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 *.png *.jpeg *.jpg *.tif *.mhd *.mha *.hdr *.vox *.his *.xdr *.SCAN *.nii *.nrrd *.nhdr *.refscan *.nii.gz *.usf *.svl)"
108 #define EXTENSIONS "Images ( *.bmp *.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());
1479 //------------------------------------------------------------------------------
1480 void vvMainWindow::InitDisplay()
1482 if (mSlicerManagers.size()) {
1483 //BE CAREFUL : this is absolutely necessary to set the interactor style
1484 //in order to have the same style instanciation for all SlicerManagers in
1486 for (int j = 0; j < 4; j++) {
1487 vvInteractorStyleNavigator* style = vvInteractorStyleNavigator::New();
1488 style->SetAutoAdjustCameraClippingRange(1);
1489 bool AlreadySelected = false;
1490 for (int i = 0; i < DataTree->topLevelItemCount(); i++) {
1491 mSlicerManagers[i]->SetInteractorStyleNavigator(j,style);
1493 //select the image only if previous are not selected
1494 if (DataTree->topLevelItem(i)->data(j+1,Qt::CheckStateRole).toInt() > 1) {
1495 mSlicerManagers[i]->UpdateSlicer(j,1);
1496 AlreadySelected = true;
1497 } else if (i == DataTree->topLevelItemCount()-1 && !AlreadySelected) {
1498 if (DataTree->selectedItems().size() == 0)
1499 DataTree->topLevelItem(i)->setSelected(1);
1500 DataTree->topLevelItem(i)->setData(j+1,Qt::CheckStateRole,2);
1501 mSlicerManagers[i]->UpdateSlicer(j,1);
1502 DisplaySliders(i,j);
1504 DataTree->topLevelItem(i)->setData(j+1,Qt::CheckStateRole,0);
1505 mSlicerManagers[i]->UpdateSlicer(j,0);
1512 //------------------------------------------------------------------------------
1514 //------------------------------------------------------------------------------
1515 void vvMainWindow::DisplaySliders(int slicer, int window)
1517 if(!mSlicerManagers[slicer]->GetSlicer(window)->GetRenderer()->GetDraw())
1521 mSlicerManagers[slicer]->GetSlicer(window)->GetSliceRange(range);
1522 int position = mSlicerManagers[slicer]->GetSlicer(window)->GetSlice();
1524 verticalSliders[window]->show();
1526 verticalSliders[window]->hide();
1527 verticalSliders[window]->setRange(range[0],range[1]);
1528 verticalSliders[window]->setValue(position);
1532 tRange[1] = mSlicerManagers[slicer]->GetSlicer(window)->GetTMax();
1534 horizontalSliders[window]->show();
1536 horizontalSliders[window]->hide();
1537 horizontalSliders[window]->setRange(tRange[0],tRange[1]);
1538 int tPosition = mSlicerManagers[slicer]->GetSlicer(window)->GetMaxCurrentTSlice();
1539 horizontalSliders[window]->setValue(tPosition);
1541 //------------------------------------------------------------------------------
1543 //------------------------------------------------------------------------------
1544 void vvMainWindow::CloseImage(QTreeWidgetItem* item, int column)
1546 int index = GetSlicerIndexFromItem(item);
1548 if (DataTree->topLevelItem(index) != item) {
1549 QString warning = "Do you really want to close the overlay : ";
1550 warning += item->data(COLUMN_IMAGE_NAME,Qt::DisplayRole).toString();
1551 QMessageBox msgBox(QMessageBox::Warning, tr("Close Overlay"),
1553 msgBox.addButton(tr("Close"), QMessageBox::AcceptRole);
1554 msgBox.addButton(tr("Cancel"), QMessageBox::RejectRole);
1555 if (msgBox.exec() == QMessageBox::AcceptRole) {
1556 std::string overlay_type=item->data(1,Qt::UserRole).toString().toStdString();
1557 int overlay_index=0;
1558 for (int child = 0; child < DataTree->topLevelItem(index)->childCount(); child++) {
1559 if (DataTree->topLevelItem(index)->\
1560 child(child)->data(1,Qt::UserRole).toString().toStdString() == overlay_type)
1562 if (DataTree->topLevelItem(index)->child(child) == item) break;
1564 if (overlay_type=="fusionSequence") {
1565 //removing the overlay sequence in a fusion sequence visualization mode
1566 //reset the transforms
1567 overlayPanel->getFusionSequenceProperty(-1, false, 0, false);
1569 //unlink and untie the slicer managers
1570 RemoveLink(mSlicerManagers[index]->GetId().c_str(), mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->GetId().c_str());
1571 mSlicerManagers[index]->SetFusionSequenceInvolvmentCode(-1);
1572 mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->SetFusionSequenceInvolvmentCode(-1);
1573 for (unsigned i=0 ; i<4 ; i++) {
1574 mSlicerManagers[index]->GetSlicer(i)->SetFusionSequenceCode(-1);
1575 mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->GetSlicer(i)->SetFusionSequenceCode(-1);
1579 mSlicerManagers[index]->RemoveActor(overlay_type, overlay_index-1);
1580 mSlicerManagers[index]->SetColorMap(0);
1581 DataTree->topLevelItem(index)->takeChild(DataTree->topLevelItem(index)->indexOfChild(item));
1582 mSlicerManagers[index]->Render();
1584 } else if (DataTree->topLevelItemCount() <= 1) {
1585 QString warning = "Do you really want to close the image : ";
1586 warning += item->data(COLUMN_IMAGE_NAME,Qt::DisplayRole).toString();
1587 warning += "\nThis is the last image, you're about to close vv !!!";
1588 QMessageBox msgBox(QMessageBox::Warning, tr("Close Image"),
1590 msgBox.addButton(tr("Close vv"), QMessageBox::AcceptRole);
1591 msgBox.addButton(tr("Cancel"), QMessageBox::RejectRole);
1592 if (msgBox.exec() == QMessageBox::AcceptRole) {
1596 QString warning = "Do you really want to close the image : ";
1597 warning += item->data(COLUMN_IMAGE_NAME,Qt::DisplayRole).toString();
1598 QMessageBox msgBox(QMessageBox::Warning, tr("Close Image"),
1600 msgBox.addButton(tr("Close"), QMessageBox::AcceptRole);
1601 msgBox.addButton(tr("Cancel"), QMessageBox::RejectRole);
1602 if (msgBox.exec() == QMessageBox::AcceptRole) {
1604 // Tell tools that we close an image
1605 emit AnImageIsBeingClosed(mSlicerManagers[index]);
1607 std::vector<vvSlicerManager*>::iterator Manageriter = mSlicerManagers.begin();
1608 DataTree->takeTopLevelItem(index);
1609 for (int i = 0; i < index; i++) {
1612 //if the slicer manager was involved in a fusion sequence visualization...
1613 if ( mSlicerManagers[index]->IsInvolvedInFusionSequence() ) {
1614 //in both cases, close the overlay: find it... and close it
1615 //ideally, I should duplicate the code, and avoid calling CloseImage, since this pops up another interactive box
1616 QTreeWidgetItem* overlayItem;
1617 if (mSlicerManagers[index]->IsMainSequenceOfFusionSequence()) {
1618 for (unsigned i=0 ; i<item->childCount() ; i++) {
1619 overlayItem = item->child(i);
1620 this->CloseImage( overlayItem, 0 );
1624 QTreeWidgetItem* linkedItem = this->GetItemFromSlicerManager( mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()] );
1625 for (unsigned i=0 ; i<linkedItem->childCount() ; i++) {
1626 overlayItem = linkedItem->child(i);
1627 this->CloseImage( overlayItem, 0 );
1631 /* -- this is normally already done when closing the overlay.
1632 //reset the transforms
1633 overlayPanel->getFusionSequenceProperty(-1, false, 0, false);
1635 //unlink and untie the slicer managers
1636 RemoveLink(mSlicerManagers[index]->GetId().c_str(), mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->GetId().c_str());
1637 mSlicerManagers[index]->SetFusionSequenceInvolvmentCode(-1);
1638 mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->SetFusionSequenceInvolvmentCode(-1);
1639 for (unsigned i=0 ; i<4 ; i++) {
1640 mSlicerManagers[index]->GetSlicer(i)->SetFusionSequenceCode(-1);
1641 mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->GetSlicer(i)->SetFusionSequenceCode(-1);
1646 linkPanel->removeImage(index);
1647 mSlicerManagers[index]->RemoveActors();
1649 //remove the slicer manager
1650 delete mSlicerManagers[index];
1651 mSlicerManagers.erase(Manageriter);
1659 //------------------------------------------------------------------------------
1661 //------------------------------------------------------------------------------
1662 void vvMainWindow::ReloadImage(QTreeWidgetItem* item, int column)
1664 // int index = GetSlicerIndexFromItem(item);
1665 // QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
1666 // if (item->data(1,Qt::UserRole).toString() == "vector")
1667 // mSlicerManagers[index]->ReloadVF();
1669 // mSlicerManagers[index]->Reload();
1671 // QApplication::restoreOverrideCursor();
1672 int index = GetSlicerIndexFromItem(item);
1673 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
1674 QString role=item->data(1,Qt::UserRole).toString();
1675 if ( role == "vector") {
1676 mSlicerManagers[index]->ReloadVF();
1678 else if (role == "overlay") {
1679 mSlicerManagers[index]->ReloadOverlay();
1681 else if (role == "fusion") {
1682 mSlicerManagers[index]->ReloadFusion();
1684 else if (role == "fusionSequence") {
1685 //both versions of the secondary sequence must be updated.
1686 mSlicerManagers[index]->ReloadFusionSequence();
1687 mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->Reload();
1690 mSlicerManagers[index]->Reload();
1691 //if we update the secondary sequence, then the overlay of the main sequence should also be updated
1692 if (mSlicerManagers[index]->IsSecondarySequenceOfFusionSequence()) mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->ReloadFusionSequence();
1694 // Update view and info
1696 mSlicerManagers[index]->Render();
1697 QApplication::restoreOverrideCursor();
1699 //------------------------------------------------------------------------------
1701 //------------------------------------------------------------------------------
1702 void vvMainWindow::MousePositionChanged(int visibility,double x, double y, double z, double X, double Y, double Z , double value)
1704 infoPanel->setCurrentInfo(visibility,x,y,z,X,Y,Z,value);
1706 //------------------------------------------------------------------------------
1708 //------------------------------------------------------------------------------
1709 void vvMainWindow::VectorChanged(int visibility,double x, double y, double z, double value)
1711 overlayPanel->getCurrentVectorInfo(visibility,x,y,z,value);
1713 //------------------------------------------------------------------------------
1715 //------------------------------------------------------------------------------
1716 void vvMainWindow::OverlayChanged(int visibility, double valueOver, double valueRef)
1718 overlayPanel->getCurrentOverlayInfo(visibility,valueOver, valueRef);
1720 //------------------------------------------------------------------------------
1722 //------------------------------------------------------------------------------
1723 void vvMainWindow::FusionChanged(int visibility, double value)
1725 overlayPanel->getCurrentFusionInfo(visibility,value);
1727 //------------------------------------------------------------------------------
1729 //------------------------------------------------------------------------------
1730 //called when AddOverlayImage, AddFusionSequence
1731 //or when UpdateWindowLevel() is called ; when slicerManager emits WindowLevelChanged
1732 //when ImageInfoChanged() is called
1733 void vvMainWindow::WindowLevelChanged()
1736 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1737 if(index==-1) return;
1738 windowSpinBox->setValue(mSlicerManagers[index]->GetColorWindow());
1739 levelSpinBox->setValue(mSlicerManagers[index]->GetColorLevel());
1740 colorMapComboBox->setCurrentIndex(mSlicerManagers[index]->GetColorMap());
1741 presetComboBox->setCurrentIndex(mSlicerManagers[index]->GetPreset());
1744 if (mSlicerManagers[index]->GetSlicer(0)->GetOverlay())
1745 overlayPanel->getOverlayProperty(mSlicerManagers[index]->GetOverlayColor(),
1746 mSlicerManagers[index]->GetLinkOverlayWindowLevel(),
1747 mSlicerManagers[index]->GetOverlayColorWindow(),
1748 mSlicerManagers[index]->GetOverlayColorLevel());
1750 overlayPanel->getOverlayProperty(-1,0,0.,0.);
1752 // Fusion & SequenceFusion image
1753 if (mSlicerManagers[index]->GetSlicer(0)->GetFusion()) {
1754 overlayPanel->getFusionProperty(mSlicerManagers[index]->GetFusionOpacity(),
1755 mSlicerManagers[index]->GetFusionThresholdOpacity(),
1756 mSlicerManagers[index]->GetFusionColorMap(),
1757 mSlicerManagers[index]->GetFusionWindow(),
1758 mSlicerManagers[index]->GetFusionLevel());
1759 if (mSlicerManagers[index]->IsMainSequenceOfFusionSequence()) {
1760 overlayPanel->getFusionSequenceProperty(mSlicerManagers[index]->GetFusionSequenceFrameIndex(),
1761 mSlicerManagers[index]->GetFusionSequenceSpatialSyncFlag(),
1762 mSlicerManagers[index]->GetFusionSequenceNbFrames(),
1763 mSlicerManagers[index]->GetFusionSequenceTemporalSyncFlag());
1766 else if ( mSlicerManagers[index]->IsSecondarySequenceOfFusionSequence() ) {
1767 //if the image is involved in a fusion sequence, preserve the overlay panel!
1768 int ind = mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager();
1769 overlayPanel->getFusionProperty(mSlicerManagers[ind]->GetFusionOpacity(),
1770 mSlicerManagers[ind]->GetFusionThresholdOpacity(),
1771 mSlicerManagers[ind]->GetFusionColorMap(),
1772 mSlicerManagers[ind]->GetFusionWindow(),
1773 mSlicerManagers[ind]->GetFusionLevel());
1774 overlayPanel->getFusionSequenceProperty(mSlicerManagers[ind]->GetFusionSequenceFrameIndex(),
1775 mSlicerManagers[ind]->GetFusionSequenceSpatialSyncFlag(),
1776 mSlicerManagers[ind]->GetFusionSequenceNbFrames(),
1777 mSlicerManagers[ind]->GetFusionSequenceTemporalSyncFlag());
1781 overlayPanel->getFusionProperty(-1, -1, -1, -1, -1);
1782 overlayPanel->getFusionSequenceProperty(-1, false, 0, false);
1785 //------------------------------------------------------------------------------
1787 //------------------------------------------------------------------------------
1788 void vvMainWindow::WindowLevelEdited()
1790 presetComboBox->setCurrentIndex(WL_USER);
1791 UpdateWindowLevel();
1793 //------------------------------------------------------------------------------
1795 //------------------------------------------------------------------------------
1796 void vvMainWindow::SetWindowLevel(double w, double l)
1798 windowSpinBox->setValue(w);
1799 levelSpinBox->setValue(l);
1800 presetComboBox->setCurrentIndex(WL_USER);
1801 colorMapComboBox->setCurrentIndex(0);
1802 UpdateWindowLevel();
1804 //------------------------------------------------------------------------------
1806 //------------------------------------------------------------------------------
1807 void vvMainWindow::UpdateWindowLevel()
1809 if (DataTree->selectedItems().size()) {
1810 if (presetComboBox->currentIndex() == WL_VENTILATION) //For ventilation
1811 colorMapComboBox->setCurrentIndex(5);
1812 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1813 mSlicerManagers[index]->SetColorWindow(windowSpinBox->value());
1814 mSlicerManagers[index]->SetColorLevel(levelSpinBox->value());
1815 mSlicerManagers[index]->SetPreset(presetComboBox->currentIndex());
1816 mSlicerManagers[index]->Render();
1817 WindowLevelChanged();
1820 //------------------------------------------------------------------------------
1822 //------------------------------------------------------------------------------
1823 void vvMainWindow::UpdateSlicingPreset()
1825 if (DataTree->selectedItems().size()) {
1826 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1827 mSlicerManagers[index]->SetSlicingPreset(vvSlicerManager::SlicingPresetType(slicingPresetComboBox->currentIndex()));
1830 //------------------------------------------------------------------------------
1832 //------------------------------------------------------------------------------
1833 void vvMainWindow::UpdateColorMap()
1835 if (DataTree->selectedItems().size()) {
1836 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1837 mSlicerManagers[index]->SetColorMap(colorMapComboBox->currentIndex());
1838 mSlicerManagers[index]->Render();
1841 //------------------------------------------------------------------------------
1842 void vvMainWindow::SwitchWindowLevel()
1844 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1845 int window = mSlicerManagers[index]->GetColorWindow();
1846 presetComboBox->setCurrentIndex(WL_USER);
1847 windowSpinBox->setValue(-window);
1848 UpdateWindowLevel();
1850 //------------------------------------------------------------------------------
1852 //------------------------------------------------------------------------------
1853 void vvMainWindow::ApplyWindowLevelToAllImages()
1855 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1856 if(index==-1) return;
1857 double window = mSlicerManagers[index]->GetColorWindow();
1858 double level = mSlicerManagers[index]->GetColorLevel();
1860 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
1861 if (mSlicerManagers[i] == NULL)
1863 mSlicerManagers[i]->SetColorWindow(window);
1864 mSlicerManagers[i]->SetColorLevel(level);
1865 mSlicerManagers[i]->SetPreset(WL_USER);
1866 mSlicerManagers[i]->Render();
1869 //------------------------------------------------------------------------------
1871 //------------------------------------------------------------------------------
1872 void vvMainWindow::ApplyWindowToSetOfImages(double window, unsigned int indexMin, unsigned int indexMax)
1874 for (unsigned int i = indexMin; i <= indexMax && i < mSlicerManagers.size(); i++) {
1875 if (mSlicerManagers[i] == NULL)
1877 mSlicerManagers[i]->SetColorWindow(window);
1878 mSlicerManagers[i]->SetPreset(WL_USER);
1879 mSlicerManagers[i]->Render();
1882 //------------------------------------------------------------------------------
1884 //------------------------------------------------------------------------------
1885 void vvMainWindow::ApplyLevelToSetOfImages(double level, unsigned int indexMin, unsigned int indexMax)
1887 for (unsigned int i = indexMin; i <= indexMax && i < mSlicerManagers.size(); i++) {
1888 if (mSlicerManagers[i] == NULL)
1890 mSlicerManagers[i]->SetColorLevel(level);
1891 mSlicerManagers[i]->SetPreset(WL_USER);
1892 mSlicerManagers[i]->Render();
1895 //------------------------------------------------------------------------------
1897 //------------------------------------------------------------------------------
1898 void vvMainWindow::UpdateLinkManager(std::string id, int slicer, double x, double y, double z, int temps)
1900 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
1901 if (mSlicerManagers[i]->GetId() == id) {
1902 mSlicerManagers[i]->GetSlicer(slicer)->SetCurrentPosition(x,y,z,temps);
1903 mSlicerManagers[i]->UpdateViews(0,slicer);
1908 //------------------------------------------------------------------------------
1910 //------------------------------------------------------------------------------
1911 void vvMainWindow::UpdateLinkedNavigation(std::string id, vvSlicerManager * sm, vvSlicer* refSlicer)
1913 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
1914 if (id == mSlicerManagers[i]->GetId()) {
1915 mSlicerManagers[i]->UpdateLinkedNavigation(refSlicer);
1919 //------------------------------------------------------------------------------
1921 //------------------------------------------------------------------------------
1922 void vvMainWindow::ShowContextMenu(QPoint point)
1924 if (!DataTree->selectedItems().size()) {
1925 contextActions[1]->setEnabled(0);
1926 contextActions[2]->setEnabled(0);
1927 contextActions[3]->setEnabled(0);
1928 contextActions[4]->setEnabled(0);
1929 contextActions[5]->setEnabled(0);
1930 contextActions[6]->setEnabled(0);
1932 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1933 contextActions[1]->setEnabled(1);
1934 contextActions[2]->setEnabled(
1935 DataTree->itemWidget(DataTree->selectedItems()[0],
1936 COLUMN_RELOAD_IMAGE)->isEnabled());
1937 contextActions[3]->setEnabled(1);
1938 contextActions[5]->setEnabled(1);
1939 contextActions[6]->setEnabled(1);
1941 if (mSlicerManagers[index]->GetDimension() < 3)
1942 contextActions[4]->setEnabled(0);
1944 contextActions[4]->setEnabled(1);
1946 contextMenu.exec(QCursor::pos());
1948 //------------------------------------------------------------------------------
1950 //------------------------------------------------------------------------------
1951 void vvMainWindow::CloseImage()
1953 CloseImage(DataTree->selectedItems()[0],0);
1955 //------------------------------------------------------------------------------
1957 //------------------------------------------------------------------------------
1958 void vvMainWindow::ReloadImage()
1960 ReloadImage(DataTree->selectedItems()[0],0);
1962 //------------------------------------------------------------------------------
1964 //------------------------------------------------------------------------------
1965 void vvMainWindow::SelectOverlayImage()
1967 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1969 //check if one overlay image is added
1970 for (int child = 0; child < DataTree->topLevelItem(index)->childCount(); child++)
1971 if (DataTree->topLevelItem(index)->child(child)->data(1,Qt::UserRole).toString() == "overlay") {
1972 QString error = "Cannot add more than one compared image\n";
1973 error += "Please remove first ";
1974 error += DataTree->topLevelItem(index)->child(child)->data(COLUMN_IMAGE_NAME,Qt::DisplayRole).toString();
1975 QMessageBox::information(this,tr("Problem adding compared image !"),error);
1979 QString Extensions = EXTENSIONS;
1980 Extensions += ";;All Files (*)";
1981 QStringList files = QFileDialog::getOpenFileNames(this,tr("Load Overlay image"),mInputPathName,Extensions);
1982 if (files.isEmpty())
1985 std::vector<std::string> vecFileNames;
1986 for (int i = 0; i < files.size(); i++) {
1987 vecFileNames.push_back(files[i].toStdString());
1989 AddOverlayImage(index,vecFileNames,vvImageReader::IMAGE);
1991 //------------------------------------------------------------------------------
1993 //------------------------------------------------------------------------------
1994 void vvMainWindow::AddOverlayImage(int index, std::vector<std::string> fileNames, vvImageReader::LoadedImageType type)
1996 QString file(fileNames[0].c_str());
1997 if (QFile::exists(file))
1999 mInputPathName = itksys::SystemTools::GetFilenamePath(file.toStdString()).c_str();
2000 itk::ImageIOBase::Pointer reader = itk::ImageIOFactory::CreateImageIO(
2001 file.toStdString().c_str(), itk::ImageIOFactory::ReadMode);
2002 reader->SetFileName(fileNames[0].c_str());
2003 reader->ReadImageInformation();
2004 std::string component = reader->GetComponentTypeAsString(reader->GetComponentType());
2005 int dimension = reader->GetNumberOfDimensions();
2006 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
2007 vvProgressDialog progress("Opening " + file.toStdString());
2008 qApp->processEvents();
2010 std::string filename = itksys::SystemTools::GetFilenameWithoutExtension(file.toStdString()).c_str();
2011 if (mSlicerManagers[index]->SetOverlay(fileNames,dimension, component,type)) {
2012 //create an item in the tree with good settings
2013 QTreeWidgetItem *item = new QTreeWidgetItem();
2014 item->setData(0,Qt::UserRole,file.toStdString().c_str());
2015 item->setData(1,Qt::UserRole,tr("overlay"));
2016 QFileInfo fileinfo(file); //Do not show the path
2017 item->setData(COLUMN_IMAGE_NAME,Qt::DisplayRole,fileinfo.fileName());
2018 item->setToolTip(COLUMN_IMAGE_NAME, mSlicerManagers[index]->GetListOfAbsoluteFilePathInOneString("overlay").c_str());
2019 qApp->processEvents();
2021 for (int j = 1; j <= 4; j++) {
2022 item->setData(j,Qt::CheckStateRole,DataTree->topLevelItem(index)->data(j,Qt::CheckStateRole));
2025 //Create the buttons for reload and close
2026 qApp->processEvents();
2027 QTreePushButton* cButton = new QTreePushButton;
2028 cButton->setItem(item);
2029 cButton->setColumn(COLUMN_CLOSE_IMAGE);
2030 cButton->setToolTip(tr("close image"));
2031 cButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/exit.png")));
2032 connect(cButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2033 this,SLOT(CloseImage(QTreeWidgetItem*, int)));
2035 QTreePushButton* rButton = new QTreePushButton;
2036 rButton->setItem(item);
2037 rButton->setColumn(COLUMN_RELOAD_IMAGE);
2038 rButton->setToolTip(tr("reload image"));
2039 rButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/rotateright.png")));
2040 connect(rButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2041 this,SLOT(ReloadImage(QTreeWidgetItem*, int)));
2043 DataTree->topLevelItem(index)->setExpanded(1);
2044 DataTree->topLevelItem(index)->addChild(item);
2045 DataTree->setItemWidget(item, COLUMN_CLOSE_IMAGE, cButton);
2046 DataTree->setItemWidget(item, COLUMN_RELOAD_IMAGE, rButton);
2048 //set the id of the image
2049 QString id = DataTree->topLevelItem(index)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString();
2050 item->setData(COLUMN_IMAGE_NAME,Qt::UserRole,id.toStdString().c_str());
2052 qApp->processEvents();
2054 QApplication::restoreOverrideCursor();
2056 // Update the display to update, e.g., the sliders
2057 for(int i=0; i<4; i++)
2058 DisplaySliders(index, i);
2060 QApplication::restoreOverrideCursor();
2061 QString error = "Cannot import the new image.\n";
2062 error += mSlicerManagers[index]->GetLastError().c_str();
2063 QMessageBox::information(this,tr("Problem reading image !"),error);
2065 WindowLevelChanged();
2068 QMessageBox::information(this,tr("Problem reading Overlay !"),"File doesn't exist!");
2070 //------------------------------------------------------------------------------
2073 //------------------------------------------------------------------------------
2074 void vvMainWindow::AddROI(int index, QString file)
2077 // Get slice manager
2081 vvImageReader * mReader = new vvImageReader;
2082 mReader->SetInputFilename(filename.toStdString());
2083 mReader->Update(IMAGE);
2084 if (mReader->GetLastError().size() != 0) {
2085 std::cerr << "Error while reading " << filename.toStdString() << std::endl;
2086 QString error = "Cannot open file \n";
2087 error += mReader->GetLastError().c_str();
2088 QMessageBox::information(this,tr("Reading problem"),error);
2092 vvImage::Pointer roi = mReader->GetOutput();
2094 // Create roi in new tool
2095 vvToolStructureSetManager::AddImage(mCurrentSlicerManager, roi);
2098 //------------------------------------------------------------------------------
2100 //------------------------------------------------------------------------------
2101 void vvMainWindow::SelectFusionImage()
2103 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2105 //check if one fusion image is added
2106 for (int child = 0; child < DataTree->topLevelItem(index)->childCount(); child++)
2107 if ( (DataTree->topLevelItem(index)->child(child)->data(1,Qt::UserRole).toString() == "fusion") ||
2108 (DataTree->topLevelItem(index)->child(child)->data(1,Qt::UserRole).toString() == "fusionSequence") ) {
2109 QString error = "Cannot add more than one fusion image\n";
2110 error += "Please remove first ";
2111 error += DataTree->topLevelItem(index)->child(child)->data(COLUMN_IMAGE_NAME,Qt::DisplayRole).toString();
2112 QMessageBox::information(this,tr("Problem adding fusion image !"),error);
2116 QString Extensions = EXTENSIONS;
2117 Extensions += ";;All Files (*)";
2118 QStringList files = QFileDialog::getOpenFileNames(this,tr("Load Fusion image"),mInputPathName,Extensions);
2119 if (files.isEmpty())
2122 std::vector<std::string> vecFileNames;
2123 for (int i = 0; i < files.size(); i++) {
2124 vecFileNames.push_back(files[i].toStdString());
2126 AddFusionImage(index,vecFileNames,vvImageReader::IMAGE);
2128 //------------------------------------------------------------------------------
2130 //------------------------------------------------------------------------------
2131 void vvMainWindow::ResetTransformationToIdentity()
2133 std::string actorType = DataTree->selectedItems()[0]->data(1,Qt::UserRole).toString().toStdString();
2134 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2135 mSlicerManagers[index]->ResetTransformationToIdentity(actorType);
2138 //------------------------------------------------------------------------------
2140 //------------------------------------------------------------------------------
2141 void vvMainWindow::AddFusionImage(int index, std::vector<std::string> fileNames, vvImageReader::LoadedImageType type)
2143 QString file(fileNames[0].c_str());
2144 if (QFile::exists(file))
2146 mInputPathName = itksys::SystemTools::GetFilenamePath(file.toStdString()).c_str();
2147 itk::ImageIOBase::Pointer reader = itk::ImageIOFactory::CreateImageIO(
2148 file.toStdString().c_str(), itk::ImageIOFactory::ReadMode);
2149 reader->SetFileName(fileNames[0].c_str());
2150 reader->ReadImageInformation();
2151 std::string component = reader->GetComponentTypeAsString(reader->GetComponentType());
2152 int dimension = reader->GetNumberOfDimensions();
2153 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
2154 vvProgressDialog progress("Opening fusion");
2155 qApp->processEvents();
2157 std::string filename = itksys::SystemTools::GetFilenameWithoutExtension(file.toStdString()).c_str();
2158 if (mSlicerManagers[index]->SetFusion(fileNames,dimension, component,type)) {
2159 //create an item in the tree with good settings
2160 QTreeWidgetItem *item = new QTreeWidgetItem();
2161 item->setData(0,Qt::UserRole,file.toStdString().c_str());
2162 item->setData(1,Qt::UserRole,tr("fusion"));
2163 QFileInfo fileinfo(file); //Do not show the path
2164 item->setData(COLUMN_IMAGE_NAME,Qt::DisplayRole,fileinfo.fileName());
2165 item->setToolTip(COLUMN_IMAGE_NAME, mSlicerManagers[index]->GetListOfAbsoluteFilePathInOneString("fusion").c_str());
2166 qApp->processEvents();
2168 for (int j = 1; j <= 4; j++) {
2169 item->setData(j,Qt::CheckStateRole,DataTree->topLevelItem(index)->data(j,Qt::CheckStateRole));
2172 //Create the buttons for reload and close
2173 qApp->processEvents();
2174 QTreePushButton* cButton = new QTreePushButton;
2175 cButton->setItem(item);
2176 cButton->setColumn(COLUMN_CLOSE_IMAGE);
2177 cButton->setToolTip(tr("close image"));
2178 cButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/exit.png")));
2179 connect(cButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2180 this,SLOT(CloseImage(QTreeWidgetItem*, int)));
2182 QTreePushButton* rButton = new QTreePushButton;
2183 rButton->setItem(item);
2184 rButton->setColumn(COLUMN_RELOAD_IMAGE);
2185 rButton->setToolTip(tr("reload image"));
2186 rButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/rotateright.png")));
2187 connect(rButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2188 this,SLOT(ReloadImage(QTreeWidgetItem*, int)));
2190 DataTree->topLevelItem(index)->setExpanded(1);
2191 DataTree->topLevelItem(index)->addChild(item);
2192 DataTree->setItemWidget(item, COLUMN_CLOSE_IMAGE, cButton);
2193 DataTree->setItemWidget(item, COLUMN_RELOAD_IMAGE, rButton);
2195 //set the id of the image
2196 QString id = DataTree->topLevelItem(index)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString();
2197 item->setData(COLUMN_IMAGE_NAME,Qt::UserRole,id.toStdString().c_str());
2199 qApp->processEvents();
2201 QApplication::restoreOverrideCursor();
2203 // Update the display to update, e.g., the sliders
2204 for(int i=0; i<4; i++)
2205 DisplaySliders(index, i);
2207 QApplication::restoreOverrideCursor();
2208 QString error = "Cannot import the new image.\n";
2209 error += mSlicerManagers[index]->GetLastError().c_str();
2210 QMessageBox::information(this,tr("Problem reading image !"),error);
2212 WindowLevelChanged();
2215 QMessageBox::information(this,tr("Problem reading Fusion !"),"File doesn't exist!");
2217 //------------------------------------------------------------------------------
2218 //------------------------------------------------------------------------------
2219 void vvMainWindow::AddLandmarks(int index, std::vector<std::string> files)
2221 if (!landmarksPanel->LoadFromFile(files))
2222 QMessageBox::information(this,tr("Problem reading Landmarks !"),"File doesn't exist!");
2224 landmarksPanel->SetCurrentPath(mInputPathName.toStdString());
2225 landmarksPanel->SetCurrentImage(mSlicerManagers[index]->GetFileName().c_str());
2228 //------------------------------------------------------------------------------
2229 void vvMainWindow::OpenField()
2231 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2232 //check if a vector field has already been added
2233 for (int child = 0; child < DataTree->topLevelItem(index)->childCount(); child++)
2234 if (DataTree->topLevelItem(index)->child(child)->data(1,Qt::UserRole).toString() == "vector") {
2235 QString error = "Cannot add more than one vector field\n";
2236 error += "Please remove first ";
2237 error += DataTree->topLevelItem(index)->child(child)->data(COLUMN_IMAGE_NAME,Qt::DisplayRole).toString();
2238 QMessageBox::information(this,tr("Problem adding vector field!"),error);
2242 QString Extensions = "Images ( *.mhd)";
2243 Extensions += ";;Images ( *.mha)";
2244 Extensions += ";;VF Images ( *.vf)";
2245 Extensions += ";;nii Images ( *.nii)";
2246 Extensions += ";;nrrd Images ( *.nrrd)";
2247 Extensions += ";;nhdr Images ( *.nhdr)";
2248 Extensions += ";;All Files (*)";
2249 QString file = QFileDialog::getOpenFileName(this,tr("Load deformation field"),mInputPathName,Extensions);
2250 if (!file.isEmpty())
2251 AddField(file,index);
2253 //------------------------------------------------------------------------------
2256 //------------------------------------------------------------------------------
2257 void vvMainWindow::AddFieldEntry(QString filename,int index,bool from_disk)
2259 //create an item in the tree with good settings
2260 QTreeWidgetItem *item = new QTreeWidgetItem();
2261 item->setData(0,Qt::UserRole,filename.toStdString().c_str());
2262 item->setData(1,Qt::UserRole,tr("vector"));
2263 QFileInfo fileinfo(filename); //Do not show the path
2264 item->setData(COLUMN_IMAGE_NAME,Qt::DisplayRole,fileinfo.fileName());
2265 item->setToolTip(COLUMN_IMAGE_NAME, mSlicerManagers[index]->GetListOfAbsoluteFilePathInOneString("vector").c_str());
2266 qApp->processEvents();
2268 for (int j = 1; j <= 4; j++) {
2269 item->setData(j,Qt::CheckStateRole,DataTree->topLevelItem(index)->data(j,Qt::CheckStateRole));
2272 //Create the buttons for reload and close
2273 qApp->processEvents();
2274 QTreePushButton* cButton = new QTreePushButton;
2275 cButton->setItem(item);
2276 cButton->setColumn(COLUMN_CLOSE_IMAGE);
2277 cButton->setToolTip(tr("close vector field"));
2278 cButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/exit.png")));
2279 connect(cButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2280 this,SLOT(CloseImage(QTreeWidgetItem*, int)));
2282 QTreePushButton* rButton = new QTreePushButton;
2283 rButton->setItem(item);
2284 rButton->setColumn(COLUMN_RELOAD_IMAGE);
2285 rButton->setToolTip(tr("reload vector field"));
2286 rButton->setEnabled(from_disk);
2287 rButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/rotateright.png")));
2288 connect(rButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2289 this,SLOT(ReloadImage(QTreeWidgetItem*, int)));
2291 DataTree->topLevelItem(index)->setExpanded(1);
2292 DataTree->topLevelItem(index)->addChild(item);
2293 DataTree->setItemWidget(item, COLUMN_RELOAD_IMAGE, rButton);
2294 DataTree->setItemWidget(item, COLUMN_CLOSE_IMAGE, cButton);
2296 //set the id of the image
2297 QString id = DataTree->topLevelItem(index)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString();
2298 item->setData(COLUMN_IMAGE_NAME,Qt::UserRole,id.toStdString().c_str());
2300 qApp->processEvents();
2302 QApplication::restoreOverrideCursor();
2304 //------------------------------------------------------------------------------
2307 //------------------------------------------------------------------------------
2308 void vvMainWindow::AddField(vvImage::Pointer vf,QString file,int index)
2310 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
2311 vvSlicerManager* imageManager = mSlicerManagers[index];
2312 if (imageManager->SetVF(vf,file.toStdString())) {
2313 AddFieldEntry(file,index,false);
2315 QString error = "Cannot import the vector field for this image.\n";
2316 error += imageManager->GetLastError().c_str();
2317 QMessageBox::information(this,tr("Problem reading VF !"),error);
2319 QApplication::restoreOverrideCursor();
2321 //------------------------------------------------------------------------------
2324 //------------------------------------------------------------------------------
2325 void vvMainWindow::AddField(QString file,int index)
2327 if (QFile::exists(file)) {
2328 mInputPathName = itksys::SystemTools::GetFilenamePath(file.toStdString()).c_str();
2330 //init the progress events
2331 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
2332 vvProgressDialog progress("Opening " + file.toStdString());
2333 qApp->processEvents();
2335 //read the vector and put it in the current mSlicerManager
2336 vvSlicerManager* imageManager = mSlicerManagers[index];
2337 qApp->processEvents();
2339 std::string filename = itksys::SystemTools::GetFilenameWithoutExtension(file.toStdString()).c_str();
2340 if (imageManager->SetVF(file.toStdString())) {
2341 imageManager->Render();
2342 AddFieldEntry(file,index,true);
2344 QApplication::restoreOverrideCursor();
2345 QString error = "Cannot import the vector field for this image.\n";
2346 error += imageManager->GetLastError().c_str();
2347 QMessageBox::information(this,tr("Problem reading VF !"),error);
2350 QMessageBox::information(this,tr("Problem reading VF !"),"File doesn't exist!");
2353 //------------------------------------------------------------------------------
2356 //------------------------------------------------------------------------------
2357 void vvMainWindow::SetVFProperty(int subsampling, int scale, int log, int width, double r, double g, double b)
2359 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2360 if (mSlicerManagers[index]->GetSlicer(0)->GetVF()) {
2361 for (int i = 0; i < 4; i++) {
2362 mSlicerManagers[index]->GetSlicer(i)->SetVFSubSampling(subsampling);
2363 mSlicerManagers[index]->GetSlicer(i)->SetVFScale(scale);
2364 mSlicerManagers[index]->GetSlicer(i)->SetVFWidth(width);
2365 mSlicerManagers[index]->GetSlicer(i)->SetVFColor(r,g,b);
2367 mSlicerManagers[index]->GetSlicer(i)->SetVFLog(1);
2369 mSlicerManagers[index]->GetSlicer(i)->SetVFLog(0);
2373 //------------------------------------------------------------------------------
2376 //------------------------------------------------------------------------------
2377 void vvMainWindow::SetOverlayProperty(int color, int linked, double window, double level)
2379 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2380 if (mSlicerManagers[index]->GetSlicer(0)->GetOverlay()) {
2381 mSlicerManagers[index]->SetOverlayColor(color);
2382 mSlicerManagers[index]->SetColorMap(0);
2383 mSlicerManagers[index]->SetLinkOverlayWindowLevel(linked);
2384 mSlicerManagers[index]->SetOverlayColorWindow(window);
2385 mSlicerManagers[index]->SetOverlayColorLevel(level);
2386 mSlicerManagers[index]->Render();
2389 //------------------------------------------------------------------------------
2391 //------------------------------------------------------------------------------
2392 void vvMainWindow::SetFusionProperty(int opacity, int thresOpacity, int colormap,double window, double level, bool showLegend)
2394 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2395 if (mSlicerManagers[index]->GetSlicer(0)->GetFusion()) {
2396 mSlicerManagers[index]->SetFusionColorMap(colormap);
2397 mSlicerManagers[index]->SetFusionOpacity(opacity);
2398 mSlicerManagers[index]->SetFusionThresholdOpacity(thresOpacity);
2399 mSlicerManagers[index]->SetFusionWindow(window);
2400 mSlicerManagers[index]->SetFusionLevel(level);
2401 mSlicerManagers[index]->SetFusionShowLegend(showLegend);
2402 mSlicerManagers[index]->SetColorMap(0);
2403 mSlicerManagers[index]->Render();
2406 //------------------------------------------------------------------------------
2409 //------------------------------------------------------------------------------
2410 void vvMainWindow::SelectFusionSequence()
2412 //get the index of the slicer manager of the main sequence (CT)
2413 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2414 //check if one overlay image is already associated
2415 for (int child = 0; child < DataTree->topLevelItem(index)->childCount(); child++)
2416 if ( (DataTree->topLevelItem(index)->child(child)->data(1,Qt::UserRole).toString() == "fusion") ||
2417 (DataTree->topLevelItem(index)->child(child)->data(1,Qt::UserRole).toString() == "fusionSequence") ) {
2418 QString error = "Cannot add more than one compared image\n";
2419 error += "Please remove first ";
2420 error += DataTree->topLevelItem(index)->child(child)->data(COLUMN_IMAGE_NAME,Qt::DisplayRole).toString();
2421 QMessageBox::information(this,tr("Problem adding compared image !"),error);
2425 QString Extensions = EXTENSIONS;
2426 Extensions += ";;All Files (*)";
2427 QStringList files = QFileDialog::getOpenFileNames(this,tr("Load Overlay image sequence"),mInputPathName,Extensions);
2428 if (files.isEmpty())
2431 std::vector<std::string> vecFileNames;
2432 for (int i = 0; i < files.size(); i++) {
2433 vecFileNames.push_back(files[i].toStdString());
2436 //associate the secondary sequence (US) to the main one
2437 AddFusionSequence(index,vecFileNames,vvImageReader::MERGEDWITHTIME);
2439 //------------------------------------------------------------------------------
2442 //------------------------------------------------------------------------------
2443 void vvMainWindow::SelectFusionSequenceCorrespondances() {
2445 //make sure the index is right?
2446 //in the end, I should attach the temporal data to the right sequence!
2447 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2448 //in case the other sequence got selected, make sure we select the primary sequence
2449 if ( (!mSlicerManagers[index]->GetSlicer(0)->GetFusion()) && mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()>=0 ) {
2450 index = mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager();
2453 //open a dialog box to find a file
2454 //QString Extensions = EXTENSIONS;
2455 QString Extensions = ";;All Files (*)";
2456 QString fileName = QFileDialog::getOpenFileName(this,tr("Load respiratory signal for fused sequence"),mInputPathName,Extensions);
2457 if (fileName.isNull())
2460 //read it as a vector of values
2461 vnl_vector<double> tmpVect;
2464 file.open(fileName.toStdString().c_str());
2465 tmpVect.read_ascii(file);
2468 //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
2469 bool signalOK = true;
2470 unsigned nbFrameMain = mSlicerManagers[index]->GetImage()->GetTransform().size();
2471 unsigned nbFrameSecondary = mSlicerManagers[index]->GetFusionSequenceNbFrames();
2472 std::cout<<"nbFrameMain = "<<nbFrameMain<<", nbFrameSecondary= "<<nbFrameSecondary<<", signal size: "<<tmpVect.size()<<std::endl;
2473 std::vector<unsigned> temporalCorrespondances;
2474 if ( tmpVect.size() == nbFrameMain + nbFrameSecondary ) {
2475 for (unsigned i=0 ; i<tmpVect.size() ; i++) {
2476 if (i<nbFrameMain) { //first part of the file: i -> index in secondary seq.
2477 if ( tmpVect(i)<nbFrameSecondary ) temporalCorrespondances.push_back(tmpVect(i));
2478 else { signalOK=false; break; } //pointing outside the secondary sequence...
2480 else { //first part of the file -> index in secondary seq.
2481 if ( tmpVect(i)<nbFrameMain ) temporalCorrespondances.push_back(tmpVect(i));
2482 else { signalOK=false; break; } //pointing outside the secondary sequence...
2486 else {signalOK=false;}
2487 if (!signalOK) {//else, send a message to signal the failure...
2488 QString error = "The provided temporal correspondances is invalid - check tooltip.\n";
2489 error += "Ignoring file: " + fileName;
2490 QMessageBox::information(this,tr("Problem adding temporal correspondances!"),error);
2494 //for convenience, associate this sequence to both the current slicer manager, and to the linked one
2495 mSlicerManagers[index]->SetFusionSequenceCorrespondances(temporalCorrespondances);
2496 mSlicerManagers[ mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager() ]->SetFusionSequenceCorrespondances(temporalCorrespondances);
2497 overlayPanel->enableFusionSequenceTemporalSync();
2501 //------------------------------------------------------------------------------
2504 //------------------------------------------------------------------------------
2505 //when this function is called index is the slicer manager index corresponding to the main sequence (CT)
2506 //the files behind fileNames points to the data for the secondary sequence
2507 void vvMainWindow::AddFusionSequence(int index, std::vector<std::string> fileNames, vvImageReader::LoadedImageType type)
2509 QString file(fileNames[0].c_str());
2510 if (QFile::exists(file))
2512 mInputPathName = itksys::SystemTools::GetFilenamePath(file.toStdString()).c_str();
2513 itk::ImageIOBase::Pointer reader = itk::ImageIOFactory::CreateImageIO(
2514 file.toStdString().c_str(), itk::ImageIOFactory::ReadMode);
2515 std::sort (fileNames.begin(), fileNames.end());//make sure the files are sorted.
2516 reader->SetFileName(fileNames[0].c_str());
2517 reader->ReadImageInformation();
2518 std::string component = reader->GetComponentTypeAsString(reader->GetComponentType());
2519 int dimension = reader->GetNumberOfDimensions();
2520 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
2521 vvProgressDialog progress("Opening " + file.toStdString());
2522 qApp->processEvents();
2524 std::string filename = itksys::SystemTools::GetFilenameWithoutExtension(file.toStdString()).c_str();
2526 if (mSlicerManagers[index]->SetFusionSequence(fileNames,dimension, component,type)) {
2527 //create an item in the tree with good settings
2528 QTreeWidgetItem *item = new QTreeWidgetItem();
2529 item->setData(0,Qt::UserRole,file.toStdString().c_str());
2530 item->setData(1,Qt::UserRole,tr("fusionSequence"));
2532 QFileInfo fileinfo(file); //Do not show the path
2533 item->setData(COLUMN_IMAGE_NAME,Qt::DisplayRole,fileinfo.fileName());
2534 item->setToolTip(COLUMN_IMAGE_NAME, mSlicerManagers[index]->GetListOfAbsoluteFilePathInOneString("fusionSequence").c_str());
2535 qApp->processEvents();
2536 for (int j = 1; j <= 4; j++) {
2537 item->setData(j,Qt::CheckStateRole,DataTree->topLevelItem(index)->data(j,Qt::CheckStateRole));
2540 //Create the buttons for reload and close
2541 qApp->processEvents();
2542 QTreePushButton* cButton = new QTreePushButton;
2543 cButton->setItem(item);
2544 cButton->setColumn(COLUMN_CLOSE_IMAGE);
2545 cButton->setToolTip(tr("close image"));
2546 cButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/exit.png")));
2547 connect(cButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2548 this,SLOT(CloseImage(QTreeWidgetItem*, int)));
2550 QTreePushButton* rButton = new QTreePushButton;
2551 rButton->setItem(item);
2552 rButton->setColumn(COLUMN_RELOAD_IMAGE);
2553 rButton->setToolTip(tr("reload image"));
2554 rButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/rotateright.png")));
2555 connect(rButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2556 this,SLOT(ReloadImage(QTreeWidgetItem*, int)));
2558 DataTree->topLevelItem(index)->setExpanded(1);
2559 DataTree->topLevelItem(index)->addChild(item);
2560 DataTree->setItemWidget(item, COLUMN_CLOSE_IMAGE, cButton);
2561 DataTree->setItemWidget(item, COLUMN_RELOAD_IMAGE, rButton);
2563 //store the original transform matrix
2564 int indexParent = GetSlicerIndexFromItem( DataTree->topLevelItem(index) );
2565 mSlicerManagers[indexParent]->SetFusionSequenceMainTransformMatrix( mSlicerManagers[indexParent]->GetSlicer(0)->GetImage()->GetTransform()[0]->GetMatrix() );
2567 //set the id of the image
2568 QString id = DataTree->topLevelItem(index)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString();
2569 item->setData(COLUMN_IMAGE_NAME,Qt::UserRole,id.toStdString().c_str());
2571 qApp->processEvents();
2573 //ImageInfoChanged();
2575 QApplication::restoreOverrideCursor();
2576 // Update the display to update, e.g., the sliders
2577 for(int i=0; i<4; i++)
2578 DisplaySliders(index, i);
2581 //This loads the secondary sequence (US) as an independent sequence
2582 LoadImages(fileNames, type);
2583 //reset the transforms to identity
2584 //FIX -- and set the thickness of the US slices to a large value (necessary for visualization purposes...)
2585 double sp_x, sp_y, sp_z;
2586 mSlicerManagers[indexParent]->GetImage()->GetVTKImages()[0]->GetSpacing(sp_x, sp_y, sp_z);
2587 sp_z = std::max(sp_x, std::max(sp_y, sp_z)) + 0.5; //
2588 for (unsigned i=0 ; i<mSlicerManagers.back()->GetImage()->GetTransform().size() ; i++) {
2589 sp_x = mSlicerManagers.back()->GetImage()->GetVTKImages()[i]->GetSpacing()[0];
2590 sp_y = mSlicerManagers.back()->GetImage()->GetVTKImages()[i]->GetSpacing()[1];
2591 mSlicerManagers.back()->GetImage()->GetVTKImages()[i]->SetSpacing( sp_x, sp_y, sp_z);
2592 mSlicerManagers.back()->GetImage()->GetTransform()[i]->Identity();
2593 mSlicerManagers.back()->GetImage()->GetTransform()[i]->Update();
2596 //automatically link both images...
2597 AddLink(mSlicerManagers[indexParent]->GetId().c_str(), mSlicerManagers.back()->GetId().c_str(), false);
2599 //tie the main and secondary sequences by raising flags and informing each another of their respective SlicerManager indices
2600 mSlicerManagers[indexParent]->SetFusionSequenceIndexOfLinkedManager(mSlicerManagers.size()-1);
2601 mSlicerManagers[indexParent]->SetFusionSequenceInvolvmentCode(0); //main sequence
2602 mSlicerManagers.back()->SetFusionSequenceIndexOfLinkedManager(indexParent);
2603 mSlicerManagers.back()->SetFusionSequenceInvolvmentCode(1); //secondary sequence
2604 for (unsigned i=0 ; i<4 ; i++) {
2605 mSlicerManagers.back()->GetSlicer(i)->SetFusionSequenceCode(1); //flag the slicers of the secondary sequence
2609 QApplication::restoreOverrideCursor();
2610 QString error = "Cannot import the new image.\n";
2611 error += mSlicerManagers[index]->GetLastError().c_str();
2612 QMessageBox::information(this,tr("Problem reading image !"),error);
2614 WindowLevelChanged();
2615 ImageInfoChanged(); //this internally calls WindowLevelChanged...
2618 QMessageBox::information(this,tr("Problem reading fusion sequence !"),"File doesn't exist!");
2623 //------------------------------------------------------------------------------
2626 //------------------------------------------------------------------------------
2627 //fusionSequenceFrameIndex and fusionSequenceNbFrames are relative to the secondary sequence (US)
2628 void vvMainWindow::SetFusionSequenceProperty(int fusionSequenceFrameIndex, bool spatialSyncFlag, unsigned int fusionSequenceNbFrames, bool temporalSyncFlag)
2630 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2632 if (!mSlicerManagers[index]->IsInvolvedInFusionSequence()) return;
2634 //check if the focus moved to the linked sequence, and in this case, select the master sequence instead
2635 if (!mSlicerManagers[index]->IsMainSequenceOfFusionSequence()) {
2636 index = mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager();
2638 int secondaryIndex = mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager();
2639 if (secondaryIndex==-1) return; //this should never happen
2640 if ( (!mSlicerManagers[index]->IsMainSequenceOfFusionSequence()) ||
2641 (!mSlicerManagers[secondaryIndex]->IsSecondarySequenceOfFusionSequence()) )
2642 {return;} //this should never happen, raise an exception?
2644 if (mSlicerManagers[index]->GetSlicer(0)->GetFusion()) {
2646 //First, if the spatialSync button is unchecked, then reposition the parent sequence (CT) in its original coordinate frame
2647 if ( (!spatialSyncFlag) && (mSlicerManagers[index]->GetFusionSequenceSpatialSyncFlag()) ) {
2648 for ( unsigned i=0 ; i<mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform().size() ; i++ ) {
2649 mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform()[i]->SetMatrix( mSlicerManagers[index]->GetFusionSequenceMainTransformMatrix() );
2650 mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform()[i]->Update();
2653 for (int i=0; i<mSlicerManagers[index]->GetNumberOfSlicers(); i++) {
2654 mSlicerManagers[index]->GetSlicer(i)->ForceUpdateDisplayExtent();
2655 mSlicerManagers[index]->GetSlicer(i)->Render();
2659 //then, update the property values in the slicer manager
2660 mSlicerManagers[index]->SetFusionSequenceLength(fusionSequenceNbFrames);
2661 mSlicerManagers[index]->SetFusionSequenceSpatialSyncFlag(spatialSyncFlag);
2662 mSlicerManagers[index]->SetFusionSequenceTemporalSyncFlag(temporalSyncFlag);
2663 mSlicerManagers[index]->SetFusionSequenceFrameIndex(fusionSequenceFrameIndex);
2665 //select the right frame of the US sequence
2666 mSlicerManagers[index]->SetFusionSequenceTSlice(fusionSequenceFrameIndex); //here, I should only update the overlayed sequence
2667 mSlicerManagers[secondaryIndex]->SetTSlice(fusionSequenceFrameIndex, false); //this should update the secondary sequence (individual version)
2669 //update the horizontal sliders of the main window
2670 overlayPanel->updateFusionSequenceSliderValueFromWindow(fusionSequenceFrameIndex, false);
2672 if (spatialSyncFlag) { //reslice the CT
2674 if (temporalSyncFlag) { //do the temporal synchronisation
2675 int mainSequenceFrameIndex=0;
2676 //estimate the TSlice to set to the CT
2677 unsigned nbFramesMain = mSlicerManagers[index]->GetImage()->GetTransform().size();
2678 mainSequenceFrameIndex = mSlicerManagers[index]->GetFusionSequenceCorrespondances()[ nbFramesMain + fusionSequenceFrameIndex];
2680 mSlicerManagers[index]->SetTSlice(mainSequenceFrameIndex, false);
2681 //warning, there is a loopback, and modification of the TSlice in main sequence forces an update of the TSlice in secondary, etc...
2685 //Set the transform matrix of the parent sequence (typically CT / 4DCT)
2686 vtkSmartPointer<vtkMatrix4x4> tmpMat = vtkSmartPointer<vtkMatrix4x4>::New();
2687 vtkMatrix4x4::Invert( mSlicerManagers[index]->GetFusionSequenceInitialTransformMatrixAtFrame(fusionSequenceFrameIndex), tmpMat );
2688 for ( unsigned i=0 ; i<mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform().size() ; i++ ) {
2689 mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform()[i]->SetMatrix( mSlicerManagers[index]->GetFusionSequenceMainTransformMatrix() );
2690 mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform()[i]->PreMultiply();
2691 mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform()[i]->Concatenate( tmpMat );
2692 mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform()[i]->Update();
2695 for (int i=0; i<mSlicerManagers[index]->GetNumberOfSlicers(); i++) {
2696 mSlicerManagers[index]->GetSlicer(i)->ForceUpdateDisplayExtent();
2697 mSlicerManagers[index]->GetSlicer(i)->Render();
2704 //------------------------------------------------------------------------------
2707 //------------------------------------------------------------------------------
2708 void vvMainWindow::SaveAs()
2710 if (DataTree->selectedItems()[0]->data(1,Qt::UserRole).toString() == "vector") {
2711 QMessageBox::warning(this,tr("Unsupported type"),tr("Sorry, saving a vector field is unsupported for the moment"));
2715 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2716 int dimension = mSlicerManagers[index]->GetDimension();
2717 QStringList OutputListeFormat;
2718 OutputListeFormat.clear();
2719 if (dimension == 1) {
2720 OutputListeFormat.push_back(".mhd");
2721 OutputListeFormat.push_back(".mha");
2723 if (dimension == 2) {
2724 OutputListeFormat.push_back(".bmp");
2725 OutputListeFormat.push_back(".png");
2726 OutputListeFormat.push_back(".jpeg");
2727 OutputListeFormat.push_back(".tif");
2728 OutputListeFormat.push_back(".mhd");
2729 OutputListeFormat.push_back(".mha");
2730 OutputListeFormat.push_back(".hdr");
2731 OutputListeFormat.push_back(".vox");
2732 } else if (dimension == 3) {
2733 OutputListeFormat.push_back(".mhd");
2734 OutputListeFormat.push_back(".mha");
2735 OutputListeFormat.push_back(".nii");
2736 OutputListeFormat.push_back(".nrrd");
2737 OutputListeFormat.push_back(".nhdr");
2738 OutputListeFormat.push_back(".hdr");
2739 OutputListeFormat.push_back(".vox");
2740 } else if (dimension == 4) {
2741 OutputListeFormat.push_back(".mhd");
2742 OutputListeFormat.push_back(".mha");
2743 OutputListeFormat.push_back(".nii");
2744 OutputListeFormat.push_back(".nrrd");
2745 OutputListeFormat.push_back(".nhdr");
2747 QString Extensions = "AllFiles(*.*)";
2748 for (int i = 0; i < OutputListeFormat.count(); i++) {
2749 Extensions += ";;Images ( *";
2750 Extensions += OutputListeFormat[i];
2753 QString fileName = QFileDialog::getSaveFileName(this,
2755 mSlicerManagers[index]->GetFileName().c_str(),
2757 if (!fileName.isEmpty()) {
2758 std::string fileformat = itksys::SystemTools::GetFilenameLastExtension(fileName.toStdString());
2759 if (OutputListeFormat.contains(
2760 fileformat.c_str())) {
2761 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
2762 std::string action = "Saving";
2763 vvProgressDialog progress("Saving "+fileName.toStdString());
2764 qApp->processEvents();
2765 vvImageWriter::Pointer writer = vvImageWriter::New();
2766 writer->SetOutputFileName(fileName.toStdString());
2767 writer->SetInput(mSlicerManagers[index]->GetImage());
2769 // Check on transform and prompt user
2770 writer->SetSaveTransform(false);
2772 for(int i=0; i<4; i++)
2773 for(int j=0; j<4; j++) {
2774 // TODO SR and BP: check on the list of transforms and not the first only
2775 double elt = mSlicerManagers[index]->GetImage()->GetTransform()[0]->GetMatrix()->GetElement(i,j);
2782 QString warning = "The image has an associated linear transform. Do you want to save it along?";
2783 QMessageBox msgBox(QMessageBox::Warning, tr("Save transform"), warning, 0, this);
2784 msgBox.addButton(tr("Yes"), QMessageBox::AcceptRole);
2785 msgBox.addButton(tr("No"), QMessageBox::RejectRole);
2786 if (msgBox.exec() == QMessageBox::AcceptRole)
2787 writer->SetSaveTransform(true);
2791 QApplication::restoreOverrideCursor();
2792 if (writer->GetLastError().size()) {
2793 QString error = "Saving did not succeed\n";
2794 error += writer->GetLastError().c_str();
2795 QMessageBox::information(this,tr("Saving Problem"),error);
2799 QString error = fileformat.c_str();
2800 if (error.isEmpty())
2801 error += "no file format specified !";
2803 error += " format unknown !!!\n";
2804 QMessageBox::information(this,tr("Saving Problem"),error);
2809 //------------------------------------------------------------------------------
2811 //------------------------------------------------------------------------------
2812 void vvMainWindow::SaveCurrentState()
2814 QString Extensions = "XML Files(*.xml)";
2815 QString fileName = QFileDialog::getSaveFileName(this,
2816 tr("Save Current Window State"),
2820 SaveCurrentStateAs(fileName.toStdString());
2822 //------------------------------------------------------------------------------
2824 //------------------------------------------------------------------------------
2825 void vvMainWindow::SaveCurrentStateAs(const std::string& stateFile)
2827 vvSaveState save_state;
2828 save_state.Run(this, stateFile);
2831 //------------------------------------------------------------------------------
2832 void vvMainWindow::ReadSavedState()
2834 QString Extensions = "XML Files(*.xml)";
2835 QString fileName = QFileDialog::getOpenFileName(this,
2836 tr("Load Window State"),
2840 ReadSavedStateFile(fileName.toStdString());
2842 //------------------------------------------------------------------------------
2844 //------------------------------------------------------------------------------
2845 void vvMainWindow::ReadSavedStateFile(const std::string& stateFile)
2847 vvReadState read_state;
2848 read_state.Run(this, stateFile);
2850 //------------------------------------------------------------------------------
2852 //------------------------------------------------------------------------------
2853 void vvMainWindow::LinkAllImages()
2855 linkPanel->linkAll();
2858 //------------------------------------------------------------------------------
2859 void vvMainWindow::AddLink(QString image1,QString image2,bool fromPanel)
2862 // delegate to linkPanel if call came from elsewhere...
2863 linkPanel->addLinkFromIds(image1, image2);
2867 unsigned int sm1 = 0;
2868 unsigned int sm2 = 0;
2870 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
2871 if (image1.toStdString() == mSlicerManagers[i]->GetId()) {
2872 mSlicerManagers[i]->AddLink(image2.toStdString());
2875 if (image2.toStdString() == mSlicerManagers[i]->GetId()) {
2876 mSlicerManagers[i]->AddLink(image1.toStdString());
2881 if (linkPanel->isLinkAll()) {
2882 emit UpdateLinkedNavigation(mSlicerManagers[sm1]->GetId(), mSlicerManagers[mCurrentPickedImageIndex], mSlicerManagers[mCurrentPickedImageIndex]->GetSlicer(0));
2883 emit UpdateLinkedNavigation(mSlicerManagers[sm2]->GetId(), mSlicerManagers[mCurrentPickedImageIndex], mSlicerManagers[mCurrentPickedImageIndex]->GetSlicer(0));
2885 emit UpdateLinkedNavigation(mSlicerManagers[sm2]->GetId(), mSlicerManagers[sm1], mSlicerManagers[sm1]->GetSlicer(0));
2889 //------------------------------------------------------------------------------
2892 //------------------------------------------------------------------------------
2893 void vvMainWindow::RemoveLink(QString image1,QString image2)
2895 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
2896 if (image1.toStdString() == mSlicerManagers[i]->GetId()) {
2897 mSlicerManagers[i]->RemoveLink(image2.toStdString());
2899 if (image2.toStdString() == mSlicerManagers[i]->GetId()) {
2900 mSlicerManagers[i]->RemoveLink(image1.toStdString());
2904 //------------------------------------------------------------------------------
2906 //------------------------------------------------------------------------------
2907 void vvMainWindow::ChangeImageWithIndexOffset(vvSlicerManager *sm, int slicer, int offset)
2909 if(mSlicerManagers.size()==1)
2913 while(sm != mSlicerManagers[index])
2915 index = (index+offset+mSlicerManagers.size()) % mSlicerManagers.size();
2917 QTreeWidgetItem* item = GetItemFromSlicerManager(mSlicerManagers[index]);
2918 item->setData(slicer+1,Qt::CheckStateRole,2); //change checkbox
2919 CurrentImageChanged(mSlicerManagers[index]->GetId()); //select new image
2920 DisplayChanged(item,slicer+1);
2922 //------------------------------------------------------------------------------
2923 void vvMainWindow::HorizontalSliderMoved(int value,int column, int slicer_index)
2925 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
2926 if (DataTree->topLevelItem(i)->data(column,Qt::CheckStateRole).toInt() > 1) {
2927 //i is the SlicerManager that is in charge of this slicer.
2928 if (mSlicerManagers[i]->IsInvolvedInFusionSequence()) {
2929 //if the slicerManager is involved in a fusionSequence as the secondary sequence, then update the slider position in the overlay panel and everything accordingly
2930 if (mSlicerManagers[i]->IsSecondarySequenceOfFusionSequence()) {
2931 overlayPanel->updateFusionSequenceSliderValueFromWindow(value, true);
2933 else { //if this is the primary sequence that has been modified
2934 if (mSlicerManagers[i]->GetFusionSequenceTemporalSyncFlag()) {
2935 //WARNING: for some obscure reason, there are problems when accessing mSlicerManagers[mSlicerManagers[i]->GetFusionSequenceIndexOfLinkedManager()]->GetFusionSequenceFrameIndex();
2937 int estimatedValue=0;
2938 //estimate a corresponding time index for the secondary (US) sequence, and update it accordingly.
2939 estimatedValue = mSlicerManagers[i]->GetFusionSequenceCorrespondances()[ value ];
2940 //TODO: at the moment, there is a loop in TSlice modifications
2941 //modifying sequence 1 causes seq 2 to update, which in turns update seq1...
2942 //I disable control on seq1 at the moment.
2943 //overlayPanel->updateFusionSequenceSliderValueFromWindow(estimatedValue, true);
2948 for (int j = 0; j < 4; j++) {
2949 mSlicerManagers[i]->SetTSliceInSlicer(value,j);
2951 mSlicerManagers[i]->GetSlicer(slicer_index)->Render();
2956 //------------------------------------------------------------------------------
2959 //------------------------------------------------------------------------------
2960 void vvMainWindow::NOHorizontalSliderMoved()
2962 // if (mCurrentTime == NOHorizontalSlider->value()) return;
2963 HorizontalSliderMoved(NOHorizontalSlider->value(),COLUMN_UL_VIEW,0);
2964 // mCurrentTime = NOHorizontalSlider->value();
2966 //------------------------------------------------------------------------------
2969 //------------------------------------------------------------------------------
2970 void vvMainWindow::NEHorizontalSliderMoved()
2972 // if (mCurrentTime == NEHorizontalSlider->value()) return;
2973 HorizontalSliderMoved(NEHorizontalSlider->value(),COLUMN_UR_VIEW,1);
2974 // mCurrentTime = NEHorizontalSlider->value();
2976 //------------------------------------------------------------------------------
2979 //------------------------------------------------------------------------------
2980 void vvMainWindow::SOHorizontalSliderMoved()
2982 // if (mCurrentTime == SOHorizontalSlider->value()) return;
2983 HorizontalSliderMoved(SOHorizontalSlider->value(),COLUMN_DL_VIEW,2);
2984 // mCurrentTime = SOHorizontalSlider->value();
2986 //------------------------------------------------------------------------------
2989 //------------------------------------------------------------------------------
2990 void vvMainWindow::SEHorizontalSliderMoved()
2992 // if (mCurrentTime == SEHorizontalSlider->value()) return;
2993 HorizontalSliderMoved(SEHorizontalSlider->value(),COLUMN_DR_VIEW,3);
2994 // mCurrentTime = SEHorizontalSlider->value();
2996 //------------------------------------------------------------------------------
2998 //------------------------------------------------------------------------------
2999 void vvMainWindow::NOVerticalSliderChanged()
3001 static int value=-1;
3002 if (value == NOVerticalSlider->value()) return;
3003 else value = NOVerticalSlider->value();
3004 // int value = NOVerticalSlider->value();
3005 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
3006 if (DataTree->topLevelItem(i)->data(COLUMN_UL_VIEW,Qt::CheckStateRole).toInt() > 1) {
3007 if (mSlicerManagers[i]->GetSlicer(0)->GetSlice() != value) {
3008 mSlicerManagers[i]->GetSlicer(0)->SetSlice(value);
3009 mSlicerManagers[i]->VerticalSliderHasChanged(0, value);
3011 // If nor Update/Render -> slider not work
3012 // only render = ok navigation, but for contour Update needed but slower ?
3014 mSlicerManagers[i]->UpdateSlice(0); // <-- DS add this. Not too much update ? YES. but needed for ImageContour ...
3015 //mSlicerManagers[i]->GetSlicer(0)->Render(); // <-- DS add this, needed for contour, seems ok ? not too slow ?
3021 //------------------------------------------------------------------------------
3024 //------------------------------------------------------------------------------
3025 void vvMainWindow::NEVerticalSliderChanged()
3027 static int value=-1;
3028 if (value == NEVerticalSlider->value()) return;
3029 else value = NEVerticalSlider->value();
3030 // int value = NEVerticalSlider->value();
3031 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
3032 if (DataTree->topLevelItem(i)->data(COLUMN_UR_VIEW,Qt::CheckStateRole).toInt() > 1) {
3033 if (mSlicerManagers[i]->GetSlicer(1)->GetSlice() != value) {
3034 mSlicerManagers[i]->GetSlicer(1)->SetSlice(value);
3035 mSlicerManagers[i]->VerticalSliderHasChanged(1, value);
3036 mSlicerManagers[i]->UpdateSlice(1);
3037 //mSlicerManagers[i]->GetSlicer(1)->Render(); // <-- DS add this, needed for contour, seems ok ? not too slow ?
3043 //------------------------------------------------------------------------------
3046 //------------------------------------------------------------------------------
3047 void vvMainWindow::SOVerticalSliderChanged()
3049 static int value=-1;
3050 if (value == SOVerticalSlider->value()) return;
3051 else value = SOVerticalSlider->value();
3052 //int value = SOVerticalSlider->value();
3053 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
3054 if (DataTree->topLevelItem(i)->data(COLUMN_DL_VIEW,Qt::CheckStateRole).toInt() > 1) {
3055 if (mSlicerManagers[i]->GetSlicer(2)->GetSlice() != value) {
3056 mSlicerManagers[i]->GetSlicer(2)->SetSlice(value);
3057 mSlicerManagers[i]->VerticalSliderHasChanged(2, value);
3058 mSlicerManagers[i]->UpdateSlice(2);
3059 //mSlicerManagers[i]->GetSlicer(2)->Render(); // <-- DS add this, needed for contour, seems ok ? not too slow ?
3061 // else { DD("avoid SOVerticalSlider slicer update"); }
3066 //------------------------------------------------------------------------------
3069 //------------------------------------------------------------------------------
3070 void vvMainWindow::SEVerticalSliderChanged()
3072 static int value=-1;
3073 if (value == SEVerticalSlider->value()) return;
3074 else value = SEVerticalSlider->value();
3075 // int value = SEVerticalSlider->value();
3076 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
3077 if (DataTree->topLevelItem(i)->data(COLUMN_DR_VIEW,Qt::CheckStateRole).toInt() > 1) {
3078 if (mSlicerManagers[i]->GetSlicer(3)->GetSlice() != value) {
3079 mSlicerManagers[i]->GetSlicer(3)->SetSlice(value);
3080 mSlicerManagers[i]->VerticalSliderHasChanged(3, value);
3081 mSlicerManagers[i]->UpdateSlice(3);
3082 //mSlicerManagers[i]->GetSlicer(3)->Render(); // <-- DS add this, needed for contour, seems ok ? not too slow ?
3088 //------------------------------------------------------------------------------
3091 //------------------------------------------------------------------------------
3092 void vvMainWindow::UpdateSlice(int slicer, int slice)
3094 // DD("vvMainWindow::UpdateSlice");
3098 // if (slice != NOVerticalSlider->value())
3099 NOVerticalSlider->setValue(slice);
3102 NEVerticalSlider->setValue(slice);
3105 SOVerticalSlider->setValue(slice);
3108 SEVerticalSlider->setValue(slice);
3112 // DD("vvMainWindow:UpdateSlice END");
3114 //------------------------------------------------------------------------------
3117 //------------------------------------------------------------------------------
3118 void vvMainWindow::UpdateTSlice(int slicer, int slice, int code)
3120 //FusionSequence: the slider value should be updated for slicers which show the same sequence as requested
3121 bool doUpdate=false;
3122 if (code==-1) doUpdate=true;
3124 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
3125 if (DataTree->topLevelItem(i)->data(slicer+1,Qt::CheckStateRole).toInt() > 1) {
3126 //i is the active SlicerManager
3127 if (mSlicerManagers[i]->GetFusionSequenceInvolvmentCode()==code) doUpdate=true;
3132 if (!doUpdate) return;
3136 if (NOHorizontalSlider->value()==slice) return;
3137 NOHorizontalSlider->setValue(slice);
3140 if (NEHorizontalSlider->value()==slice) return;
3141 NEHorizontalSlider->setValue(slice);
3144 if (SOHorizontalSlider->value()==slice) return;
3145 SOHorizontalSlider->setValue(slice);
3148 if (SEHorizontalSlider->value()==slice) return;
3149 SEHorizontalSlider->setValue(slice);
3153 //------------------------------------------------------------------------------
3156 //------------------------------------------------------------------------------
3157 void vvMainWindow::UpdateSliceRange(int slicer, int min, int max, int tmin, int tmax)
3159 //int position = int((min+max)/2);
3160 int position = mSlicerManagers[mCurrentPickedImageIndex]->GetSlicer(slicer)->GetSlice();
3162 NOVerticalSlider->setRange(min,max);
3163 NOHorizontalSlider->setRange(tmin,tmax);
3164 NOVerticalSlider->setValue(position);
3165 } else if (slicer == 1) {
3166 NEVerticalSlider->setRange(min,max);
3167 NEHorizontalSlider->setRange(tmin,tmax);
3168 NEVerticalSlider->setValue(position);
3169 } else if (slicer == 2) {
3170 SOVerticalSlider->setRange(min,max);
3171 SOHorizontalSlider->setRange(tmin,tmax);
3172 SOVerticalSlider->setValue(position);
3173 } else if (slicer == 3) {
3174 SEVerticalSlider->setRange(min,max);
3175 SEHorizontalSlider->setRange(tmin,tmax);
3176 SEVerticalSlider->setValue(position);
3179 //------------------------------------------------------------------------------
3182 //------------------------------------------------------------------------------
3183 void vvMainWindow::SaveNOScreenshot()
3185 SaveScreenshot(NOViewWidget);
3187 //------------------------------------------------------------------------------
3190 //------------------------------------------------------------------------------
3191 void vvMainWindow::SaveNEScreenshot()
3193 SaveScreenshot(NEViewWidget);
3195 //------------------------------------------------------------------------------
3198 //------------------------------------------------------------------------------
3199 void vvMainWindow::SaveSOScreenshot()
3201 SaveScreenshot(SOViewWidget);
3203 //------------------------------------------------------------------------------
3206 //------------------------------------------------------------------------------
3207 void vvMainWindow::SaveSEScreenshot()
3209 SaveScreenshot(SEViewWidget);
3211 //------------------------------------------------------------------------------
3214 //------------------------------------------------------------------------------
3215 void vvMainWindow::SaveScreenshotAllSlices()
3217 QVTKWidget *widget = NOViewWidget;
3219 int index = 0;// GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
3220 vvSlicerManager * SM = mSlicerManagers[index];
3221 vvImage * image = SM->GetImage();
3222 vvSlicer * slicer = SM->GetSlicer(0);
3223 int orientation = slicer->GetOrientation();
3224 int nbSlices = image->GetSize()[orientation];
3225 vtkSmartPointer<vtkRenderWindow> renderWindow = widget->GetRenderWindow();
3227 // Select filename base
3228 QString filename = QFileDialog::getSaveFileName(this,
3229 tr("Save As (filename will be completed by slice number)"),
3230 itksys::SystemTools::GetFilenamePath(mSlicerManagers[index]->GetFileName()).c_str(),
3231 "Images( *.png);;Images( *.jpg)");
3234 for(int i=0; i<nbSlices; i++) {
3236 slicer->SetSlice(i); // -> change the slice of the current slicer
3237 SM->UpdateSlice(0); // --> this one emit UpdateSlice
3238 QCoreApplication::flush(); // -> needed to force display of contours
3241 vtkSmartPointer<vtkWindowToImageFilter> windowToImageFilter = vtkSmartPointer<vtkWindowToImageFilter>::New();
3242 windowToImageFilter->SetInput(renderWindow);
3243 windowToImageFilter->SetMagnification(1);
3244 windowToImageFilter->SetInputBufferTypeToRGBA(); //also record the alpha (transparency) channel
3245 windowToImageFilter->Update();
3247 vtkSmartPointer<vtkPNGWriter> writer = vtkSmartPointer<vtkPNGWriter>::New();
3248 std::string fn = itksys::SystemTools::GetFilenameWithoutLastExtension(filename.toStdString());
3249 std::string num = clitk::toString(i);
3250 if (i<10) num = "0"+num;
3251 if (i<100) num = "0"+num;
3252 if (i<1000) num = "0"+num;
3254 fn = itksys::SystemTools::GetFilenamePath(filename.toStdString()) + "/"+ fn
3255 + "_" + num + itksys::SystemTools::GetFilenameLastExtension(filename.toStdString());
3256 writer->SetFileName(fn.c_str());
3257 writer->SetInput(windowToImageFilter->GetOutput());
3261 //------------------------------------------------------------------------------
3264 //------------------------------------------------------------------------------
3265 void vvMainWindow::SaveScreenshot(QVTKWidget *widget)
3267 QString Extensions = "Images( *.png);;";
3268 Extensions += "Images( *.jpg);;";
3269 Extensions += "Images( *.bmp);;";
3270 Extensions += "Images( *.tif);;";
3271 Extensions += "Images( *.ppm)";
3272 #if defined(VTK_USE_FFMPEG_ENCODER) || defined(VTK_USE_VIDEO_FOR_WINDOWS)
3273 Extensions += ";;Video( *.avi)";
3275 #ifdef VTK_USE_MPEG2_ENCODER
3276 Extensions += ";;Video( *.mpg)";
3278 #ifdef CLITK_EXPERIMENTAL
3279 Extensions += ";;Video( *.gif)";
3282 int smIndex=GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
3283 QString fileName = QFileDialog::getSaveFileName(this,
3285 itksys::SystemTools::GetFilenamePath(mSlicerManagers[smIndex]->GetFileName()).c_str(),
3288 if (!fileName.isEmpty()) {
3289 vtkSmartPointer<vtkWindowToImageFilter> w2i = vtkSmartPointer<vtkWindowToImageFilter>::New();
3290 w2i->SetInput(widget->GetRenderWindow());
3292 vtkImageData *image = w2i->GetOutput();
3294 std::string ext(itksys::SystemTools::GetFilenameLastExtension(fileName.toStdString()));
3297 vtkImageWriter *imgwriter = NULL;
3299 imgwriter = vtkBMPWriter::New();
3300 else if (ext==".tif")
3301 imgwriter = vtkTIFFWriter::New();
3302 else if (ext==".ppm")
3303 imgwriter = vtkPNMWriter::New();
3304 else if (ext==".png")
3305 imgwriter = vtkPNGWriter::New();
3306 else if (ext==".jpg")
3307 imgwriter = vtkJPEGWriter::New();
3309 // Snapshot image if not null
3310 if(imgwriter!=NULL) {
3311 imgwriter->SetInput(image);
3312 imgwriter->SetFileName(fileName.toStdString().c_str());
3318 vtkGenericMovieWriter *vidwriter = NULL;
3319 #if CLITK_EXPERIMENTAL == 1
3321 vvAnimatedGIFWriter *gif = vvAnimatedGIFWriter::New();
3326 int fps = QInputDialog::getInteger(this, tr("Number of frames per second"),
3327 tr("FPS:"), 5, 0, 1000, 1, &ok);
3332 int loops = QInputDialog::getInteger(this, tr("Loops"),
3333 tr("Number of loops (0 means infinite):"), 0, 0, 1000000000, 1, &ok);
3335 gif->SetLoops(loops);
3338 QString msg = "Would you like to activate dithering?";
3339 QMessageBox msgBox(QMessageBox::Question, tr("Dithering"),msg, 0, this);
3340 msgBox.addButton(tr("Yes"), QMessageBox::AcceptRole);
3341 msgBox.addButton(tr("No"), QMessageBox::RejectRole);
3342 gif->SetDither(msgBox.exec() == QMessageBox::AcceptRole);
3345 #ifdef VTK_USE_VIDEO_FOR_WINDOWS
3347 vtkAVIWriter *mpg = vtkAVIWriter::New();
3351 int fps = QInputDialog::getInteger(this, tr("Number of frames per second"),
3352 tr("FPS:"), 5, 0, 1024, 1, &ok);
3358 #ifdef VTK_USE_FFMPEG_ENCODER
3360 vtkFFMPEGWriter *mpg = vtkFFMPEGWriter::New();
3364 int fps = QInputDialog::getInteger(this, tr("Number of frames per second"),
3365 tr("FPS:"), 5, 0, 1024, 1, &ok);
3369 mpg->SetBitRateTolerance(int(ceil(12.0*1024*1024/fps)));
3372 #ifdef VTK_USE_MPEG2_ENCODER
3374 vtkMPEG2Writer *mpg = vtkMPEG2Writer::New();
3379 // Take video if not null
3380 if(vidwriter!=NULL){
3381 vidwriter->SetInput(image);
3382 vidwriter->SetFileName(fileName.toStdString().c_str());
3384 int nSlice = mSlicerManagers[smIndex]->GetSlicer(0)->GetTMax();
3385 for(int i=0; i<=nSlice; i++) {
3386 mSlicerManagers[smIndex]->SetNextTSlice(0);
3387 vtkSmartPointer<vtkWindowToImageFilter> w2i = vtkSmartPointer<vtkWindowToImageFilter>::New();
3388 w2i->SetInput(widget->GetRenderWindow());
3390 vidwriter->SetInput(w2i->GetOutput());
3394 vidwriter->Delete();
3398 QMessageBox::information(this,tr("Problem saving screenshot !"),tr("Cannot save image.\nPlease set a file extension !!!"));
3401 //------------------------------------------------------------------------------
3404 //------------------------------------------------------------------------------
3405 void vvMainWindow::GoToCursor()
3407 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
3408 for (int column = 1; column < 5; column++) {
3409 if (DataTree->selectedItems()[0]->data(column,Qt::CheckStateRole).toInt() > 1) {
3410 double* cursorPos = mSlicerManagers[index]->GetSlicer(column-1)->GetCursorPosition();
3411 mSlicerManagers[index]->GetSlicer(column-1)->SetCurrentPosition(
3412 cursorPos[0],cursorPos[1],cursorPos[2],cursorPos[3]);
3413 mSlicerManagers[index]->UpdateViews(1,column-1);
3414 mSlicerManagers[index]->UpdateLinked(column-1);
3419 //------------------------------------------------------------------------------
3421 //------------------------------------------------------------------------------
3422 void vvMainWindow::GoToLandmark()
3424 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
3425 for (int column = 1; column < 5; column++) {
3426 if (DataTree->selectedItems()[0]->data(column,Qt::CheckStateRole).toInt() > 1) {
3427 double* cursorPos = landmarksPanel->GetSelectedPoint();
3428 mSlicerManagers[index]->GetSlicer(column-1)->SetCurrentPosition(
3429 cursorPos[0],cursorPos[1],cursorPos[2],cursorPos[3]);
3430 mSlicerManagers[index]->UpdateViews(1,column-1);
3431 mSlicerManagers[index]->UpdateLinked(column-1);
3436 //------------------------------------------------------------------------------
3438 //------------------------------------------------------------------------------
3439 void vvMainWindow::PlayPause()
3443 playButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/player_play.png")));
3447 int image_number=DataTree->topLevelItemCount();
3449 for (int i=0; i<image_number; i++)
3450 if (mSlicerManagers[i]->GetSlicer(0)->GetTMax() > 0) {
3456 playButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/player_pause.png")));
3457 QTimer::singleShot(1000/mFrameRate, this, SLOT(PlayNext()));
3461 //------------------------------------------------------------------------------
3463 //------------------------------------------------------------------------------
3464 void vvMainWindow::PlayNext()
3466 if (playMode && !this->isHidden()) {
3467 int image_number=DataTree->topLevelItemCount();
3468 ///Only play one slicer per SM, and only if the SM is being displayed
3469 for (int i=0; i<image_number; i++)
3470 for (int j=0; j<4; j++)
3471 if (mSlicerManagers[i]->GetSlicer(0)->GetTMax() > 0 &&
3472 DataTree->topLevelItem(i)->data(j+1,Qt::CheckStateRole).toInt() > 0) {
3473 mSlicerManagers[i]->SetNextTSlice(j);
3476 QTimer::singleShot(1000/mFrameRate, this, SLOT(PlayNext()));
3479 //------------------------------------------------------------------------------
3481 void vvMainWindow::ShowLastImage()
3483 if (mSlicerManagers.size() > 1) {
3484 QTreeWidgetItem * item=DataTree->topLevelItem(DataTree->topLevelItemCount()-1);
3485 CurrentImageChanged(mSlicerManagers.back()->GetId()); //select new image
3486 item->setData(1,Qt::CheckStateRole,2); //show the new image in the first panel
3487 DisplayChanged(item,1);
3491 //------------------------------------------------------------------------------
3492 void vvMainWindow::UpdateRenderWindows()
3494 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
3495 mSlicerManagers[i]->GetSlicer(0)->UpdateLandmarks();
3496 mSlicerManagers[i]->GetSlicer(1)->UpdateLandmarks();
3497 mSlicerManagers[i]->GetSlicer(2)->UpdateLandmarks();
3498 mSlicerManagers[i]->GetSlicer(3)->UpdateLandmarks();
3500 if (NOViewWidget->GetRenderWindow()) NOViewWidget->GetRenderWindow()->Render();
3501 if (NEViewWidget->GetRenderWindow()) NEViewWidget->GetRenderWindow()->Render();
3502 if (SOViewWidget->GetRenderWindow()) SOViewWidget->GetRenderWindow()->Render();
3503 if (SEViewWidget->GetRenderWindow()) SEViewWidget->GetRenderWindow()->Render();
3505 //------------------------------------------------------------------------------
3507 //------------------------------------------------------------------------------
3508 void vvMainWindow::SegmentationOnCurrentImage()
3510 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
3512 vvSegmentationDialog segmentation;
3513 segmentation.SetImage(mSlicerManagers[index]->GetSlicer(0)->GetImage());
3514 segmentation.exec();
3516 //------------------------------------------------------------------------------
3518 void vvMainWindow::SurfaceViewerLaunch()
3520 vvSurfaceViewerDialog surfaceViewer;
3521 surfaceViewer.exec();
3523 //------------------------------------------------------------------------------
3526 //------------------------------------------------------------------------------
3527 int vvMainWindow::GetImageDuplicateFilenameNumber(std::string filename)
3530 for(unsigned int l=0; l<mSlicerManagers.size(); l++) {
3531 vvSlicerManager * v = mSlicerManagers[l];
3532 if (v->GetBaseFileName() ==
3533 vtksys::SystemTools::GetFilenameName(vtksys::SystemTools::GetFilenameWithoutLastExtension(filename))) {
3534 number = std::max(number, v->GetBaseFileNameNumber()+1);
3539 //------------------------------------------------------------------------------
3542 //------------------------------------------------------------------------------
3543 vvSlicerManager* vvMainWindow::AddImage(vvImage::Pointer image,std::string filename)
3545 // Change filename if another image exist with the same name
3546 int number = GetImageDuplicateFilenameNumber(filename);
3548 // Create new SliceManager
3549 vvSlicerManager* slicer_manager = new vvSlicerManager(4);
3550 slicer_manager->SetImage(image);//, IMAGE, number);
3551 // filename = filename+"_"+clitk::toString(number);
3552 slicer_manager->SetFilename(filename, number);
3553 mSlicerManagers.push_back(slicer_manager);
3555 //create an item in the tree with good settings
3556 QTreeWidgetItem *item = new QTreeWidgetItem();
3557 item->setData(0,Qt::UserRole,slicer_manager->GetFileName().c_str());//files[i].c_str());
3558 item->setData(1,Qt::UserRole,tr("image"));
3559 item->setData(COLUMN_IMAGE_NAME,Qt::DisplayRole,slicer_manager->GetFileName().c_str());//filename.c_str());
3560 qApp->processEvents();
3562 for (int j = 1; j <= 4; j++) item->setData(j,Qt::CheckStateRole,1);
3564 //Create the buttons for reload and close
3565 qApp->processEvents();
3566 QTreePushButton* cButton = new QTreePushButton;
3567 cButton->setItem(item);
3568 cButton->setColumn(COLUMN_CLOSE_IMAGE);
3569 cButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/exit.png")));
3570 connect(cButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
3571 this,SLOT(CloseImage(QTreeWidgetItem*, int)));
3573 QTreePushButton* rButton = new QTreePushButton;
3574 rButton->setItem(item);
3575 rButton->setColumn(COLUMN_RELOAD_IMAGE);
3576 rButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/rotateright.png")));
3577 rButton->setEnabled(0);
3578 connect(rButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
3579 this,SLOT(ReloadImage(QTreeWidgetItem*, int)));
3581 DataTree->addTopLevelItem(item);
3582 DataTree->setItemWidget(item, COLUMN_CLOSE_IMAGE, cButton);
3583 DataTree->setItemWidget(item, COLUMN_RELOAD_IMAGE, rButton);
3585 //set the id of the image
3586 QString id = QDir::current().absoluteFilePath(slicer_manager->GetFileName().c_str()) + QString::number(mSlicerManagers.size()-1);
3587 item->setData(COLUMN_IMAGE_NAME,Qt::UserRole,id.toStdString().c_str());
3588 mSlicerManagers.back()->SetId(id.toStdString());
3590 linkPanel->addImage(slicer_manager->GetFileName().c_str()// filename
3591 , id.toStdString());
3593 connect(mSlicerManagers.back(), SIGNAL(currentImageChanged(std::string)),
3594 this, SLOT(CurrentImageChanged(std::string)));
3595 connect(mSlicerManagers.back(), SIGNAL(currentPickedImageChanged(std::string)),
3596 this, SLOT(CurrentPickedImageChanged(std::string)));
3597 connect(mSlicerManagers.back(), SIGNAL(UpdatePosition(int, double, double, double, double, double, double, double)),
3598 this, SLOT(MousePositionChanged(int,double, double, double, double, double, double, double)));
3599 connect(mSlicerManagers.back(), SIGNAL(UpdateVector(int, double, double, double, double)),
3600 this, SLOT(VectorChanged(int,double,double,double, double)));
3601 connect(mSlicerManagers.back(), SIGNAL(UpdateOverlay(int, double, double)),
3602 this, SLOT(OverlayChanged(int,double,double)));
3603 connect(mSlicerManagers.back(), SIGNAL(UpdateFusion(int, double)),
3604 this, SLOT(FusionChanged(int,double)));
3605 //connect(mSlicerManagers.back(), SIGNAL(UpdateFusionSequence(int, bool, unsigned int)),
3606 // this, SLOT(FusionSequenceChanged(int, bool, unsigned int)));
3607 connect(mSlicerManagers.back(), SIGNAL(WindowLevelChanged()),
3608 this,SLOT(WindowLevelChanged()));
3609 connect(mSlicerManagers.back(), SIGNAL(UpdateSlice(int,int)),
3610 this,SLOT(UpdateSlice(int,int)));
3611 connect(mSlicerManagers.back(), SIGNAL(UpdateTSlice(int, int, int)),
3612 this,SLOT(UpdateTSlice(int, int, int)));
3613 connect(mSlicerManagers.back(), SIGNAL(UpdateTSlice(int, int, int)),
3614 this,SLOT(ImageInfoChanged()));
3615 connect(mSlicerManagers.back(), SIGNAL(UpdateSliceRange(int,int,int,int,int)),
3616 this,SLOT(UpdateSliceRange(int,int,int,int,int)));
3617 connect(mSlicerManagers.back(), SIGNAL(UpdateLinkManager(std::string,int,double,double,double,int)),
3618 this,SLOT(UpdateLinkManager(std::string,int,double,double,double,int)));
3619 connect(mSlicerManagers.back(), SIGNAL(UpdateLinkedNavigation(std::string,vvSlicerManager*,vvSlicer*)),
3620 this,SLOT(UpdateLinkedNavigation(std::string,vvSlicerManager*,vvSlicer*)));
3621 connect(mSlicerManagers.back(), SIGNAL(ChangeImageWithIndexOffset(vvSlicerManager*,int,int)),
3622 this,SLOT(ChangeImageWithIndexOffset(vvSlicerManager*,int,int)));
3623 connect(mSlicerManagers.back(), SIGNAL(LandmarkAdded()),landmarksPanel,SLOT(AddPoint()));
3627 qApp->processEvents();
3631 qApp->processEvents();
3635 return slicer_manager;
3637 //------------------------------------------------------------------------------
3640 //------------------------------------------------------------------------------
3641 void vvMainWindow::UpdateCurrentSlicer()
3644 if (DataTree->selectedItems().size() > 0) {
3645 index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
3647 mSlicerManagerCurrentIndex = index;
3649 //------------------------------------------------------------------------------