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 <vtkImageData.h>
62 #include <vtkImageActor.h>
63 #include <vtkCornerAnnotation.h>
64 #include <vtkRenderWindow.h>
65 #include <vtkRenderWindowInteractor.h>
66 #include <vtkRenderer.h>
67 #include <vtkRendererCollection.h>
68 #include <vtkWindowToImageFilter.h>
69 #include <vtkBMPWriter.h>
70 #include <vtkTIFFWriter.h>
71 #include <vtkPNMWriter.h>
72 #include <vtkPNGWriter.h>
73 #include <vtkJPEGWriter.h>
74 #include <vtkGenericMovieWriter.h>
75 #ifdef CLITK_EXPERIMENTAL
76 # include <vvAnimatedGIFWriter.h>
78 #ifdef VTK_USE_VIDEO_FOR_WINDOWS
79 # include <vtkAVIWriter.h>
81 #ifdef VTK_USE_FFMPEG_ENCODER
82 # include <vtkFFMPEGWriter.h>
84 #ifdef VTK_USE_MPEG2_ENCODER
85 # include <vtkMPEG2Writer.h>
87 #include <vtkMatrix4x4.h>
88 #include <vtkTransform.h>
97 #define COLUMN_UL_VIEW 1
98 #define COLUMN_UR_VIEW 2
99 #define COLUMN_DL_VIEW 3
100 #define COLUMN_DR_VIEW 4
101 #define COLUMN_CLOSE_IMAGE 5
102 #define COLUMN_RELOAD_IMAGE 6
103 #define COLUMN_IMAGE_NAME 7
105 #ifdef CLITK_PRIVATE_FEATURES
106 #define EXTENSIONS "Images ( *.bmp *.dcm *.png *.jpeg *.jpg *.tif *.mhd *.mha *.hdr *.vox *.his *.xdr *.SCAN *.nii *.nrrd *.nhdr *.refscan *.nii.gz *.usf *.svl)"
108 #define EXTENSIONS "Images ( *.bmp *.dcm *.png *.jpeg *.jpg *.tif *.mhd *.mha *.hdr *.vox *.his *.xdr *.SCAN *.nii *.nrrd *.nhdr *.refscan *.nii.gz)"
113 0,Qt::UserRole full filename
114 1,Qt::CheckStateRole checkbutton UL View
115 1,Qt::UserRole overlay, fusion or vector
116 2,Qt::CheckStateRole checkbutton UR View
117 3,Qt::CheckStateRole checkbutton DL View
118 4,Qt::CheckStateRole checkbutton DR View
120 5,Qt::UserRole mSlicerManager id*/
122 //------------------------------------------------------------------------------
123 vvMainWindow::vvMainWindow():vvMainWindowBase()
125 setupUi(this); // this sets up the GUI
128 mMenuTools = menuTools;
129 // mMenuSegmentation = menuSegmentation;
130 mContextMenu = &contextMenu;
131 mMenuExperimentalTools = menuExperimental;
134 mCurrentSelectedImageId = "";
135 mCurrentPickedImageId = "";
136 mCurrentPickedImageIndex = 0;
138 //Init the contextMenu
139 this->setContextMenuPolicy(Qt::CustomContextMenu);
140 contextActions.resize(0);
141 QAction* actionOpen_new_image = contextMenu.addAction(QIcon(QString::fromUtf8(":/common/icons/fileopen.png")),
142 tr("O&pen new Image"));
143 actionOpen_new_image->setShortcut(QKeySequence(tr("Ctrl+O")));
144 connect(actionOpen_new_image,SIGNAL(triggered()),this,SLOT(OpenImages()));
145 contextActions.push_back(actionOpen_new_image);
146 contextMenu.addSeparator();
148 QAction* actionClose_Image = contextMenu.addAction(QIcon(QString::fromUtf8(":/common/icons/exit.png")),
149 tr("Close Current Image"));
150 connect(actionClose_Image,SIGNAL(triggered()),this,SLOT(CloseImage()));
151 contextActions.push_back(actionClose_Image);
153 QAction* actionReload_image = contextMenu.addAction(QIcon(QString::fromUtf8(":/common/icons/rotateright.png")),
154 tr("Reload Current Image"));
155 connect(actionReload_image,SIGNAL(triggered()),this,SLOT(ReloadImage()));
156 contextActions.push_back(actionReload_image);
158 QAction* actionSave_image = contextMenu.addAction(QIcon(QString::fromUtf8(":/common/icons/filesave.png")),
159 tr("Save Current Image"));
160 connect(actionSave_image,SIGNAL(triggered()),this,SLOT(SaveAs()));
161 contextActions.push_back(actionSave_image);
163 QAction* actionSave_state = contextMenu.addAction(QIcon(QString::fromUtf8(":/common/icons/filesave.png")),
164 tr("Save Current State"));
165 connect(actionSave_state,SIGNAL(triggered()),this,SLOT(SaveCurrentState()));
166 contextActions.push_back(actionSave_state);
168 QAction* actionRead_state = contextMenu.addAction(QIcon(QString::fromUtf8(":/common/icons/filesave.png")),
169 tr("Read Saved State"));
170 connect(actionRead_state,SIGNAL(triggered()),this,SLOT(ReadSavedState()));
171 contextActions.push_back(actionRead_state);
173 contextMenu.addSeparator();
175 contextMenu.addAction(actionAdd_VF_to_current_Image);
176 contextActions.push_back(actionAdd_VF_to_current_Image);
178 //QAction* actionAdd_Overlay_to_current_Image = menuOverlay->addAction(QIcon(QString::fromUtf8(":/common/icons/GPSup.png")),
179 // tr("Add overlay image to current image"));
180 contextMenu.addAction(actionAdd_overlay_image_to_current_image);
181 contextActions.push_back(actionAdd_overlay_image_to_current_image);
183 contextMenu.addAction(actionAdd_fusion_image);
184 contextActions.push_back(actionAdd_fusion_image);
186 #ifdef CLITK_EXPERIMENTAL
187 contextMenu.addAction(actionAdd_USSequence_toCT);
188 contextActions.push_back(actionAdd_USSequence_toCT);
192 contextMenu.addSeparator();
193 QAction* actionResetMatrix = contextMenu.addAction(QIcon(QString::fromUtf8(":/common/icons/identity.png")),
194 tr("Reset transformation to identity"));
195 connect(actionResetMatrix, SIGNAL(triggered()), this,SLOT(ResetTransformationToIdentity()));
199 QMenu * m = new QMenu(menubar);
201 // m->setObjectName(QString::fromUtf8("TOTOTO"));
202 contextMenu.addMenu(m);
203 QAction * a = m->addAction(QIcon(QString::fromUtf8(":/common/icons/GPSup.png")),
205 QAction * b = m->addAction(QIcon(QString::fromUtf8(":/common/icons/GPSup.png")),
209 connect(a,SIGNAL(triggered()),this,SLOT(AddFusionImage()));
213 mSlicerManagers.resize(0);
223 header.append("Name");
225 DataTree->setHeaderLabels(header);
226 DataTree->resizeColumnToContents(COLUMN_TREE);
227 DataTree->resizeColumnToContents(COLUMN_UL_VIEW);
228 DataTree->resizeColumnToContents(COLUMN_UR_VIEW);
229 DataTree->resizeColumnToContents(COLUMN_DL_VIEW);
230 DataTree->resizeColumnToContents(COLUMN_DR_VIEW);
231 DataTree->resizeColumnToContents(COLUMN_CLOSE_IMAGE);
232 DataTree->resizeColumnToContents(COLUMN_RELOAD_IMAGE);
233 DataTree->resizeColumnToContents(COLUMN_IMAGE_NAME);
236 documentation = new vvDocumentation();
237 help_dialog = new vvHelpDialog();
238 dicomSeriesSelector = new vvDicomSeriesSelector();
240 inverseButton->setEnabled(0);
241 actionAdd_overlay_image_to_current_image->setEnabled(0);
242 actionSave_As->setEnabled(0);
243 actionAdd_VF_to_current_Image->setEnabled(0);
244 actionAdd_fusion_image->setEnabled(0);
245 actionAdd_USSequence_toCT->setEnabled(0);
248 verticalSliders.push_back(NOVerticalSlider);
249 verticalSliders.push_back(NEVerticalSlider);
250 verticalSliders.push_back(SOVerticalSlider);
251 verticalSliders.push_back(SEVerticalSlider);
253 for (int i =0; i < 4; i++)
254 verticalSliders[i]->hide();
256 horizontalSliders.push_back(NOHorizontalSlider);
257 horizontalSliders.push_back(NEHorizontalSlider);
258 horizontalSliders.push_back(SOHorizontalSlider);
259 horizontalSliders.push_back(SEHorizontalSlider);
261 for (int i =0; i < 4; i++)
262 horizontalSliders[i]->hide();
265 connect(NOVerticalSlider,SIGNAL(valueChanged(int)),this,SLOT(NOVerticalSliderChanged()));
266 connect(NEVerticalSlider,SIGNAL(valueChanged(int)),this,SLOT(NEVerticalSliderChanged()));
267 connect(SOVerticalSlider,SIGNAL(valueChanged(int)),this,SLOT(SOVerticalSliderChanged()));
268 connect(SEVerticalSlider,SIGNAL(valueChanged(int)),this,SLOT(SEVerticalSliderChanged()));
270 connect(NOHorizontalSlider,SIGNAL(valueChanged(int)),this,SLOT(NOHorizontalSliderMoved()));
271 connect(NEHorizontalSlider,SIGNAL(valueChanged(int)),this,SLOT(NEHorizontalSliderMoved()));
272 connect(SOHorizontalSlider,SIGNAL(valueChanged(int)),this,SLOT(SOHorizontalSliderMoved()));
273 connect(SEHorizontalSlider,SIGNAL(valueChanged(int)),this,SLOT(SEHorizontalSliderMoved()));
276 connect(actionCompute_mid_position_image,SIGNAL(triggered()),this,SLOT(ComputeMidPosition()));
277 connect(actionDeformable_Registration,SIGNAL(triggered()),this,SLOT(ComputeDeformableRegistration()));
278 connect(actionWarp_image_with_vector_field,SIGNAL(triggered()),this,SLOT(WarpImage()));
279 connect(actionLoad_images,SIGNAL(triggered()),this,SLOT(OpenImages()));
280 connect(actionOpen_Dicom,SIGNAL(triggered()),this,SLOT(OpenDicom()));
281 // connect(actionOpen_Dicom_Struct,SIGNAL(triggered()),this,SLOT(OpenDCStructContour()));
282 connect(actionOpen_VTK_contour,SIGNAL(triggered()),this,SLOT(OpenVTKContour()));
283 connect(actionOpen_Multiple_Images_As_One,SIGNAL(triggered()),this,SLOT(MergeImages()));
284 connect(actionSlice_Image_As_Multiple_Images,SIGNAL(triggered()),this,SLOT(SliceImages()));
285 connect(actionOpen_Image_With_Time,SIGNAL(triggered()),this,SLOT(OpenImageWithTime()));
286 connect(actionMerge_images_as_n_dim_t, SIGNAL(triggered()), this, SLOT(MergeImagesWithTime()));
287 connect(actionSave_As,SIGNAL(triggered()),this,SLOT(SaveAs()));
288 connect(actionSave_current_state,SIGNAL(triggered()),this,SLOT(SaveCurrentState()));
289 connect(actionRead_saved_state,SIGNAL(triggered()),this,SLOT(ReadSavedState()));
290 connect(actionExit,SIGNAL(triggered()),this,SLOT(close()));
291 connect(actionAdd_VF_to_current_Image,SIGNAL(triggered()),this,SLOT(OpenField()));
292 connect(actionAdd_fusion_image,SIGNAL(triggered()),this,SLOT(SelectFusionImage()));
293 connect(actionAdd_overlay_image_to_current_image,SIGNAL(triggered()), this,SLOT(SelectOverlayImage()));
294 connect(actionAdd_USSequence_toCT,SIGNAL(triggered()), this,SLOT(SelectFusionSequence()));
295 connect(actionNavigation_Help,SIGNAL(triggered()),this,SLOT(ShowHelpDialog()));
296 connect(actionDocumentation,SIGNAL(triggered()),this,SLOT(ShowDocumentation()));
297 connect(actionRegister_vv,SIGNAL(triggered()),this,SLOT(PopupRegisterForm()));
299 connect(overlayPanel, SIGNAL(FusionSequenceCorrespondancesButtonPressed()), this, SLOT(SelectFusionSequenceCorrespondances()));
302 ///////////////////////////////////////////////
303 connect(actionSegmentation,SIGNAL(triggered()),this,SLOT(SegmentationOnCurrentImage()));
304 connect(actionSurface_Viewer,SIGNAL(triggered()),this,SLOT(SurfaceViewerLaunch()));
305 ///////////////////////////////////////////////
307 actionNorth_East_Window->setEnabled(0);
308 actionNorth_West_Window->setEnabled(0);
309 actionSouth_East_Window->setEnabled(0);
310 actionSouth_West_Window->setEnabled(0);
312 connect(actionNorth_East_Window,SIGNAL(triggered()),this,SLOT(SaveNEScreenshot()));
313 connect(actionNorth_West_Window,SIGNAL(triggered()),this,SLOT(SaveNOScreenshot()));
314 connect(actionSouth_East_Window,SIGNAL(triggered()),this,SLOT(SaveSEScreenshot()));
315 connect(actionSouth_West_Window,SIGNAL(triggered()),this,SLOT(SaveSOScreenshot()));
316 connect(actionSave_all_slices,SIGNAL(triggered()),this,SLOT(SaveScreenshotAllSlices()));
318 connect(DataTree,SIGNAL(itemSelectionChanged()),this,SLOT(ImageInfoChanged()));
319 connect(DataTree,SIGNAL(itemClicked(QTreeWidgetItem*, int)),this,
320 SLOT(DisplayChanged(QTreeWidgetItem*, int)));
322 connect(viewButton,SIGNAL(clicked()),this, SLOT(ChangeViewMode()) );
323 connect(windowSpinBox,SIGNAL(editingFinished()),this,SLOT(WindowLevelEdited()));
324 connect(levelSpinBox,SIGNAL(editingFinished()),this,SLOT(WindowLevelEdited()));
325 connect(colorMapComboBox,SIGNAL(currentIndexChanged(int)),this,SLOT(UpdateColorMap()));
326 connect(presetComboBox,SIGNAL(currentIndexChanged(int)),this,SLOT(UpdateWindowLevel()));
327 connect(slicingPresetComboBox, SIGNAL(currentIndexChanged(int)),this,SLOT(UpdateSlicingPreset()));
328 connect(inverseButton,SIGNAL(clicked()),this,SLOT(SwitchWindowLevel()));
329 connect(applyWindowLevelToAllButton,SIGNAL(clicked()),this,SLOT(ApplyWindowLevelToAllImages()));
331 connect(this,SIGNAL(customContextMenuRequested(QPoint)),this,SLOT(ShowContextMenu(QPoint)));
333 connect(linkPanel,SIGNAL(addLink(QString,QString,bool)),this,SLOT(AddLink(QString,QString,bool)));
334 connect(linkPanel,SIGNAL(removeLink(QString,QString)),this,SLOT(RemoveLink(QString,QString)));
335 connect(overlayPanel,SIGNAL(VFPropertyUpdated(int,int,int,int,double,double,double)),this,SLOT(SetVFProperty(int,int,int,int,double,double,double)));
336 connect(overlayPanel,SIGNAL(OverlayPropertyUpdated(int,int,double,double)),
337 this,SLOT(SetOverlayProperty(int,int,double,double)));
338 connect(overlayPanel,SIGNAL(FusionPropertyUpdated(int,int,int,double,double, bool)),
339 this,SLOT(SetFusionProperty(int,int,int,double,double, bool)));
340 connect(landmarksPanel,SIGNAL(UpdateRenderWindows()),this,SLOT(UpdateRenderWindows()));
341 connect(landmarksPanel,SIGNAL(SelectedPointChanged()),this,SLOT(GoToLandmark()));
343 connect(overlayPanel,SIGNAL(FusionSequencePropertyUpdated(int, bool, unsigned int, bool)),
344 this,SLOT(SetFusionSequenceProperty(int, bool,unsigned int, bool)));
349 playButton->setEnabled(0);
350 frameRateLabel->setEnabled(0);
351 frameRateSpinBox->setEnabled(0);
352 connect(playButton, SIGNAL(clicked()),this,SLOT(PlayPause()));
353 connect(frameRateSpinBox, SIGNAL(valueChanged(int)),this,SLOT(ChangeFrameRate(int)));
355 goToCursorPushButton->setEnabled(0);
356 connect(goToCursorPushButton, SIGNAL(clicked()),this,SLOT(GoToCursor()));
358 NOViewWidget->hide();
359 NEViewWidget->hide();
360 SOViewWidget->hide();
361 SEViewWidget->hide();
363 //Recently opened files
364 std::list<std::string> recent_files = GetRecentlyOpenedImages();
365 recentlyOpenedFilesMenu=NULL;
366 if ( !recent_files.empty() ) {
367 createRecentlyOpenedFilesMenu();
368 updateRecentlyOpenedFilesMenu(recent_files);
371 // Adding all new tools (insertion in the menu)
372 vvToolManager::GetInstance()->InsertToolsInMenu(this);
373 vvToolManager::GetInstance()->EnableToolsInMenu(this, false);
375 if (!CLITK_EXPERIMENTAL)
376 menuExperimental->menuAction()->setVisible(false);
379 QTimer * timerMemory = new QTimer(this);
380 //timerMemory->setInterval(5);
381 connect(timerMemory, SIGNAL(timeout()), this, SLOT(UpdateMemoryUsage()));
382 timerMemory->start(2000);
385 //------------------------------------------------------------------------------
386 void vvMainWindow::show()
388 vvMainWindowBase::show();
389 PopupRegisterForm(true);
391 //------------------------------------------------------------------------------
392 void vvMainWindow::UpdateMemoryUsage()
394 // clitk::PrintMemory(true);
395 if (clitk::GetMemoryUsageInMb() == 0) infoPanel->setMemoryInMb("NA");
396 else infoPanel->setMemoryInMb(QString::number(clitk::GetMemoryUsageInMb())+" MiB");
398 //------------------------------------------------------------------------------
401 //------------------------------------------------------------------------------
402 void vvMainWindow::createRecentlyOpenedFilesMenu()
404 recentlyOpenedFilesMenu = new QMenu("Recently opened files...");
405 recentlyOpenedFilesMenu->setIcon(QIcon(QString::fromUtf8(":/common/icons/open.png")));
406 menuFile->insertMenu(actionOpen_Image_With_Time,recentlyOpenedFilesMenu);
407 menuFile->insertSeparator(actionOpen_Image_With_Time);
409 //------------------------------------------------------------------------------
412 //------------------------------------------------------------------------------
414 void vvMainWindow::updateRecentlyOpenedFilesMenu(const std::list<std::string> &recent_files)
416 if(recentlyOpenedFilesMenu==NULL) {
417 createRecentlyOpenedFilesMenu();
419 recentlyOpenedFilesMenu->clear();
421 for (std::list<std::string>::const_iterator i = recent_files.begin(); i!=recent_files.end(); i++) {
422 QAction* current=new QAction(QIcon(QString::fromUtf8(":/common/icons/open.png")), i->c_str(),this);
423 recentlyOpenedFilesMenu->addAction(current);
424 connect(current,SIGNAL(triggered()),this,SLOT(OpenRecentImage()));
427 //------------------------------------------------------------------------------
430 //------------------------------------------------------------------------------
431 void vvMainWindow::ComputeMidPosition()
434 int index=GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
435 int ref = QInputDialog::getInteger(this,"Chose reference phase","Reference phase",0,0,\
436 mSlicerManagers[index]->GetImage()->GetVTKImages().size()-1,1,&ok);
439 midp.slicer_manager = mSlicerManagers[index];
440 midp.reference_image_index = ref;
441 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
444 QMessageBox::warning(this, "Error computing midposition image",midp.error_message.c_str());
446 QFileInfo info(midp.slicer_manager->GetFileName().c_str());
447 AddImage(midp.output,info.path().toStdString()+"/"+info.completeBaseName().toStdString()+"_midposition.mhd");
449 QApplication::restoreOverrideCursor();
452 //------------------------------------------------------------------------------
455 //------------------------------------------------------------------------------
456 void vvMainWindow::AddContour(int image_index, vvMesh::Pointer contour, bool propagation)
458 QTreeWidgetItem *item = new QTreeWidgetItem();
459 item->setData(0,Qt::UserRole,"filename.vtk");
460 item->setData(1,Qt::UserRole,tr("contour"));
462 brush.setColor(QColor(contour->r*255,contour->g*255,contour->b*255));
463 brush.setStyle(Qt::SolidPattern);
464 item->setData(COLUMN_IMAGE_NAME,Qt::BackgroundRole,brush);
465 // item->setData(COLUMN_IMAGE_NAME,Qt::DisplayRole,contour->structure_name.c_str());
467 for (int j = 1; j <= 4; j++)
468 item->setData(j,Qt::CheckStateRole,DataTree->topLevelItem(image_index)->data(j,Qt::CheckStateRole));
470 QTreePushButton* cButton = new QTreePushButton;
471 cButton->setItem(item);
472 cButton->setColumn(COLUMN_CLOSE_IMAGE);
473 cButton->setToolTip(tr("close image"));
474 cButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/exit.png")));
475 connect(cButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
476 this,SLOT(CloseImage(QTreeWidgetItem*, int)));
478 QTreePushButton* rButton = new QTreePushButton;
479 rButton->setItem(item);
480 rButton->setColumn(COLUMN_RELOAD_IMAGE);
481 rButton->setToolTip(tr("reload image"));
482 rButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/rotateright.png")));
483 rButton->setEnabled(false);
485 //connect(rButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
486 //this,SLOT(ReloadImage(QTreeWidgetItem*, int)));
488 DataTree->topLevelItem(image_index)->setExpanded(1);
489 DataTree->topLevelItem(image_index)->addChild(item);
490 DataTree->setItemWidget(item, COLUMN_CLOSE_IMAGE, cButton);
491 DataTree->setItemWidget(item, COLUMN_RELOAD_IMAGE, rButton);
492 QString id = DataTree->topLevelItem(image_index)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString();
493 item->setData(COLUMN_IMAGE_NAME,Qt::UserRole,id.toStdString().c_str());
496 mSlicerManagers[image_index]->AddContour(contour,propagation);
497 mSlicerManagers[image_index]->Render();
499 //------------------------------------------------------------------------------
502 //------------------------------------------------------------------------------
503 void vvMainWindow::OpenVTKContour()
505 if (mSlicerManagers.size() > 0) {
506 QString Extensions = "Images ( *.vtk *.obj)";
507 Extensions += ";;All Files (*)";
508 QString file = QFileDialog::getOpenFileName(this,tr("Open vtkPolyData"),mInputPathName,Extensions);
511 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
512 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
514 reader.SetImage(mSlicerManagers[index]->GetImage());
515 reader.SetModeToVTK();
516 reader.SetFilename(file.toStdString());
518 AddContour(index,reader.GetOutput()[0],false);
519 QApplication::restoreOverrideCursor();
522 //------------------------------------------------------------------------------
525 //------------------------------------------------------------------------------
526 void vvMainWindow::AddDCStructContour(int index, QString file)
529 reader.SetFilename(file.toStdString());
530 vvStructSelector selector;
531 selector.SetStructures(reader.GetROINames());
532 if (!mSlicerManagers[index]->GetVF().IsNull())
533 selector.EnablePropagationCheckBox();
534 if (selector.exec()) {
535 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
536 reader.SetSelectedItems(selector.getSelectedItems());
537 reader.SetImage(mSlicerManagers[index]->GetImage());
538 if (selector.PropagationEnabled())
539 reader.SetPropagationVF(mSlicerManagers[index]->GetVF());
541 std::vector<vvMesh::Pointer> contours=reader.GetOutput();
542 for (std::vector<vvMesh::Pointer>::iterator i=contours.begin();
543 i!=contours.end(); i++)
544 AddContour(index,*i,selector.PropagationEnabled());
545 QApplication::restoreOverrideCursor();
549 //------------------------------------------------------------------------------
550 void vvMainWindow::OpenDCStructContour()
552 if (mSlicerManagers.size() > 0) {
553 QString Extensions = "Dicom Files ( *.dcm RS*)";
554 Extensions += ";;All Files (*)";
555 QString file = QFileDialog::getOpenFileName(this,tr("Merge Images"),mInputPathName,Extensions);
558 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
559 AddDCStructContour(index, file);
562 //------------------------------------------------------------------------------
565 //------------------------------------------------------------------------------
566 void vvMainWindow::ComputeDeformableRegistration()
568 if (mSlicerManagers.size() > 0) {
569 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
570 vvDeformationDialog dialog(index,mSlicerManagers);
572 std::string base_name=itksys::SystemTools::GetFilenameWithoutExtension(mSlicerManagers[dialog.GetInputFileIndex()]->GetFileName());
573 AddField(dialog.GetOutput(),dialog.getFieldFile(),dialog.GetInputFileIndex());
574 WarpImage(dialog.GetSelectedSlicer(),dialog.GetReferenceFrameIndex());
576 std::cout << "Error or user cancellation while computing deformation field..." << std::endl;
577 } else QMessageBox::information(this, "Need to open image","You must open an image first.");
579 //------------------------------------------------------------------------------
582 //------------------------------------------------------------------------------
583 void vvMainWindow::WarpImage()
585 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
586 if (!mSlicerManagers[index]->GetVF().IsNull()) {
588 int ref = QInputDialog::getInteger(this,"Chose reference phase","Reference phase",0,0,\
589 mSlicerManagers[index]->GetImage()->GetVTKImages().size()-1,1,&ok);
591 WarpImage(mSlicerManagers[index],ref);
594 QMessageBox::warning(this,tr("No vector field"),tr("Sorry, can't warp without a vector field"));
596 //------------------------------------------------------------------------------
599 //------------------------------------------------------------------------------
600 void vvMainWindow::WarpImage(vvSlicerManager* selected_slicer,int reference_phase)
602 if (!selected_slicer->GetVF().IsNull()) {
603 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
604 QFileInfo info(selected_slicer->GetFileName().c_str());
605 vvImageWarp warp(selected_slicer->GetImage(),selected_slicer->GetVF(),
606 reference_phase,this);
607 if (warp.ComputeWarpedImage()) {
608 AddImage(warp.GetWarpedImage(),info.path().toStdString()+"/"+info.completeBaseName().toStdString()+"_warped.mhd");
609 AddImage(warp.GetDiffImage() ,info.path().toStdString()+"/"+info.completeBaseName().toStdString()+"_diff.mhd");
610 AddImage(warp.GetJacobianImage() ,info.path().toStdString()+"/"+info.completeBaseName().toStdString()+"_jacobian.mhd");
611 QApplication::restoreOverrideCursor();
613 QApplication::restoreOverrideCursor();
614 QMessageBox::warning(this,tr("Different spacings"),tr("The vector field and image spacings must be the same in order to warp."));
617 QMessageBox::warning(this,tr("No vector field"),tr("Sorry, can't warp without a vector field."));
619 //------------------------------------------------------------------------------
622 //------------------------------------------------------------------------------
623 vvMainWindow::~vvMainWindow()
625 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
626 if (mSlicerManagers[i] != NULL)
627 delete mSlicerManagers[i];
630 //------------------------------------------------------------------------------
632 //------------------------------------------------------------------------------
633 QTabWidget * vvMainWindow::GetTab()
637 //------------------------------------------------------------------------------
640 //------------------------------------------------------------------------------
641 void vvMainWindow::MergeImages()
643 QString Extensions = EXTENSIONS;
644 Extensions += ";;All Files (*)";
645 QStringList files = QFileDialog::getOpenFileNames(this,tr("Merge Images"),mInputPathName,Extensions);
648 mInputPathName = itksys::SystemTools::GetFilenamePath(files[0].toStdString()).c_str();
649 std::vector<std::string> vector;
651 unsigned int currentDim = 0;
652 std::vector<double> currentSpacing;
653 std::vector<int> currentSize;
654 std::vector<double> currentOrigin;
656 for (int i = 0; i < files.size(); i++) {
657 itk::ImageIOBase::Pointer reader = itk::ImageIOFactory::CreateImageIO(
658 files[i].toStdString().c_str(), itk::ImageIOFactory::ReadMode);
659 reader->SetFileName(files[i].toStdString().c_str());
660 reader->ReadImageInformation();
662 //NOViewWidget->hide();
663 //NEViewWidget->hide();
664 //SOViewWidget->hide();
665 //SEViewWidget->hide();
667 currentDim = reader->GetNumberOfDimensions();
669 for (unsigned int j = 0; j < currentDim; j++) {
672 currentSpacing.resize(currentDim);
673 currentSize.resize(currentDim);
674 currentOrigin.resize(currentDim);
676 currentOrigin[j] = reader->GetOrigin(j);
677 currentSpacing[j] = reader->GetSpacing(j);
678 currentSize[j] = reader->GetDimensions(j);
679 } else if (currentDim != reader->GetNumberOfDimensions()
680 || currentSpacing[j] != reader->GetSpacing(j)
681 || currentSize[j] != (int)reader->GetDimensions(j)
682 || currentOrigin[j] != reader->GetOrigin(j)) {
683 QString error = "Cannot read file (too different from others ";
684 error += files[i].toStdString().c_str();
685 QMessageBox::information(this,tr("Reading problem"),error);
691 vector.push_back(files[i].toStdString());
694 if (vector.size() > 0)
695 LoadImages(vector, vvImageReader::MERGED);
697 //------------------------------------------------------------------------------
699 //------------------------------------------------------------------------------
700 void vvMainWindow::SliceImages()
702 QString Extensions = EXTENSIONS;
703 Extensions += ";;All Files (*)";
705 QStringList files = QFileDialog::getOpenFileNames(this,tr("Slice Images"),mInputPathName,Extensions);
708 mInputPathName = itksys::SystemTools::GetFilenamePath(files[0].toStdString()).c_str();
709 std::vector<std::string> vector;
710 for (int i = 0; i < files.size(); i++)
711 vector.push_back(files[i].toStdString());
712 LoadImages(vector, vvImageReader::SLICED);
714 //------------------------------------------------------------------------------
716 //------------------------------------------------------------------------------
717 void vvMainWindow::MergeImagesWithTime()
719 QString Extensions = EXTENSIONS;
720 Extensions += ";;All Files (*)";
721 QStringList files = QFileDialog::getOpenFileNames(this,tr("Merge Images With Time"),mInputPathName,Extensions);
724 mInputPathName = itksys::SystemTools::GetFilenamePath(files[0].toStdString()).c_str();
725 std::vector<std::string> vector;
727 for (int i = 0; i < files.size(); i++)
728 vector.push_back(files[i].toStdString());
729 sort(vector.begin(),vector.end());
730 if (vector.size() > 1)
731 LoadImages(vector, vvImageReader::MERGEDWITHTIME);
733 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.");
735 //------------------------------------------------------------------------------
738 //------------------------------------------------------------------------------
739 void vvMainWindow::OpenDicom()
741 std::vector<std::string> files;
743 //std::cout << "dicomSeriesSelector " << std::endl;
744 if (dicomSeriesSelector->exec() == QDialog::Accepted) {
745 files = *(dicomSeriesSelector->GetFilenames());
746 LoadImages(files, vvImageReader::DICOM);
749 //------------------------------------------------------------------------------
751 //------------------------------------------------------------------------------
752 void vvMainWindow::OpenImages()
754 QString Extensions = EXTENSIONS;
755 Extensions += ";;All Files (*)";
757 QStringList files = QFileDialog::getOpenFileNames(this,tr("Load Images"),mInputPathName,Extensions);
760 mInputPathName = itksys::SystemTools::GetFilenamePath(files[0].toStdString()).c_str();
761 std::vector<std::string> vector;
762 for (int i = 0; i < files.size(); i++)
763 vector.push_back(files[i].toStdString());
764 LoadImages(vector, vvImageReader::IMAGE);
766 //------------------------------------------------------------------------------
767 void vvMainWindow::OpenRecentImage()
769 QAction * caller = qobject_cast<QAction*>(sender());
770 std::vector<std::string> images;
771 images.push_back(caller->text().toStdString());
772 mInputPathName = itksys::SystemTools::GetFilenamePath(images[0]).c_str();
773 LoadImages(images, vvImageReader::IMAGE);
775 //------------------------------------------------------------------------------
778 //------------------------------------------------------------------------------
779 void vvMainWindow::OpenImageWithTime()
781 QString Extensions = EXTENSIONS;
782 Extensions += ";;All Files (*)";
784 QStringList files = QFileDialog::getOpenFileNames(this,tr("Load Images With Time"),mInputPathName,Extensions);
787 mInputPathName = itksys::SystemTools::GetFilenamePath(files[0].toStdString()).c_str();
788 std::vector<std::string> vector;
789 for (int i = 0; i < files.size(); i++) {
790 vector.push_back(files[i].toStdString());
792 LoadImages(vector, vvImageReader::IMAGEWITHTIME);
794 //------------------------------------------------------------------------------
797 //------------------------------------------------------------------------------
798 void vvMainWindow::LoadImages(std::vector<std::string> files, vvImageReader::LoadedImageType filetype)
800 //Separate the way to open images and dicoms
802 if (filetype == vvImageReader::IMAGE || filetype == vvImageReader::IMAGEWITHTIME)
803 fileSize = files.size();
807 // For SLICED, we need the number of slices (ndim and #slices)
808 std::vector<unsigned int> nSlices;
809 nSlices.resize(files.size());
810 std::fill(nSlices.begin(), nSlices.end(), 1);
811 if (filetype == vvImageReader::SLICED) {
812 for (int i = 0; i < fileSize; i++) {
813 itk::ImageIOBase::Pointer header = clitk::readImageHeader(files[i]);
814 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
817 QString error = "Cannot open file \n";
818 error += files[i].c_str();
819 QMessageBox::information(this,tr("Reading problem"),error);
822 if (header->GetNumberOfDimensions() < 3) {
824 QString error = "Dimension problem. Cannot slice \n";
825 error += files[i].c_str();
826 QMessageBox::information(this,tr("Reading problem"),error);
829 nSlices[i] = header->GetDimensions( header->GetNumberOfDimensions()-1 );
833 //Only add to the list of recently opened files when a single file is opened,
834 //to avoid polluting the list of recently opened files
835 if (files.size() == 1) {
836 QFileInfo finfo=tr(files[0].c_str());
837 AddToRecentlyOpenedImages(finfo.absoluteFilePath().toStdString());
838 updateRecentlyOpenedFilesMenu(GetRecentlyOpenedImages());
840 //init the progress events
841 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
842 vvProgressDialog progress("Opening " + files[0],fileSize>1);
843 qApp->processEvents();
845 int numberofsuccesulreads=0;
846 //open images as 1 or multiples
847 for (int i = 0; i < fileSize; i++) {
848 progress.SetText("Opening " + files[i]);
849 progress.SetProgress(i,fileSize);
850 qApp->processEvents();
852 for (unsigned int j = 0; j < nSlices[i]; j++) {
853 //read the image and put it in mSlicerManagers
854 vvSlicerManager* imageManager = new vvSlicerManager(4);
855 qApp->processEvents();
857 bool SetImageSucceed=false;
859 // Change filename if an image with the same already exist
860 int number = GetImageDuplicateFilenameNumber(files[i] + std::string("_slice"));
862 if (filetype == vvImageReader::IMAGE || filetype == vvImageReader::IMAGEWITHTIME || filetype == vvImageReader::SLICED)
863 SetImageSucceed = imageManager->SetImage(files[i],filetype, number, j);
865 SetImageSucceed = imageManager->SetImages(files,filetype, number);
868 if (!SetImageSucceed) {
869 QApplication::restoreOverrideCursor();
870 QString error = "Cannot open file \n";
871 error += imageManager->GetLastError().c_str();
872 QMessageBox::information(this,tr("Reading problem"),error);
875 mSlicerManagers.push_back(imageManager);
877 //create an item in the tree with good settings
878 QTreeWidgetItem *item = new QTreeWidgetItem();
879 item->setData(0,Qt::UserRole,files[i].c_str());
880 QFileInfo fileinfo(imageManager->GetFileName().c_str()); //Do not show the path
881 item->setData(COLUMN_IMAGE_NAME,Qt::DisplayRole,fileinfo.fileName());
882 item->setData(1,Qt::UserRole,tr("image"));
883 item->setToolTip(COLUMN_IMAGE_NAME, imageManager->GetListOfAbsoluteFilePathInOneString("image").c_str());
884 qApp->processEvents();
886 //Create the buttons for reload and close
887 qApp->processEvents();
888 QTreePushButton* cButton = new QTreePushButton;
889 cButton->setItem(item);
890 cButton->setColumn(COLUMN_CLOSE_IMAGE);
891 cButton->setToolTip(tr("close image"));
892 cButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/exit.png")));
893 connect(cButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
894 this,SLOT(CloseImage(QTreeWidgetItem*, int)));
896 QTreePushButton* rButton = new QTreePushButton;
897 rButton->setItem(item);
898 rButton->setColumn(COLUMN_RELOAD_IMAGE);
899 rButton->setToolTip(tr("reload image"));
900 rButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/rotateright.png")));
901 connect(rButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
902 this,SLOT(ReloadImage(QTreeWidgetItem*, int)));
904 DataTree->addTopLevelItem(item);
905 DataTree->setItemWidget(item, COLUMN_CLOSE_IMAGE, cButton);
906 DataTree->setItemWidget(item, COLUMN_RELOAD_IMAGE, rButton);
908 //set the id of the image
909 QString id = QDir::current().absoluteFilePath(files[i].c_str()) + QString::number(mSlicerManagers.size()-1);
910 item->setData(COLUMN_IMAGE_NAME,Qt::UserRole,id.toStdString().c_str());
911 mSlicerManagers.back()->SetId(id.toStdString());
913 linkPanel->addImage(imageManager->GetFileName(), id.toStdString());
915 connect(mSlicerManagers.back(), SIGNAL(currentImageChanged(std::string)),
916 this,SLOT(CurrentImageChanged(std::string)));
917 connect(mSlicerManagers.back(), SIGNAL(currentPickedImageChanged(std::string)),
918 this, SLOT(CurrentPickedImageChanged(std::string)));
919 connect(mSlicerManagers.back(), SIGNAL(UpdatePosition(int, double, double, double, double, double, double, double)),
920 this,SLOT(MousePositionChanged(int,double, double, double, double, double, double, double)));
921 connect(mSlicerManagers.back(), SIGNAL(UpdateVector(int, double, double, double, double)),
922 this, SLOT(VectorChanged(int,double,double,double, double)));
923 connect(mSlicerManagers.back(), SIGNAL(UpdateOverlay(int, double, double)),
924 this, SLOT(OverlayChanged(int,double,double)));
925 connect(mSlicerManagers.back(), SIGNAL(UpdateFusion(int, double)),
926 this, SLOT(FusionChanged(int,double)));
927 connect(mSlicerManagers.back(), SIGNAL(WindowLevelChanged()),
928 this,SLOT(WindowLevelChanged()));
929 connect(mSlicerManagers.back(), SIGNAL(UpdateSlice(int,int)),
930 this,SLOT(UpdateSlice(int,int)));
931 connect(mSlicerManagers.back(), SIGNAL(UpdateTSlice(int, int, int)),
932 this,SLOT(UpdateTSlice(int, int, int)));
933 connect(mSlicerManagers.back(), SIGNAL(UpdateTSlice(int, int, int)),
934 this,SLOT(ImageInfoChanged()));
935 connect(mSlicerManagers.back(), SIGNAL(UpdateSliceRange(int,int,int,int,int)),
936 this,SLOT(UpdateSliceRange(int,int,int,int,int)));
937 connect(mSlicerManagers.back(), SIGNAL(UpdateLinkManager(std::string,int,double,double,double,int)),
938 this,SLOT(UpdateLinkManager(std::string,int,double,double,double,int)));
939 connect(mSlicerManagers.back(), SIGNAL(UpdateLinkedNavigation(std::string,vvSlicerManager*,vvSlicer*)),
940 this,SLOT(UpdateLinkedNavigation(std::string,vvSlicerManager*,vvSlicer*)));
941 connect(mSlicerManagers.back(), SIGNAL(ChangeImageWithIndexOffset(vvSlicerManager*,int,int)),
942 this,SLOT(ChangeImageWithIndexOffset(vvSlicerManager*,int,int)));
943 connect(mSlicerManagers.back(),SIGNAL(LandmarkAdded()),landmarksPanel,SLOT(AddPoint()));
946 numberofsuccesulreads++;
950 if (numberofsuccesulreads) {
951 NOViewWidget->show();
952 NEViewWidget->show();
953 SOViewWidget->show();
954 SEViewWidget->show();
959 // Try to guess default WindowLevel
961 mSlicerManagers.back()->GetImage()->GetFirstVTKImageData()->GetScalarRange(range);
962 if ((range[0] == 0) && (range[1] == 1)) {
963 presetComboBox->setCurrentIndex(WL_BINARY);// binary
968 QApplication::restoreOverrideCursor();
970 //------------------------------------------------------------------------------
972 //------------------------------------------------------------------------------
973 void vvMainWindow::UpdateTree()
975 DataTree->resizeColumnToContents(COLUMN_TREE);
976 DataTree->resizeColumnToContents(COLUMN_UL_VIEW);
977 DataTree->resizeColumnToContents(COLUMN_UR_VIEW);
978 DataTree->resizeColumnToContents(COLUMN_DL_VIEW);
979 DataTree->resizeColumnToContents(COLUMN_DR_VIEW);
980 DataTree->resizeColumnToContents(COLUMN_IMAGE_NAME);
981 DataTree->resizeColumnToContents(COLUMN_CLOSE_IMAGE);
982 DataTree->resizeColumnToContents(COLUMN_RELOAD_IMAGE);
984 //------------------------------------------------------------------------------
986 //------------------------------------------------------------------------------
987 void vvMainWindow::CurrentImageChanged(std::string id)
989 if (id == mCurrentSelectedImageId) return; // Do nothing
991 for (int i = 0; i < DataTree->topLevelItemCount(); i++) {
992 if (DataTree->topLevelItem(i)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString().toStdString() == id) {
995 DataTree->topLevelItem(i)->setSelected(0);
997 for (int child = 0; child < DataTree->topLevelItem(i)->childCount(); child++)
998 DataTree->topLevelItem(i)->child(child)->setSelected(0);
1001 DataTree->topLevelItem(selected)->setSelected(1);
1002 mCurrentSelectedImageId = id;
1004 landmarksPanel->SetCurrentLandmarks(mSlicerManagers[selected]->GetLandmarks(),
1005 mSlicerManagers[selected]->GetTSlice());
1006 landmarksPanel->SetCurrentPath(mInputPathName.toStdString());
1007 landmarksPanel->SetCurrentImage(mSlicerManagers[selected]->GetFileName().c_str());
1009 emit SelectedImageHasChanged(mSlicerManagers[selected]);
1011 //------------------------------------------------------------------------------
1013 //------------------------------------------------------------------------------
1014 void vvMainWindow::CurrentPickedImageChanged(std::string id)
1016 if (id == mCurrentPickedImageId) return; // Do nothing
1018 for (int i = 0; i < DataTree->topLevelItemCount(); i++) {
1019 if (DataTree->topLevelItem(i)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString().toStdString() == id) {
1022 DataTree->topLevelItem(i)->setSelected(0);
1024 for (int child = 0; child < DataTree->topLevelItem(i)->childCount(); child++)
1025 DataTree->topLevelItem(i)->child(child)->setSelected(0);
1028 DataTree->topLevelItem(selected)->setSelected(1);
1029 mCurrentPickedImageId = id;
1030 mCurrentPickedImageIndex = selected;
1032 //------------------------------------------------------------------------------
1034 //------------------------------------------------------------------------------
1035 void vvMainWindow::ImageInfoChanged()
1037 contextActions[6]->setEnabled(1);
1038 contextActions[5]->setEnabled(1);
1039 actionSave_As->setEnabled(1);
1040 actionAdd_VF_to_current_Image->setEnabled(1);
1041 actionAdd_fusion_image->setEnabled(1);
1042 actionAdd_overlay_image_to_current_image->setEnabled(1);
1043 actionAdd_USSequence_toCT->setEnabled(1);
1044 actionNorth_East_Window->setEnabled(1);
1045 actionNorth_West_Window->setEnabled(1);
1046 actionSouth_East_Window->setEnabled(1);
1047 actionSouth_West_Window->setEnabled(1);
1048 vvToolManager::GetInstance()->EnableToolsInMenu(this, true);
1049 inverseButton->setEnabled(1);
1051 goToCursorPushButton->setEnabled(1);
1053 if (DataTree->selectedItems().size()) {
1054 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1056 colorMapComboBox->setEnabled(1);
1057 for (int i = 0; i < DataTree->topLevelItem(index)->childCount(); i++) {
1058 if (DataTree->topLevelItem(index)->child(i)->data(1,Qt::UserRole).toString() == "overlay" ||
1059 DataTree->topLevelItem(index)->child(i)->data(1,Qt::UserRole).toString() == "fusion" ||
1060 DataTree->topLevelItem(index)->child(i)->data(1,Qt::UserRole).toString() == "fusionSequence") {
1061 colorMapComboBox->setEnabled(0);
1066 std::vector<double> origin;
1067 std::vector<double> inputSpacing;
1068 std::vector<int> inputSize;
1069 std::vector<double> sizeMM;
1070 vtkSmartPointer<vtkMatrix4x4> transformation;
1073 QString inputSizeInBytes;
1074 QString image = DataTree->selectedItems()[0]->data(COLUMN_IMAGE_NAME,Qt::DisplayRole).toString();
1076 int nframes = mSlicerManagers[index]->GetSlicer(0)->GetTMax();
1078 if (nframes > 1 || playMode == 1) {
1079 playButton->setEnabled(1);
1080 frameRateLabel->setEnabled(1);
1081 frameRateSpinBox->setEnabled(1);
1083 playButton->setEnabled(0);
1084 frameRateLabel->setEnabled(0);
1085 frameRateSpinBox->setEnabled(0);
1092 vvImage::Pointer imageSelected;
1093 if (DataTree->topLevelItem(index) == DataTree->selectedItems()[0]) {
1094 imageSelected = mSlicerManagers[index]->GetSlicer(0)->GetImage();
1095 tSlice = mSlicerManagers[index]->GetSlicer(0)->GetTSlice();
1096 } else if (DataTree->selectedItems()[0]->data(1,Qt::UserRole).toString() == "vector") {
1097 imageSelected = mSlicerManagers[index]->GetSlicer(0)->GetVF();
1098 tSlice = mSlicerManagers[index]->GetSlicer(0)->GetOverlayTSlice();
1099 } else if (DataTree->selectedItems()[0]->data(1,Qt::UserRole).toString() == "overlay") {
1100 imageSelected = mSlicerManagers[index]->GetSlicer(0)->GetOverlay();
1101 tSlice = mSlicerManagers[index]->GetSlicer(0)->GetOverlayTSlice();
1102 } else if (DataTree->selectedItems()[0]->data(1,Qt::UserRole).toString() == "fusion") {
1103 imageSelected = mSlicerManagers[index]->GetSlicer(0)->GetFusion();
1104 tSlice = mSlicerManagers[index]->GetSlicer(0)->GetFusionTSlice();
1106 else if (DataTree->selectedItems()[0]->data(1,Qt::UserRole).toString() == "fusionSequence") {
1107 imageSelected = mSlicerManagers[index]->GetSlicer(0)->GetFusion();
1108 tSlice = mSlicerManagers[index]->GetSlicer(0)->GetFusionTSlice();
1110 else if (DataTree->selectedItems()[0]->data(1,Qt::UserRole).toString() == "contour") {
1111 imageSelected = mSlicerManagers[index]->GetSlicer(0)->GetImage();
1112 tSlice = mSlicerManagers[index]->GetSlicer(0)->GetTSlice();
1115 imageSelected = mSlicerManagers[index]->GetSlicer(0)->GetImage();
1116 tSlice = mSlicerManagers[index]->GetSlicer(0)->GetTSlice();
1119 dimension = imageSelected->GetNumberOfDimensions();
1120 origin.resize(dimension);
1121 inputSpacing.resize(dimension);
1122 inputSize.resize(dimension);
1123 sizeMM.resize(dimension);
1124 pixelType = mSlicerManagers[index]->GetImage()->GetScalarTypeAsITKString().c_str();
1125 for (int i = 0; i < dimension; i++) {
1126 origin[i] = imageSelected->GetOrigin()[i];
1127 inputSpacing[i] = imageSelected->GetSpacing()[i];
1128 inputSize[i] = imageSelected->GetSize()[i];
1129 sizeMM[i] = inputSize[i]*inputSpacing[i];
1130 NPixel *= inputSize[i];
1132 inputSizeInBytes = GetSizeInBytes(imageSelected->GetActualMemorySize()*1000);
1134 QString dim = QString::number(dimension) + " (";
1135 dim += pixelType + ")";
1137 infoPanel->setFileName(image);
1138 std::string creationImageTimeValue("No creation time");
1139 itk::ExposeMetaData< std::string > (*imageSelected->GetFirstMetaDataDictionary(), "creationImageTime", creationImageTimeValue);
1140 infoPanel->setImageCreationTime(QString(creationImageTimeValue.c_str()));
1141 infoPanel->setDimension(dim);
1142 infoPanel->setSizePixel(GetVectorIntAsString(inputSize));
1143 infoPanel->setSizeMM(GetVectorDoubleAsString(sizeMM));
1144 infoPanel->setOrigin(GetVectorDoubleAsString(origin));
1145 infoPanel->setSpacing(GetVectorDoubleAsString(inputSpacing));
1146 infoPanel->setNPixel(QString::number(NPixel)+" ("+inputSizeInBytes+")");
1148 transformation = imageSelected->GetTransform()[tSlice]->GetMatrix();
1149 infoPanel->setTransformation(clitk::Get4x4MatrixDoubleAsString(transformation).c_str());
1151 landmarksPanel->SetCurrentLandmarks(mSlicerManagers[index]->GetLandmarks(),
1152 mSlicerManagers[index]->GetTSlice());
1153 landmarksPanel->SetCurrentPath(mInputPathName.toStdString());
1154 landmarksPanel->SetCurrentImage(mSlicerManagers[index]->GetFileName().c_str());
1156 overlayPanel->getCurrentImageName(mSlicerManagers[index]->GetFileName().c_str());
1157 for (int i = 0; i < 4; i++) {
1158 if (DataTree->selectedItems()[0]->data(i+1,Qt::CheckStateRole).toInt() > 0 || i == 3) {
1159 mSlicerManagers[index]->UpdateInfoOnCursorPosition(i);
1164 // infoPanel->setFileName(image);
1165 // infoPanel->setDimension(dim);
1166 // infoPanel->setSizePixel(GetVectorIntAsString(inputSize));
1167 // infoPanel->setSizeMM(GetVectorDoubleAsString(sizeMM));
1168 // infoPanel->setOrigin(GetVectorDoubleAsString(origin));
1169 // infoPanel->setSpacing(GetVectorDoubleAsString(inputSpacing));
1170 // infoPanel->setNPixel(QString::number(NPixel)+" ("+inputSizeInBytes+")");
1172 // landmarksPanel->SetCurrentLandmarks(mSlicerManagers[index]->GetLandmarks(),
1173 // mSlicerManagers[index]->GetTSlice());
1174 // landmarksPanel->SetCurrentPath(mInputPathName.toStdString());
1175 // landmarksPanel->SetCurrentImage(mSlicerManagers[index]->GetFileName().c_str());
1177 // overlayPanel->getCurrentImageName(mSlicerManagers[index]->GetFileName().c_str());
1178 // for (int i = 0; i < 4; i++) {
1179 // if (DataTree->selectedItems()[0]->data(i+1,Qt::CheckStateRole).toInt() > 0 || i == 3) {
1180 // mSlicerManagers[index]->UpdateInfoOnCursorPosition(i);
1184 WindowLevelChanged();
1186 slicingPresetComboBox->setCurrentIndex(mSlicerManagers[index]->GetSlicingPreset());
1188 if (mSlicerManagers[index]->GetSlicer(0)->GetVF()) {
1189 overlayPanel->getVFName(mSlicerManagers[index]->GetVFName().c_str());
1190 overlayPanel->getVFProperty(mSlicerManagers[index]->GetSlicer(0)->GetVFSubSampling(),
1191 mSlicerManagers[index]->GetSlicer(0)->GetVFScale(),
1192 mSlicerManagers[index]->GetSlicer(0)->GetVFLog());
1194 overlayPanel->getVFName(mSlicerManagers[index]->GetVFName().c_str());
1195 overlayPanel->getVFProperty(-1,-1,-1);
1197 if (mSlicerManagers[index]->GetSlicer(0)->GetOverlay()) {
1198 overlayPanel->getOverlayName(mSlicerManagers[index]->GetOverlayName().c_str());
1200 overlayPanel->getOverlayName(mSlicerManagers[index]->GetOverlayName().c_str());
1203 if (mSlicerManagers[index]->GetSlicer(0)->GetFusion()) {
1204 overlayPanel->getFusionName(mSlicerManagers[index]->GetFusionName().c_str());
1206 overlayPanel->getFusionName(mSlicerManagers[index]->GetFusionName().c_str());
1210 //------------------------------------------------------------------------------
1212 //------------------------------------------------------------------------------
1213 void vvMainWindow::ShowDocumentation()
1215 documentation->show();
1217 //------------------------------------------------------------------------------
1219 //------------------------------------------------------------------------------
1220 void vvMainWindow::PopupRegisterForm(bool checkCanPush)
1222 vvRegisterForm* registerForm = new vvRegisterForm(QUrl("http://www.creatis.insa-lyon.fr/~dsarrut/vvregister/write.php"), getVVSettingsPath(), getSettingsOptionFormat());
1224 registerForm->show();
1226 if(registerForm->canPush()) {
1227 registerForm->show();
1228 registerForm->acquitPushed();//too bad if there is not internet connection anymore.
1232 //------------------------------------------------------------------------------
1234 //------------------------------------------------------------------------------
1235 void vvMainWindow::ShowHelpDialog()
1237 help_dialog->show();
1239 //------------------------------------------------------------------------------
1241 //------------------------------------------------------------------------------
1242 void vvMainWindow::ChangeViewMode()
1244 typedef struct _SIZE{
1245 QSplitter* splitter;
1246 QList<int> size1, size2;
1249 SplitterSize sizes[4];
1250 sizes[0].splitter = OSplitter;
1251 sizes[0].size1.push_back(1);
1252 sizes[0].size1.push_back(0);
1253 sizes[0].size2.push_back(1);
1254 sizes[0].size2.push_back(0);
1255 sizes[0].cols[0] = 2;
1256 sizes[0].cols[1] = 3;
1257 sizes[0].cols[2] = 4;
1259 sizes[1].splitter = ESplitter;
1260 sizes[1].size1.push_back(0);
1261 sizes[1].size1.push_back(1);
1262 sizes[1].size2.push_back(1);
1263 sizes[1].size2.push_back(0);
1264 sizes[1].cols[0] = 1;
1265 sizes[1].cols[1] = 3;
1266 sizes[1].cols[2] = 4;
1268 sizes[2].splitter = OSplitter;
1269 sizes[2].size1.push_back(1);
1270 sizes[2].size1.push_back(0);
1271 sizes[2].size2.push_back(0);
1272 sizes[2].size2.push_back(1);
1273 sizes[2].cols[0] = 1;
1274 sizes[2].cols[1] = 2;
1275 sizes[2].cols[2] = 4;
1277 sizes[3].splitter = ESplitter;
1278 sizes[3].size1.push_back(0);
1279 sizes[3].size1.push_back(1);
1280 sizes[3].size2.push_back(0);
1281 sizes[3].size2.push_back(1);
1282 sizes[3].cols[0] = 1;
1283 sizes[3].cols[1] = 2;
1284 sizes[3].cols[2] = 3;
1286 int slicer = mSlicerManagers[mCurrentPickedImageIndex]->GetSelectedSlicer();
1287 if (viewMode == 1) {
1290 splitter_3->setSizes(sizes[slicer].size1);
1291 sizes[slicer].splitter->setSizes(sizes[slicer].size2);
1292 DataTree->setColumnHidden(sizes[slicer].cols[0],1);
1293 DataTree->setColumnHidden(sizes[slicer].cols[1],1);
1294 DataTree->setColumnHidden(sizes[slicer].cols[2],1);
1302 splitter_3->setSizes(size);
1303 sizes[slicer].splitter->setSizes(size);
1304 DataTree->setColumnHidden(sizes[slicer].cols[0],0);
1305 DataTree->setColumnHidden(sizes[slicer].cols[1],0);
1306 DataTree->setColumnHidden(sizes[slicer].cols[2],0);
1309 UpdateRenderWindows();
1311 ** I don't know why but for both resized QVTKWidget we also need to render
1312 ** the associated Slicer to redraw crosses.
1314 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
1315 // if (DataTree->topLevelItem(i)->data(COLUMN_UL_VIEW,Qt::CheckStateRole).toInt() > 1)
1316 mSlicerManagers[i]->GetSlicer(0)->Render();
1317 mSlicerManagers[i]->GetSlicer(1)->Render();
1318 // if (DataTree->topLevelItem(i)->data(COLUMN_DL_VIEW,Qt::CheckStateRole).toInt() > 1)
1319 mSlicerManagers[i]->GetSlicer(2)->Render();
1320 mSlicerManagers[i]->GetSlicer(3)->Render();
1323 //------------------------------------------------------------------------------
1325 //------------------------------------------------------------------------------
1326 QString vvMainWindow::GetSizeInBytes(unsigned long size)
1328 QString result = "";// QString::number(size);
1329 //result += " bytes (";
1330 if (size > 1000000000) {
1332 result += QString::number(size);
1333 result += "Gb";//)";
1334 } else if (size > 1000000) {
1336 result += QString::number(size);
1337 result += "Mb";//)";
1338 } else if (size > 1000) {
1340 result += QString::number(size);
1341 result += "kb";//)";
1345 //------------------------------------------------------------------------------
1347 //------------------------------------------------------------------------------
1348 QString vvMainWindow::GetVectorDoubleAsString(std::vector<double> vectorDouble)
1351 for (unsigned int i= 0; i < vectorDouble.size(); i++) {
1354 result += QString::number(vectorDouble[i]);
1358 //------------------------------------------------------------------------------
1360 //------------------------------------------------------------------------------
1361 QString vvMainWindow::GetVectorIntAsString(std::vector<int> vectorInt)
1364 for (unsigned int i= 0; i < vectorInt.size(); i++) {
1367 result += QString::number(vectorInt[i]);
1371 //------------------------------------------------------------------------------
1373 //------------------------------------------------------------------------------
1374 //this actually returns the SlicerManager index!
1375 int vvMainWindow::GetSlicerIndexFromItem(QTreeWidgetItem* item)
1377 QString id = item->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString();
1378 for (int i = 0; i < DataTree->topLevelItemCount(); i++) {
1379 if (DataTree->topLevelItem(i)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString() == id)
1384 //------------------------------------------------------------------------------
1386 //------------------------------------------------------------------------------
1387 QTreeWidgetItem* vvMainWindow::GetItemFromSlicerManager(vvSlicerManager* sm)
1389 QString id = sm->GetId().c_str();
1390 for (int i = 0; i < DataTree->topLevelItemCount(); i++) {
1391 if (DataTree->topLevelItem(i)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString() == id)
1392 return DataTree->topLevelItem(i);
1396 //------------------------------------------------------------------------------
1398 //------------------------------------------------------------------------------
1399 void vvMainWindow::DisplayChanged(QTreeWidgetItem *clickedItem, int column)
1401 if ( column >= COLUMN_CLOSE_IMAGE || column <= 0)
1404 // Get parent information (might be the same item)
1405 int slicerManagerIndex = GetSlicerIndexFromItem(clickedItem);
1406 QTreeWidgetItem* clickedParentItem = DataTree->topLevelItem(slicerManagerIndex);
1407 vvSlicer* clickedSlicer = mSlicerManagers[slicerManagerIndex]->GetSlicer(column-1);
1409 // Go over the complete item tree (only 2 levels, parents and children)
1410 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
1411 // Trick to avoid redoing twice the job for a key (sr)
1412 mSlicerManagers[i]->GetSlicer(column-1)->GetRenderWindow()->GetInteractor()->SetKeySym("Crap");
1414 QTreeWidgetItem* currentParentItem = DataTree->topLevelItem(i);
1415 if(currentParentItem != clickedParentItem) {
1416 // Not the branch of the clicked item, uncheck all
1419 currentParentItem->setData(column,Qt::CheckStateRole, 0);
1420 mSlicerManagers[i]->UpdateSlicer(column-1, false);
1423 for (int iChild = 0; iChild < currentParentItem->childCount(); iChild++) {
1424 currentParentItem->child(iChild)->setData(column,Qt::CheckStateRole, 0);
1428 // Branch of the clicked one: get check status from actor visibility in slicer
1429 // and toggle the clicked one
1432 bool vis = clickedSlicer->GetActorVisibility("image", 0);
1433 bool draw = clickedSlicer->GetRenderer()->GetDraw();
1435 // Update slicer (after getting visibility)
1436 mSlicerManagers[slicerManagerIndex]->UpdateSlicer(column-1, true);
1437 mSlicerManagers[slicerManagerIndex]->UpdateInfoOnCursorPosition(column-1);
1438 DisplaySliders(slicerManagerIndex, column-1);
1439 if(clickedParentItem == clickedItem) {
1441 vis = !draw || !vis;
1443 clickedSlicer->SetActorVisibility("image", 0, vis);
1444 clickedParentItem->setData(column, Qt::CheckStateRole, vis?2:0);
1447 std::map<std::string, int> actorTypeCounts;
1448 for (int iChild = 0; iChild < clickedParentItem->childCount(); iChild++) {
1449 QTreeWidgetItem* currentChildItem = clickedParentItem->child(iChild);
1450 std::string actorType = currentChildItem->data(1,Qt::UserRole).toString().toStdString();
1451 vis = clickedSlicer->GetActorVisibility(actorType, actorTypeCounts[actorType]);
1452 if(currentChildItem == clickedItem) {
1453 // Toggle or force visibility if it was not on this branch so far
1454 vis = !draw || !vis;
1455 clickedSlicer->SetActorVisibility(actorType, actorTypeCounts[actorType], vis);
1457 currentChildItem->setData(column, Qt::CheckStateRole, vis?2:0);
1458 actorTypeCounts[actorType]++;
1463 clickedSlicer->Render();
1465 //------------------------------------------------------------------------------
1467 void vvMainWindow::InitSlicers()
1469 if (mSlicerManagers.size()) {
1470 mSlicerManagers.back()->GenerateDefaultLookupTable();
1472 mSlicerManagers.back()->SetSlicerWindow(0,NOViewWidget->GetRenderWindow());
1473 mSlicerManagers.back()->SetSlicerWindow(1,NEViewWidget->GetRenderWindow());
1474 mSlicerManagers.back()->SetSlicerWindow(2,SOViewWidget->GetRenderWindow());
1475 mSlicerManagers.back()->SetSlicerWindow(3,SEViewWidget->GetRenderWindow());
1476 mSlicerManagers.back()->Render(); // SR: displayed #slice is wrong without this
1480 //------------------------------------------------------------------------------
1481 void vvMainWindow::InitDisplay()
1483 if (mSlicerManagers.size()) {
1484 //BE CAREFUL : this is absolutely necessary to set the interactor style
1485 //in order to have the same style instanciation for all SlicerManagers in
1487 for (int j = 0; j < 4; j++) {
1488 vvInteractorStyleNavigator* style = vvInteractorStyleNavigator::New();
1489 style->SetAutoAdjustCameraClippingRange(1);
1490 bool AlreadySelected = false;
1491 for (int i = 0; i < DataTree->topLevelItemCount(); i++) {
1492 mSlicerManagers[i]->SetInteractorStyleNavigator(j,style);
1494 //select the image only if previous are not selected
1495 if (DataTree->topLevelItem(i)->data(j+1,Qt::CheckStateRole).toInt() > 1) {
1496 mSlicerManagers[i]->UpdateSlicer(j,1);
1497 AlreadySelected = true;
1498 } else if (i == DataTree->topLevelItemCount()-1 && !AlreadySelected) {
1499 if (DataTree->selectedItems().size() == 0)
1500 DataTree->topLevelItem(i)->setSelected(1);
1501 DataTree->topLevelItem(i)->setData(j+1,Qt::CheckStateRole,2);
1502 mSlicerManagers[i]->UpdateSlicer(j,1);
1503 DisplaySliders(i,j);
1505 DataTree->topLevelItem(i)->setData(j+1,Qt::CheckStateRole,0);
1506 mSlicerManagers[i]->UpdateSlicer(j,0);
1513 //------------------------------------------------------------------------------
1515 //------------------------------------------------------------------------------
1516 void vvMainWindow::DisplaySliders(int slicer, int window)
1518 if(!mSlicerManagers[slicer]->GetSlicer(window)->GetRenderer()->GetDraw())
1522 mSlicerManagers[slicer]->GetSlicer(window)->GetSliceRange(range);
1523 int position = mSlicerManagers[slicer]->GetSlicer(window)->GetSlice();
1525 verticalSliders[window]->show();
1527 verticalSliders[window]->hide();
1528 verticalSliders[window]->setRange(range[0],range[1]);
1529 verticalSliders[window]->setValue(position);
1533 tRange[1] = mSlicerManagers[slicer]->GetSlicer(window)->GetTMax();
1535 horizontalSliders[window]->show();
1537 horizontalSliders[window]->hide();
1538 horizontalSliders[window]->setRange(tRange[0],tRange[1]);
1539 int tPosition = mSlicerManagers[slicer]->GetSlicer(window)->GetMaxCurrentTSlice();
1540 horizontalSliders[window]->setValue(tPosition);
1542 //------------------------------------------------------------------------------
1544 //------------------------------------------------------------------------------
1545 void vvMainWindow::CloseImage(QTreeWidgetItem* item, int column)
1547 int index = GetSlicerIndexFromItem(item);
1549 if (DataTree->topLevelItem(index) != item) {
1550 QString warning = "Do you really want to close the overlay : ";
1551 warning += item->data(COLUMN_IMAGE_NAME,Qt::DisplayRole).toString();
1552 QMessageBox msgBox(QMessageBox::Warning, tr("Close Overlay"),
1554 msgBox.addButton(tr("Close"), QMessageBox::AcceptRole);
1555 msgBox.addButton(tr("Cancel"), QMessageBox::RejectRole);
1556 if (msgBox.exec() == QMessageBox::AcceptRole) {
1557 std::string overlay_type=item->data(1,Qt::UserRole).toString().toStdString();
1558 int overlay_index=0;
1559 for (int child = 0; child < DataTree->topLevelItem(index)->childCount(); child++) {
1560 if (DataTree->topLevelItem(index)->\
1561 child(child)->data(1,Qt::UserRole).toString().toStdString() == overlay_type)
1563 if (DataTree->topLevelItem(index)->child(child) == item) break;
1565 if (overlay_type=="fusionSequence") {
1566 //removing the overlay sequence in a fusion sequence visualization mode
1567 //reset the transforms
1568 overlayPanel->getFusionSequenceProperty(-1, false, 0, false);
1570 //unlink and untie the slicer managers
1571 RemoveLink(mSlicerManagers[index]->GetId().c_str(), mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->GetId().c_str());
1572 mSlicerManagers[index]->SetFusionSequenceInvolvmentCode(-1);
1573 mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->SetFusionSequenceInvolvmentCode(-1);
1574 for (unsigned i=0 ; i<4 ; i++) {
1575 mSlicerManagers[index]->GetSlicer(i)->SetFusionSequenceCode(-1);
1576 mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->GetSlicer(i)->SetFusionSequenceCode(-1);
1580 mSlicerManagers[index]->RemoveActor(overlay_type, overlay_index-1);
1581 mSlicerManagers[index]->SetColorMap(0);
1582 DataTree->topLevelItem(index)->takeChild(DataTree->topLevelItem(index)->indexOfChild(item));
1583 mSlicerManagers[index]->Render();
1585 } else if (DataTree->topLevelItemCount() <= 1) {
1586 QString warning = "Do you really want to close the image : ";
1587 warning += item->data(COLUMN_IMAGE_NAME,Qt::DisplayRole).toString();
1588 warning += "\nThis is the last image, you're about to close vv !!!";
1589 QMessageBox msgBox(QMessageBox::Warning, tr("Close Image"),
1591 msgBox.addButton(tr("Close vv"), QMessageBox::AcceptRole);
1592 msgBox.addButton(tr("Cancel"), QMessageBox::RejectRole);
1593 if (msgBox.exec() == QMessageBox::AcceptRole) {
1597 QString warning = "Do you really want to close the image : ";
1598 warning += item->data(COLUMN_IMAGE_NAME,Qt::DisplayRole).toString();
1599 QMessageBox msgBox(QMessageBox::Warning, tr("Close Image"),
1601 msgBox.addButton(tr("Close"), QMessageBox::AcceptRole);
1602 msgBox.addButton(tr("Cancel"), QMessageBox::RejectRole);
1603 if (msgBox.exec() == QMessageBox::AcceptRole) {
1605 // Tell tools that we close an image
1606 emit AnImageIsBeingClosed(mSlicerManagers[index]);
1608 std::vector<vvSlicerManager*>::iterator Manageriter = mSlicerManagers.begin();
1609 DataTree->takeTopLevelItem(index);
1610 for (int i = 0; i < index; i++) {
1613 //if the slicer manager was involved in a fusion sequence visualization...
1614 if ( mSlicerManagers[index]->IsInvolvedInFusionSequence() ) {
1615 //in both cases, close the overlay: find it... and close it
1616 //ideally, I should duplicate the code, and avoid calling CloseImage, since this pops up another interactive box
1617 QTreeWidgetItem* overlayItem;
1618 if (mSlicerManagers[index]->IsMainSequenceOfFusionSequence()) {
1619 for (unsigned i=0 ; i<item->childCount() ; i++) {
1620 overlayItem = item->child(i);
1621 this->CloseImage( overlayItem, 0 );
1625 QTreeWidgetItem* linkedItem = this->GetItemFromSlicerManager( mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()] );
1626 for (unsigned i=0 ; i<linkedItem->childCount() ; i++) {
1627 overlayItem = linkedItem->child(i);
1628 this->CloseImage( overlayItem, 0 );
1632 /* -- this is normally already done when closing the overlay.
1633 //reset the transforms
1634 overlayPanel->getFusionSequenceProperty(-1, false, 0, false);
1636 //unlink and untie the slicer managers
1637 RemoveLink(mSlicerManagers[index]->GetId().c_str(), mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->GetId().c_str());
1638 mSlicerManagers[index]->SetFusionSequenceInvolvmentCode(-1);
1639 mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->SetFusionSequenceInvolvmentCode(-1);
1640 for (unsigned i=0 ; i<4 ; i++) {
1641 mSlicerManagers[index]->GetSlicer(i)->SetFusionSequenceCode(-1);
1642 mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->GetSlicer(i)->SetFusionSequenceCode(-1);
1647 linkPanel->removeImage(index);
1648 mSlicerManagers[index]->RemoveActors();
1650 //remove the slicer manager
1651 delete mSlicerManagers[index];
1652 mSlicerManagers.erase(Manageriter);
1660 //------------------------------------------------------------------------------
1662 //------------------------------------------------------------------------------
1663 void vvMainWindow::ReloadImage(QTreeWidgetItem* item, int column)
1665 // int index = GetSlicerIndexFromItem(item);
1666 // QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
1667 // if (item->data(1,Qt::UserRole).toString() == "vector")
1668 // mSlicerManagers[index]->ReloadVF();
1670 // mSlicerManagers[index]->Reload();
1672 // QApplication::restoreOverrideCursor();
1673 int index = GetSlicerIndexFromItem(item);
1674 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
1675 QString role=item->data(1,Qt::UserRole).toString();
1676 if ( role == "vector") {
1677 mSlicerManagers[index]->ReloadVF();
1679 else if (role == "overlay") {
1680 mSlicerManagers[index]->ReloadOverlay();
1682 else if (role == "fusion") {
1683 mSlicerManagers[index]->ReloadFusion();
1685 else if (role == "fusionSequence") {
1686 //both versions of the secondary sequence must be updated.
1687 mSlicerManagers[index]->ReloadFusionSequence();
1688 mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->Reload();
1691 mSlicerManagers[index]->Reload();
1692 //if we update the secondary sequence, then the overlay of the main sequence should also be updated
1693 if (mSlicerManagers[index]->IsSecondarySequenceOfFusionSequence()) mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->ReloadFusionSequence();
1695 // Update view and info
1697 mSlicerManagers[index]->Render();
1698 QApplication::restoreOverrideCursor();
1700 //------------------------------------------------------------------------------
1702 //------------------------------------------------------------------------------
1703 void vvMainWindow::MousePositionChanged(int visibility,double x, double y, double z, double X, double Y, double Z , double value)
1705 infoPanel->setCurrentInfo(visibility,x,y,z,X,Y,Z,value);
1707 //------------------------------------------------------------------------------
1709 //------------------------------------------------------------------------------
1710 void vvMainWindow::VectorChanged(int visibility,double x, double y, double z, double value)
1712 overlayPanel->getCurrentVectorInfo(visibility,x,y,z,value);
1714 //------------------------------------------------------------------------------
1716 //------------------------------------------------------------------------------
1717 void vvMainWindow::OverlayChanged(int visibility, double valueOver, double valueRef)
1719 overlayPanel->getCurrentOverlayInfo(visibility,valueOver, valueRef);
1721 //------------------------------------------------------------------------------
1723 //------------------------------------------------------------------------------
1724 void vvMainWindow::FusionChanged(int visibility, double value)
1726 overlayPanel->getCurrentFusionInfo(visibility,value);
1728 //------------------------------------------------------------------------------
1730 //------------------------------------------------------------------------------
1731 //called when AddOverlayImage, AddFusionSequence
1732 //or when UpdateWindowLevel() is called ; when slicerManager emits WindowLevelChanged
1733 //when ImageInfoChanged() is called
1734 void vvMainWindow::WindowLevelChanged()
1737 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1738 if(index==-1) return;
1739 windowSpinBox->setValue(mSlicerManagers[index]->GetColorWindow());
1740 levelSpinBox->setValue(mSlicerManagers[index]->GetColorLevel());
1741 colorMapComboBox->setCurrentIndex(mSlicerManagers[index]->GetColorMap());
1742 presetComboBox->setCurrentIndex(mSlicerManagers[index]->GetPreset());
1745 if (mSlicerManagers[index]->GetSlicer(0)->GetOverlay())
1746 overlayPanel->getOverlayProperty(mSlicerManagers[index]->GetOverlayColor(),
1747 mSlicerManagers[index]->GetLinkOverlayWindowLevel(),
1748 mSlicerManagers[index]->GetOverlayColorWindow(),
1749 mSlicerManagers[index]->GetOverlayColorLevel());
1751 overlayPanel->getOverlayProperty(-1,0,0.,0.);
1753 // Fusion & SequenceFusion image
1754 if (mSlicerManagers[index]->GetSlicer(0)->GetFusion()) {
1755 overlayPanel->getFusionProperty(mSlicerManagers[index]->GetFusionOpacity(),
1756 mSlicerManagers[index]->GetFusionThresholdOpacity(),
1757 mSlicerManagers[index]->GetFusionColorMap(),
1758 mSlicerManagers[index]->GetFusionWindow(),
1759 mSlicerManagers[index]->GetFusionLevel());
1760 if (mSlicerManagers[index]->IsMainSequenceOfFusionSequence()) {
1761 overlayPanel->getFusionSequenceProperty(mSlicerManagers[index]->GetFusionSequenceFrameIndex(),
1762 mSlicerManagers[index]->GetFusionSequenceSpatialSyncFlag(),
1763 mSlicerManagers[index]->GetFusionSequenceNbFrames(),
1764 mSlicerManagers[index]->GetFusionSequenceTemporalSyncFlag());
1767 else if ( mSlicerManagers[index]->IsSecondarySequenceOfFusionSequence() ) {
1768 //if the image is involved in a fusion sequence, preserve the overlay panel!
1769 int ind = mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager();
1770 overlayPanel->getFusionProperty(mSlicerManagers[ind]->GetFusionOpacity(),
1771 mSlicerManagers[ind]->GetFusionThresholdOpacity(),
1772 mSlicerManagers[ind]->GetFusionColorMap(),
1773 mSlicerManagers[ind]->GetFusionWindow(),
1774 mSlicerManagers[ind]->GetFusionLevel());
1775 overlayPanel->getFusionSequenceProperty(mSlicerManagers[ind]->GetFusionSequenceFrameIndex(),
1776 mSlicerManagers[ind]->GetFusionSequenceSpatialSyncFlag(),
1777 mSlicerManagers[ind]->GetFusionSequenceNbFrames(),
1778 mSlicerManagers[ind]->GetFusionSequenceTemporalSyncFlag());
1782 overlayPanel->getFusionProperty(-1, -1, -1, -1, -1);
1783 overlayPanel->getFusionSequenceProperty(-1, false, 0, false);
1786 //------------------------------------------------------------------------------
1788 //------------------------------------------------------------------------------
1789 void vvMainWindow::WindowLevelEdited()
1791 presetComboBox->setCurrentIndex(WL_USER);
1792 UpdateWindowLevel();
1794 //------------------------------------------------------------------------------
1796 //------------------------------------------------------------------------------
1797 void vvMainWindow::SetWindowLevel(double w, double l)
1799 windowSpinBox->setValue(w);
1800 levelSpinBox->setValue(l);
1801 presetComboBox->setCurrentIndex(WL_USER);
1802 colorMapComboBox->setCurrentIndex(0);
1803 UpdateWindowLevel();
1805 //------------------------------------------------------------------------------
1807 //------------------------------------------------------------------------------
1808 void vvMainWindow::UpdateWindowLevel()
1810 if (DataTree->selectedItems().size()) {
1811 if (presetComboBox->currentIndex() == WL_VENTILATION) //For ventilation
1812 colorMapComboBox->setCurrentIndex(5);
1813 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1814 mSlicerManagers[index]->SetColorWindow(windowSpinBox->value());
1815 mSlicerManagers[index]->SetColorLevel(levelSpinBox->value());
1816 mSlicerManagers[index]->SetPreset(presetComboBox->currentIndex());
1817 mSlicerManagers[index]->Render();
1818 WindowLevelChanged();
1821 //------------------------------------------------------------------------------
1823 //------------------------------------------------------------------------------
1824 void vvMainWindow::UpdateSlicingPreset()
1826 if (DataTree->selectedItems().size()) {
1827 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1828 mSlicerManagers[index]->SetSlicingPreset(vvSlicerManager::SlicingPresetType(slicingPresetComboBox->currentIndex()));
1831 //------------------------------------------------------------------------------
1833 //------------------------------------------------------------------------------
1834 void vvMainWindow::UpdateColorMap()
1836 if (DataTree->selectedItems().size()) {
1837 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1838 mSlicerManagers[index]->SetColorMap(colorMapComboBox->currentIndex());
1839 mSlicerManagers[index]->Render();
1842 //------------------------------------------------------------------------------
1843 void vvMainWindow::SwitchWindowLevel()
1845 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1846 int window = mSlicerManagers[index]->GetColorWindow();
1847 presetComboBox->setCurrentIndex(WL_USER);
1848 windowSpinBox->setValue(-window);
1849 UpdateWindowLevel();
1851 //------------------------------------------------------------------------------
1853 //------------------------------------------------------------------------------
1854 void vvMainWindow::ApplyWindowLevelToAllImages()
1856 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1857 if(index==-1) return;
1858 double window = mSlicerManagers[index]->GetColorWindow();
1859 double level = mSlicerManagers[index]->GetColorLevel();
1861 double fusWindow = mSlicerManagers[index]->GetFusionWindow();
1862 double fusLevel = mSlicerManagers[index]->GetFusionLevel();
1864 double overWindow = mSlicerManagers[index]->GetOverlayColorWindow();
1865 double overLevel = mSlicerManagers[index]->GetOverlayColorLevel();
1867 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
1868 if (mSlicerManagers[i] == NULL)
1870 mSlicerManagers[i]->SetColorWindow(window);
1871 mSlicerManagers[i]->SetColorLevel(level);
1872 mSlicerManagers[i]->SetPreset(WL_USER);
1873 mSlicerManagers[i]->SetFusionWindow(fusWindow);
1874 mSlicerManagers[i]->SetFusionLevel(fusLevel);
1875 mSlicerManagers[i]->SetOverlayColorWindow(overWindow);
1876 mSlicerManagers[i]->SetOverlayColorLevel(overLevel);
1877 mSlicerManagers[i]->Render();
1880 //------------------------------------------------------------------------------
1882 //------------------------------------------------------------------------------
1883 void vvMainWindow::ApplyWindowToSetOfImages(double window, unsigned int indexMin, unsigned int indexMax)
1885 for (unsigned int i = indexMin; i <= indexMax && i < mSlicerManagers.size(); i++) {
1886 if (mSlicerManagers[i] == NULL)
1888 mSlicerManagers[i]->SetColorWindow(window);
1889 mSlicerManagers[i]->SetPreset(WL_USER);
1890 mSlicerManagers[i]->Render();
1893 //------------------------------------------------------------------------------
1895 //------------------------------------------------------------------------------
1896 void vvMainWindow::ApplyLevelToSetOfImages(double level, unsigned int indexMin, unsigned int indexMax)
1898 for (unsigned int i = indexMin; i <= indexMax && i < mSlicerManagers.size(); i++) {
1899 if (mSlicerManagers[i] == NULL)
1901 mSlicerManagers[i]->SetColorLevel(level);
1902 mSlicerManagers[i]->SetPreset(WL_USER);
1903 mSlicerManagers[i]->Render();
1906 //------------------------------------------------------------------------------
1908 //------------------------------------------------------------------------------
1909 void vvMainWindow::UpdateLinkManager(std::string id, int slicer, double x, double y, double z, int temps)
1911 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
1912 if (mSlicerManagers[i]->GetId() == id) {
1913 mSlicerManagers[i]->GetSlicer(slicer)->SetCurrentPosition(x,y,z,temps);
1914 mSlicerManagers[i]->UpdateViews(0,slicer);
1919 //------------------------------------------------------------------------------
1921 //------------------------------------------------------------------------------
1922 void vvMainWindow::UpdateLinkedNavigation(std::string id, vvSlicerManager * sm, vvSlicer* refSlicer)
1924 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
1925 if (id == mSlicerManagers[i]->GetId()) {
1926 mSlicerManagers[i]->UpdateLinkedNavigation(refSlicer);
1930 //------------------------------------------------------------------------------
1932 //------------------------------------------------------------------------------
1933 void vvMainWindow::ShowContextMenu(QPoint point)
1935 if (!DataTree->selectedItems().size()) {
1936 contextActions[1]->setEnabled(0);
1937 contextActions[2]->setEnabled(0);
1938 contextActions[3]->setEnabled(0);
1939 contextActions[4]->setEnabled(0);
1940 contextActions[5]->setEnabled(0);
1941 contextActions[6]->setEnabled(0);
1943 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1944 contextActions[1]->setEnabled(1);
1945 contextActions[2]->setEnabled(
1946 DataTree->itemWidget(DataTree->selectedItems()[0],
1947 COLUMN_RELOAD_IMAGE)->isEnabled());
1948 contextActions[3]->setEnabled(1);
1949 contextActions[5]->setEnabled(1);
1950 contextActions[6]->setEnabled(1);
1952 if (mSlicerManagers[index]->GetDimension() < 3)
1953 contextActions[4]->setEnabled(0);
1955 contextActions[4]->setEnabled(1);
1957 contextMenu.exec(QCursor::pos());
1959 //------------------------------------------------------------------------------
1961 //------------------------------------------------------------------------------
1962 void vvMainWindow::CloseImage()
1964 CloseImage(DataTree->selectedItems()[0],0);
1966 //------------------------------------------------------------------------------
1968 //------------------------------------------------------------------------------
1969 void vvMainWindow::ReloadImage()
1971 ReloadImage(DataTree->selectedItems()[0],0);
1973 //------------------------------------------------------------------------------
1975 //------------------------------------------------------------------------------
1976 void vvMainWindow::SelectOverlayImage()
1978 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1980 //check if one overlay image is added
1981 for (int child = 0; child < DataTree->topLevelItem(index)->childCount(); child++)
1982 if (DataTree->topLevelItem(index)->child(child)->data(1,Qt::UserRole).toString() == "overlay") {
1983 QString error = "Cannot add more than one compared image\n";
1984 error += "Please remove first ";
1985 error += DataTree->topLevelItem(index)->child(child)->data(COLUMN_IMAGE_NAME,Qt::DisplayRole).toString();
1986 QMessageBox::information(this,tr("Problem adding compared image !"),error);
1990 QString Extensions = EXTENSIONS;
1991 Extensions += ";;All Files (*)";
1992 QStringList files = QFileDialog::getOpenFileNames(this,tr("Load Overlay image"),mInputPathName,Extensions);
1993 if (files.isEmpty())
1996 std::vector<std::string> vecFileNames;
1997 for (int i = 0; i < files.size(); i++) {
1998 vecFileNames.push_back(files[i].toStdString());
2000 AddOverlayImage(index,vecFileNames,vvImageReader::IMAGE);
2002 //------------------------------------------------------------------------------
2004 //------------------------------------------------------------------------------
2005 void vvMainWindow::AddOverlayImage(int index, std::vector<std::string> fileNames, vvImageReader::LoadedImageType type)
2007 QString file(fileNames[0].c_str());
2008 if (QFile::exists(file))
2010 mInputPathName = itksys::SystemTools::GetFilenamePath(file.toStdString()).c_str();
2011 itk::ImageIOBase::Pointer reader = itk::ImageIOFactory::CreateImageIO(
2012 file.toStdString().c_str(), itk::ImageIOFactory::ReadMode);
2013 reader->SetFileName(fileNames[0].c_str());
2014 reader->ReadImageInformation();
2015 std::string component = reader->GetComponentTypeAsString(reader->GetComponentType());
2016 int dimension = reader->GetNumberOfDimensions();
2017 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
2018 vvProgressDialog progress("Opening " + file.toStdString());
2019 qApp->processEvents();
2021 std::string filename = itksys::SystemTools::GetFilenameWithoutExtension(file.toStdString()).c_str();
2022 if (mSlicerManagers[index]->SetOverlay(fileNames,dimension, component,type)) {
2023 //create an item in the tree with good settings
2024 QTreeWidgetItem *item = new QTreeWidgetItem();
2025 item->setData(0,Qt::UserRole,file.toStdString().c_str());
2026 item->setData(1,Qt::UserRole,tr("overlay"));
2027 QFileInfo fileinfo(file); //Do not show the path
2028 item->setData(COLUMN_IMAGE_NAME,Qt::DisplayRole,fileinfo.fileName());
2029 item->setToolTip(COLUMN_IMAGE_NAME, mSlicerManagers[index]->GetListOfAbsoluteFilePathInOneString("overlay").c_str());
2030 qApp->processEvents();
2032 for (int j = 1; j <= 4; j++) {
2033 item->setData(j,Qt::CheckStateRole,DataTree->topLevelItem(index)->data(j,Qt::CheckStateRole));
2036 //Create the buttons for reload and close
2037 qApp->processEvents();
2038 QTreePushButton* cButton = new QTreePushButton;
2039 cButton->setItem(item);
2040 cButton->setColumn(COLUMN_CLOSE_IMAGE);
2041 cButton->setToolTip(tr("close image"));
2042 cButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/exit.png")));
2043 connect(cButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2044 this,SLOT(CloseImage(QTreeWidgetItem*, int)));
2046 QTreePushButton* rButton = new QTreePushButton;
2047 rButton->setItem(item);
2048 rButton->setColumn(COLUMN_RELOAD_IMAGE);
2049 rButton->setToolTip(tr("reload image"));
2050 rButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/rotateright.png")));
2051 connect(rButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2052 this,SLOT(ReloadImage(QTreeWidgetItem*, int)));
2054 DataTree->topLevelItem(index)->setExpanded(1);
2055 DataTree->topLevelItem(index)->addChild(item);
2056 DataTree->setItemWidget(item, COLUMN_CLOSE_IMAGE, cButton);
2057 DataTree->setItemWidget(item, COLUMN_RELOAD_IMAGE, rButton);
2059 //set the id of the image
2060 QString id = DataTree->topLevelItem(index)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString();
2061 item->setData(COLUMN_IMAGE_NAME,Qt::UserRole,id.toStdString().c_str());
2063 qApp->processEvents();
2065 QApplication::restoreOverrideCursor();
2067 // Update the display to update, e.g., the sliders
2068 for(int i=0; i<4; i++)
2069 DisplaySliders(index, i);
2071 QApplication::restoreOverrideCursor();
2072 QString error = "Cannot import the new image.\n";
2073 error += mSlicerManagers[index]->GetLastError().c_str();
2074 QMessageBox::information(this,tr("Problem reading image !"),error);
2076 WindowLevelChanged();
2079 QMessageBox::information(this,tr("Problem reading Overlay !"),"File doesn't exist!");
2081 //------------------------------------------------------------------------------
2084 //------------------------------------------------------------------------------
2085 void vvMainWindow::AddROI(int index, QString file)
2088 // Get slice manager
2092 vvImageReader * mReader = new vvImageReader;
2093 mReader->SetInputFilename(filename.toStdString());
2094 mReader->Update(IMAGE);
2095 if (mReader->GetLastError().size() != 0) {
2096 std::cerr << "Error while reading " << filename.toStdString() << std::endl;
2097 QString error = "Cannot open file \n";
2098 error += mReader->GetLastError().c_str();
2099 QMessageBox::information(this,tr("Reading problem"),error);
2103 vvImage::Pointer roi = mReader->GetOutput();
2105 // Create roi in new tool
2106 vvToolStructureSetManager::AddImage(mCurrentSlicerManager, roi);
2109 //------------------------------------------------------------------------------
2111 //------------------------------------------------------------------------------
2112 void vvMainWindow::SelectFusionImage()
2114 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2116 //check if one fusion image is added
2117 for (int child = 0; child < DataTree->topLevelItem(index)->childCount(); child++)
2118 if ( (DataTree->topLevelItem(index)->child(child)->data(1,Qt::UserRole).toString() == "fusion") ||
2119 (DataTree->topLevelItem(index)->child(child)->data(1,Qt::UserRole).toString() == "fusionSequence") ) {
2120 QString error = "Cannot add more than one fusion image\n";
2121 error += "Please remove first ";
2122 error += DataTree->topLevelItem(index)->child(child)->data(COLUMN_IMAGE_NAME,Qt::DisplayRole).toString();
2123 QMessageBox::information(this,tr("Problem adding fusion image !"),error);
2127 QString Extensions = EXTENSIONS;
2128 Extensions += ";;All Files (*)";
2129 QStringList files = QFileDialog::getOpenFileNames(this,tr("Load Fusion image"),mInputPathName,Extensions);
2130 if (files.isEmpty())
2133 std::vector<std::string> vecFileNames;
2134 for (int i = 0; i < files.size(); i++) {
2135 vecFileNames.push_back(files[i].toStdString());
2137 AddFusionImage(index,vecFileNames,vvImageReader::IMAGE);
2139 //------------------------------------------------------------------------------
2141 //------------------------------------------------------------------------------
2142 void vvMainWindow::ResetTransformationToIdentity()
2144 std::string actorType = DataTree->selectedItems()[0]->data(1,Qt::UserRole).toString().toStdString();
2145 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2146 mSlicerManagers[index]->ResetTransformationToIdentity(actorType);
2149 //------------------------------------------------------------------------------
2151 //------------------------------------------------------------------------------
2152 void vvMainWindow::AddFusionImage(int index, std::vector<std::string> fileNames, vvImageReader::LoadedImageType type)
2154 QString file(fileNames[0].c_str());
2155 if (QFile::exists(file))
2157 mInputPathName = itksys::SystemTools::GetFilenamePath(file.toStdString()).c_str();
2158 itk::ImageIOBase::Pointer reader = itk::ImageIOFactory::CreateImageIO(
2159 file.toStdString().c_str(), itk::ImageIOFactory::ReadMode);
2160 reader->SetFileName(fileNames[0].c_str());
2161 reader->ReadImageInformation();
2162 std::string component = reader->GetComponentTypeAsString(reader->GetComponentType());
2163 int dimension = reader->GetNumberOfDimensions();
2164 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
2165 vvProgressDialog progress("Opening fusion");
2166 qApp->processEvents();
2168 std::string filename = itksys::SystemTools::GetFilenameWithoutExtension(file.toStdString()).c_str();
2169 if (mSlicerManagers[index]->SetFusion(fileNames,dimension, component,type)) {
2170 //create an item in the tree with good settings
2171 QTreeWidgetItem *item = new QTreeWidgetItem();
2172 item->setData(0,Qt::UserRole,file.toStdString().c_str());
2173 item->setData(1,Qt::UserRole,tr("fusion"));
2174 QFileInfo fileinfo(file); //Do not show the path
2175 item->setData(COLUMN_IMAGE_NAME,Qt::DisplayRole,fileinfo.fileName());
2176 item->setToolTip(COLUMN_IMAGE_NAME, mSlicerManagers[index]->GetListOfAbsoluteFilePathInOneString("fusion").c_str());
2177 qApp->processEvents();
2179 for (int j = 1; j <= 4; j++) {
2180 item->setData(j,Qt::CheckStateRole,DataTree->topLevelItem(index)->data(j,Qt::CheckStateRole));
2183 //Create the buttons for reload and close
2184 qApp->processEvents();
2185 QTreePushButton* cButton = new QTreePushButton;
2186 cButton->setItem(item);
2187 cButton->setColumn(COLUMN_CLOSE_IMAGE);
2188 cButton->setToolTip(tr("close image"));
2189 cButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/exit.png")));
2190 connect(cButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2191 this,SLOT(CloseImage(QTreeWidgetItem*, int)));
2193 QTreePushButton* rButton = new QTreePushButton;
2194 rButton->setItem(item);
2195 rButton->setColumn(COLUMN_RELOAD_IMAGE);
2196 rButton->setToolTip(tr("reload image"));
2197 rButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/rotateright.png")));
2198 connect(rButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2199 this,SLOT(ReloadImage(QTreeWidgetItem*, int)));
2201 DataTree->topLevelItem(index)->setExpanded(1);
2202 DataTree->topLevelItem(index)->addChild(item);
2203 DataTree->setItemWidget(item, COLUMN_CLOSE_IMAGE, cButton);
2204 DataTree->setItemWidget(item, COLUMN_RELOAD_IMAGE, rButton);
2206 //set the id of the image
2207 QString id = DataTree->topLevelItem(index)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString();
2208 item->setData(COLUMN_IMAGE_NAME,Qt::UserRole,id.toStdString().c_str());
2210 qApp->processEvents();
2212 QApplication::restoreOverrideCursor();
2214 // Update the display to update, e.g., the sliders
2215 for(int i=0; i<4; i++)
2216 DisplaySliders(index, i);
2218 QApplication::restoreOverrideCursor();
2219 QString error = "Cannot import the new image.\n";
2220 error += mSlicerManagers[index]->GetLastError().c_str();
2221 QMessageBox::information(this,tr("Problem reading image !"),error);
2223 WindowLevelChanged();
2226 QMessageBox::information(this,tr("Problem reading Fusion !"),"File doesn't exist!");
2228 //------------------------------------------------------------------------------
2229 //------------------------------------------------------------------------------
2230 void vvMainWindow::AddLandmarks(int index, std::vector<std::string> files)
2232 if (!landmarksPanel->LoadFromFile(files))
2233 QMessageBox::information(this,tr("Problem reading Landmarks !"),"File doesn't exist!");
2235 landmarksPanel->SetCurrentPath(mInputPathName.toStdString());
2236 landmarksPanel->SetCurrentImage(mSlicerManagers[index]->GetFileName().c_str());
2239 //------------------------------------------------------------------------------
2240 void vvMainWindow::OpenField()
2242 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2243 //check if a vector field has already been added
2244 for (int child = 0; child < DataTree->topLevelItem(index)->childCount(); child++)
2245 if (DataTree->topLevelItem(index)->child(child)->data(1,Qt::UserRole).toString() == "vector") {
2246 QString error = "Cannot add more than one vector field\n";
2247 error += "Please remove first ";
2248 error += DataTree->topLevelItem(index)->child(child)->data(COLUMN_IMAGE_NAME,Qt::DisplayRole).toString();
2249 QMessageBox::information(this,tr("Problem adding vector field!"),error);
2253 QString Extensions = "Images ( *.mhd *.mha *.vf *.nii *.nrrd *.nhdr)";
2254 // Extensions += ";;Images ( *.mha)";
2255 // Extensions += ";;VF Images ( *.vf)";
2256 // Extensions += ";;nii Images ( *.nii)";
2257 // Extensions += ";;nrrd Images ( *.nrrd)";
2258 // Extensions += ";;nhdr Images ( *.nhdr)";
2259 Extensions += ";;All Files (*)";
2260 QString file = QFileDialog::getOpenFileName(this,tr("Load deformation field"),mInputPathName,Extensions);
2261 if (!file.isEmpty())
2262 AddField(file,index);
2264 //------------------------------------------------------------------------------
2267 //------------------------------------------------------------------------------
2268 void vvMainWindow::AddFieldEntry(QString filename,int index,bool from_disk)
2270 //create an item in the tree with good settings
2271 QTreeWidgetItem *item = new QTreeWidgetItem();
2272 item->setData(0,Qt::UserRole,filename.toStdString().c_str());
2273 item->setData(1,Qt::UserRole,tr("vector"));
2274 QFileInfo fileinfo(filename); //Do not show the path
2275 item->setData(COLUMN_IMAGE_NAME,Qt::DisplayRole,fileinfo.fileName());
2276 item->setToolTip(COLUMN_IMAGE_NAME, mSlicerManagers[index]->GetListOfAbsoluteFilePathInOneString("vector").c_str());
2277 qApp->processEvents();
2279 for (int j = 1; j <= 4; j++) {
2280 item->setData(j,Qt::CheckStateRole,DataTree->topLevelItem(index)->data(j,Qt::CheckStateRole));
2283 //Create the buttons for reload and close
2284 qApp->processEvents();
2285 QTreePushButton* cButton = new QTreePushButton;
2286 cButton->setItem(item);
2287 cButton->setColumn(COLUMN_CLOSE_IMAGE);
2288 cButton->setToolTip(tr("close vector field"));
2289 cButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/exit.png")));
2290 connect(cButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2291 this,SLOT(CloseImage(QTreeWidgetItem*, int)));
2293 QTreePushButton* rButton = new QTreePushButton;
2294 rButton->setItem(item);
2295 rButton->setColumn(COLUMN_RELOAD_IMAGE);
2296 rButton->setToolTip(tr("reload vector field"));
2297 rButton->setEnabled(from_disk);
2298 rButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/rotateright.png")));
2299 connect(rButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2300 this,SLOT(ReloadImage(QTreeWidgetItem*, int)));
2302 DataTree->topLevelItem(index)->setExpanded(1);
2303 DataTree->topLevelItem(index)->addChild(item);
2304 DataTree->setItemWidget(item, COLUMN_RELOAD_IMAGE, rButton);
2305 DataTree->setItemWidget(item, COLUMN_CLOSE_IMAGE, cButton);
2307 //set the id of the image
2308 QString id = DataTree->topLevelItem(index)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString();
2309 item->setData(COLUMN_IMAGE_NAME,Qt::UserRole,id.toStdString().c_str());
2311 qApp->processEvents();
2313 QApplication::restoreOverrideCursor();
2315 //------------------------------------------------------------------------------
2318 //------------------------------------------------------------------------------
2319 void vvMainWindow::AddField(vvImage::Pointer vf,QString file,int index)
2321 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
2322 vvSlicerManager* imageManager = mSlicerManagers[index];
2323 if (imageManager->SetVF(vf,file.toStdString())) {
2324 AddFieldEntry(file,index,false);
2326 QString error = "Cannot import the vector field for this image.\n";
2327 error += imageManager->GetLastError().c_str();
2328 QMessageBox::information(this,tr("Problem reading VF !"),error);
2330 QApplication::restoreOverrideCursor();
2332 //------------------------------------------------------------------------------
2335 //------------------------------------------------------------------------------
2336 void vvMainWindow::AddField(QString file,int index)
2338 if (QFile::exists(file)) {
2339 mInputPathName = itksys::SystemTools::GetFilenamePath(file.toStdString()).c_str();
2341 //init the progress events
2342 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
2343 vvProgressDialog progress("Opening " + file.toStdString());
2344 qApp->processEvents();
2346 //read the vector and put it in the current mSlicerManager
2347 vvSlicerManager* imageManager = mSlicerManagers[index];
2348 qApp->processEvents();
2350 std::string filename = itksys::SystemTools::GetFilenameWithoutExtension(file.toStdString()).c_str();
2351 if (imageManager->SetVF(file.toStdString())) {
2352 imageManager->Render();
2353 AddFieldEntry(file,index,true);
2355 QApplication::restoreOverrideCursor();
2356 QString error = "Cannot import the vector field for this image.\n";
2357 error += imageManager->GetLastError().c_str();
2358 QMessageBox::information(this,tr("Problem reading VF !"),error);
2361 QMessageBox::information(this,tr("Problem reading VF !"),"File doesn't exist!");
2364 //------------------------------------------------------------------------------
2367 //------------------------------------------------------------------------------
2368 void vvMainWindow::SetVFProperty(int subsampling, int scale, int log, int width, double r, double g, double b)
2370 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2371 if (mSlicerManagers[index]->GetSlicer(0)->GetVF()) {
2372 for (int i = 0; i < 4; i++) {
2373 mSlicerManagers[index]->GetSlicer(i)->SetVFSubSampling(subsampling);
2374 mSlicerManagers[index]->GetSlicer(i)->SetVFScale(scale);
2375 mSlicerManagers[index]->GetSlicer(i)->SetVFWidth(width);
2376 mSlicerManagers[index]->GetSlicer(i)->SetVFColor(r,g,b);
2378 mSlicerManagers[index]->GetSlicer(i)->SetVFLog(1);
2380 mSlicerManagers[index]->GetSlicer(i)->SetVFLog(0);
2384 //------------------------------------------------------------------------------
2387 //------------------------------------------------------------------------------
2388 void vvMainWindow::SetOverlayProperty(int color, int linked, double window, double level)
2390 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2391 if (mSlicerManagers[index]->GetSlicer(0)->GetOverlay()) {
2392 mSlicerManagers[index]->SetOverlayColor(color);
2393 mSlicerManagers[index]->SetColorMap(0);
2394 mSlicerManagers[index]->SetLinkOverlayWindowLevel(linked);
2395 mSlicerManagers[index]->SetOverlayColorWindow(window);
2396 mSlicerManagers[index]->SetOverlayColorLevel(level);
2397 mSlicerManagers[index]->Render();
2400 //------------------------------------------------------------------------------
2402 //------------------------------------------------------------------------------
2403 void vvMainWindow::SetFusionProperty(int opacity, int thresOpacity, int colormap,double window, double level, bool showLegend)
2405 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2406 if (mSlicerManagers[index]->GetSlicer(0)->GetFusion()) {
2407 mSlicerManagers[index]->SetFusionColorMap(colormap);
2408 mSlicerManagers[index]->SetFusionOpacity(opacity);
2409 mSlicerManagers[index]->SetFusionThresholdOpacity(thresOpacity);
2410 mSlicerManagers[index]->SetFusionWindow(window);
2411 mSlicerManagers[index]->SetFusionLevel(level);
2412 mSlicerManagers[index]->SetFusionShowLegend(showLegend);
2413 mSlicerManagers[index]->SetColorMap(0);
2414 mSlicerManagers[index]->Render();
2417 //------------------------------------------------------------------------------
2420 //------------------------------------------------------------------------------
2421 void vvMainWindow::SelectFusionSequence()
2423 //get the index of the slicer manager of the main sequence (CT)
2424 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2425 //check if one overlay image is already associated
2426 for (int child = 0; child < DataTree->topLevelItem(index)->childCount(); child++)
2427 if ( (DataTree->topLevelItem(index)->child(child)->data(1,Qt::UserRole).toString() == "fusion") ||
2428 (DataTree->topLevelItem(index)->child(child)->data(1,Qt::UserRole).toString() == "fusionSequence") ) {
2429 QString error = "Cannot add more than one compared image\n";
2430 error += "Please remove first ";
2431 error += DataTree->topLevelItem(index)->child(child)->data(COLUMN_IMAGE_NAME,Qt::DisplayRole).toString();
2432 QMessageBox::information(this,tr("Problem adding compared image !"),error);
2436 QString Extensions = EXTENSIONS;
2437 Extensions += ";;All Files (*)";
2438 QStringList files = QFileDialog::getOpenFileNames(this,tr("Load Overlay image sequence"),mInputPathName,Extensions);
2439 if (files.isEmpty())
2442 std::vector<std::string> vecFileNames;
2443 for (int i = 0; i < files.size(); i++) {
2444 vecFileNames.push_back(files[i].toStdString());
2447 //associate the secondary sequence (US) to the main one
2448 AddFusionSequence(index,vecFileNames,vvImageReader::MERGEDWITHTIME);
2450 //------------------------------------------------------------------------------
2453 //------------------------------------------------------------------------------
2454 void vvMainWindow::SelectFusionSequenceCorrespondances() {
2456 //make sure the index is right?
2457 //in the end, I should attach the temporal data to the right sequence!
2458 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2459 //in case the other sequence got selected, make sure we select the primary sequence
2460 if ( (!mSlicerManagers[index]->GetSlicer(0)->GetFusion()) && mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()>=0 ) {
2461 index = mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager();
2464 //open a dialog box to find a file
2465 //QString Extensions = EXTENSIONS;
2466 QString Extensions = ";;All Files (*)";
2467 QString fileName = QFileDialog::getOpenFileName(this,tr("Load respiratory signal for fused sequence"),mInputPathName,Extensions);
2468 if (fileName.isNull())
2471 //read it as a vector of values
2472 vnl_vector<double> tmpVect;
2475 file.open(fileName.toStdString().c_str());
2476 tmpVect.read_ascii(file);
2479 //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
2480 bool signalOK = true;
2481 unsigned nbFrameMain = mSlicerManagers[index]->GetImage()->GetTransform().size();
2482 unsigned nbFrameSecondary = mSlicerManagers[index]->GetFusionSequenceNbFrames();
2483 std::cout<<"nbFrameMain = "<<nbFrameMain<<", nbFrameSecondary= "<<nbFrameSecondary<<", signal size: "<<tmpVect.size()<<std::endl;
2484 std::vector<unsigned> temporalCorrespondances;
2485 if ( tmpVect.size() == nbFrameMain + nbFrameSecondary ) {
2486 for (unsigned i=0 ; i<tmpVect.size() ; i++) {
2487 if (i<nbFrameMain) { //first part of the file: i -> index in secondary seq.
2488 if ( tmpVect(i)<nbFrameSecondary ) temporalCorrespondances.push_back(tmpVect(i));
2489 else { signalOK=false; break; } //pointing outside the secondary sequence...
2491 else { //first part of the file -> index in secondary seq.
2492 if ( tmpVect(i)<nbFrameMain ) temporalCorrespondances.push_back(tmpVect(i));
2493 else { signalOK=false; break; } //pointing outside the secondary sequence...
2497 else {signalOK=false;}
2498 if (!signalOK) {//else, send a message to signal the failure...
2499 QString error = "The provided temporal correspondances is invalid - check tooltip.\n";
2500 error += "Ignoring file: " + fileName;
2501 QMessageBox::information(this,tr("Problem adding temporal correspondances!"),error);
2505 //for convenience, associate this sequence to both the current slicer manager, and to the linked one
2506 mSlicerManagers[index]->SetFusionSequenceCorrespondances(temporalCorrespondances);
2507 mSlicerManagers[ mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager() ]->SetFusionSequenceCorrespondances(temporalCorrespondances);
2508 overlayPanel->enableFusionSequenceTemporalSync();
2512 //------------------------------------------------------------------------------
2515 //------------------------------------------------------------------------------
2516 //when this function is called index is the slicer manager index corresponding to the main sequence (CT)
2517 //the files behind fileNames points to the data for the secondary sequence
2518 void vvMainWindow::AddFusionSequence(int index, std::vector<std::string> fileNames, vvImageReader::LoadedImageType type)
2520 QString file(fileNames[0].c_str());
2521 if (QFile::exists(file))
2523 mInputPathName = itksys::SystemTools::GetFilenamePath(file.toStdString()).c_str();
2524 itk::ImageIOBase::Pointer reader = itk::ImageIOFactory::CreateImageIO(
2525 file.toStdString().c_str(), itk::ImageIOFactory::ReadMode);
2526 std::sort (fileNames.begin(), fileNames.end());//make sure the files are sorted.
2527 reader->SetFileName(fileNames[0].c_str());
2528 reader->ReadImageInformation();
2529 std::string component = reader->GetComponentTypeAsString(reader->GetComponentType());
2530 int dimension = reader->GetNumberOfDimensions();
2531 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
2532 vvProgressDialog progress("Opening " + file.toStdString());
2533 qApp->processEvents();
2535 std::string filename = itksys::SystemTools::GetFilenameWithoutExtension(file.toStdString()).c_str();
2537 if (mSlicerManagers[index]->SetFusionSequence(fileNames,dimension, component,type)) {
2538 //create an item in the tree with good settings
2539 QTreeWidgetItem *item = new QTreeWidgetItem();
2540 item->setData(0,Qt::UserRole,file.toStdString().c_str());
2541 item->setData(1,Qt::UserRole,tr("fusionSequence"));
2543 QFileInfo fileinfo(file); //Do not show the path
2544 item->setData(COLUMN_IMAGE_NAME,Qt::DisplayRole,fileinfo.fileName());
2545 item->setToolTip(COLUMN_IMAGE_NAME, mSlicerManagers[index]->GetListOfAbsoluteFilePathInOneString("fusionSequence").c_str());
2546 qApp->processEvents();
2547 for (int j = 1; j <= 4; j++) {
2548 item->setData(j,Qt::CheckStateRole,DataTree->topLevelItem(index)->data(j,Qt::CheckStateRole));
2551 //Create the buttons for reload and close
2552 qApp->processEvents();
2553 QTreePushButton* cButton = new QTreePushButton;
2554 cButton->setItem(item);
2555 cButton->setColumn(COLUMN_CLOSE_IMAGE);
2556 cButton->setToolTip(tr("close image"));
2557 cButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/exit.png")));
2558 connect(cButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2559 this,SLOT(CloseImage(QTreeWidgetItem*, int)));
2561 QTreePushButton* rButton = new QTreePushButton;
2562 rButton->setItem(item);
2563 rButton->setColumn(COLUMN_RELOAD_IMAGE);
2564 rButton->setToolTip(tr("reload image"));
2565 rButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/rotateright.png")));
2566 connect(rButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2567 this,SLOT(ReloadImage(QTreeWidgetItem*, int)));
2569 DataTree->topLevelItem(index)->setExpanded(1);
2570 DataTree->topLevelItem(index)->addChild(item);
2571 DataTree->setItemWidget(item, COLUMN_CLOSE_IMAGE, cButton);
2572 DataTree->setItemWidget(item, COLUMN_RELOAD_IMAGE, rButton);
2574 //store the original transform matrix
2575 int indexParent = GetSlicerIndexFromItem( DataTree->topLevelItem(index) );
2576 mSlicerManagers[indexParent]->SetFusionSequenceMainTransformMatrix( mSlicerManagers[indexParent]->GetSlicer(0)->GetImage()->GetTransform()[0]->GetMatrix() );
2578 //set the id of the image
2579 QString id = DataTree->topLevelItem(index)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString();
2580 item->setData(COLUMN_IMAGE_NAME,Qt::UserRole,id.toStdString().c_str());
2582 qApp->processEvents();
2584 //ImageInfoChanged();
2586 QApplication::restoreOverrideCursor();
2587 // Update the display to update, e.g., the sliders
2588 for(int i=0; i<4; i++)
2589 DisplaySliders(index, i);
2592 //This loads the secondary sequence (US) as an independent sequence
2593 LoadImages(fileNames, type);
2594 //reset the transforms to identity
2595 //FIX -- and set the thickness of the US slices to a large value (necessary for visualization purposes...)
2596 double sp_x, sp_y, sp_z;
2597 mSlicerManagers[indexParent]->GetImage()->GetVTKImages()[0]->GetSpacing(sp_x, sp_y, sp_z);
2598 sp_z = std::max(sp_x, std::max(sp_y, sp_z)) + 0.5; //
2599 for (unsigned i=0 ; i<mSlicerManagers.back()->GetImage()->GetTransform().size() ; i++) {
2600 sp_x = mSlicerManagers.back()->GetImage()->GetVTKImages()[i]->GetSpacing()[0];
2601 sp_y = mSlicerManagers.back()->GetImage()->GetVTKImages()[i]->GetSpacing()[1];
2602 mSlicerManagers.back()->GetImage()->GetVTKImages()[i]->SetSpacing( sp_x, sp_y, sp_z);
2603 mSlicerManagers.back()->GetImage()->GetTransform()[i]->Identity();
2604 mSlicerManagers.back()->GetImage()->GetTransform()[i]->Update();
2607 //automatically link both images...
2608 AddLink(mSlicerManagers[indexParent]->GetId().c_str(), mSlicerManagers.back()->GetId().c_str(), false);
2610 //tie the main and secondary sequences by raising flags and informing each another of their respective SlicerManager indices
2611 mSlicerManagers[indexParent]->SetFusionSequenceIndexOfLinkedManager(mSlicerManagers.size()-1);
2612 mSlicerManagers[indexParent]->SetFusionSequenceInvolvmentCode(0); //main sequence
2613 mSlicerManagers.back()->SetFusionSequenceIndexOfLinkedManager(indexParent);
2614 mSlicerManagers.back()->SetFusionSequenceInvolvmentCode(1); //secondary sequence
2615 for (unsigned i=0 ; i<4 ; i++) {
2616 mSlicerManagers.back()->GetSlicer(i)->SetFusionSequenceCode(1); //flag the slicers of the secondary sequence
2620 QApplication::restoreOverrideCursor();
2621 QString error = "Cannot import the new image.\n";
2622 error += mSlicerManagers[index]->GetLastError().c_str();
2623 QMessageBox::information(this,tr("Problem reading image !"),error);
2625 WindowLevelChanged();
2626 ImageInfoChanged(); //this internally calls WindowLevelChanged...
2629 QMessageBox::information(this,tr("Problem reading fusion sequence !"),"File doesn't exist!");
2634 //------------------------------------------------------------------------------
2637 //------------------------------------------------------------------------------
2638 //fusionSequenceFrameIndex and fusionSequenceNbFrames are relative to the secondary sequence (US)
2639 void vvMainWindow::SetFusionSequenceProperty(int fusionSequenceFrameIndex, bool spatialSyncFlag, unsigned int fusionSequenceNbFrames, bool temporalSyncFlag)
2641 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2643 if (!mSlicerManagers[index]->IsInvolvedInFusionSequence()) return;
2645 //check if the focus moved to the linked sequence, and in this case, select the master sequence instead
2646 if (!mSlicerManagers[index]->IsMainSequenceOfFusionSequence()) {
2647 index = mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager();
2649 int secondaryIndex = mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager();
2650 if (secondaryIndex==-1) return; //this should never happen
2651 if ( (!mSlicerManagers[index]->IsMainSequenceOfFusionSequence()) ||
2652 (!mSlicerManagers[secondaryIndex]->IsSecondarySequenceOfFusionSequence()) )
2653 {return;} //this should never happen, raise an exception?
2655 if (mSlicerManagers[index]->GetSlicer(0)->GetFusion()) {
2657 //First, if the spatialSync button is unchecked, then reposition the parent sequence (CT) in its original coordinate frame
2658 if ( (!spatialSyncFlag) && (mSlicerManagers[index]->GetFusionSequenceSpatialSyncFlag()) ) {
2659 for ( unsigned i=0 ; i<mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform().size() ; i++ ) {
2660 mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform()[i]->SetMatrix( mSlicerManagers[index]->GetFusionSequenceMainTransformMatrix() );
2661 mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform()[i]->Update();
2664 for (int i=0; i<mSlicerManagers[index]->GetNumberOfSlicers(); i++) {
2665 mSlicerManagers[index]->GetSlicer(i)->ForceUpdateDisplayExtent();
2666 mSlicerManagers[index]->GetSlicer(i)->Render();
2670 //then, update the property values in the slicer manager
2671 mSlicerManagers[index]->SetFusionSequenceLength(fusionSequenceNbFrames);
2672 mSlicerManagers[index]->SetFusionSequenceSpatialSyncFlag(spatialSyncFlag);
2673 mSlicerManagers[index]->SetFusionSequenceTemporalSyncFlag(temporalSyncFlag);
2674 mSlicerManagers[index]->SetFusionSequenceFrameIndex(fusionSequenceFrameIndex);
2676 //select the right frame of the US sequence
2677 mSlicerManagers[index]->SetFusionSequenceTSlice(fusionSequenceFrameIndex); //here, I should only update the overlayed sequence
2678 mSlicerManagers[secondaryIndex]->SetTSlice(fusionSequenceFrameIndex, false); //this should update the secondary sequence (individual version)
2680 //update the horizontal sliders of the main window
2681 overlayPanel->updateFusionSequenceSliderValueFromWindow(fusionSequenceFrameIndex, false);
2683 if (spatialSyncFlag) { //reslice the CT
2685 if (temporalSyncFlag) { //do the temporal synchronisation
2686 int mainSequenceFrameIndex=0;
2687 //estimate the TSlice to set to the CT
2688 unsigned nbFramesMain = mSlicerManagers[index]->GetImage()->GetTransform().size();
2689 mainSequenceFrameIndex = mSlicerManagers[index]->GetFusionSequenceCorrespondances()[ nbFramesMain + fusionSequenceFrameIndex];
2691 mSlicerManagers[index]->SetTSlice(mainSequenceFrameIndex, false);
2692 //warning, there is a loopback, and modification of the TSlice in main sequence forces an update of the TSlice in secondary, etc...
2696 //Set the transform matrix of the parent sequence (typically CT / 4DCT)
2697 vtkSmartPointer<vtkMatrix4x4> tmpMat = vtkSmartPointer<vtkMatrix4x4>::New();
2698 vtkMatrix4x4::Invert( mSlicerManagers[index]->GetFusionSequenceInitialTransformMatrixAtFrame(fusionSequenceFrameIndex), tmpMat );
2699 for ( unsigned i=0 ; i<mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform().size() ; i++ ) {
2700 mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform()[i]->SetMatrix( mSlicerManagers[index]->GetFusionSequenceMainTransformMatrix() );
2701 mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform()[i]->PreMultiply();
2702 mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform()[i]->Concatenate( tmpMat );
2703 mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform()[i]->Update();
2706 for (int i=0; i<mSlicerManagers[index]->GetNumberOfSlicers(); i++) {
2707 mSlicerManagers[index]->GetSlicer(i)->ForceUpdateDisplayExtent();
2708 mSlicerManagers[index]->GetSlicer(i)->Render();
2715 //------------------------------------------------------------------------------
2718 //------------------------------------------------------------------------------
2719 void vvMainWindow::SaveAs()
2721 if (DataTree->selectedItems()[0]->data(1,Qt::UserRole).toString() == "vector") {
2722 QMessageBox::warning(this,tr("Unsupported type"),tr("Sorry, saving a vector field is unsupported for the moment"));
2726 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2727 int dimension = mSlicerManagers[index]->GetDimension();
2728 QStringList OutputListeFormat;
2729 OutputListeFormat.clear();
2730 if (dimension == 1) {
2731 OutputListeFormat.push_back(".mhd");
2732 OutputListeFormat.push_back(".mha");
2734 if (dimension == 2) {
2735 OutputListeFormat.push_back(".bmp");
2736 OutputListeFormat.push_back(".png");
2737 OutputListeFormat.push_back(".jpeg");
2738 OutputListeFormat.push_back(".tif");
2739 OutputListeFormat.push_back(".mhd");
2740 OutputListeFormat.push_back(".mha");
2741 OutputListeFormat.push_back(".hdr");
2742 OutputListeFormat.push_back(".vox");
2743 } else if (dimension == 3) {
2744 OutputListeFormat.push_back(".mhd");
2745 OutputListeFormat.push_back(".mha");
2746 OutputListeFormat.push_back(".nii");
2747 OutputListeFormat.push_back(".nrrd");
2748 OutputListeFormat.push_back(".nhdr");
2749 OutputListeFormat.push_back(".hdr");
2750 OutputListeFormat.push_back(".vox");
2751 } else if (dimension == 4) {
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");
2758 QString Extensions = "AllFiles(*.*)";
2759 for (int i = 0; i < OutputListeFormat.count(); i++) {
2760 Extensions += ";;Images ( *";
2761 Extensions += OutputListeFormat[i];
2764 QString fileName = QFileDialog::getSaveFileName(this,
2766 mSlicerManagers[index]->GetFileName().c_str(),
2768 if (!fileName.isEmpty()) {
2769 std::string fileformat = itksys::SystemTools::GetFilenameLastExtension(fileName.toStdString());
2770 if (OutputListeFormat.contains(
2771 fileformat.c_str())) {
2772 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
2773 std::string action = "Saving";
2774 vvProgressDialog progress("Saving "+fileName.toStdString());
2775 qApp->processEvents();
2776 vvImageWriter::Pointer writer = vvImageWriter::New();
2777 writer->SetOutputFileName(fileName.toStdString());
2778 writer->SetInput(mSlicerManagers[index]->GetImage());
2780 // Check on transform and prompt user
2781 writer->SetSaveTransform(false);
2783 for(int i=0; i<4; i++)
2784 for(int j=0; j<4; j++) {
2785 // TODO SR and BP: check on the list of transforms and not the first only
2786 double elt = mSlicerManagers[index]->GetImage()->GetTransform()[0]->GetMatrix()->GetElement(i,j);
2793 QString warning = "The image has an associated linear transform. Do you want to save it along?";
2794 QMessageBox msgBox(QMessageBox::Warning, tr("Save transform"), warning, 0, this);
2795 msgBox.addButton(tr("Yes"), QMessageBox::AcceptRole);
2796 msgBox.addButton(tr("No"), QMessageBox::RejectRole);
2797 if (msgBox.exec() == QMessageBox::AcceptRole)
2798 writer->SetSaveTransform(true);
2802 QApplication::restoreOverrideCursor();
2803 if (writer->GetLastError().size()) {
2804 QString error = "Saving did not succeed\n";
2805 error += writer->GetLastError().c_str();
2806 QMessageBox::information(this,tr("Saving Problem"),error);
2810 QString error = fileformat.c_str();
2811 if (error.isEmpty())
2812 error += "no file format specified !";
2814 error += " format unknown !!!\n";
2815 QMessageBox::information(this,tr("Saving Problem"),error);
2820 //------------------------------------------------------------------------------
2822 //------------------------------------------------------------------------------
2823 void vvMainWindow::SaveCurrentState()
2825 QString Extensions = "XML Files(*.xml)";
2826 QString fileName = QFileDialog::getSaveFileName(this,
2827 tr("Save Current Window State"),
2831 SaveCurrentStateAs(fileName.toStdString());
2833 //------------------------------------------------------------------------------
2835 //------------------------------------------------------------------------------
2836 void vvMainWindow::SaveCurrentStateAs(const std::string& stateFile)
2838 vvSaveState save_state;
2839 save_state.Run(this, stateFile);
2842 //------------------------------------------------------------------------------
2843 void vvMainWindow::ReadSavedState()
2845 QString Extensions = "XML Files(*.xml)";
2846 QString fileName = QFileDialog::getOpenFileName(this,
2847 tr("Load Window State"),
2851 ReadSavedStateFile(fileName.toStdString());
2853 //------------------------------------------------------------------------------
2855 //------------------------------------------------------------------------------
2856 void vvMainWindow::ReadSavedStateFile(const std::string& stateFile)
2858 vvReadState read_state;
2859 read_state.Run(this, stateFile);
2861 //------------------------------------------------------------------------------
2863 //------------------------------------------------------------------------------
2864 void vvMainWindow::LinkAllImages()
2866 linkPanel->linkAll();
2869 //------------------------------------------------------------------------------
2870 void vvMainWindow::AddLink(QString image1,QString image2,bool fromPanel)
2873 // delegate to linkPanel if call came from elsewhere...
2874 linkPanel->addLinkFromIds(image1, image2);
2878 unsigned int sm1 = 0;
2879 unsigned int sm2 = 0;
2881 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
2882 if (image1.toStdString() == mSlicerManagers[i]->GetId()) {
2883 mSlicerManagers[i]->AddLink(image2.toStdString());
2886 if (image2.toStdString() == mSlicerManagers[i]->GetId()) {
2887 mSlicerManagers[i]->AddLink(image1.toStdString());
2892 if (linkPanel->isLinkAll()) {
2893 emit UpdateLinkedNavigation(mSlicerManagers[sm1]->GetId(), mSlicerManagers[mCurrentPickedImageIndex], mSlicerManagers[mCurrentPickedImageIndex]->GetSlicer(0));
2894 emit UpdateLinkedNavigation(mSlicerManagers[sm2]->GetId(), mSlicerManagers[mCurrentPickedImageIndex], mSlicerManagers[mCurrentPickedImageIndex]->GetSlicer(0));
2896 emit UpdateLinkedNavigation(mSlicerManagers[sm2]->GetId(), mSlicerManagers[sm1], mSlicerManagers[sm1]->GetSlicer(0));
2900 //------------------------------------------------------------------------------
2903 //------------------------------------------------------------------------------
2904 void vvMainWindow::RemoveLink(QString image1,QString image2)
2906 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
2907 if (image1.toStdString() == mSlicerManagers[i]->GetId()) {
2908 mSlicerManagers[i]->RemoveLink(image2.toStdString());
2910 if (image2.toStdString() == mSlicerManagers[i]->GetId()) {
2911 mSlicerManagers[i]->RemoveLink(image1.toStdString());
2915 //------------------------------------------------------------------------------
2917 //------------------------------------------------------------------------------
2918 void vvMainWindow::ChangeImageWithIndexOffset(vvSlicerManager *sm, int slicer, int offset)
2920 if(mSlicerManagers.size()==1)
2924 while(sm != mSlicerManagers[index])
2926 index = (index+offset+mSlicerManagers.size()) % mSlicerManagers.size();
2928 QTreeWidgetItem* item = GetItemFromSlicerManager(mSlicerManagers[index]);
2929 item->setData(slicer+1,Qt::CheckStateRole,2); //change checkbox
2930 CurrentImageChanged(mSlicerManagers[index]->GetId()); //select new image
2931 DisplayChanged(item,slicer+1);
2933 //------------------------------------------------------------------------------
2934 void vvMainWindow::HorizontalSliderMoved(int value,int column, int slicer_index)
2936 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
2937 if (DataTree->topLevelItem(i)->data(column,Qt::CheckStateRole).toInt() > 1) {
2938 //i is the SlicerManager that is in charge of this slicer.
2939 if (mSlicerManagers[i]->IsInvolvedInFusionSequence()) {
2940 //if the slicerManager is involved in a fusionSequence as the secondary sequence, then update the slider position in the overlay panel and everything accordingly
2941 if (mSlicerManagers[i]->IsSecondarySequenceOfFusionSequence()) {
2942 overlayPanel->updateFusionSequenceSliderValueFromWindow(value, true);
2944 else { //if this is the primary sequence that has been modified
2945 if (mSlicerManagers[i]->GetFusionSequenceTemporalSyncFlag()) {
2946 //WARNING: for some obscure reason, there are problems when accessing mSlicerManagers[mSlicerManagers[i]->GetFusionSequenceIndexOfLinkedManager()]->GetFusionSequenceFrameIndex();
2948 int estimatedValue=0;
2949 //estimate a corresponding time index for the secondary (US) sequence, and update it accordingly.
2950 estimatedValue = mSlicerManagers[i]->GetFusionSequenceCorrespondances()[ value ];
2951 //TODO: at the moment, there is a loop in TSlice modifications
2952 //modifying sequence 1 causes seq 2 to update, which in turns update seq1...
2953 //I disable control on seq1 at the moment.
2954 //overlayPanel->updateFusionSequenceSliderValueFromWindow(estimatedValue, true);
2959 for (int j = 0; j < 4; j++) {
2960 mSlicerManagers[i]->SetTSliceInSlicer(value,j);
2962 mSlicerManagers[i]->GetSlicer(slicer_index)->Render();
2967 //------------------------------------------------------------------------------
2970 //------------------------------------------------------------------------------
2971 void vvMainWindow::NOHorizontalSliderMoved()
2973 // if (mCurrentTime == NOHorizontalSlider->value()) return;
2974 HorizontalSliderMoved(NOHorizontalSlider->value(),COLUMN_UL_VIEW,0);
2975 // mCurrentTime = NOHorizontalSlider->value();
2977 //------------------------------------------------------------------------------
2980 //------------------------------------------------------------------------------
2981 void vvMainWindow::NEHorizontalSliderMoved()
2983 // if (mCurrentTime == NEHorizontalSlider->value()) return;
2984 HorizontalSliderMoved(NEHorizontalSlider->value(),COLUMN_UR_VIEW,1);
2985 // mCurrentTime = NEHorizontalSlider->value();
2987 //------------------------------------------------------------------------------
2990 //------------------------------------------------------------------------------
2991 void vvMainWindow::SOHorizontalSliderMoved()
2993 // if (mCurrentTime == SOHorizontalSlider->value()) return;
2994 HorizontalSliderMoved(SOHorizontalSlider->value(),COLUMN_DL_VIEW,2);
2995 // mCurrentTime = SOHorizontalSlider->value();
2997 //------------------------------------------------------------------------------
3000 //------------------------------------------------------------------------------
3001 void vvMainWindow::SEHorizontalSliderMoved()
3003 // if (mCurrentTime == SEHorizontalSlider->value()) return;
3004 HorizontalSliderMoved(SEHorizontalSlider->value(),COLUMN_DR_VIEW,3);
3005 // mCurrentTime = SEHorizontalSlider->value();
3007 //------------------------------------------------------------------------------
3009 //------------------------------------------------------------------------------
3010 void vvMainWindow::NOVerticalSliderChanged()
3012 static int value=-1;
3013 if (value == NOVerticalSlider->value()) return;
3014 else value = NOVerticalSlider->value();
3015 // int value = NOVerticalSlider->value();
3016 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
3017 if (DataTree->topLevelItem(i)->data(COLUMN_UL_VIEW,Qt::CheckStateRole).toInt() > 1) {
3018 if (mSlicerManagers[i]->GetSlicer(0)->GetSlice() != value) {
3019 mSlicerManagers[i]->GetSlicer(0)->SetSlice(value);
3020 mSlicerManagers[i]->VerticalSliderHasChanged(0, value);
3022 // If nor Update/Render -> slider not work
3023 // only render = ok navigation, but for contour Update needed but slower ?
3025 mSlicerManagers[i]->UpdateSlice(0); // <-- DS add this. Not too much update ? YES. but needed for ImageContour ...
3026 //mSlicerManagers[i]->GetSlicer(0)->Render(); // <-- DS add this, needed for contour, seems ok ? not too slow ?
3032 //------------------------------------------------------------------------------
3035 //------------------------------------------------------------------------------
3036 void vvMainWindow::NEVerticalSliderChanged()
3038 static int value=-1;
3039 if (value == NEVerticalSlider->value()) return;
3040 else value = NEVerticalSlider->value();
3041 // int value = NEVerticalSlider->value();
3042 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
3043 if (DataTree->topLevelItem(i)->data(COLUMN_UR_VIEW,Qt::CheckStateRole).toInt() > 1) {
3044 if (mSlicerManagers[i]->GetSlicer(1)->GetSlice() != value) {
3045 mSlicerManagers[i]->GetSlicer(1)->SetSlice(value);
3046 mSlicerManagers[i]->VerticalSliderHasChanged(1, value);
3047 mSlicerManagers[i]->UpdateSlice(1);
3048 //mSlicerManagers[i]->GetSlicer(1)->Render(); // <-- DS add this, needed for contour, seems ok ? not too slow ?
3054 //------------------------------------------------------------------------------
3057 //------------------------------------------------------------------------------
3058 void vvMainWindow::SOVerticalSliderChanged()
3060 static int value=-1;
3061 if (value == SOVerticalSlider->value()) return;
3062 else value = SOVerticalSlider->value();
3063 //int value = SOVerticalSlider->value();
3064 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
3065 if (DataTree->topLevelItem(i)->data(COLUMN_DL_VIEW,Qt::CheckStateRole).toInt() > 1) {
3066 if (mSlicerManagers[i]->GetSlicer(2)->GetSlice() != value) {
3067 mSlicerManagers[i]->GetSlicer(2)->SetSlice(value);
3068 mSlicerManagers[i]->VerticalSliderHasChanged(2, value);
3069 mSlicerManagers[i]->UpdateSlice(2);
3070 //mSlicerManagers[i]->GetSlicer(2)->Render(); // <-- DS add this, needed for contour, seems ok ? not too slow ?
3072 // else { DD("avoid SOVerticalSlider slicer update"); }
3077 //------------------------------------------------------------------------------
3080 //------------------------------------------------------------------------------
3081 void vvMainWindow::SEVerticalSliderChanged()
3083 static int value=-1;
3084 if (value == SEVerticalSlider->value()) return;
3085 else value = SEVerticalSlider->value();
3086 // int value = SEVerticalSlider->value();
3087 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
3088 if (DataTree->topLevelItem(i)->data(COLUMN_DR_VIEW,Qt::CheckStateRole).toInt() > 1) {
3089 if (mSlicerManagers[i]->GetSlicer(3)->GetSlice() != value) {
3090 mSlicerManagers[i]->GetSlicer(3)->SetSlice(value);
3091 mSlicerManagers[i]->VerticalSliderHasChanged(3, value);
3092 mSlicerManagers[i]->UpdateSlice(3);
3093 //mSlicerManagers[i]->GetSlicer(3)->Render(); // <-- DS add this, needed for contour, seems ok ? not too slow ?
3099 //------------------------------------------------------------------------------
3102 //------------------------------------------------------------------------------
3103 void vvMainWindow::UpdateSlice(int slicer, int slice)
3105 // DD("vvMainWindow::UpdateSlice");
3109 // if (slice != NOVerticalSlider->value())
3110 NOVerticalSlider->setValue(slice);
3113 NEVerticalSlider->setValue(slice);
3116 SOVerticalSlider->setValue(slice);
3119 SEVerticalSlider->setValue(slice);
3123 // DD("vvMainWindow:UpdateSlice END");
3125 //------------------------------------------------------------------------------
3128 //------------------------------------------------------------------------------
3129 void vvMainWindow::UpdateTSlice(int slicer, int slice, int code)
3131 //FusionSequence: the slider value should be updated for slicers which show the same sequence as requested
3132 bool doUpdate=false;
3133 if (code==-1) doUpdate=true;
3135 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
3136 if (DataTree->topLevelItem(i)->data(slicer+1,Qt::CheckStateRole).toInt() > 1) {
3137 //i is the active SlicerManager
3138 if (mSlicerManagers[i]->GetFusionSequenceInvolvmentCode()==code) doUpdate=true;
3143 if (!doUpdate) return;
3147 if (NOHorizontalSlider->value()==slice) return;
3148 NOHorizontalSlider->setValue(slice);
3151 if (NEHorizontalSlider->value()==slice) return;
3152 NEHorizontalSlider->setValue(slice);
3155 if (SOHorizontalSlider->value()==slice) return;
3156 SOHorizontalSlider->setValue(slice);
3159 if (SEHorizontalSlider->value()==slice) return;
3160 SEHorizontalSlider->setValue(slice);
3164 //------------------------------------------------------------------------------
3167 //------------------------------------------------------------------------------
3168 void vvMainWindow::UpdateSliceRange(int slicer, int min, int max, int tmin, int tmax)
3170 //int position = int((min+max)/2);
3171 int position = mSlicerManagers[mCurrentPickedImageIndex]->GetSlicer(slicer)->GetSlice();
3173 NOVerticalSlider->setRange(min,max);
3174 NOHorizontalSlider->setRange(tmin,tmax);
3175 NOVerticalSlider->setValue(position);
3176 } else if (slicer == 1) {
3177 NEVerticalSlider->setRange(min,max);
3178 NEHorizontalSlider->setRange(tmin,tmax);
3179 NEVerticalSlider->setValue(position);
3180 } else if (slicer == 2) {
3181 SOVerticalSlider->setRange(min,max);
3182 SOHorizontalSlider->setRange(tmin,tmax);
3183 SOVerticalSlider->setValue(position);
3184 } else if (slicer == 3) {
3185 SEVerticalSlider->setRange(min,max);
3186 SEHorizontalSlider->setRange(tmin,tmax);
3187 SEVerticalSlider->setValue(position);
3190 //------------------------------------------------------------------------------
3193 //------------------------------------------------------------------------------
3194 void vvMainWindow::SaveNOScreenshot()
3196 SaveScreenshot(NOViewWidget);
3198 //------------------------------------------------------------------------------
3201 //------------------------------------------------------------------------------
3202 void vvMainWindow::SaveNEScreenshot()
3204 SaveScreenshot(NEViewWidget);
3206 //------------------------------------------------------------------------------
3209 //------------------------------------------------------------------------------
3210 void vvMainWindow::SaveSOScreenshot()
3212 SaveScreenshot(SOViewWidget);
3214 //------------------------------------------------------------------------------
3217 //------------------------------------------------------------------------------
3218 void vvMainWindow::SaveSEScreenshot()
3220 SaveScreenshot(SEViewWidget);
3222 //------------------------------------------------------------------------------
3225 //------------------------------------------------------------------------------
3226 void vvMainWindow::SaveScreenshotAllSlices()
3228 QVTKWidget *widget = NOViewWidget;
3230 int index = 0;// GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
3231 vvSlicerManager * SM = mSlicerManagers[index];
3232 vvImage * image = SM->GetImage();
3233 vvSlicer * slicer = SM->GetSlicer(0);
3234 int orientation = slicer->GetOrientation();
3235 int nbSlices = image->GetSize()[orientation];
3236 vtkSmartPointer<vtkRenderWindow> renderWindow = widget->GetRenderWindow();
3238 // Select filename base
3239 QString filename = QFileDialog::getSaveFileName(this,
3240 tr("Save As (filename will be completed by slice number)"),
3241 itksys::SystemTools::GetFilenamePath(mSlicerManagers[index]->GetFileName()).c_str(),
3242 "Images( *.png);;Images( *.jpg)");
3245 for(int i=0; i<nbSlices; i++) {
3247 slicer->SetSlice(i); // -> change the slice of the current slicer
3248 SM->UpdateSlice(0); // --> this one emit UpdateSlice
3249 QCoreApplication::flush(); // -> needed to force display of contours
3252 vtkSmartPointer<vtkWindowToImageFilter> windowToImageFilter = vtkSmartPointer<vtkWindowToImageFilter>::New();
3253 windowToImageFilter->SetInput(renderWindow);
3254 windowToImageFilter->SetMagnification(1);
3255 windowToImageFilter->SetInputBufferTypeToRGBA(); //also record the alpha (transparency) channel
3256 windowToImageFilter->Update();
3258 vtkSmartPointer<vtkPNGWriter> writer = vtkSmartPointer<vtkPNGWriter>::New();
3259 std::string fn = itksys::SystemTools::GetFilenameWithoutLastExtension(filename.toStdString());
3260 std::string num = clitk::toString(i);
3261 if (i<10) num = "0"+num;
3262 if (i<100) num = "0"+num;
3263 if (i<1000) num = "0"+num;
3265 fn = itksys::SystemTools::GetFilenamePath(filename.toStdString()) + "/"+ fn
3266 + "_" + num + itksys::SystemTools::GetFilenameLastExtension(filename.toStdString());
3267 writer->SetFileName(fn.c_str());
3268 writer->SetInput(windowToImageFilter->GetOutput());
3272 //------------------------------------------------------------------------------
3275 //------------------------------------------------------------------------------
3276 void vvMainWindow::SaveScreenshot(QVTKWidget *widget)
3278 QString Extensions = "Images( *.png);;";
3279 Extensions += "Images( *.jpg);;";
3280 Extensions += "Images( *.bmp);;";
3281 Extensions += "Images( *.tif);;";
3282 Extensions += "Images( *.ppm)";
3283 #if defined(VTK_USE_FFMPEG_ENCODER) || defined(VTK_USE_VIDEO_FOR_WINDOWS)
3284 Extensions += ";;Video( *.avi)";
3286 #ifdef VTK_USE_MPEG2_ENCODER
3287 Extensions += ";;Video( *.mpg)";
3289 #ifdef CLITK_EXPERIMENTAL
3290 Extensions += ";;Video( *.gif)";
3293 int smIndex=GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
3294 QString fileName = QFileDialog::getSaveFileName(this,
3296 itksys::SystemTools::GetFilenamePath(mSlicerManagers[smIndex]->GetFileName()).c_str(),
3299 if (!fileName.isEmpty()) {
3300 vtkSmartPointer<vtkWindowToImageFilter> w2i = vtkSmartPointer<vtkWindowToImageFilter>::New();
3301 w2i->SetInput(widget->GetRenderWindow());
3303 vtkImageData *image = w2i->GetOutput();
3305 std::string ext(itksys::SystemTools::GetFilenameLastExtension(fileName.toStdString()));
3308 vtkImageWriter *imgwriter = NULL;
3310 imgwriter = vtkBMPWriter::New();
3311 else if (ext==".tif")
3312 imgwriter = vtkTIFFWriter::New();
3313 else if (ext==".ppm")
3314 imgwriter = vtkPNMWriter::New();
3315 else if (ext==".png")
3316 imgwriter = vtkPNGWriter::New();
3317 else if (ext==".jpg")
3318 imgwriter = vtkJPEGWriter::New();
3320 // Snapshot image if not null
3321 if(imgwriter!=NULL) {
3322 imgwriter->SetInput(image);
3323 imgwriter->SetFileName(fileName.toStdString().c_str());
3329 vtkGenericMovieWriter *vidwriter = NULL;
3330 #if CLITK_EXPERIMENTAL == 1
3332 vvAnimatedGIFWriter *gif = vvAnimatedGIFWriter::New();
3337 int fps = QInputDialog::getInteger(this, tr("Number of frames per second"),
3338 tr("FPS:"), 5, 0, 1000, 1, &ok);
3343 int loops = QInputDialog::getInteger(this, tr("Loops"),
3344 tr("Number of loops (0 means infinite):"), 0, 0, 1000000000, 1, &ok);
3346 gif->SetLoops(loops);
3349 QString msg = "Would you like to activate dithering?";
3350 QMessageBox msgBox(QMessageBox::Question, tr("Dithering"),msg, 0, this);
3351 msgBox.addButton(tr("Yes"), QMessageBox::AcceptRole);
3352 msgBox.addButton(tr("No"), QMessageBox::RejectRole);
3353 gif->SetDither(msgBox.exec() == QMessageBox::AcceptRole);
3356 #ifdef VTK_USE_VIDEO_FOR_WINDOWS
3358 vtkAVIWriter *mpg = vtkAVIWriter::New();
3362 int fps = QInputDialog::getInteger(this, tr("Number of frames per second"),
3363 tr("FPS:"), 5, 0, 1024, 1, &ok);
3369 #ifdef VTK_USE_FFMPEG_ENCODER
3371 vtkFFMPEGWriter *mpg = vtkFFMPEGWriter::New();
3375 int fps = QInputDialog::getInteger(this, tr("Number of frames per second"),
3376 tr("FPS:"), 5, 0, 1024, 1, &ok);
3380 mpg->SetBitRateTolerance(int(ceil(12.0*1024*1024/fps)));
3383 #ifdef VTK_USE_MPEG2_ENCODER
3385 vtkMPEG2Writer *mpg = vtkMPEG2Writer::New();
3390 // Take video if not null
3391 if(vidwriter!=NULL){
3392 vidwriter->SetInput(image);
3393 vidwriter->SetFileName(fileName.toStdString().c_str());
3395 int nSlice = mSlicerManagers[smIndex]->GetSlicer(0)->GetTMax();
3396 for(int i=0; i<=nSlice; i++) {
3397 mSlicerManagers[smIndex]->SetNextTSlice(0);
3398 vtkSmartPointer<vtkWindowToImageFilter> w2i = vtkSmartPointer<vtkWindowToImageFilter>::New();
3399 w2i->SetInput(widget->GetRenderWindow());
3401 vidwriter->SetInput(w2i->GetOutput());
3405 vidwriter->Delete();
3409 QMessageBox::information(this,tr("Problem saving screenshot !"),tr("Cannot save image.\nPlease set a file extension !!!"));
3412 //------------------------------------------------------------------------------
3415 //------------------------------------------------------------------------------
3416 void vvMainWindow::GoToCursor()
3418 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
3419 for (int column = 1; column < 5; column++) {
3420 if (DataTree->selectedItems()[0]->data(column,Qt::CheckStateRole).toInt() > 1) {
3421 double* cursorPos = mSlicerManagers[index]->GetSlicer(column-1)->GetCursorPosition();
3422 mSlicerManagers[index]->GetSlicer(column-1)->SetCurrentPosition(
3423 cursorPos[0],cursorPos[1],cursorPos[2],cursorPos[3]);
3424 mSlicerManagers[index]->UpdateViews(1,column-1);
3425 mSlicerManagers[index]->UpdateLinked(column-1);
3430 //------------------------------------------------------------------------------
3432 //------------------------------------------------------------------------------
3433 void vvMainWindow::GoToLandmark()
3435 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
3436 for (int column = 1; column < 5; column++) {
3437 if (DataTree->selectedItems()[0]->data(column,Qt::CheckStateRole).toInt() > 1) {
3438 double* cursorPos = landmarksPanel->GetSelectedPoint();
3439 mSlicerManagers[index]->GetSlicer(column-1)->SetCurrentPosition(
3440 cursorPos[0],cursorPos[1],cursorPos[2],cursorPos[3]);
3441 mSlicerManagers[index]->UpdateViews(1,column-1);
3442 mSlicerManagers[index]->UpdateLinked(column-1);
3447 //------------------------------------------------------------------------------
3449 //------------------------------------------------------------------------------
3450 void vvMainWindow::PlayPause()
3454 playButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/player_play.png")));
3458 int image_number=DataTree->topLevelItemCount();
3460 for (int i=0; i<image_number; i++)
3461 if (mSlicerManagers[i]->GetSlicer(0)->GetTMax() > 0) {
3467 playButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/player_pause.png")));
3468 QTimer::singleShot(1000/mFrameRate, this, SLOT(PlayNext()));
3472 //------------------------------------------------------------------------------
3474 //------------------------------------------------------------------------------
3475 void vvMainWindow::PlayNext()
3477 if (playMode && !this->isHidden()) {
3478 int image_number=DataTree->topLevelItemCount();
3479 ///Only play one slicer per SM, and only if the SM is being displayed
3480 for (int i=0; i<image_number; i++)
3481 for (int j=0; j<4; j++)
3482 if (mSlicerManagers[i]->GetSlicer(0)->GetTMax() > 0 &&
3483 DataTree->topLevelItem(i)->data(j+1,Qt::CheckStateRole).toInt() > 0) {
3484 mSlicerManagers[i]->SetNextTSlice(j);
3487 QTimer::singleShot(1000/mFrameRate, this, SLOT(PlayNext()));
3490 //------------------------------------------------------------------------------
3492 void vvMainWindow::ShowLastImage()
3494 if (mSlicerManagers.size() > 1) {
3495 QTreeWidgetItem * item=DataTree->topLevelItem(DataTree->topLevelItemCount()-1);
3496 CurrentImageChanged(mSlicerManagers.back()->GetId()); //select new image
3497 item->setData(1,Qt::CheckStateRole,2); //show the new image in the first panel
3498 DisplayChanged(item,1);
3502 //------------------------------------------------------------------------------
3503 void vvMainWindow::UpdateRenderWindows()
3505 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
3506 mSlicerManagers[i]->GetSlicer(0)->UpdateLandmarks();
3507 mSlicerManagers[i]->GetSlicer(1)->UpdateLandmarks();
3508 mSlicerManagers[i]->GetSlicer(2)->UpdateLandmarks();
3509 mSlicerManagers[i]->GetSlicer(3)->UpdateLandmarks();
3511 if (NOViewWidget->GetRenderWindow()) NOViewWidget->GetRenderWindow()->Render();
3512 if (NEViewWidget->GetRenderWindow()) NEViewWidget->GetRenderWindow()->Render();
3513 if (SOViewWidget->GetRenderWindow()) SOViewWidget->GetRenderWindow()->Render();
3514 if (SEViewWidget->GetRenderWindow()) SEViewWidget->GetRenderWindow()->Render();
3516 //------------------------------------------------------------------------------
3518 //------------------------------------------------------------------------------
3519 void vvMainWindow::SegmentationOnCurrentImage()
3521 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
3523 vvSegmentationDialog segmentation;
3524 segmentation.SetImage(mSlicerManagers[index]->GetSlicer(0)->GetImage());
3525 segmentation.exec();
3527 //------------------------------------------------------------------------------
3529 void vvMainWindow::SurfaceViewerLaunch()
3531 vvSurfaceViewerDialog surfaceViewer;
3532 surfaceViewer.exec();
3534 //------------------------------------------------------------------------------
3537 //------------------------------------------------------------------------------
3538 int vvMainWindow::GetImageDuplicateFilenameNumber(std::string filename)
3541 for(unsigned int l=0; l<mSlicerManagers.size(); l++) {
3542 vvSlicerManager * v = mSlicerManagers[l];
3543 if (v->GetBaseFileName() ==
3544 vtksys::SystemTools::GetFilenameName(vtksys::SystemTools::GetFilenameWithoutLastExtension(filename))) {
3545 number = std::max(number, v->GetBaseFileNameNumber()+1);
3550 //------------------------------------------------------------------------------
3553 //------------------------------------------------------------------------------
3554 vvSlicerManager* vvMainWindow::AddImage(vvImage::Pointer image,std::string filename)
3556 // Change filename if another image exist with the same name
3557 int number = GetImageDuplicateFilenameNumber(filename);
3559 // Create new SliceManager
3560 vvSlicerManager* slicer_manager = new vvSlicerManager(4);
3561 slicer_manager->SetImage(image);//, IMAGE, number);
3562 // filename = filename+"_"+clitk::toString(number);
3563 slicer_manager->SetFilename(filename, number);
3564 mSlicerManagers.push_back(slicer_manager);
3566 //create an item in the tree with good settings
3567 QTreeWidgetItem *item = new QTreeWidgetItem();
3568 item->setData(0,Qt::UserRole,slicer_manager->GetFileName().c_str());//files[i].c_str());
3569 item->setData(1,Qt::UserRole,tr("image"));
3570 item->setData(COLUMN_IMAGE_NAME,Qt::DisplayRole,slicer_manager->GetFileName().c_str());//filename.c_str());
3571 qApp->processEvents();
3573 for (int j = 1; j <= 4; j++) item->setData(j,Qt::CheckStateRole,1);
3575 //Create the buttons for reload and close
3576 qApp->processEvents();
3577 QTreePushButton* cButton = new QTreePushButton;
3578 cButton->setItem(item);
3579 cButton->setColumn(COLUMN_CLOSE_IMAGE);
3580 cButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/exit.png")));
3581 connect(cButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
3582 this,SLOT(CloseImage(QTreeWidgetItem*, int)));
3584 QTreePushButton* rButton = new QTreePushButton;
3585 rButton->setItem(item);
3586 rButton->setColumn(COLUMN_RELOAD_IMAGE);
3587 rButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/rotateright.png")));
3588 rButton->setEnabled(0);
3589 connect(rButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
3590 this,SLOT(ReloadImage(QTreeWidgetItem*, int)));
3592 DataTree->addTopLevelItem(item);
3593 DataTree->setItemWidget(item, COLUMN_CLOSE_IMAGE, cButton);
3594 DataTree->setItemWidget(item, COLUMN_RELOAD_IMAGE, rButton);
3596 //set the id of the image
3597 QString id = QDir::current().absoluteFilePath(slicer_manager->GetFileName().c_str()) + QString::number(mSlicerManagers.size()-1);
3598 item->setData(COLUMN_IMAGE_NAME,Qt::UserRole,id.toStdString().c_str());
3599 mSlicerManagers.back()->SetId(id.toStdString());
3601 linkPanel->addImage(slicer_manager->GetFileName().c_str()// filename
3602 , id.toStdString());
3604 connect(mSlicerManagers.back(), SIGNAL(currentImageChanged(std::string)),
3605 this, SLOT(CurrentImageChanged(std::string)));
3606 connect(mSlicerManagers.back(), SIGNAL(currentPickedImageChanged(std::string)),
3607 this, SLOT(CurrentPickedImageChanged(std::string)));
3608 connect(mSlicerManagers.back(), SIGNAL(UpdatePosition(int, double, double, double, double, double, double, double)),
3609 this, SLOT(MousePositionChanged(int,double, double, double, double, double, double, double)));
3610 connect(mSlicerManagers.back(), SIGNAL(UpdateVector(int, double, double, double, double)),
3611 this, SLOT(VectorChanged(int,double,double,double, double)));
3612 connect(mSlicerManagers.back(), SIGNAL(UpdateOverlay(int, double, double)),
3613 this, SLOT(OverlayChanged(int,double,double)));
3614 connect(mSlicerManagers.back(), SIGNAL(UpdateFusion(int, double)),
3615 this, SLOT(FusionChanged(int,double)));
3616 //connect(mSlicerManagers.back(), SIGNAL(UpdateFusionSequence(int, bool, unsigned int)),
3617 // this, SLOT(FusionSequenceChanged(int, bool, unsigned int)));
3618 connect(mSlicerManagers.back(), SIGNAL(WindowLevelChanged()),
3619 this,SLOT(WindowLevelChanged()));
3620 connect(mSlicerManagers.back(), SIGNAL(UpdateSlice(int,int)),
3621 this,SLOT(UpdateSlice(int,int)));
3622 connect(mSlicerManagers.back(), SIGNAL(UpdateTSlice(int, int, int)),
3623 this,SLOT(UpdateTSlice(int, int, int)));
3624 connect(mSlicerManagers.back(), SIGNAL(UpdateTSlice(int, int, int)),
3625 this,SLOT(ImageInfoChanged()));
3626 connect(mSlicerManagers.back(), SIGNAL(UpdateSliceRange(int,int,int,int,int)),
3627 this,SLOT(UpdateSliceRange(int,int,int,int,int)));
3628 connect(mSlicerManagers.back(), SIGNAL(UpdateLinkManager(std::string,int,double,double,double,int)),
3629 this,SLOT(UpdateLinkManager(std::string,int,double,double,double,int)));
3630 connect(mSlicerManagers.back(), SIGNAL(UpdateLinkedNavigation(std::string,vvSlicerManager*,vvSlicer*)),
3631 this,SLOT(UpdateLinkedNavigation(std::string,vvSlicerManager*,vvSlicer*)));
3632 connect(mSlicerManagers.back(), SIGNAL(ChangeImageWithIndexOffset(vvSlicerManager*,int,int)),
3633 this,SLOT(ChangeImageWithIndexOffset(vvSlicerManager*,int,int)));
3634 connect(mSlicerManagers.back(), SIGNAL(LandmarkAdded()),landmarksPanel,SLOT(AddPoint()));
3638 qApp->processEvents();
3642 qApp->processEvents();
3646 return slicer_manager;
3648 //------------------------------------------------------------------------------
3651 //------------------------------------------------------------------------------
3652 void vvMainWindow::UpdateCurrentSlicer()
3655 if (DataTree->selectedItems().size() > 0) {
3656 index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
3658 mSlicerManagerCurrentIndex = index;
3660 //------------------------------------------------------------------------------