAJOR_VERSION <= 5
1482 mSlicerManagers.back()->Render(); // SR: displayed #slice is wrong without this / TB: With VTK6 and multiple images, all slicers are updated, not only the first
1487 //------------------------------------------------------------------------------
1488 void vvMainWindow::InitDisplay()
1490 if (mSlicerManagers.size()) {
1491 //BE CAREFUL : this is absolutely necessary to set the interactor style
1492 //in order to have the same style instanciation for all SlicerManagers in
1494 for (int j = 0; j < 4; j++) {
1495 vvInteractorStyleNavigator* style = vvInteractorStyleNavigator::New();
1496 style->SetAutoAdjustCameraClippingRange(1);
1497 bool AlreadySelected = false;
1498 for (int i = 0; i < DataTree->topLevelItemCount(); i++) {
1499 mSlicerManagers[i]->SetInteractorStyleNavigator(j,style);
1500 //select the image only if previous are not selected
1501 if (DataTree->topLevelItem(i)->data(j+1,Qt::CheckStateRole).toInt() > 1) {
1502 mSlicerManagers[i]->UpdateSlicer(j,1);
1503 AlreadySelected = true;
1504 } else if (i == DataTree->topLevelItemCount()-1 && !AlreadySelected) {
1505 if (DataTree->selectedItems().size() == 0) {
1506 DataTree->topLevelItem(i)->setSelected(1);
1508 DataTree->topLevelItem(i)->setData(j+1,Qt::CheckStateRole,2);
1509 mSlicerManagers[i]->UpdateSlicer(j,1);
1510 DisplaySliders(i,j);
1512 DataTree->topLevelItem(i)->setData(j+1,Qt::CheckStateRole,0);
1513 mSlicerManagers[i]->UpdateSlicer(j,0);
1520 //------------------------------------------------------------------------------
1522 //------------------------------------------------------------------------------
1523 void vvMainWindow::DisplaySliders(int slicer, int window)
1525 if(!mSlicerManagers[slicer]->GetSlicer(window)->GetRenderer()->GetDraw())
1529 mSlicerManagers[slicer]->GetSlicer(window)->GetSliceRange(range);
1530 int position = mSlicerManagers[slicer]->GetSlicer(window)->GetSlice();
1532 verticalSliders[window]->show();
1534 verticalSliders[window]->hide();
1535 verticalSliders[window]->setRange(range[0],range[1]);
1536 verticalSliders[window]->setValue(position);
1540 tRange[1] = mSlicerManagers[slicer]->GetSlicer(window)->GetTMax();
1542 horizontalSliders[window]->show();
1544 horizontalSliders[window]->hide();
1545 horizontalSliders[window]->setRange(tRange[0],tRange[1]);
1546 int tPosition = mSlicerManagers[slicer]->GetSlicer(window)->GetMaxCurrentTSlice();
1547 horizontalSliders[window]->setValue(tPosition);
1549 //------------------------------------------------------------------------------
1551 //------------------------------------------------------------------------------
1552 void vvMainWindow::CloseImage(QTreeWidgetItem* item, int column)
1554 int index = GetSlicerIndexFromItem(item);
1556 if (DataTree->topLevelItem(index) != item) {
1557 QString warning = "Do you really want to close the overlay : ";
1558 warning += item->data(COLUMN_IMAGE_NAME,Qt::DisplayRole).toString();
1559 QMessageBox msgBox(QMessageBox::Warning, tr("Close Overlay"),
1561 msgBox.addButton(tr("Close"), QMessageBox::AcceptRole);
1562 msgBox.addButton(tr("Cancel"), QMessageBox::RejectRole);
1563 if (msgBox.exec() == QMessageBox::AcceptRole) {
1564 std::string overlay_type=item->data(1,Qt::UserRole).toString().toStdString();
1565 int overlay_index=0;
1566 for (int child = 0; child < DataTree->topLevelItem(index)->childCount(); child++) {
1567 if (DataTree->topLevelItem(index)->\
1568 child(child)->data(1,Qt::UserRole).toString().toStdString() == overlay_type)
1570 if (DataTree->topLevelItem(index)->child(child) == item) break;
1572 if (overlay_type=="fusionSequence") {
1573 //removing the overlay sequence in a fusion sequence visualization mode
1574 //reset the transforms
1575 overlayPanel->getFusionSequenceProperty(-1, false, 0, false);
1577 //unlink and untie the slicer managers
1578 RemoveLink(mSlicerManagers[index]->GetId().c_str(), mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->GetId().c_str());
1579 mSlicerManagers[index]->SetFusionSequenceInvolvmentCode(-1);
1580 mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->SetFusionSequenceInvolvmentCode(-1);
1581 for (unsigned i=0 ; i<4 ; i++) {
1582 mSlicerManagers[index]->GetSlicer(i)->SetFusionSequenceCode(-1);
1583 mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->GetSlicer(i)->SetFusionSequenceCode(-1);
1587 mSlicerManagers[index]->RemoveActor(overlay_type, overlay_index-1);
1588 mSlicerManagers[index]->SetColorMap(0);
1589 DataTree->topLevelItem(index)->takeChild(DataTree->topLevelItem(index)->indexOfChild(item));
1590 mSlicerManagers[index]->Render();
1592 } else if (DataTree->topLevelItemCount() <= 1) {
1593 QString warning = "Do you really want to close the image : ";
1594 warning += item->data(COLUMN_IMAGE_NAME,Qt::DisplayRole).toString();
1595 warning += "\nThis is the last image, you're about to close vv !!!";
1596 QMessageBox msgBox(QMessageBox::Warning, tr("Close Image"),
1598 msgBox.addButton(tr("Close vv"), QMessageBox::AcceptRole);
1599 msgBox.addButton(tr("Cancel"), QMessageBox::RejectRole);
1600 if (msgBox.exec() == QMessageBox::AcceptRole) {
1604 QString warning = "Do you really want to close the image : ";
1605 warning += item->data(COLUMN_IMAGE_NAME,Qt::DisplayRole).toString();
1606 QMessageBox msgBox(QMessageBox::Warning, tr("Close Image"),
1608 msgBox.addButton(tr("Close"), QMessageBox::AcceptRole);
1609 msgBox.addButton(tr("Cancel"), QMessageBox::RejectRole);
1610 if (msgBox.exec() == QMessageBox::AcceptRole) {
1612 // Tell tools that we close an image
1613 emit AnImageIsBeingClosed(mSlicerManagers[index]);
1615 std::vector<vvSlicerManager*>::iterator Manageriter = mSlicerManagers.begin();
1616 DataTree->takeTopLevelItem(index);
1617 for (int i = 0; i < index; i++) {
1620 //if the slicer manager was involved in a fusion sequence visualization...
1621 if ( mSlicerManagers[index]->IsInvolvedInFusionSequence() ) {
1622 //in both cases, close the overlay: find it... and close it
1623 //ideally, I should duplicate the code, and avoid calling CloseImage, since this pops up another interactive box
1624 QTreeWidgetItem* overlayItem;
1625 if (mSlicerManagers[index]->IsMainSequenceOfFusionSequence()) {
1626 for (unsigned i=0 ; i<item->childCount() ; i++) {
1627 overlayItem = item->child(i);
1628 this->CloseImage( overlayItem, 0 );
1632 QTreeWidgetItem* linkedItem = this->GetItemFromSlicerManager( mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()] );
1633 for (unsigned i=0 ; i<linkedItem->childCount() ; i++) {
1634 overlayItem = linkedItem->child(i);
1635 this->CloseImage( overlayItem, 0 );
1639 /* -- this is normally already done when closing the overlay.
1640 //reset the transforms
1641 overlayPanel->getFusionSequenceProperty(-1, false, 0, false);
1643 //unlink and untie the slicer managers
1644 RemoveLink(mSlicerManagers[index]->GetId().c_str(), mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->GetId().c_str());
1645 mSlicerManagers[index]->SetFusionSequenceInvolvmentCode(-1);
1646 mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->SetFusionSequenceInvolvmentCode(-1);
1647 for (unsigned i=0 ; i<4 ; i++) {
1648 mSlicerManagers[index]->GetSlicer(i)->SetFusionSequenceCode(-1);
1649 mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->GetSlicer(i)->SetFusionSequenceCode(-1);
1654 linkPanel->removeImage(index);
1655 mSlicerManagers[index]->RemoveActors();
1657 //remove the slicer manager
1658 delete mSlicerManagers[index];
1659 mSlicerManagers.erase(Manageriter);
1667 //------------------------------------------------------------------------------
1669 //------------------------------------------------------------------------------
1670 void vvMainWindow::ReloadImage(QTreeWidgetItem* item, int column)
1672 // int index = GetSlicerIndexFromItem(item);
1673 // QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
1674 // if (item->data(1,Qt::UserRole).toString() == "vector")
1675 // mSlicerManagers[index]->ReloadVF();
1677 // mSlicerManagers[index]->Reload();
1679 // QApplication::restoreOverrideCursor();
1680 int index = GetSlicerIndexFromItem(item);
1681 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
1682 QString role=item->data(1,Qt::UserRole).toString();
1683 if ( role == "vector") {
1684 mSlicerManagers[index]->ReloadVF();
1686 else if (role == "overlay") {
1687 mSlicerManagers[index]->ReloadOverlay();
1689 else if (role == "fusion") {
1690 mSlicerManagers[index]->ReloadFusion();
1692 else if (role == "fusionSequence") {
1693 //both versions of the secondary sequence must be updated.
1694 mSlicerManagers[index]->ReloadFusionSequence();
1695 mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->Reload();
1698 mSlicerManagers[index]->Reload();
1699 //if we update the secondary sequence, then the overlay of the main sequence should also be updated
1700 if (mSlicerManagers[index]->IsSecondarySequenceOfFusionSequence()) mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->ReloadFusionSequence();
1702 // Update view and info
1704 mSlicerManagers[index]->Render();
1705 QApplication::restoreOverrideCursor();
1707 //------------------------------------------------------------------------------
1709 //------------------------------------------------------------------------------
1710 void vvMainWindow::MousePositionChanged(int visibility,double x, double y, double z, double X, double Y, double Z , double value)
1712 infoPanel->setCurrentInfo(visibility,x,y,z,X,Y,Z,value);
1714 //------------------------------------------------------------------------------
1716 //------------------------------------------------------------------------------
1717 void vvMainWindow::VectorChanged(int visibility,double x, double y, double z, double value)
1719 overlayPanel->getCurrentVectorInfo(visibility,x,y,z,value);
1721 //------------------------------------------------------------------------------
1723 //------------------------------------------------------------------------------
1724 void vvMainWindow::OverlayChanged(int visibility, double valueOver, double valueRef)
1726 overlayPanel->getCurrentOverlayInfo(visibility,valueOver, valueRef);
1728 //------------------------------------------------------------------------------
1730 //------------------------------------------------------------------------------
1731 void vvMainWindow::FusionChanged(int visibility, double value)
1733 overlayPanel->getCurrentFusionInfo(visibility,value);
1735 //------------------------------------------------------------------------------
1737 //------------------------------------------------------------------------------
1738 //called when AddOverlayImage, AddFusionSequence
1739 //or when UpdateWindowLevel() is called ; when slicerManager emits WindowLevelChanged
1740 //when ImageInfoChanged() is called
1741 void vvMainWindow::WindowLevelChanged()
1744 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1745 if(index==-1) return;
1746 windowSpinBox->setValue(mSlicerManagers[index]->GetColorWindow());
1747 levelSpinBox->setValue(mSlicerManagers[index]->GetColorLevel());
1748 colorMapComboBox->setCurrentIndex(mSlicerManagers[index]->GetColorMap());
1749 presetComboBox->setCurrentIndex(mSlicerManagers[index]->GetPreset());
1752 if (mSlicerManagers[index]->GetSlicer(0)->GetOverlay())
1753 overlayPanel->getOverlayProperty(mSlicerManagers[index]->GetOverlayColor(),
1754 mSlicerManagers[index]->GetLinkOverlayWindowLevel(),
1755 mSlicerManagers[index]->GetOverlayColorWindow(),
1756 mSlicerManagers[index]->GetOverlayColorLevel());
1758 overlayPanel->getOverlayProperty(-1,0,0.,0.);
1760 // Fusion & SequenceFusion image
1761 if (mSlicerManagers[index]->GetSlicer(0)->GetFusion()) {
1762 overlayPanel->getFusionProperty(mSlicerManagers[index]->GetFusionOpacity(),
1763 mSlicerManagers[index]->GetFusionThresholdOpacity(),
1764 mSlicerManagers[index]->GetFusionColorMap(),
1765 mSlicerManagers[index]->GetFusionWindow(),
1766 mSlicerManagers[index]->GetFusionLevel());
1767 if (mSlicerManagers[index]->IsMainSequenceOfFusionSequence()) {
1768 overlayPanel->getFusionSequenceProperty(mSlicerManagers[index]->GetFusionSequenceFrameIndex(),
1769 mSlicerManagers[index]->GetFusionSequenceSpatialSyncFlag(),
1770 mSlicerManagers[index]->GetFusionSequenceNbFrames(),
1771 mSlicerManagers[index]->GetFusionSequenceTemporalSyncFlag());
1774 else if ( mSlicerManagers[index]->IsSecondarySequenceOfFusionSequence() ) {
1775 //if the image is involved in a fusion sequence, preserve the overlay panel!
1776 int ind = mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager();
1777 overlayPanel->getFusionProperty(mSlicerManagers[ind]->GetFusionOpacity(),
1778 mSlicerManagers[ind]->GetFusionThresholdOpacity(),
1779 mSlicerManagers[ind]->GetFusionColorMap(),
1780 mSlicerManagers[ind]->GetFusionWindow(),
1781 mSlicerManagers[ind]->GetFusionLevel());
1782 overlayPanel->getFusionSequenceProperty(mSlicerManagers[ind]->GetFusionSequenceFrameIndex(),
1783 mSlicerManagers[ind]->GetFusionSequenceSpatialSyncFlag(),
1784 mSlicerManagers[ind]->GetFusionSequenceNbFrames(),
1785 mSlicerManagers[ind]->GetFusionSequenceTemporalSyncFlag());
1789 overlayPanel->getFusionProperty(-1, -1, -1, -1, -1);
1790 overlayPanel->getFusionSequenceProperty(-1, false, 0, false);
1793 //------------------------------------------------------------------------------
1795 //------------------------------------------------------------------------------
1796 void vvMainWindow::WindowLevelEdited()
1798 presetComboBox->setCurrentIndex(WL_USER);
1799 UpdateWindowLevel();
1801 //------------------------------------------------------------------------------
1803 //------------------------------------------------------------------------------
1804 void vvMainWindow::SetWindowLevel(double w, double l)
1806 windowSpinBox->setValue(w);
1807 levelSpinBox->setValue(l);
1808 presetComboBox->setCurrentIndex(WL_USER);
1809 colorMapComboBox->setCurrentIndex(0);
1810 UpdateWindowLevel();
1812 //------------------------------------------------------------------------------
1814 //------------------------------------------------------------------------------
1815 void vvMainWindow::UpdateWindowLevel()
1817 if (DataTree->selectedItems().size()) {
1818 if (presetComboBox->currentIndex() == WL_VENTILATION) //For ventilation
1819 colorMapComboBox->setCurrentIndex(5);
1820 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1821 mSlicerManagers[index]->SetColorWindow(windowSpinBox->value());
1822 mSlicerManagers[index]->SetColorLevel(levelSpinBox->value());
1823 mSlicerManagers[index]->SetPreset(presetComboBox->currentIndex());
1824 mSlicerManagers[index]->Render();
1825 WindowLevelChanged();
1828 //------------------------------------------------------------------------------
1830 //------------------------------------------------------------------------------
1831 void vvMainWindow::UpdateSlicingPreset()
1833 if (DataTree->selectedItems().size()) {
1834 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1835 mSlicerManagers[index]->SetSlicingPreset(vvSlicerManager::SlicingPresetType(slicingPresetComboBox->currentIndex()));
1838 //------------------------------------------------------------------------------
1840 //------------------------------------------------------------------------------
1841 void vvMainWindow::UpdateColorMap()
1843 if (DataTree->selectedItems().size()) {
1844 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1845 mSlicerManagers[index]->SetColorMap(colorMapComboBox->currentIndex());
1846 mSlicerManagers[index]->Render();
1849 //------------------------------------------------------------------------------
1850 void vvMainWindow::SwitchWindowLevel()
1852 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1853 int window = mSlicerManagers[index]->GetColorWindow();
1854 presetComboBox->setCurrentIndex(WL_USER);
1855 windowSpinBox->setValue(-window);
1856 UpdateWindowLevel();
1858 //------------------------------------------------------------------------------
1860 //------------------------------------------------------------------------------
1861 void vvMainWindow::ApplyWindowLevelToAllImages()
1863 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1864 if(index==-1) return;
1865 double window = mSlicerManagers[index]->GetColorWindow();
1866 double level = mSlicerManagers[index]->GetColorLevel();
1868 double fusWindow = mSlicerManagers[index]->GetFusionWindow();
1869 double fusLevel = mSlicerManagers[index]->GetFusionLevel();
1871 double overWindow = mSlicerManagers[index]->GetOverlayColorWindow();
1872 double overLevel = mSlicerManagers[index]->GetOverlayColorLevel();
1874 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
1875 if (mSlicerManagers[i] == NULL)
1877 mSlicerManagers[i]->SetColorWindow(window);
1878 mSlicerManagers[i]->SetColorLevel(level);
1879 mSlicerManagers[i]->SetPreset(WL_USER);
1880 mSlicerManagers[i]->SetFusionWindow(fusWindow);
1881 mSlicerManagers[i]->SetFusionLevel(fusLevel);
1882 mSlicerManagers[i]->SetOverlayColorWindow(overWindow);
1883 mSlicerManagers[i]->SetOverlayColorLevel(overLevel);
1884 mSlicerManagers[i]->Render();
1887 //------------------------------------------------------------------------------
1889 //------------------------------------------------------------------------------
1890 void vvMainWindow::ApplyWindowToSetOfImages(double window, unsigned int indexMin, unsigned int indexMax)
1892 for (unsigned int i = indexMin; i <= indexMax && i < mSlicerManagers.size(); i++) {
1893 if (mSlicerManagers[i] == NULL)
1895 mSlicerManagers[i]->SetColorWindow(window);
1896 mSlicerManagers[i]->SetPreset(WL_USER);
1897 mSlicerManagers[i]->Render();
1900 //------------------------------------------------------------------------------
1902 //------------------------------------------------------------------------------
1903 void vvMainWindow::ApplyLevelToSetOfImages(double level, unsigned int indexMin, unsigned int indexMax)
1905 for (unsigned int i = indexMin; i <= indexMax && i < mSlicerManagers.size(); i++) {
1906 if (mSlicerManagers[i] == NULL)
1908 mSlicerManagers[i]->SetColorLevel(level);
1909 mSlicerManagers[i]->SetPreset(WL_USER);
1910 mSlicerManagers[i]->Render();
1913 //------------------------------------------------------------------------------
1915 //------------------------------------------------------------------------------
1916 void vvMainWindow::UpdateLinkManager(std::string id, int slicer, double x, double y, double z, int temps)
1918 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
1919 if (mSlicerManagers[i]->GetId() == id) {
1920 mSlicerManagers[i]->GetSlicer(slicer)->SetCurrentPosition(x,y,z,temps);
1921 mSlicerManagers[i]->UpdateViews(0,slicer);
1926 //------------------------------------------------------------------------------
1928 //------------------------------------------------------------------------------
1929 void vvMainWindow::UpdateLinkedNavigation(std::string id, vvSlicerManager * sm, vvSlicer* refSlicer)
1931 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
1932 if (id == mSlicerManagers[i]->GetId()) {
1933 mSlicerManagers[i]->UpdateLinkedNavigation(refSlicer);
1937 //------------------------------------------------------------------------------
1939 //------------------------------------------------------------------------------
1940 void vvMainWindow::ShowContextMenu(QPoint point)
1942 if (!DataTree->selectedItems().size()) {
1943 contextActions[1]->setEnabled(0);
1944 contextActions[2]->setEnabled(0);
1945 contextActions[3]->setEnabled(0);
1946 contextActions[4]->setEnabled(0);
1947 contextActions[5]->setEnabled(0);
1948 contextActions[6]->setEnabled(0);
1950 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1951 contextActions[1]->setEnabled(1);
1952 contextActions[2]->setEnabled(
1953 DataTree->itemWidget(DataTree->selectedItems()[0],
1954 COLUMN_RELOAD_IMAGE)->isEnabled());
1955 contextActions[3]->setEnabled(1);
1956 contextActions[5]->setEnabled(1);
1957 contextActions[6]->setEnabled(1);
1959 if (mSlicerManagers[index]->GetDimension() < 3)
1960 contextActions[4]->setEnabled(0);
1962 contextActions[4]->setEnabled(1);
1964 contextMenu.exec(QCursor::pos());
1966 //------------------------------------------------------------------------------
1968 //------------------------------------------------------------------------------
1969 void vvMainWindow::CloseImage()
1971 CloseImage(DataTree->selectedItems()[0],0);
1973 //------------------------------------------------------------------------------
1975 //------------------------------------------------------------------------------
1976 void vvMainWindow::ReloadImage()
1978 ReloadImage(DataTree->selectedItems()[0],0);
1980 //------------------------------------------------------------------------------
1982 //------------------------------------------------------------------------------
1983 void vvMainWindow::SelectOverlayImage()
1985 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1987 //check if one overlay image is added
1988 for (int child = 0; child < DataTree->topLevelItem(index)->childCount(); child++)
1989 if (DataTree->topLevelItem(index)->child(child)->data(1,Qt::UserRole).toString() == "overlay") {
1990 QString error = "Cannot add more than one compared image\n";
1991 error += "Please remove first ";
1992 error += DataTree->topLevelItem(index)->child(child)->data(COLUMN_IMAGE_NAME,Qt::DisplayRole).toString();
1993 QMessageBox::information(this,tr("Problem adding compared image !"),error);
1997 QString Extensions = EXTENSIONS;
1998 Extensions += ";;All Files (*)";
1999 QStringList files = QFileDialog::getOpenFileNames(this,tr("Load Overlay image"),mInputPathName,Extensions);
2000 if (files.isEmpty())
2003 std::vector<std::string> vecFileNames;
2004 for (int i = 0; i < files.size(); i++) {
2005 vecFileNames.push_back(files[i].toStdString());
2008 AddOverlayImage(index,vecFileNames,vvImageReader::IMAGE);
2010 //------------------------------------------------------------------------------
2012 //------------------------------------------------------------------------------
2013 void vvMainWindow::AddOverlayImage(int index, std::vector<std::string> fileNames, vvImageReader::LoadedImageType type)
2015 QString file(fileNames[0].c_str());
2016 if (QFile::exists(file))
2018 mInputPathName = itksys::SystemTools::GetFilenamePath(file.toStdString()).c_str();
2019 itk::ImageIOBase::Pointer reader = itk::ImageIOFactory::CreateImageIO(
2020 file.toStdString().c_str(), itk::ImageIOFactory::ReadMode);
2021 reader->SetFileName(fileNames[0].c_str());
2022 reader->ReadImageInformation();
2023 std::string component = reader->GetComponentTypeAsString(reader->GetComponentType());
2024 int dimension = reader->GetNumberOfDimensions();
2025 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
2026 vvProgressDialog progress("Opening " + file.toStdString());
2027 qApp->processEvents();
2029 std::string filename = itksys::SystemTools::GetFilenameWithoutExtension(file.toStdString()).c_str();
2030 if (mSlicerManagers[index]->SetOverlay(fileNames,dimension, component,type)) {
2031 //create an item in the tree with good settings
2032 QTreeWidgetItem *item = new QTreeWidgetItem();
2033 item->setData(0,Qt::UserRole,file.toStdString().c_str());
2034 item->setData(1,Qt::UserRole,tr("overlay"));
2035 QFileInfo fileinfo(file); //Do not show the path
2036 item->setData(COLUMN_IMAGE_NAME,Qt::DisplayRole,fileinfo.fileName());
2037 item->setToolTip(COLUMN_IMAGE_NAME, mSlicerManagers[index]->GetListOfAbsoluteFilePathInOneString("overlay").c_str());
2038 qApp->processEvents();
2040 for (int j = 1; j <= 4; j++) {
2041 item->setData(j,Qt::CheckStateRole,DataTree->topLevelItem(index)->data(j,Qt::CheckStateRole));
2044 //Create the buttons for reload and close
2045 qApp->processEvents();
2046 QTreePushButton* cButton = new QTreePushButton;
2047 cButton->setItem(item);
2048 cButton->setColumn(COLUMN_CLOSE_IMAGE);
2049 cButton->setToolTip(tr("close image"));
2050 cButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/exit.png")));
2051 connect(cButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2052 this,SLOT(CloseImage(QTreeWidgetItem*, int)));
2054 QTreePushButton* rButton = new QTreePushButton;
2055 rButton->setItem(item);
2056 rButton->setColumn(COLUMN_RELOAD_IMAGE);
2057 rButton->setToolTip(tr("reload image"));
2058 rButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/rotateright.png")));
2059 connect(rButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2060 this,SLOT(ReloadImage(QTreeWidgetItem*, int)));
2062 DataTree->topLevelItem(index)->setExpanded(1);
2063 DataTree->topLevelItem(index)->addChild(item);
2064 DataTree->setItemWidget(item, COLUMN_CLOSE_IMAGE, cButton);
2065 DataTree->setItemWidget(item, COLUMN_RELOAD_IMAGE, rButton);
2067 //set the id of the image
2068 QString id = DataTree->topLevelItem(index)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString();
2069 item->setData(COLUMN_IMAGE_NAME,Qt::UserRole,id.toStdString().c_str());
2071 qApp->processEvents();
2073 QApplication::restoreOverrideCursor();
2075 // Update the display to update, e.g., the sliders
2076 for(int i=0; i<4; i++)
2077 DisplaySliders(index, i);
2079 QApplication::restoreOverrideCursor();
2080 QString error = "Cannot import the new image.\n";
2081 error += mSlicerManagers[index]->GetLastError().c_str();
2082 QMessageBox::information(this,tr("Problem reading image !"),error);
2084 WindowLevelChanged();
2087 QMessageBox::information(this,tr("Problem reading Overlay !"),"File doesn't exist!");
2089 //------------------------------------------------------------------------------
2092 //------------------------------------------------------------------------------
2093 void vvMainWindow::AddROI(int index, QString file)
2096 // Get slice manager
2100 vvImageReader * mReader = new vvImageReader;
2101 mReader->SetInputFilename(filename.toStdString());
2102 mReader->Update(IMAGE);
2103 if (mReader->GetLastError().size() != 0) {
2104 std::cerr << "Error while reading " << filename.toStdString() << std::endl;
2105 QString error = "Cannot open file \n";
2106 error += mReader->GetLastError().c_str();
2107 QMessageBox::information(this,tr("Reading problem"),error);
2111 vvImage::Pointer roi = mReader->GetOutput();
2113 // Create roi in new tool
2114 vvToolStructureSetManager::AddImage(mCurrentSlicerManager, roi);
2117 //------------------------------------------------------------------------------
2119 //------------------------------------------------------------------------------
2120 void vvMainWindow::SelectFusionImage()
2122 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2124 //check if one fusion image is added
2125 for (int child = 0; child < DataTree->topLevelItem(index)->childCount(); child++)
2126 if ( (DataTree->topLevelItem(index)->child(child)->data(1,Qt::UserRole).toString() == "fusion") ||
2127 (DataTree->topLevelItem(index)->child(child)->data(1,Qt::UserRole).toString() == "fusionSequence") ) {
2128 QString error = "Cannot add more than one fusion image\n";
2129 error += "Please remove first ";
2130 error += DataTree->topLevelItem(index)->child(child)->data(COLUMN_IMAGE_NAME,Qt::DisplayRole).toString();
2131 QMessageBox::information(this,tr("Problem adding fusion image !"),error);
2135 QString Extensions = EXTENSIONS;
2136 Extensions += ";;All Files (*)";
2137 QStringList files = QFileDialog::getOpenFileNames(this,tr("Load Fusion image"),mInputPathName,Extensions);
2138 if (files.isEmpty())
2141 std::vector<std::string> vecFileNames;
2142 for (int i = 0; i < files.size(); i++) {
2143 vecFileNames.push_back(files[i].toStdString());
2145 AddFusionImage(index,vecFileNames,vvImageReader::IMAGE);
2147 //------------------------------------------------------------------------------
2149 //------------------------------------------------------------------------------
2150 void vvMainWindow::ResetTransformationToIdentity()
2152 std::string actorType = DataTree->selectedItems()[0]->data(1,Qt::UserRole).toString().toStdString();
2153 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2154 mSlicerManagers[index]->ResetTransformationToIdentity(actorType);
2157 //------------------------------------------------------------------------------
2159 //------------------------------------------------------------------------------
2160 void vvMainWindow::AddFusionImage(int index, std::vector<std::string> fileNames, vvImageReader::LoadedImageType type)
2162 QString file(fileNames[0].c_str());
2163 if (QFile::exists(file))
2165 mInputPathName = itksys::SystemTools::GetFilenamePath(file.toStdString()).c_str();
2166 itk::ImageIOBase::Pointer reader = itk::ImageIOFactory::CreateImageIO(
2167 file.toStdString().c_str(), itk::ImageIOFactory::ReadMode);
2168 reader->SetFileName(fileNames[0].c_str());
2169 reader->ReadImageInformation();
2170 std::string component = reader->GetComponentTypeAsString(reader->GetComponentType());
2171 int dimension = reader->GetNumberOfDimensions();
2172 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
2173 vvProgressDialog progress("Opening fusion");
2174 qApp->processEvents();
2176 std::string filename = itksys::SystemTools::GetFilenameWithoutExtension(file.toStdString()).c_str();
2177 if (mSlicerManagers[index]->SetFusion(fileNames,dimension, component,type)) {
2178 //create an item in the tree with good settings
2179 QTreeWidgetItem *item = new QTreeWidgetItem();
2180 item->setData(0,Qt::UserRole,file.toStdString().c_str());
2181 item->setData(1,Qt::UserRole,tr("fusion"));
2182 QFileInfo fileinfo(file); //Do not show the path
2183 item->setData(COLUMN_IMAGE_NAME,Qt::DisplayRole,fileinfo.fileName());
2184 item->setToolTip(COLUMN_IMAGE_NAME, mSlicerManagers[index]->GetListOfAbsoluteFilePathInOneString("fusion").c_str());
2185 qApp->processEvents();
2187 for (int j = 1; j <= 4; j++) {
2188 item->setData(j,Qt::CheckStateRole,DataTree->topLevelItem(index)->data(j,Qt::CheckStateRole));
2191 //Create the buttons for reload and close
2192 qApp->processEvents();
2193 QTreePushButton* cButton = new QTreePushButton;
2194 cButton->setItem(item);
2195 cButton->setColumn(COLUMN_CLOSE_IMAGE);
2196 cButton->setToolTip(tr("close image"));
2197 cButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/exit.png")));
2198 connect(cButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2199 this,SLOT(CloseImage(QTreeWidgetItem*, int)));
2201 QTreePushButton* rButton = new QTreePushButton;
2202 rButton->setItem(item);
2203 rButton->setColumn(COLUMN_RELOAD_IMAGE);
2204 rButton->setToolTip(tr("reload image"));
2205 rButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/rotateright.png")));
2206 connect(rButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2207 this,SLOT(ReloadImage(QTreeWidgetItem*, int)));
2209 DataTree->topLevelItem(index)->setExpanded(1);
2210 DataTree->topLevelItem(index)->addChild(item);
2211 DataTree->setItemWidget(item, COLUMN_CLOSE_IMAGE, cButton);
2212 DataTree->setItemWidget(item, COLUMN_RELOAD_IMAGE, rButton);
2214 //set the id of the image
2215 QString id = DataTree->topLevelItem(index)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString();
2216 item->setData(COLUMN_IMAGE_NAME,Qt::UserRole,id.toStdString().c_str());
2218 qApp->processEvents();
2220 QApplication::restoreOverrideCursor();
2222 // Update the display to update, e.g., the sliders
2223 for(int i=0; i<4; i++)
2224 DisplaySliders(index, i);
2226 QApplication::restoreOverrideCursor();
2227 QString error = "Cannot import the new image.\n";
2228 error += mSlicerManagers[index]->GetLastError().c_str();
2229 QMessageBox::information(this,tr("Problem reading image !"),error);
2231 WindowLevelChanged();
2234 QMessageBox::information(this,tr("Problem reading Fusion !"),"File doesn't exist!");
2236 //------------------------------------------------------------------------------
2237 //------------------------------------------------------------------------------
2238 void vvMainWindow::AddLandmarks(int index, std::vector<std::string> files)
2240 if (!landmarksPanel->LoadFromFile(files))
2241 QMessageBox::information(this,tr("Problem reading Landmarks !"),"File doesn't exist!");
2243 landmarksPanel->SetCurrentPath(mInputPathName.toStdString());
2244 landmarksPanel->SetCurrentImage(mSlicerManagers[index]->GetFileName().c_str());
2247 //------------------------------------------------------------------------------
2248 void vvMainWindow::OpenField()
2250 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2251 //check if a vector field has already been added
2252 for (int child = 0; child < DataTree->topLevelItem(index)->childCount(); child++)
2253 if (DataTree->topLevelItem(index)->child(child)->data(1,Qt::UserRole).toString() == "vector") {
2254 QString error = "Cannot add more than one vector field\n";
2255 error += "Please remove first ";
2256 error += DataTree->topLevelItem(index)->child(child)->data(COLUMN_IMAGE_NAME,Qt::DisplayRole).toString();
2257 QMessageBox::information(this,tr("Problem adding vector field!"),error);
2261 QString Extensions = "Images ( *.mhd *.mha *.vf *.nii *.nrrd *.nhdr)";
2262 // Extensions += ";;Images ( *.mha)";
2263 // Extensions += ";;VF Images ( *.vf)";
2264 // Extensions += ";;nii Images ( *.nii)";
2265 // Extensions += ";;nrrd Images ( *.nrrd)";
2266 // Extensions += ";;nhdr Images ( *.nhdr)";
2267 Extensions += ";;All Files (*)";
2268 QString file = QFileDialog::getOpenFileName(this,tr("Load deformation field"),mInputPathName,Extensions);
2269 if (!file.isEmpty())
2270 AddField(file,index);
2272 //------------------------------------------------------------------------------
2275 //------------------------------------------------------------------------------
2276 void vvMainWindow::AddFieldEntry(QString filename,int index,bool from_disk)
2278 //create an item in the tree with good settings
2279 QTreeWidgetItem *item = new QTreeWidgetItem();
2280 item->setData(0,Qt::UserRole,filename.toStdString().c_str());
2281 item->setData(1,Qt::UserRole,tr("vector"));
2282 QFileInfo fileinfo(filename); //Do not show the path
2283 item->setData(COLUMN_IMAGE_NAME,Qt::DisplayRole,fileinfo.fileName());
2284 item->setToolTip(COLUMN_IMAGE_NAME, mSlicerManagers[index]->GetListOfAbsoluteFilePathInOneString("vector").c_str());
2285 qApp->processEvents();
2287 for (int j = 1; j <= 4; j++) {
2288 item->setData(j,Qt::CheckStateRole,DataTree->topLevelItem(index)->data(j,Qt::CheckStateRole));
2291 //Create the buttons for reload and close
2292 qApp->processEvents();
2293 QTreePushButton* cButton = new QTreePushButton;
2294 cButton->setItem(item);
2295 cButton->setColumn(COLUMN_CLOSE_IMAGE);
2296 cButton->setToolTip(tr("close vector field"));
2297 cButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/exit.png")));
2298 connect(cButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2299 this,SLOT(CloseImage(QTreeWidgetItem*, int)));
2301 QTreePushButton* rButton = new QTreePushButton;
2302 rButton->setItem(item);
2303 rButton->setColumn(COLUMN_RELOAD_IMAGE);
2304 rButton->setToolTip(tr("reload vector field"));
2305 rButton->setEnabled(from_disk);
2306 rButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/rotateright.png")));
2307 connect(rButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2308 this,SLOT(ReloadImage(QTreeWidgetItem*, int)));
2310 DataTree->topLevelItem(index)->setExpanded(1);
2311 DataTree->topLevelItem(index)->addChild(item);
2312 DataTree->setItemWidget(item, COLUMN_RELOAD_IMAGE, rButton);
2313 DataTree->setItemWidget(item, COLUMN_CLOSE_IMAGE, cButton);
2315 //set the id of the image
2316 QString id = DataTree->topLevelItem(index)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString();
2317 item->setData(COLUMN_IMAGE_NAME,Qt::UserRole,id.toStdString().c_str());
2319 qApp->processEvents();
2321 QApplication::restoreOverrideCursor();
2323 //------------------------------------------------------------------------------
2326 //------------------------------------------------------------------------------
2327 void vvMainWindow::AddField(vvImage::Pointer vf,QString file,int index)
2329 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
2330 vvSlicerManager* imageManager = mSlicerManagers[index];
2331 if (imageManager->SetVF(vf,file.toStdString())) {
2332 AddFieldEntry(file,index,false);
2334 QString error = "Cannot import the vector field for this image.\n";
2335 error += imageManager->GetLastError().c_str();
2336 QMessageBox::information(this,tr("Problem reading VF !"),error);
2338 QApplication::restoreOverrideCursor();
2340 //------------------------------------------------------------------------------
2343 //------------------------------------------------------------------------------
2344 void vvMainWindow::AddField(QString file,int index)
2346 if (QFile::exists(file)) {
2347 mInputPathName = itksys::SystemTools::GetFilenamePath(file.toStdString()).c_str();
2349 //init the progress events
2350 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
2351 vvProgressDialog progress("Opening " + file.toStdString());
2352 qApp->processEvents();
2354 //read the vector and put it in the current mSlicerManager
2355 vvSlicerManager* imageManager = mSlicerManagers[index];
2356 qApp->processEvents();
2358 std::string filename = itksys::SystemTools::GetFilenameWithoutExtension(file.toStdString()).c_str();
2359 if (imageManager->SetVF(file.toStdString())) {
2360 imageManager->Render();
2361 AddFieldEntry(file,index,true);
2363 QApplication::restoreOverrideCursor();
2364 QString error = "Cannot import the vector field for this image.\n";
2365 error += imageManager->GetLastError().c_str();
2366 QMessageBox::information(this,tr("Problem reading VF !"),error);
2369 QMessageBox::information(this,tr("Problem reading VF !"),"File doesn't exist!");
2372 //------------------------------------------------------------------------------
2375 //------------------------------------------------------------------------------
2376 void vvMainWindow::SetVFProperty(int subsampling, int scale, int log, int width, double r, double g, double b)
2378 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2379 if (mSlicerManagers[index]->GetSlicer(0)->GetVF()) {
2380 for (int i = 0; i < 4; i++) {
2381 mSlicerManagers[index]->GetSlicer(i)->SetVFSubSampling(subsampling);
2382 mSlicerManagers[index]->GetSlicer(i)->SetVFScale(scale);
2383 mSlicerManagers[index]->GetSlicer(i)->SetVFWidth(width);
2384 mSlicerManagers[index]->GetSlicer(i)->SetVFColor(r,g,b);
2386 mSlicerManagers[index]->GetSlicer(i)->SetVFLog(1);
2388 mSlicerManagers[index]->GetSlicer(i)->SetVFLog(0);
2392 //------------------------------------------------------------------------------
2395 //------------------------------------------------------------------------------
2396 void vvMainWindow::SetOverlayProperty(int color, int linked, double window, double level)
2398 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2399 if (mSlicerManagers[index]->GetSlicer(0)->GetOverlay()) {
2400 mSlicerManagers[index]->SetOverlayColor(color);
2401 mSlicerManagers[index]->SetColorMap(0);
2402 mSlicerManagers[index]->SetLinkOverlayWindowLevel(linked);
2403 mSlicerManagers[index]->SetOverlayColorWindow(window);
2404 mSlicerManagers[index]->SetOverlayColorLevel(level);
2405 mSlicerManagers[index]->Render();
2408 //------------------------------------------------------------------------------
2410 //------------------------------------------------------------------------------
2411 void vvMainWindow::SetFusionProperty(int opacity, int thresOpacity, int colormap,double window, double level, bool showLegend)
2413 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2414 if (mSlicerManagers[index]->GetSlicer(0)->GetFusion()) {
2415 mSlicerManagers[index]->SetFusionColorMap(colormap);
2416 mSlicerManagers[index]->SetFusionOpacity(opacity);
2417 mSlicerManagers[index]->SetFusionThresholdOpacity(thresOpacity);
2418 mSlicerManagers[index]->SetFusionWindow(window);
2419 mSlicerManagers[index]->SetFusionLevel(level);
2420 mSlicerManagers[index]->SetFusionShowLegend(showLegend);
2421 mSlicerManagers[index]->SetColorMap(0);
2422 mSlicerManagers[index]->Render();
2425 //------------------------------------------------------------------------------
2428 //------------------------------------------------------------------------------
2429 void vvMainWindow::SelectFusionSequence()
2431 //get the index of the slicer manager of the main sequence (CT)
2432 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2433 //check if one overlay image is already associated
2434 for (int child = 0; child < DataTree->topLevelItem(index)->childCount(); child++)
2435 if ( (DataTree->topLevelItem(index)->child(child)->data(1,Qt::UserRole).toString() == "fusion") ||
2436 (DataTree->topLevelItem(index)->child(child)->data(1,Qt::UserRole).toString() == "fusionSequence") ) {
2437 QString error = "Cannot add more than one compared image\n";
2438 error += "Please remove first ";
2439 error += DataTree->topLevelItem(index)->child(child)->data(COLUMN_IMAGE_NAME,Qt::DisplayRole).toString();
2440 QMessageBox::information(this,tr("Problem adding compared image !"),error);
2444 QString Extensions = EXTENSIONS;
2445 Extensions += ";;All Files (*)";
2446 QStringList files = QFileDialog::getOpenFileNames(this,tr("Load Overlay image sequence"),mInputPathName,Extensions);
2447 if (files.isEmpty())
2450 std::vector<std::string> vecFileNames;
2451 for (int i = 0; i < files.size(); i++) {
2452 vecFileNames.push_back(files[i].toStdString());
2455 //associate the secondary sequence (US) to the main one
2456 AddFusionSequence(index,vecFileNames,vvImageReader::MERGEDWITHTIME);
2458 //------------------------------------------------------------------------------
2461 //------------------------------------------------------------------------------
2462 void vvMainWindow::SelectFusionSequenceCorrespondances()
2464 //make sure the index is right?
2465 //in the end, I should attach the temporal data to the right sequence!
2466 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2467 //in case the other sequence got selected, make sure we select the primary sequence
2468 if ( (!mSlicerManagers[index]->GetSlicer(0)->GetFusion()) && mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()>=0 ) {
2469 index = mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager();
2472 //open a dialog box to find a file
2473 //QString Extensions = EXTENSIONS;
2474 QString Extensions = ";;All Files (*)";
2475 QString fileName = QFileDialog::getOpenFileName(this,tr("Load respiratory signal for fused sequence"),mInputPathName,Extensions);
2476 if (fileName.isNull())
2479 //read it as a vector of values
2480 vnl_vector<double> tmpVect;
2483 file.open(fileName.toStdString().c_str());
2484 tmpVect.read_ascii(file);
2487 //if compatible with the fused image sequence (number of entries = nb of entries in main sequence + nb of entries in joint sequence), enable the temporalSync
2488 bool signalOK = true;
2489 unsigned nbFrameMain = mSlicerManagers[index]->GetImage()->GetTransform().size();
2490 unsigned nbFrameSecondary = mSlicerManagers[index]->GetFusionSequenceNbFrames();
2491 std::cout<<"nbFrameMain = "<<nbFrameMain<<", nbFrameSecondary= "<<nbFrameSecondary<<", signal size: "<<tmpVect.size()<<std::endl;
2492 std::vector<unsigned> temporalCorrespondances;
2493 if ( tmpVect.size() == nbFrameMain + nbFrameSecondary ) {
2494 for (unsigned i=0 ; i<tmpVect.size() ; i++) {
2495 if (i<nbFrameMain) { //first part of the file: i -> index in secondary seq.
2496 if ( tmpVect(i)<nbFrameSecondary ) temporalCorrespondances.push_back(tmpVect(i));
2497 else { signalOK=false; break; } //pointing outside the secondary sequence...
2499 else { //first part of the file -> index in secondary seq.
2500 if ( tmpVect(i)<nbFrameMain ) temporalCorrespondances.push_back(tmpVect(i));
2501 else { signalOK=false; break; } //pointing outside the secondary sequence...
2505 else {signalOK=false;}
2506 if (!signalOK) {//else, send a message to signal the failure...
2507 QString error = "The provided temporal correspondances is invalid - check tooltip.\n";
2508 error += "Ignoring file: " + fileName;
2509 QMessageBox::information(this,tr("Problem adding temporal correspondances!"),error);
2513 //for convenience, associate this sequence to both the current slicer manager, and to the linked one
2514 mSlicerManagers[index]->SetFusionSequenceCorrespondances(temporalCorrespondances);
2515 mSlicerManagers[ mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager() ]->SetFusionSequenceCorrespondances(temporalCorrespondances);
2516 overlayPanel->enableFusionSequenceTemporalSync();
2520 //------------------------------------------------------------------------------
2523 //------------------------------------------------------------------------------
2524 //when this function is called index is the slicer manager index corresponding to the main sequence (CT)
2525 //the files behind fileNames points to the data for the secondary sequence
2526 void vvMainWindow::AddFusionSequence(int index, std::vector<std::string> fileNames, vvImageReader::LoadedImageType type)
2528 QString file(fileNames[0].c_str());
2529 if (QFile::exists(file))
2531 mInputPathName = itksys::SystemTools::GetFilenamePath(file.toStdString()).c_str();
2532 itk::ImageIOBase::Pointer reader = itk::ImageIOFactory::CreateImageIO(
2533 file.toStdString().c_str(), itk::ImageIOFactory::ReadMode);
2534 std::sort (fileNames.begin(), fileNames.end());//make sure the files are sorted.
2535 reader->SetFileName(fileNames[0].c_str());
2536 reader->ReadImageInformation();
2537 std::string component = reader->GetComponentTypeAsString(reader->GetComponentType());
2538 int dimension = reader->GetNumberOfDimensions();
2539 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
2540 vvProgressDialog progress("Opening " + file.toStdString());
2541 qApp->processEvents();
2543 std::string filename = itksys::SystemTools::GetFilenameWithoutExtension(file.toStdString()).c_str();
2545 if (mSlicerManagers[index]->SetFusionSequence(fileNames,dimension, component,type)) {
2546 //create an item in the tree with good settings
2547 QTreeWidgetItem *item = new QTreeWidgetItem();
2548 item->setData(0,Qt::UserRole,file.toStdString().c_str());
2549 item->setData(1,Qt::UserRole,tr("fusionSequence"));
2551 QFileInfo fileinfo(file); //Do not show the path
2552 item->setData(COLUMN_IMAGE_NAME,Qt::DisplayRole,fileinfo.fileName());
2553 item->setToolTip(COLUMN_IMAGE_NAME, mSlicerManagers[index]->GetListOfAbsoluteFilePathInOneString("fusionSequence").c_str());
2554 qApp->processEvents();
2555 for (int j = 1; j <= 4; j++) {
2556 item->setData(j,Qt::CheckStateRole,DataTree->topLevelItem(index)->data(j,Qt::CheckStateRole));
2559 //Create the buttons for reload and close
2560 qApp->processEvents();
2561 QTreePushButton* cButton = new QTreePushButton;
2562 cButton->setItem(item);
2563 cButton->setColumn(COLUMN_CLOSE_IMAGE);
2564 cButton->setToolTip(tr("close image"));
2565 cButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/exit.png")));
2566 connect(cButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2567 this,SLOT(CloseImage(QTreeWidgetItem*, int)));
2569 QTreePushButton* rButton = new QTreePushButton;
2570 rButton->setItem(item);
2571 rButton->setColumn(COLUMN_RELOAD_IMAGE);
2572 rButton->setToolTip(tr("reload image"));
2573 rButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/rotateright.png")));
2574 connect(rButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2575 this,SLOT(ReloadImage(QTreeWidgetItem*, int)));
2577 DataTree->topLevelItem(index)->setExpanded(1);
2578 DataTree->topLevelItem(index)->addChild(item);
2579 DataTree->setItemWidget(item, COLUMN_CLOSE_IMAGE, cButton);
2580 DataTree->setItemWidget(item, COLUMN_RELOAD_IMAGE, rButton);
2582 //store the original transform matrix
2583 int indexParent = GetSlicerIndexFromItem( DataTree->topLevelItem(index) );
2584 mSlicerManagers[indexParent]->SetFusionSequenceMainTransformMatrix( mSlicerManagers[indexParent]->GetSlicer(0)->GetImage()->GetTransform()[0]->GetMatrix() );
2586 //set the id of the image
2587 QString id = DataTree->topLevelItem(index)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString();
2588 item->setData(COLUMN_IMAGE_NAME,Qt::UserRole,id.toStdString().c_str());
2590 qApp->processEvents();
2592 //ImageInfoChanged();
2594 QApplication::restoreOverrideCursor();
2595 // Update the display to update, e.g., the sliders
2596 for(int i=0; i<4; i++)
2597 DisplaySliders(index, i);
2600 //This loads the secondary sequence (US) as an independent sequence
2601 LoadImages(fileNames, type);
2602 //reset the transforms to identity
2603 //FIX -- and set the thickness of the US slices to a large value (necessary for visualization purposes...)
2604 double sp_x, sp_y, sp_z;
2605 mSlicerManagers[indexParent]->GetImage()->GetVTKImages()[0]->GetSpacing(sp_x, sp_y, sp_z);
2606 sp_z = std::max(sp_x, std::max(sp_y, sp_z)) + 0.5; //
2607 for (unsigned i=0 ; i<mSlicerManagers.back()->GetImage()->GetTransform().size() ; i++) {
2608 sp_x = mSlicerManagers.back()->GetImage()->GetVTKImages()[i]->GetSpacing()[0];
2609 sp_y = mSlicerManagers.back()->GetImage()->GetVTKImages()[i]->GetSpacing()[1];
2610 mSlicerManagers.back()->GetImage()->GetVTKImages()[i]->SetSpacing( sp_x, sp_y, sp_z);
2611 mSlicerManagers.back()->GetImage()->GetTransform()[i]->Identity();
2612 mSlicerManagers.back()->GetImage()->GetTransform()[i]->Update();
2615 //automatically link both images...
2616 AddLink(mSlicerManagers[indexParent]->GetId().c_str(), mSlicerManagers.back()->GetId().c_str(), false);
2618 //tie the main and secondary sequences by raising flags and informing each another of their respective SlicerManager indices
2619 mSlicerManagers[indexParent]->SetFusionSequenceIndexOfLinkedManager(mSlicerManagers.size()-1);
2620 mSlicerManagers[indexParent]->SetFusionSequenceInvolvmentCode(0); //main sequence
2621 mSlicerManagers.back()->SetFusionSequenceIndexOfLinkedManager(indexParent);
2622 mSlicerManagers.back()->SetFusionSequenceInvolvmentCode(1); //secondary sequence
2623 for (unsigned i=0 ; i<4 ; i++) {
2624 mSlicerManagers.back()->GetSlicer(i)->SetFusionSequenceCode(1); //flag the slicers of the secondary sequence
2628 QApplication::restoreOverrideCursor();
2629 QString error = "Cannot import the new image.\n";
2630 error += mSlicerManagers[index]->GetLastError().c_str();
2631 QMessageBox::information(this,tr("Problem reading image !"),error);
2633 WindowLevelChanged();
2634 ImageInfoChanged(); //this internally calls WindowLevelChanged...
2637 QMessageBox::information(this,tr("Problem reading fusion sequence !"),"File doesn't exist!");
2642 //------------------------------------------------------------------------------
2645 //------------------------------------------------------------------------------
2646 //fusionSequenceFrameIndex and fusionSequenceNbFrames are relative to the secondary sequence (US)
2647 void vvMainWindow::SetFusionSequenceProperty(int fusionSequenceFrameIndex, bool spatialSyncFlag, unsigned int fusionSequenceNbFrames, bool temporalSyncFlag)
2649 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2651 if (!mSlicerManagers[index]->IsInvolvedInFusionSequence()) return;
2653 //check if the focus moved to the linked sequence, and in this case, select the master sequence instead
2654 if (!mSlicerManagers[index]->IsMainSequenceOfFusionSequence()) {
2655 index = mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager();
2657 int secondaryIndex = mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager();
2658 if (secondaryIndex==-1) return; //this should never happen
2659 if ( (!mSlicerManagers[index]->IsMainSequenceOfFusionSequence()) ||
2660 (!mSlicerManagers[secondaryIndex]->IsSecondarySequenceOfFusionSequence()) )
2661 {return;} //this should never happen, raise an exception?
2663 if (mSlicerManagers[index]->GetSlicer(0)->GetFusion()) {
2665 //First, if the spatialSync button is unchecked, then reposition the parent sequence (CT) in its original coordinate frame
2666 if ( (!spatialSyncFlag) && (mSlicerManagers[index]->GetFusionSequenceSpatialSyncFlag()) ) {
2667 for ( unsigned i=0 ; i<mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform().size() ; i++ ) {
2668 mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform()[i]->SetMatrix( mSlicerManagers[index]->GetFusionSequenceMainTransformMatrix() );
2669 mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform()[i]->Update();
2672 for (int i=0; i<mSlicerManagers[index]->GetNumberOfSlicers(); i++) {
2673 mSlicerManagers[index]->GetSlicer(i)->ForceUpdateDisplayExtent();
2674 mSlicerManagers[index]->GetSlicer(i)->Render();
2678 //then, update the property values in the slicer manager
2679 mSlicerManagers[index]->SetFusionSequenceLength(fusionSequenceNbFrames);
2680 mSlicerManagers[index]->SetFusionSequenceSpatialSyncFlag(spatialSyncFlag);
2681 mSlicerManagers[index]->SetFusionSequenceTemporalSyncFlag(temporalSyncFlag);
2682 mSlicerManagers[index]->SetFusionSequenceFrameIndex(fusionSequenceFrameIndex);
2684 //select the right frame of the US sequence
2685 mSlicerManagers[index]->SetFusionSequenceTSlice(fusionSequenceFrameIndex); //here, I should only update the overlayed sequence
2686 mSlicerManagers[secondaryIndex]->SetTSlice(fusionSequenceFrameIndex, false); //this should update the secondary sequence (individual version)
2688 //update the horizontal sliders of the main window
2689 overlayPanel->updateFusionSequenceSliderValueFromWindow(fusionSequenceFrameIndex, false);
2691 if (spatialSyncFlag) { //reslice the CT
2693 if (temporalSyncFlag) { //do the temporal synchronisation
2694 int mainSequenceFrameIndex=0;
2695 //estimate the TSlice to set to the CT
2696 unsigned nbFramesMain = mSlicerManagers[index]->GetImage()->GetTransform().size();
2697 mainSequenceFrameIndex = mSlicerManagers[index]->GetFusionSequenceCorrespondances()[ nbFramesMain + fusionSequenceFrameIndex];
2699 mSlicerManagers[index]->SetTSlice(mainSequenceFrameIndex, false);
2700 //warning, there is a loopback, and modification of the TSlice in main sequence forces an update of the TSlice in secondary, etc...
2704 //Set the transform matrix of the parent sequence (typically CT / 4DCT)
2705 vtkSmartPointer<vtkMatrix4x4> tmpMat = vtkSmartPointer<vtkMatrix4x4>::New();
2706 vtkMatrix4x4::Invert( mSlicerManagers[index]->GetFusionSequenceInitialTransformMatrixAtFrame(fusionSequenceFrameIndex), tmpMat );
2707 for ( unsigned i=0 ; i<mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform().size() ; i++ ) {
2708 mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform()[i]->SetMatrix( mSlicerManagers[index]->GetFusionSequenceMainTransformMatrix() );
2709 mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform()[i]->PreMultiply();
2710 mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform()[i]->Concatenate( tmpMat );
2711 mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform()[i]->Update();
2714 for (int i=0; i<mSlicerManagers[index]->GetNumberOfSlicers(); i++) {
2715 mSlicerManagers[index]->GetSlicer(i)->ForceUpdateDisplayExtent();
2716 mSlicerManagers[index]->GetSlicer(i)->Render();
2723 //------------------------------------------------------------------------------
2726 //------------------------------------------------------------------------------
2727 void vvMainWindow::SaveAs()
2729 if (DataTree->selectedItems()[0]->data(1,Qt::UserRole).toString() == "vector") {
2730 QMessageBox::warning(this,tr("Unsupported type"),tr("Sorry, saving a vector field is unsupported for the moment"));
2734 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2735 int dimension = mSlicerManagers[index]->GetDimension();
2736 QStringList OutputListeFormat;
2737 OutputListeFormat.clear();
2738 if (dimension == 1) {
2739 OutputListeFormat.push_back(".mhd");
2740 OutputListeFormat.push_back(".mha");
2742 if (dimension == 2) {
2743 OutputListeFormat.push_back(".bmp");
2744 OutputListeFormat.push_back(".png");
2745 OutputListeFormat.push_back(".jpeg");
2746 OutputListeFormat.push_back(".tif");
2747 OutputListeFormat.push_back(".mhd");
2748 OutputListeFormat.push_back(".mha");
2749 OutputListeFormat.push_back(".hdr");
2750 OutputListeFormat.push_back(".vox");
2751 } else if (dimension == 3) {
2752 OutputListeFormat.push_back(".mhd");
2753 OutputListeFormat.push_back(".mha");
2754 OutputListeFormat.push_back(".nii");
2755 OutputListeFormat.push_back(".nrrd");
2756 OutputListeFormat.push_back(".nhdr");
2757 OutputListeFormat.push_back(".hdr");
2758 OutputListeFormat.push_back(".vox");
2759 } else if (dimension == 4) {
2760 OutputListeFormat.push_back(".mhd");
2761 OutputListeFormat.push_back(".mha");
2762 OutputListeFormat.push_back(".nii");
2763 OutputListeFormat.push_back(".nrrd");
2764 OutputListeFormat.push_back(".nhdr");
2766 QString Extensions = "AllFiles(*.*)";
2767 for (int i = 0; i < OutputListeFormat.count(); i++) {
2768 Extensions += ";;Images ( *";
2769 Extensions += OutputListeFormat[i];
2772 QString fileName = QFileDialog::getSaveFileName(this,
2774 mSlicerManagers[index]->GetFileName().c_str(),
2776 if (!fileName.isEmpty()) {
2777 std::string fileformat = itksys::SystemTools::GetFilenameLastExtension(fileName.toStdString());
2778 if (OutputListeFormat.contains(
2779 fileformat.c_str())) {
2780 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
2781 std::string action = "Saving";
2782 vvProgressDialog progress("Saving "+fileName.toStdString());
2783 qApp->processEvents();
2784 vvImageWriter::Pointer writer = vvImageWriter::New();
2785 writer->SetOutputFileName(fileName.toStdString());
2786 writer->SetInput(mSlicerManagers[index]->GetImage());
2788 // Check on transform and prompt user
2789 writer->SetSaveTransform(false);
2791 for(int i=0; i<4; i++)
2792 for(int j=0; j<4; j++) {
2793 // TODO SR and BP: check on the list of transforms and not the first only
2794 double elt = mSlicerManagers[index]->GetImage()->GetTransform()[0]->GetMatrix()->GetElement(i,j);
2801 QString warning = "The image has an associated linear transform. Do you want to save it along?";
2802 QMessageBox msgBox(QMessageBox::Warning, tr("Save transform"), warning, 0, this);
2803 msgBox.addButton(tr("Yes"), QMessageBox::AcceptRole);
2804 msgBox.addButton(tr("No"), QMessageBox::RejectRole);
2805 if (msgBox.exec() == QMessageBox::AcceptRole)
2806 writer->SetSaveTransform(true);
2810 QApplication::restoreOverrideCursor();
2811 if (writer->GetLastError().size()) {
2812 QString error = "Saving did not succeed\n";
2813 error += writer->GetLastError().c_str();
2814 QMessageBox::information(this,tr("Saving Problem"),error);
2818 QString error = fileformat.c_str();
2819 if (error.isEmpty())
2820 error += "no file format specified !";
2822 error += " format unknown !!!\n";
2823 QMessageBox::information(this,tr("Saving Problem"),error);
2828 //------------------------------------------------------------------------------
2830 //------------------------------------------------------------------------------
2831 void vvMainWindow::SaveCurrentState()
2833 QString Extensions = "XML Files(*.xml)";
2834 QString fileName = QFileDialog::getSaveFileName(this,
2835 tr("Save Current Window State"),
2839 SaveCurrentStateAs(fileName.toStdString());
2841 //------------------------------------------------------------------------------
2843 //------------------------------------------------------------------------------
2844 void vvMainWindow::SaveCurrentStateAs(const std::string& stateFile)
2846 vvSaveState save_state;
2847 save_state.Run(this, stateFile);
2850 //------------------------------------------------------------------------------
2851 void vvMainWindow::ReadSavedState()
2853 QString Extensions = "XML Files(*.xml)";
2854 QString fileName = QFileDialog::getOpenFileName(this,
2855 tr("Load Window State"),
2859 ReadSavedStateFile(fileName.toStdString());
2861 //------------------------------------------------------------------------------
2863 //------------------------------------------------------------------------------
2864 void vvMainWindow::ReadSavedStateFile(const std::string& stateFile)
2866 vvReadState read_state;
2867 read_state.Run(this, stateFile);
2869 //------------------------------------------------------------------------------
2871 //------------------------------------------------------------------------------
2872 void vvMainWindow::LinkAllImages()
2874 linkPanel->linkAll();
2877 //------------------------------------------------------------------------------
2878 void vvMainWindow::AddLink(QString image1,QString image2,bool fromPanel)
2881 // delegate to linkPanel if call came from elsewhere...
2882 linkPanel->addLinkFromIds(image1, image2);
2886 unsigned int sm1 = 0;
2887 unsigned int sm2 = 0;
2889 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
2890 if (image1.toStdString() == mSlicerManagers[i]->GetId()) {
2891 mSlicerManagers[i]->AddLink(image2.toStdString());
2894 if (image2.toStdString() == mSlicerManagers[i]->GetId()) {
2895 mSlicerManagers[i]->AddLink(image1.toStdString());
2900 if (linkPanel->isLinkAll()) {
2901 emit UpdateLinkedNavigation(mSlicerManagers[sm1]->GetId(), mSlicerManagers[mCurrentPickedImageIndex], mSlicerManagers[mCurrentPickedImageIndex]->GetSlicer(0));
2902 emit UpdateLinkedNavigation(mSlicerManagers[sm2]->GetId(), mSlicerManagers[mCurrentPickedImageIndex], mSlicerManagers[mCurrentPickedImageIndex]->GetSlicer(0));
2904 emit UpdateLinkedNavigation(mSlicerManagers[sm2]->GetId(), mSlicerManagers[sm1], mSlicerManagers[sm1]->GetSlicer(0));
2908 //------------------------------------------------------------------------------
2911 //------------------------------------------------------------------------------
2912 void vvMainWindow::RemoveLink(QString image1,QString image2)
2914 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
2915 if (image1.toStdString() == mSlicerManagers[i]->GetId()) {
2916 mSlicerManagers[i]->RemoveLink(image2.toStdString());
2918 if (image2.toStdString() == mSlicerManagers[i]->GetId()) {
2919 mSlicerManagers[i]->RemoveLink(image1.toStdString());
2923 //------------------------------------------------------------------------------
2925 //------------------------------------------------------------------------------
2926 void vvMainWindow::ChangeImageWithIndexOffset(vvSlicerManager *sm, int slicer, int offset)
2928 if(mSlicerManagers.size()==1)
2932 while(sm != mSlicerManagers[index])
2934 index = (index+offset+mSlicerManagers.size()) % mSlicerManagers.size();
2936 QTreeWidgetItem* item = GetItemFromSlicerManager(mSlicerManagers[index]);
2937 item->setData(slicer+1,Qt::CheckStateRole,2); //change checkbox
2938 CurrentImageChanged(mSlicerManagers[index]->GetId()); //select new image
2939 DisplayChanged(item,slicer+1);
2941 //------------------------------------------------------------------------------
2942 void vvMainWindow::HorizontalSliderMoved(int value,int column, int slicer_index)
2944 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
2945 if (DataTree->topLevelItem(i)->data(column,Qt::CheckStateRole).toInt() > 1) {
2946 //i is the SlicerManager that is in charge of this slicer.
2947 if (mSlicerManagers[i]->IsInvolvedInFusionSequence()) {
2948 //if the slicerManager is involved in a fusionSequence as the secondary sequence, then update the slider position in the overlay panel and everything accordingly
2949 if (mSlicerManagers[i]->IsSecondarySequenceOfFusionSequence()) {
2950 overlayPanel->updateFusionSequenceSliderValueFromWindow(value, true);
2952 else { //if this is the primary sequence that has been modified
2953 if (mSlicerManagers[i]->GetFusionSequenceTemporalSyncFlag()) {
2954 //WARNING: for some obscure reason, there are problems when accessing mSlicerManagers[mSlicerManagers[i]->GetFusionSequenceIndexOfLinkedManager()]->GetFusionSequenceFrameIndex();
2956 int estimatedValue=0;
2957 //estimate a corresponding time index for the secondary (US) sequence, and update it accordingly.
2958 estimatedValue = mSlicerManagers[i]->GetFusionSequenceCorrespondances()[ value ];
2959 //TODO: at the moment, there is a loop in TSlice modifications
2960 //modifying sequence 1 causes seq 2 to update, which in turns update seq1...
2961 //I disable control on seq1 at the moment.
2962 //overlayPanel->updateFusionSequenceSliderValueFromWindow(estimatedValue, true);
2967 for (int j = 0; j < 4; j++) {
2968 mSlicerManagers[i]->SetTSliceInSlicer(value,j);
2970 mSlicerManagers[i]->GetSlicer(slicer_index)->Render();
2975 //------------------------------------------------------------------------------
2978 //------------------------------------------------------------------------------
2979 void vvMainWindow::NOHorizontalSliderMoved()
2981 // if (mCurrentTime == NOHorizontalSlider->value()) return;
2982 HorizontalSliderMoved(NOHorizontalSlider->value(),COLUMN_UL_VIEW,0);
2983 // mCurrentTime = NOHorizontalSlider->value();
2985 //------------------------------------------------------------------------------
2988 //------------------------------------------------------------------------------
2989 void vvMainWindow::NEHorizontalSliderMoved()
2991 // if (mCurrentTime == NEHorizontalSlider->value()) return;
2992 HorizontalSliderMoved(NEHorizontalSlider->value(),COLUMN_UR_VIEW,1);
2993 // mCurrentTime = NEHorizontalSlider->value();
2995 //------------------------------------------------------------------------------
2998 //------------------------------------------------------------------------------
2999 void vvMainWindow::SOHorizontalSliderMoved()
3001 // if (mCurrentTime == SOHorizontalSlider->value()) return;
3002 HorizontalSliderMoved(SOHorizontalSlider->value(),COLUMN_DL_VIEW,2);
3003 // mCurrentTime = SOHorizontalSlider->value();
3005 //------------------------------------------------------------------------------
3008 //------------------------------------------------------------------------------
3009 void vvMainWindow::SEHorizontalSliderMoved()
3011 // if (mCurrentTime == SEHorizontalSlider->value()) return;
3012 HorizontalSliderMoved(SEHorizontalSlider->value(),COLUMN_DR_VIEW,3);
3013 // mCurrentTime = SEHorizontalSlider->value();
3015 //------------------------------------------------------------------------------
3017 //------------------------------------------------------------------------------
3018 void vvMainWindow::NOVerticalSliderChanged()
3020 static int value=-1;
3021 if (value == NOVerticalSlider->value()) return;
3022 else value = NOVerticalSlider->value();
3023 // int value = NOVerticalSlider->value();
3024 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
3025 if (DataTree->topLevelItem(i)->data(COLUMN_UL_VIEW,Qt::CheckStateRole).toInt() > 1) {
3026 if (mSlicerManagers[i]->GetSlicer(0)->GetSlice() != value) {
3027 mSlicerManagers[i]->GetSlicer(0)->SetSlice(value);
3028 mSlicerManagers[i]->VerticalSliderHasChanged(0, value);
3030 // If nor Update/Render -> slider not work
3031 // only render = ok navigation, but for contour Update needed but slower ?
3033 mSlicerManagers[i]->UpdateSlice(0); // <-- DS add this. Not too much update ? YES. but needed for ImageContour ...
3034 //mSlicerManagers[i]->GetSlicer(0)->Render(); // <-- DS add this, needed for contour, seems ok ? not too slow ?
3040 //------------------------------------------------------------------------------
3043 //------------------------------------------------------------------------------
3044 void vvMainWindow::NEVerticalSliderChanged()
3046 static int value=-1;
3047 if (value == NEVerticalSlider->value()) return;
3048 else value = NEVerticalSlider->value();
3049 // int value = NEVerticalSlider->value();
3050 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
3051 if (DataTree->topLevelItem(i)->data(COLUMN_UR_VIEW,Qt::CheckStateRole).toInt() > 1) {
3052 if (mSlicerManagers[i]->GetSlicer(1)->GetSlice() != value) {
3053 mSlicerManagers[i]->GetSlicer(1)->SetSlice(value);
3054 mSlicerManagers[i]->VerticalSliderHasChanged(1, value);
3055 mSlicerManagers[i]->UpdateSlice(1);
3056 //mSlicerManagers[i]->GetSlicer(1)->Render(); // <-- DS add this, needed for contour, seems ok ? not too slow ?
3062 //------------------------------------------------------------------------------
3065 //------------------------------------------------------------------------------
3066 void vvMainWindow::SOVerticalSliderChanged()
3068 static int value=-1;
3069 if (value == SOVerticalSlider->value()) return;
3070 else value = SOVerticalSlider->value();
3071 //int value = SOVerticalSlider->value();
3072 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
3073 if (DataTree->topLevelItem(i)->data(COLUMN_DL_VIEW,Qt::CheckStateRole).toInt() > 1) {
3074 if (mSlicerManagers[i]->GetSlicer(2)->GetSlice() != value) {
3075 mSlicerManagers[i]->GetSlicer(2)->SetSlice(value);
3076 mSlicerManagers[i]->VerticalSliderHasChanged(2, value);
3077 mSlicerManagers[i]->UpdateSlice(2);
3078 //mSlicerManagers[i]->GetSlicer(2)->Render(); // <-- DS add this, needed for contour, seems ok ? not too slow ?
3080 // else { DD("avoid SOVerticalSlider slicer update"); }
3085 //------------------------------------------------------------------------------
3088 //------------------------------------------------------------------------------
3089 void vvMainWindow::SEVerticalSliderChanged()
3091 static int value=-1;
3092 if (value == SEVerticalSlider->value()) return;
3093 else value = SEVerticalSlider->value();
3094 // int value = SEVerticalSlider->value();
3095 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
3096 if (DataTree->topLevelItem(i)->data(COLUMN_DR_VIEW,Qt::CheckStateRole).toInt() > 1) {
3097 if (mSlicerManagers[i]->GetSlicer(3)->GetSlice() != value) {
3098 mSlicerManagers[i]->GetSlicer(3)->SetSlice(value);
3099 mSlicerManagers[i]->VerticalSliderHasChanged(3, value);
3100 mSlicerManagers[i]->UpdateSlice(3);
3101 //mSlicerManagers[i]->GetSlicer(3)->Render(); // <-- DS add this, needed for contour, seems ok ? not too slow ?
3107 //------------------------------------------------------------------------------
3110 //------------------------------------------------------------------------------
3111 void vvMainWindow::UpdateSlice(int slicer, int slice)
3113 // DD("vvMainWindow::UpdateSlice");
3117 // if (slice != NOVerticalSlider->value())
3118 NOVerticalSlider->setValue(slice);
3121 NEVerticalSlider->setValue(slice);
3124 SOVerticalSlider->setValue(slice);
3127 SEVerticalSlider->setValue(slice);
3131 // DD("vvMainWindow:UpdateSlice END");
3133 //------------------------------------------------------------------------------
3136 //------------------------------------------------------------------------------
3137 void vvMainWindow::UpdateTSlice(int slicer, int slice, int code)
3139 //FusionSequence: the slider value should be updated for slicers which show the same sequence as requested
3140 bool doUpdate=false;
3141 if (code==-1) doUpdate=true;
3143 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
3144 if (DataTree->topLevelItem(i)->data(slicer+1,Qt::CheckStateRole).toInt() > 1) {
3145 //i is the active SlicerManager
3146 if (mSlicerManagers[i]->GetFusionSequenceInvolvmentCode()==code) doUpdate=true;
3151 if (!doUpdate) return;
3155 if (NOHorizontalSlider->value()==slice) return;
3156 NOHorizontalSlider->setValue(slice);
3159 if (NEHorizontalSlider->value()==slice) return;
3160 NEHorizontalSlider->setValue(slice);
3163 if (SOHorizontalSlider->value()==slice) return;
3164 SOHorizontalSlider->setValue(slice);
3167 if (SEHorizontalSlider->value()==slice) return;
3168 SEHorizontalSlider->setValue(slice);
3172 //------------------------------------------------------------------------------
3175 //------------------------------------------------------------------------------
3176 void vvMainWindow::UpdateSliceRange(int slicer, int min, int max, int tmin, int tmax)
3178 //int position = int((min+max)/2);
3179 int position = mSlicerManagers[mCurrentPickedImageIndex]->GetSlicer(slicer)->GetSlice();
3181 NOVerticalSlider->setRange(min,max);
3182 NOHorizontalSlider->setRange(tmin,tmax);
3183 NOVerticalSlider->setValue(position);
3184 } else if (slicer == 1) {
3185 NEVerticalSlider->setRange(min,max);
3186 NEHorizontalSlider->setRange(tmin,tmax);
3187 NEVerticalSlider->setValue(position);
3188 } else if (slicer == 2) {
3189 SOVerticalSlider->setRange(min,max);
3190 SOHorizontalSlider->setRange(tmin,tmax);
3191 SOVerticalSlider->setValue(position);
3192 } else if (slicer == 3) {
3193 SEVerticalSlider->setRange(min,max);
3194 SEHorizontalSlider->setRange(tmin,tmax);
3195 SEVerticalSlider->setValue(position);
3198 //------------------------------------------------------------------------------
3201 //------------------------------------------------------------------------------
3202 void vvMainWindow::SaveNOScreenshot()
3204 SaveScreenshot(NOViewWidget);
3206 //------------------------------------------------------------------------------
3209 //------------------------------------------------------------------------------
3210 void vvMainWindow::SaveNEScreenshot()
3212 SaveScreenshot(NEViewWidget);
3214 //------------------------------------------------------------------------------
3217 //------------------------------------------------------------------------------
3218 void vvMainWindow::SaveSOScreenshot()
3220 SaveScreenshot(SOViewWidget);
3222 //------------------------------------------------------------------------------
3225 //------------------------------------------------------------------------------
3226 void vvMainWindow::SaveSEScreenshot()
3228 SaveScreenshot(SEViewWidget);
3230 //------------------------------------------------------------------------------
3233 //------------------------------------------------------------------------------
3234 void vvMainWindow::SaveScreenshotAllSlices()
3236 QVTKWidget *widget = NOViewWidget;
3238 int index = 0;// GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
3239 vvSlicerManager * SM = mSlicerManagers[index];
3240 vvImage * image = SM->GetImage();
3241 vvSlicer * slicer = SM->GetSlicer(0);
3242 int orientation = slicer->GetOrientation();
3243 int nbSlices = image->GetSize()[orientation];
3244 vtkSmartPointer<vtkRenderWindow> renderWindow = widget->GetRenderWindow();
3246 // Select filename base
3247 QString filename = QFileDialog::getSaveFileName(this,
3248 tr("Save As (filename will be completed by slice number)"),
3249 itksys::SystemTools::GetFilenamePath(mSlicerManagers[index]->GetFileName()).c_str(),
3250 "Images( *.png);;Images( *.jpg)");
3253 for(int i=0; i<nbSlices; i++) {
3255 slicer->SetSlice(i); // -> change the slice of the current slicer
3256 SM->UpdateSlice(0); // --> this one emit UpdateSlice
3257 QCoreApplication::flush(); // -> needed to force display of contours
3260 vtkSmartPointer<vtkWindowToImageFilter> windowToImageFilter = vtkSmartPointer<vtkWindowToImageFilter>::New();
3261 windowToImageFilter->SetInput(renderWindow);
3262 windowToImageFilter->SetMagnification(1);
3263 windowToImageFilter->SetInputBufferTypeToRGBA(); //also record the alpha (transparency) channel
3264 windowToImageFilter->Update();
3266 vtkSmartPointer<vtkPNGWriter> writer = vtkSmartPointer<vtkPNGWriter>::New();
3267 std::string fn = itksys::SystemTools::GetFilenameWithoutLastExtension(filename.toStdString());
3268 std::string num = clitk::toString(i);
3269 if (i<10) num = "0"+num;
3270 if (i<100) num = "0"+num;
3271 if (i<1000) num = "0"+num;
3273 fn = itksys::SystemTools::GetFilenamePath(filename.toStdString()) + "/"+ fn
3274 + "_" + num + itksys::SystemTools::GetFilenameLastExtension(filename.toStdString());
3275 writer->SetFileName(fn.c_str());
3276 #if VTK_MAJOR_VERSION <= 5
3277 writer->SetInput(windowToImageFilter->GetOutput());
3279 writer->SetInputConnection(windowToImageFilter->GetOutputPort());
3284 //------------------------------------------------------------------------------
3287 //------------------------------------------------------------------------------
3288 void vvMainWindow::SaveScreenshot(QVTKWidget *widget)
3290 QString Extensions = "Images( *.png);;";
3291 Extensions += "Images( *.jpg);;";
3292 Extensions += "Images( *.bmp);;";
3293 Extensions += "Images( *.tif);;";
3294 Extensions += "Images( *.ppm)";
3295 #if defined(VTK_USE_FFMPEG_ENCODER) || defined(VTK_USE_VIDEO_FOR_WINDOWS)
3296 Extensions += ";;Video( *.avi)";
3298 #ifdef VTK_USE_MPEG2_ENCODER
3299 Extensions += ";;Video( *.mpg)";
3301 #ifdef CLITK_EXPERIMENTAL
3302 Extensions += ";;Video( *.gif)";
3305 int smIndex=GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
3306 QString fileName = QFileDialog::getSaveFileName(this,
3308 itksys::SystemTools::GetFilenamePath(mSlicerManagers[smIndex]->GetFileName()).c_str(),
3311 if (!fileName.isEmpty()) {
3312 vtkSmartPointer<vtkWindowToImageFilter> w2i = vtkSmartPointer<vtkWindowToImageFilter>::New();
3313 w2i->SetInput(widget->GetRenderWindow());
3315 vtkImageData *image = w2i->GetOutput();
3317 std::string ext(itksys::SystemTools::GetFilenameLastExtension(fileName.toStdString()));
3320 vtkImageWriter *imgwriter = NULL;
3322 imgwriter = vtkBMPWriter::New();
3323 else if (ext==".tif")
3324 imgwriter = vtkTIFFWriter::New();
3325 else if (ext==".ppm")
3326 imgwriter = vtkPNMWriter::New();
3327 else if (ext==".png")
3328 imgwriter = vtkPNGWriter::New();
3329 else if (ext==".jpg")
3330 imgwriter = vtkJPEGWriter::New();
3332 // Snapshot image if not null
3333 if(imgwriter!=NULL) {
3334 #if VTK_MAJOR_VERSION <= 5
3335 imgwriter->SetInput(image);
3337 imgwriter->SetInputConnection(w2i->GetOutputPort());
3339 imgwriter->SetFileName(fileName.toStdString().c_str());
3345 vtkGenericMovieWriter *vidwriter = NULL;
3346 #if CLITK_EXPERIMENTAL == 1
3348 vvAnimatedGIFWriter *gif = vvAnimatedGIFWriter::New();
3353 int fps = QInputDialog::getInt(this, tr("Number of frames per second"),
3354 tr("FPS:"), 5, 0, 1000, 1, &ok);
3359 int loops = QInputDialog::getInt(this, tr("Loops"),
3360 tr("Number of loops (0 means infinite):"), 0, 0, 1000000000, 1, &ok);
3362 gif->SetLoops(loops);
3365 QString msg = "Would you like to activate dithering?";
3366 QMessageBox msgBox(QMessageBox::Question, tr("Dithering"),msg, 0, this);
3367 msgBox.addButton(tr("Yes"), QMessageBox::AcceptRole);
3368 msgBox.addButton(tr("No"), QMessageBox::RejectRole);
3369 gif->SetDither(msgBox.exec() == QMessageBox::AcceptRole);
3372 #ifdef VTK_USE_VIDEO_FOR_WINDOWS
3374 vtkAVIWriter *mpg = vtkAVIWriter::New();
3378 int fps = QInputDialog::getInteger(this, tr("Number of frames per second"),
3379 tr("FPS:"), 5, 0, 1024, 1, &ok);
3385 #ifdef VTK_USE_FFMPEG_ENCODER
3387 vtkFFMPEGWriter *mpg = vtkFFMPEGWriter::New();
3391 int fps = QInputDialog::getInteger(this, tr("Number of frames per second"),
3392 tr("FPS:"), 5, 0, 1024, 1, &ok);
3396 mpg->SetBitRateTolerance(int(ceil(12.0*1024*1024/fps)));
3399 #ifdef VTK_USE_MPEG2_ENCODER
3401 vtkMPEG2Writer *mpg = vtkMPEG2Writer::New();
3406 // Take video if not null
3407 if(vidwriter!=NULL){
3408 #if VTK_MAJOR_VERSION <= 5
3409 vidwriter->SetInput(image);
3411 vidwriter->SetInputConnection(w2i->GetOutputPort());
3413 vidwriter->SetFileName(fileName.toStdString().c_str());
3415 int nSlice = mSlicerManagers[smIndex]->GetSlicer(0)->GetTMax();
3416 for(int i=0; i<=nSlice; i++) {
3417 mSlicerManagers[smIndex]->SetNextTSlice(0);
3418 vtkSmartPointer<vtkWindowToImageFilter> w2i = vtkSmartPointer<vtkWindowToImageFilter>::New();
3419 w2i->SetInput(widget->GetRenderWindow());
3421 #if VTK_MAJOR_VERSION <= 5
3422 vidwriter->SetInput(w2i->GetOutput());
3424 vidwriter->SetInputConnection(w2i->GetOutputPort());
3429 vidwriter->Delete();
3433 QMessageBox::information(this,tr("Problem saving screenshot !"),tr("Cannot save image.\nPlease set a file extension !!!"));
3436 //------------------------------------------------------------------------------
3439 //------------------------------------------------------------------------------
3440 void vvMainWindow::GoToCursor()
3442 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
3443 for (int column = 1; column < 5; column++) {
3444 if (DataTree->selectedItems()[0]->data(column,Qt::CheckStateRole).toInt() > 1) {
3445 double* cursorPos = mSlicerManagers[index]->GetSlicer(column-1)->GetCursorPosition();
3446 mSlicerManagers[index]->GetSlicer(column-1)->SetCurrentPosition(
3447 cursorPos[0],cursorPos[1],cursorPos[2],cursorPos[3]);
3448 mSlicerManagers[index]->UpdateViews(1,column-1);
3449 mSlicerManagers[index]->UpdateLinked(column-1);
3454 //------------------------------------------------------------------------------
3456 //------------------------------------------------------------------------------
3457 void vvMainWindow::GoToLandmark()
3459 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
3460 for (int column = 1; column < 5; column++) {
3461 if (DataTree->selectedItems()[0]->data(column,Qt::CheckStateRole).toInt() > 1) {
3462 double* cursorPos = landmarksPanel->GetSelectedPoint();
3463 mSlicerManagers[index]->GetSlicer(column-1)->SetCurrentPosition(
3464 cursorPos[0],cursorPos[1],cursorPos[2],cursorPos[3]);
3465 mSlicerManagers[index]->UpdateViews(1,column-1);
3466 mSlicerManagers[index]->UpdateLinked(column-1);
3471 //------------------------------------------------------------------------------
3473 //------------------------------------------------------------------------------
3474 void vvMainWindow::PlayPause()
3478 playButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/player_play.png")));
3482 int image_number=DataTree->topLevelItemCount();
3484 for (int i=0; i<image_number; i++)
3485 if (mSlicerManagers[i]->GetSlicer(0)->GetTMax() > 0) {
3491 playButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/player_pause.png")));
3492 QTimer::singleShot(1000/mFrameRate, this, SLOT(PlayNext()));
3496 //------------------------------------------------------------------------------
3498 //------------------------------------------------------------------------------
3499 void vvMainWindow::PlayNext()
3501 if (playMode && !this->isHidden()) {
3502 int image_number=DataTree->topLevelItemCount();
3503 ///Only play one slicer per SM, and only if the SM is being displayed
3504 for (int i=0; i<image_number; i++)
3505 for (int j=0; j<4; j++)
3506 if (mSlicerManagers[i]->GetSlicer(0)->GetTMax() > 0 &&
3507 DataTree->topLevelItem(i)->data(j+1,Qt::CheckStateRole).toInt() > 0) {
3508 mSlicerManagers[i]->SetNextTSlice(j);
3511 QTimer::singleShot(1000/mFrameRate, this, SLOT(PlayNext()));
3514 //------------------------------------------------------------------------------
3516 void vvMainWindow::ShowLastImage()
3518 if (mSlicerManagers.size() > 1) {
3519 QTreeWidgetItem * item=DataTree->topLevelItem(DataTree->topLevelItemCount()-1);
3520 CurrentImageChanged(mSlicerManagers.back()->GetId()); //select new image
3521 item->setData(1,Qt::CheckStateRole,2); //show the new image in the first panel
3522 //mSlicerManagers[GetSlicerIndexFromItem(item)]->GetSlicer(0)->SetActorVisibility("image", 0, 1); //Set the Last Image visibles
3523 DisplayChanged(item,1);
3527 //------------------------------------------------------------------------------
3528 void vvMainWindow::UpdateRenderWindows()
3530 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
3531 mSlicerManagers[i]->GetSlicer(0)->UpdateLandmarks();
3532 mSlicerManagers[i]->GetSlicer(1)->UpdateLandmarks();
3533 mSlicerManagers[i]->GetSlicer(2)->UpdateLandmarks();
3534 mSlicerManagers[i]->GetSlicer(3)->UpdateLandmarks();
3536 if (NOViewWidget->GetRenderWindow()) NOViewWidget->GetRenderWindow()->Render();
3537 if (NEViewWidget->GetRenderWindow()) NEViewWidget->GetRenderWindow()->Render();
3538 if (SOViewWidget->GetRenderWindow()) SOViewWidget->GetRenderWindow()->Render();
3539 if (SEViewWidget->GetRenderWindow()) SEViewWidget->GetRenderWindow()->Render();
3541 //------------------------------------------------------------------------------
3543 //------------------------------------------------------------------------------
3544 void vvMainWindow::SegmentationOnCurrentImage()
3546 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
3548 vvSegmentationDialog segmentation;
3549 segmentation.SetImage(mSlicerManagers[index]->GetSlicer(0)->GetImage());
3550 segmentation.exec();
3552 //------------------------------------------------------------------------------
3554 void vvMainWindow::SurfaceViewerLaunch()
3556 vvSurfaceViewerDialog surfaceViewer;
3557 surfaceViewer.exec();
3559 //------------------------------------------------------------------------------
3562 //------------------------------------------------------------------------------
3563 int vvMainWindow::GetImageDuplicateFilenameNumber(std::string filename)
3566 for(unsigned int l=0; l<mSlicerManagers.size(); l++) {
3567 vvSlicerManager * v = mSlicerManagers[l];
3568 if (v->GetBaseFileName() ==
3569 vtksys::SystemTools::GetFilenameName(vtksys::SystemTools::GetFilenameWithoutLastExtension(filename))) {
3570 number = std::max(number, v->GetBaseFileNameNumber()+1);
3575 //------------------------------------------------------------------------------
3578 //------------------------------------------------------------------------------
3579 vvSlicerManager* vvMainWindow::AddImage(vvImage::Pointer image,std::string filename)
3581 // Change filename if another image exist with the same name
3582 int number = GetImageDuplicateFilenameNumber(filename);
3584 // Create new SliceManager
3585 vvSlicerManager* slicer_manager = new vvSlicerManager(4);
3586 slicer_manager->SetImage(image);//, IMAGE, number);
3587 // filename = filename+"_"+clitk::toString(number);
3588 slicer_manager->SetFilename(filename, number);
3589 mSlicerManagers.push_back(slicer_manager);
3591 //create an item in the tree with good settings
3592 QTreeWidgetItem *item = new QTreeWidgetItem();
3593 item->setData(0,Qt::UserRole,slicer_manager->GetFileName().c_str());//files[i].c_str());
3594 item->setData(1,Qt::UserRole,tr("image"));
3595 item->setData(COLUMN_IMAGE_NAME,Qt::DisplayRole,slicer_manager->GetFileName().c_str());//filename.c_str());
3596 qApp->processEvents();
3598 for (int j = 1; j <= 4; j++) item->setData(j,Qt::CheckStateRole,1);
3600 //Create the buttons for reload and close
3601 qApp->processEvents();
3602 QTreePushButton* cButton = new QTreePushButton;
3603 cButton->setItem(item);
3604 cButton->setColumn(COLUMN_CLOSE_IMAGE);
3605 cButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/exit.png")));
3606 connect(cButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
3607 this,SLOT(CloseImage(QTreeWidgetItem*, int)));
3609 QTreePushButton* rButton = new QTreePushButton;
3610 rButton->setItem(item);
3611 rButton->setColumn(COLUMN_RELOAD_IMAGE);
3612 rButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/rotateright.png")));
3613 rButton->setEnabled(0);
3614 connect(rButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
3615 this,SLOT(ReloadImage(QTreeWidgetItem*, int)));
3617 DataTree->addTopLevelItem(item);
3618 DataTree->setItemWidget(item, COLUMN_CLOSE_IMAGE, cButton);
3619 DataTree->setItemWidget(item, COLUMN_RELOAD_IMAGE, rButton);
3621 //set the id of the image
3622 QString id = QDir::current().absoluteFilePath(slicer_manager->GetFileName().c_str()) + QString::number(mSlicerManagers.size()-1);
3623 item->setData(COLUMN_IMAGE_NAME,Qt::UserRole,id.toStdString().c_str());
3624 mSlicerManagers.back()->SetId(id.toStdString());
3626 linkPanel->addImage(slicer_manager->GetFileName().c_str()// filename
3627 , id.toStdString());
3629 connect(mSlicerManagers.back(), SIGNAL(currentImageChanged(std::string)),
3630 this, SLOT(CurrentImageChanged(std::string)));
3631 connect(mSlicerManagers.back(), SIGNAL(currentPickedImageChanged(std::string)),
3632 this, SLOT(CurrentPickedImageChanged(std::string)));
3633 connect(mSlicerManagers.back(), SIGNAL(UpdatePosition(int, double, double, double, double, double, double, double)),
3634 this, SLOT(MousePositionChanged(int,double, double, double, double, double, double, double)));
3635 connect(mSlicerManagers.back(), SIGNAL(UpdateVector(int, double, double, double, double)),
3636 this, SLOT(VectorChanged(int,double,double,double, double)));
3637 connect(mSlicerManagers.back(), SIGNAL(UpdateOverlay(int, double, double)),
3638 this, SLOT(OverlayChanged(int,double,double)));
3639 connect(mSlicerManagers.back(), SIGNAL(UpdateFusion(int, double)),
3640 this, SLOT(FusionChanged(int,double)));
3641 //connect(mSlicerManagers.back(), SIGNAL(UpdateFusionSequence(int, bool, unsigned int)),
3642 // this, SLOT(FusionSequenceChanged(int, bool, unsigned int)));
3643 connect(mSlicerManagers.back(), SIGNAL(WindowLevelChanged()),
3644 this,SLOT(WindowLevelChanged()));
3645 connect(mSlicerManagers.back(), SIGNAL(UpdateSlice(int,int)),
3646 this,SLOT(UpdateSlice(int,int)));
3647 connect(mSlicerManagers.back(), SIGNAL(UpdateTSlice(int, int, int)),
3648 this,SLOT(UpdateTSlice(int, int, int)));
3649 connect(mSlicerManagers.back(), SIGNAL(UpdateTSlice(int, int, int)),
3650 this,SLOT(ImageInfoChanged()));
3651 connect(mSlicerManagers.back(), SIGNAL(UpdateSliceRange(int,int,int,int,int)),
3652 this,SLOT(UpdateSliceRange(int,int,int,int,int)));
3653 connect(mSlicerManagers.back(), SIGNAL(UpdateLinkManager(std::string,int,double,double,double,int)),
3654 this,SLOT(UpdateLinkManager(std::string,int,double,double,double,int)));
3655 connect(mSlicerManagers.back(), SIGNAL(UpdateLinkedNavigation(std::string,vvSlicerManager*,vvSlicer*)),
3656 this,SLOT(UpdateLinkedNavigation(std::string,vvSlicerManager*,vvSlicer*)));
3657 connect(mSlicerManagers.back(), SIGNAL(ChangeImageWithIndexOffset(vvSlicerManager*,int,int)),
3658 this,SLOT(ChangeImageWithIndexOffset(vvSlicerManager*,int,int)));
3659 connect(mSlicerManagers.back(), SIGNAL(LandmarkAdded()),landmarksPanel,SLOT(AddPoint()));
3665 qApp->processEvents();
3668 qApp->processEvents();
3671 return slicer_manager;
3673 //------------------------------------------------------------------------------
3676 //------------------------------------------------------------------------------
3677 void vvMainWindow::UpdateCurrentSlicer()
3680 if (DataTree->selectedItems().size() > 0) {
3681 index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
3683 mSlicerManagerCurrentIndex = index;
3685 //------------------------------------------------------------------------------