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 "vvQPacsConnection.h"
51 #include "clitkConfiguration.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();
239 pacsconnect = new vvQPacsConnection(this);
241 inverseButton->setEnabled(0);
242 actionAdd_overlay_image_to_current_image->setEnabled(0);
243 actionSave_As->setEnabled(0);
244 actionAdd_VF_to_current_Image->setEnabled(0);
245 actionAdd_fusion_image->setEnabled(0);
246 actionAdd_USSequence_toCT->setEnabled(0);
249 verticalSliders.push_back(NOVerticalSlider);
250 verticalSliders.push_back(NEVerticalSlider);
251 verticalSliders.push_back(SOVerticalSlider);
252 verticalSliders.push_back(SEVerticalSlider);
254 for (int i =0; i < 4; i++)
255 verticalSliders[i]->hide();
257 horizontalSliders.push_back(NOHorizontalSlider);
258 horizontalSliders.push_back(NEHorizontalSlider);
259 horizontalSliders.push_back(SOHorizontalSlider);
260 horizontalSliders.push_back(SEHorizontalSlider);
262 for (int i =0; i < 4; i++)
263 horizontalSliders[i]->hide();
266 connect(NOVerticalSlider,SIGNAL(valueChanged(int)),this,SLOT(NOVerticalSliderChanged()));
267 connect(NEVerticalSlider,SIGNAL(valueChanged(int)),this,SLOT(NEVerticalSliderChanged()));
268 connect(SOVerticalSlider,SIGNAL(valueChanged(int)),this,SLOT(SOVerticalSliderChanged()));
269 connect(SEVerticalSlider,SIGNAL(valueChanged(int)),this,SLOT(SEVerticalSliderChanged()));
271 connect(NOHorizontalSlider,SIGNAL(valueChanged(int)),this,SLOT(NOHorizontalSliderMoved()));
272 connect(NEHorizontalSlider,SIGNAL(valueChanged(int)),this,SLOT(NEHorizontalSliderMoved()));
273 connect(SOHorizontalSlider,SIGNAL(valueChanged(int)),this,SLOT(SOHorizontalSliderMoved()));
274 connect(SEHorizontalSlider,SIGNAL(valueChanged(int)),this,SLOT(SEHorizontalSliderMoved()));
277 connect(actionCompute_mid_position_image,SIGNAL(triggered()),this,SLOT(ComputeMidPosition()));
278 connect(actionDeformable_Registration,SIGNAL(triggered()),this,SLOT(ComputeDeformableRegistration()));
279 connect(actionWarp_image_with_vector_field,SIGNAL(triggered()),this,SLOT(WarpImage()));
280 connect(actionLoad_images,SIGNAL(triggered()),this,SLOT(OpenImages()));
281 connect(actionOpen_Dicom,SIGNAL(triggered()),this,SLOT(OpenDicom()));
282 connect(actionConnect_Pacs,SIGNAL(triggered()),this,SLOT(ConnectPacs()));
284 // connect(actionOpen_Dicom_Struct,SIGNAL(triggered()),this,SLOT(OpenDCStructContour()));
285 connect(actionOpen_VTK_contour,SIGNAL(triggered()),this,SLOT(OpenVTKContour()));
286 connect(actionOpen_Multiple_Images_As_One,SIGNAL(triggered()),this,SLOT(MergeImages()));
287 connect(actionSlice_Image_As_Multiple_Images,SIGNAL(triggered()),this,SLOT(SliceImages()));
288 connect(actionOpen_Image_With_Time,SIGNAL(triggered()),this,SLOT(OpenImageWithTime()));
289 connect(actionMerge_images_as_n_dim_t, SIGNAL(triggered()), this, SLOT(MergeImagesWithTime()));
290 connect(actionSave_As,SIGNAL(triggered()),this,SLOT(SaveAs()));
291 connect(actionSave_current_state,SIGNAL(triggered()),this,SLOT(SaveCurrentState()));
292 connect(actionRead_saved_state,SIGNAL(triggered()),this,SLOT(ReadSavedState()));
293 connect(actionExit,SIGNAL(triggered()),this,SLOT(close()));
294 connect(actionAdd_VF_to_current_Image,SIGNAL(triggered()),this,SLOT(OpenField()));
295 connect(actionAdd_fusion_image,SIGNAL(triggered()),this,SLOT(SelectFusionImage()));
296 connect(actionAdd_overlay_image_to_current_image,SIGNAL(triggered()), this,SLOT(SelectOverlayImage()));
297 connect(actionAdd_USSequence_toCT,SIGNAL(triggered()), this,SLOT(SelectFusionSequence()));
298 connect(actionNavigation_Help,SIGNAL(triggered()),this,SLOT(ShowHelpDialog()));
299 connect(actionDocumentation,SIGNAL(triggered()),this,SLOT(ShowDocumentation()));
300 connect(actionRegister_vv,SIGNAL(triggered()),this,SLOT(PopupRegisterForm()));
302 connect(overlayPanel, SIGNAL(FusionSequenceCorrespondancesButtonPressed()), this, SLOT(SelectFusionSequenceCorrespondances()));
305 ///////////////////////////////////////////////
306 connect(actionSegmentation,SIGNAL(triggered()),this,SLOT(SegmentationOnCurrentImage()));
307 connect(actionSurface_Viewer,SIGNAL(triggered()),this,SLOT(SurfaceViewerLaunch()));
308 ///////////////////////////////////////////////
310 actionNorth_East_Window->setEnabled(0);
311 actionNorth_West_Window->setEnabled(0);
312 actionSouth_East_Window->setEnabled(0);
313 actionSouth_West_Window->setEnabled(0);
315 connect(actionNorth_East_Window,SIGNAL(triggered()),this,SLOT(SaveNEScreenshot()));
316 connect(actionNorth_West_Window,SIGNAL(triggered()),this,SLOT(SaveNOScreenshot()));
317 connect(actionSouth_East_Window,SIGNAL(triggered()),this,SLOT(SaveSEScreenshot()));
318 connect(actionSouth_West_Window,SIGNAL(triggered()),this,SLOT(SaveSOScreenshot()));
319 connect(actionSave_all_slices,SIGNAL(triggered()),this,SLOT(SaveScreenshotAllSlices()));
321 connect(DataTree,SIGNAL(itemSelectionChanged()),this,SLOT(ImageInfoChanged()));
322 connect(DataTree,SIGNAL(itemClicked(QTreeWidgetItem*, int)),this,
323 SLOT(DisplayChanged(QTreeWidgetItem*, int)));
325 connect(viewButton,SIGNAL(clicked()),this, SLOT(ChangeViewMode()) );
326 connect(windowSpinBox,SIGNAL(editingFinished()),this,SLOT(WindowLevelEdited()));
327 connect(levelSpinBox,SIGNAL(editingFinished()),this,SLOT(WindowLevelEdited()));
328 connect(colorMapComboBox,SIGNAL(currentIndexChanged(int)),this,SLOT(UpdateColorMap()));
329 connect(presetComboBox,SIGNAL(currentIndexChanged(int)),this,SLOT(UpdateWindowLevel()));
330 connect(slicingPresetComboBox, SIGNAL(currentIndexChanged(int)),this,SLOT(UpdateSlicingPreset()));
331 connect(inverseButton,SIGNAL(clicked()),this,SLOT(SwitchWindowLevel()));
332 connect(applyWindowLevelToAllButton,SIGNAL(clicked()),this,SLOT(ApplyWindowLevelToAllImages()));
334 connect(this,SIGNAL(customContextMenuRequested(QPoint)),this,SLOT(ShowContextMenu(QPoint)));
336 connect(linkPanel,SIGNAL(addLink(QString,QString,bool)),this,SLOT(AddLink(QString,QString,bool)));
337 connect(linkPanel,SIGNAL(removeLink(QString,QString)),this,SLOT(RemoveLink(QString,QString)));
338 connect(overlayPanel,SIGNAL(VFPropertyUpdated(int,int,int,int,double,double,double)),this,SLOT(SetVFProperty(int,int,int,int,double,double,double)));
339 connect(overlayPanel,SIGNAL(OverlayPropertyUpdated(int,int,double,double)),
340 this,SLOT(SetOverlayProperty(int,int,double,double)));
341 connect(overlayPanel,SIGNAL(FusionPropertyUpdated(int,int,int,double,double, bool)),
342 this,SLOT(SetFusionProperty(int,int,int,double,double, bool)));
343 connect(landmarksPanel,SIGNAL(UpdateRenderWindows()),this,SLOT(UpdateRenderWindows()));
344 connect(landmarksPanel,SIGNAL(SelectedPointChanged()),this,SLOT(GoToLandmark()));
346 connect(overlayPanel,SIGNAL(FusionSequencePropertyUpdated(int, bool, unsigned int, bool)),
347 this,SLOT(SetFusionSequenceProperty(int, bool,unsigned int, bool)));
352 playButton->setEnabled(0);
353 frameRateLabel->setEnabled(0);
354 frameRateSpinBox->setEnabled(0);
355 connect(playButton, SIGNAL(clicked()),this,SLOT(PlayPause()));
356 connect(frameRateSpinBox, SIGNAL(valueChanged(int)),this,SLOT(ChangeFrameRate(int)));
358 goToCursorPushButton->setEnabled(0);
359 connect(goToCursorPushButton, SIGNAL(clicked()),this,SLOT(GoToCursor()));
361 NOViewWidget->hide();
362 NEViewWidget->hide();
363 SOViewWidget->hide();
364 SEViewWidget->hide();
366 //Recently opened files
367 std::list<std::string> recent_files = GetRecentlyOpenedImages();
368 recentlyOpenedFilesMenu=NULL;
369 if ( !recent_files.empty() ) {
370 createRecentlyOpenedFilesMenu();
371 updateRecentlyOpenedFilesMenu(recent_files);
374 // Adding all new tools (insertion in the menu)
375 vvToolManager::GetInstance()->InsertToolsInMenu(this);
376 vvToolManager::GetInstance()->EnableToolsInMenu(this, false);
378 if (!CLITK_EXPERIMENTAL)
379 menuExperimental->menuAction()->setVisible(false);
382 QTimer * timerMemory = new QTimer(this);
383 //timerMemory->setInterval(5);
384 connect(timerMemory, SIGNAL(timeout()), this, SLOT(UpdateMemoryUsage()));
385 timerMemory->start(2000);
388 //------------------------------------------------------------------------------
389 void vvMainWindow::show()
391 vvMainWindowBase::show();
392 PopupRegisterForm(true);
394 //------------------------------------------------------------------------------
395 void vvMainWindow::UpdateMemoryUsage()
397 // clitk::PrintMemory(true);
398 if (clitk::GetMemoryUsageInMb() == 0) infoPanel->setMemoryInMb("NA");
399 else infoPanel->setMemoryInMb(QString::number(clitk::GetMemoryUsageInMb())+" MiB");
401 //------------------------------------------------------------------------------
404 //------------------------------------------------------------------------------
405 void vvMainWindow::createRecentlyOpenedFilesMenu()
407 recentlyOpenedFilesMenu = new QMenu("Recently opened files...");
408 recentlyOpenedFilesMenu->setIcon(QIcon(QString::fromUtf8(":/common/icons/open.png")));
409 menuFile->insertMenu(actionOpen_Image_With_Time,recentlyOpenedFilesMenu);
410 menuFile->insertSeparator(actionOpen_Image_With_Time);
412 //------------------------------------------------------------------------------
415 //------------------------------------------------------------------------------
417 void vvMainWindow::updateRecentlyOpenedFilesMenu(const std::list<std::string> &recent_files)
419 if(recentlyOpenedFilesMenu==NULL) {
420 createRecentlyOpenedFilesMenu();
422 recentlyOpenedFilesMenu->clear();
424 for (std::list<std::string>::const_iterator i = recent_files.begin(); i!=recent_files.end(); i++) {
425 QAction* current=new QAction(QIcon(QString::fromUtf8(":/common/icons/open.png")), i->c_str(),this);
426 recentlyOpenedFilesMenu->addAction(current);
427 connect(current,SIGNAL(triggered()),this,SLOT(OpenRecentImage()));
430 //------------------------------------------------------------------------------
433 //------------------------------------------------------------------------------
434 void vvMainWindow::ComputeMidPosition()
437 int index=GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
438 int ref = QInputDialog::getInteger(this,"Chose reference phase","Reference phase",0,0,\
439 mSlicerManagers[index]->GetImage()->GetVTKImages().size()-1,1,&ok);
442 midp.slicer_manager = mSlicerManagers[index];
443 midp.reference_image_index = ref;
444 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
447 QMessageBox::warning(this, "Error computing midposition image",midp.error_message.c_str());
449 QFileInfo info(midp.slicer_manager->GetFileName().c_str());
450 AddImage(midp.output,info.path().toStdString()+"/"+info.completeBaseName().toStdString()+"_midposition.mhd");
452 QApplication::restoreOverrideCursor();
455 //------------------------------------------------------------------------------
458 //------------------------------------------------------------------------------
459 void vvMainWindow::AddContour(int image_index, vvMesh::Pointer contour, bool propagation)
461 QTreeWidgetItem *item = new QTreeWidgetItem();
462 item->setData(0,Qt::UserRole,"filename.vtk");
463 item->setData(1,Qt::UserRole,tr("contour"));
465 brush.setColor(QColor(contour->r*255,contour->g*255,contour->b*255));
466 brush.setStyle(Qt::SolidPattern);
467 item->setData(COLUMN_IMAGE_NAME,Qt::BackgroundRole,brush);
468 // item->setData(COLUMN_IMAGE_NAME,Qt::DisplayRole,contour->structure_name.c_str());
470 for (int j = 1; j <= 4; j++)
471 item->setData(j,Qt::CheckStateRole,DataTree->topLevelItem(image_index)->data(j,Qt::CheckStateRole));
473 QTreePushButton* cButton = new QTreePushButton;
474 cButton->setItem(item);
475 cButton->setColumn(COLUMN_CLOSE_IMAGE);
476 cButton->setToolTip(tr("close image"));
477 cButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/exit.png")));
478 connect(cButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
479 this,SLOT(CloseImage(QTreeWidgetItem*, int)));
481 QTreePushButton* rButton = new QTreePushButton;
482 rButton->setItem(item);
483 rButton->setColumn(COLUMN_RELOAD_IMAGE);
484 rButton->setToolTip(tr("reload image"));
485 rButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/rotateright.png")));
486 rButton->setEnabled(false);
488 //connect(rButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
489 //this,SLOT(ReloadImage(QTreeWidgetItem*, int)));
491 DataTree->topLevelItem(image_index)->setExpanded(1);
492 DataTree->topLevelItem(image_index)->addChild(item);
493 DataTree->setItemWidget(item, COLUMN_CLOSE_IMAGE, cButton);
494 DataTree->setItemWidget(item, COLUMN_RELOAD_IMAGE, rButton);
495 QString id = DataTree->topLevelItem(image_index)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString();
496 item->setData(COLUMN_IMAGE_NAME,Qt::UserRole,id.toStdString().c_str());
499 mSlicerManagers[image_index]->AddContour(contour,propagation);
500 mSlicerManagers[image_index]->Render();
502 //------------------------------------------------------------------------------
505 //------------------------------------------------------------------------------
506 void vvMainWindow::OpenVTKContour()
508 if (mSlicerManagers.size() > 0) {
509 QString Extensions = "Images ( *.vtk *.obj)";
510 Extensions += ";;All Files (*)";
511 QString file = QFileDialog::getOpenFileName(this,tr("Open vtkPolyData"),mInputPathName,Extensions);
514 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
515 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
517 reader.SetImage(mSlicerManagers[index]->GetImage());
518 reader.SetModeToVTK();
519 reader.SetFilename(file.toStdString());
521 AddContour(index,reader.GetOutput()[0],false);
522 QApplication::restoreOverrideCursor();
525 //------------------------------------------------------------------------------
528 //------------------------------------------------------------------------------
529 void vvMainWindow::AddDCStructContour(int index, QString file)
532 reader.SetFilename(file.toStdString());
533 vvStructSelector selector;
534 selector.SetStructures(reader.GetROINames());
535 if (!mSlicerManagers[index]->GetVF().IsNull())
536 selector.EnablePropagationCheckBox();
537 if (selector.exec()) {
538 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
539 reader.SetSelectedItems(selector.getSelectedItems());
540 reader.SetImage(mSlicerManagers[index]->GetImage());
541 if (selector.PropagationEnabled())
542 reader.SetPropagationVF(mSlicerManagers[index]->GetVF());
544 std::vector<vvMesh::Pointer> contours=reader.GetOutput();
545 for (std::vector<vvMesh::Pointer>::iterator i=contours.begin();
546 i!=contours.end(); i++)
547 AddContour(index,*i,selector.PropagationEnabled());
548 QApplication::restoreOverrideCursor();
552 //------------------------------------------------------------------------------
553 void vvMainWindow::OpenDCStructContour()
555 if (mSlicerManagers.size() > 0) {
556 QString Extensions = "Dicom Files ( *.dcm RS*)";
557 Extensions += ";;All Files (*)";
558 QString file = QFileDialog::getOpenFileName(this,tr("Merge Images"),mInputPathName,Extensions);
561 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
562 AddDCStructContour(index, file);
565 //------------------------------------------------------------------------------
568 //------------------------------------------------------------------------------
569 void vvMainWindow::ComputeDeformableRegistration()
571 if (mSlicerManagers.size() > 0) {
572 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
573 vvDeformationDialog dialog(index,mSlicerManagers);
575 std::string base_name=itksys::SystemTools::GetFilenameWithoutExtension(mSlicerManagers[dialog.GetInputFileIndex()]->GetFileName());
576 AddField(dialog.GetOutput(),dialog.getFieldFile(),dialog.GetInputFileIndex());
577 WarpImage(dialog.GetSelectedSlicer(),dialog.GetReferenceFrameIndex());
579 std::cout << "Error or user cancellation while computing deformation field..." << std::endl;
580 } else QMessageBox::information(this, "Need to open image","You must open an image first.");
582 //------------------------------------------------------------------------------
585 //------------------------------------------------------------------------------
586 void vvMainWindow::WarpImage()
588 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
589 if (!mSlicerManagers[index]->GetVF().IsNull()) {
591 int ref = QInputDialog::getInteger(this,"Chose reference phase","Reference phase",0,0,\
592 mSlicerManagers[index]->GetImage()->GetVTKImages().size()-1,1,&ok);
594 WarpImage(mSlicerManagers[index],ref);
597 QMessageBox::warning(this,tr("No vector field"),tr("Sorry, can't warp without a vector field"));
599 //------------------------------------------------------------------------------
602 //------------------------------------------------------------------------------
603 void vvMainWindow::WarpImage(vvSlicerManager* selected_slicer,int reference_phase)
605 if (!selected_slicer->GetVF().IsNull()) {
606 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
607 QFileInfo info(selected_slicer->GetFileName().c_str());
608 vvImageWarp warp(selected_slicer->GetImage(),selected_slicer->GetVF(),
609 reference_phase,this);
610 if (warp.ComputeWarpedImage()) {
611 AddImage(warp.GetWarpedImage(),info.path().toStdString()+"/"+info.completeBaseName().toStdString()+"_warped.mhd");
612 AddImage(warp.GetDiffImage() ,info.path().toStdString()+"/"+info.completeBaseName().toStdString()+"_diff.mhd");
613 AddImage(warp.GetJacobianImage() ,info.path().toStdString()+"/"+info.completeBaseName().toStdString()+"_jacobian.mhd");
614 QApplication::restoreOverrideCursor();
616 QApplication::restoreOverrideCursor();
617 QMessageBox::warning(this,tr("Different spacings"),tr("The vector field and image spacings must be the same in order to warp."));
620 QMessageBox::warning(this,tr("No vector field"),tr("Sorry, can't warp without a vector field."));
622 //------------------------------------------------------------------------------
625 //------------------------------------------------------------------------------
626 vvMainWindow::~vvMainWindow()
628 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
629 if (mSlicerManagers[i] != NULL)
630 delete mSlicerManagers[i];
633 //------------------------------------------------------------------------------
635 //------------------------------------------------------------------------------
636 QTabWidget * vvMainWindow::GetTab()
640 //------------------------------------------------------------------------------
643 //------------------------------------------------------------------------------
644 void vvMainWindow::MergeImages()
646 QString Extensions = EXTENSIONS;
647 Extensions += ";;All Files (*)";
648 QStringList files = QFileDialog::getOpenFileNames(this,tr("Merge Images"),mInputPathName,Extensions);
651 mInputPathName = itksys::SystemTools::GetFilenamePath(files[0].toStdString()).c_str();
652 std::vector<std::string> vector;
654 unsigned int currentDim = 0;
655 std::vector<double> currentSpacing;
656 std::vector<int> currentSize;
657 std::vector<double> currentOrigin;
659 for (int i = 0; i < files.size(); i++) {
660 itk::ImageIOBase::Pointer reader = itk::ImageIOFactory::CreateImageIO(
661 files[i].toStdString().c_str(), itk::ImageIOFactory::ReadMode);
662 reader->SetFileName(files[i].toStdString().c_str());
663 reader->ReadImageInformation();
665 //NOViewWidget->hide();
666 //NEViewWidget->hide();
667 //SOViewWidget->hide();
668 //SEViewWidget->hide();
670 currentDim = reader->GetNumberOfDimensions();
672 for (unsigned int j = 0; j < currentDim; j++) {
675 currentSpacing.resize(currentDim);
676 currentSize.resize(currentDim);
677 currentOrigin.resize(currentDim);
679 currentOrigin[j] = reader->GetOrigin(j);
680 currentSpacing[j] = reader->GetSpacing(j);
681 currentSize[j] = reader->GetDimensions(j);
682 } else if (currentDim != reader->GetNumberOfDimensions()
683 || currentSpacing[j] != reader->GetSpacing(j)
684 || currentSize[j] != (int)reader->GetDimensions(j)
685 || currentOrigin[j] != reader->GetOrigin(j)) {
686 QString error = "Cannot read file (too different from others ";
687 error += files[i].toStdString().c_str();
688 QMessageBox::information(this,tr("Reading problem"),error);
694 vector.push_back(files[i].toStdString());
697 if (vector.size() > 0)
698 LoadImages(vector, vvImageReader::MERGED);
700 //------------------------------------------------------------------------------
702 //------------------------------------------------------------------------------
703 void vvMainWindow::SliceImages()
705 QString Extensions = EXTENSIONS;
706 Extensions += ";;All Files (*)";
708 QStringList files = QFileDialog::getOpenFileNames(this,tr("Slice Images"),mInputPathName,Extensions);
711 mInputPathName = itksys::SystemTools::GetFilenamePath(files[0].toStdString()).c_str();
712 std::vector<std::string> vector;
713 for (int i = 0; i < files.size(); i++)
714 vector.push_back(files[i].toStdString());
715 LoadImages(vector, vvImageReader::SLICED);
717 //------------------------------------------------------------------------------
719 //------------------------------------------------------------------------------
720 void vvMainWindow::MergeImagesWithTime()
722 QString Extensions = EXTENSIONS;
723 Extensions += ";;All Files (*)";
724 QStringList files = QFileDialog::getOpenFileNames(this,tr("Merge Images With Time"),mInputPathName,Extensions);
727 mInputPathName = itksys::SystemTools::GetFilenamePath(files[0].toStdString()).c_str();
728 std::vector<std::string> vector;
730 for (int i = 0; i < files.size(); i++)
731 vector.push_back(files[i].toStdString());
732 sort(vector.begin(),vector.end());
733 if (vector.size() > 1)
734 LoadImages(vector, vvImageReader::MERGEDWITHTIME);
736 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.");
738 //------------------------------------------------------------------------------
741 //------------------------------------------------------------------------------
742 void vvMainWindow::OpenDicom()
744 std::vector<std::string> files;
746 //std::cout << "dicomSeriesSelector " << std::endl;
747 if (dicomSeriesSelector->exec() == QDialog::Accepted) {
748 files = *(dicomSeriesSelector->GetFilenames());
749 LoadImages(files, vvImageReader::DICOM);
752 void vvMainWindow::ConnectPacs()
754 std::vector<std::string> files;
756 //std::cout << "dicomSeriesSelector " << std::endl;
757 if (pacsconnect->exec() == QDialog::Accepted) {
758 // files = *(pacsconnect->GetFilenames());
759 // LoadImages(files, vvImageReader::DICOM);
764 //------------------------------------------------------------------------------
766 //------------------------------------------------------------------------------
767 void vvMainWindow::OpenImages()
769 QString Extensions = EXTENSIONS;
770 Extensions += ";;All Files (*)";
772 QStringList files = QFileDialog::getOpenFileNames(this,tr("Load Images"),mInputPathName,Extensions);
775 mInputPathName = itksys::SystemTools::GetFilenamePath(files[0].toStdString()).c_str();
776 std::vector<std::string> vector;
777 for (int i = 0; i < files.size(); i++)
778 vector.push_back(files[i].toStdString());
779 LoadImages(vector, vvImageReader::IMAGE);
781 //------------------------------------------------------------------------------
782 void vvMainWindow::OpenRecentImage()
784 QAction * caller = qobject_cast<QAction*>(sender());
785 std::vector<std::string> images;
786 images.push_back(caller->text().toStdString());
787 mInputPathName = itksys::SystemTools::GetFilenamePath(images[0]).c_str();
788 LoadImages(images, vvImageReader::IMAGE);
790 //------------------------------------------------------------------------------
793 //------------------------------------------------------------------------------
794 void vvMainWindow::OpenImageWithTime()
796 QString Extensions = EXTENSIONS;
797 Extensions += ";;All Files (*)";
799 QStringList files = QFileDialog::getOpenFileNames(this,tr("Load Images With Time"),mInputPathName,Extensions);
802 mInputPathName = itksys::SystemTools::GetFilenamePath(files[0].toStdString()).c_str();
803 std::vector<std::string> vector;
804 for (int i = 0; i < files.size(); i++) {
805 vector.push_back(files[i].toStdString());
807 LoadImages(vector, vvImageReader::IMAGEWITHTIME);
809 //------------------------------------------------------------------------------
812 //------------------------------------------------------------------------------
813 void vvMainWindow::LoadImages(std::vector<std::string> files, vvImageReader::LoadedImageType filetype)
815 //Separate the way to open images and dicoms
817 if (filetype == vvImageReader::IMAGE || filetype == vvImageReader::IMAGEWITHTIME)
818 fileSize = files.size();
822 // For SLICED, we need the number of slices (ndim and #slices)
823 std::vector<unsigned int> nSlices;
824 nSlices.resize(files.size());
825 std::fill(nSlices.begin(), nSlices.end(), 1);
826 if (filetype == vvImageReader::SLICED) {
827 for (int i = 0; i < fileSize; i++) {
828 itk::ImageIOBase::Pointer header = clitk::readImageHeader(files[i]);
829 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
832 QString error = "Cannot open file \n";
833 error += files[i].c_str();
834 QMessageBox::information(this,tr("Reading problem"),error);
837 if (header->GetNumberOfDimensions() < 3) {
839 QString error = "Dimension problem. Cannot slice \n";
840 error += files[i].c_str();
841 QMessageBox::information(this,tr("Reading problem"),error);
844 nSlices[i] = header->GetDimensions( header->GetNumberOfDimensions()-1 );
848 //Only add to the list of recently opened files when a single file is opened,
849 //to avoid polluting the list of recently opened files
850 if (files.size() == 1) {
851 QFileInfo finfo=tr(files[0].c_str());
852 AddToRecentlyOpenedImages(finfo.absoluteFilePath().toStdString());
853 updateRecentlyOpenedFilesMenu(GetRecentlyOpenedImages());
855 //init the progress events
856 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
857 vvProgressDialog progress("Opening " + files[0],fileSize>1);
858 qApp->processEvents();
860 int numberofsuccesulreads=0;
861 //open images as 1 or multiples
862 for (int i = 0; i < fileSize; i++) {
863 progress.SetText("Opening " + files[i]);
864 progress.SetProgress(i,fileSize);
865 qApp->processEvents();
867 for (unsigned int j = 0; j < nSlices[i]; j++) {
868 //read the image and put it in mSlicerManagers
869 vvSlicerManager* imageManager = new vvSlicerManager(4);
870 qApp->processEvents();
872 bool SetImageSucceed=false;
874 // Change filename if an image with the same already exist
875 int number = GetImageDuplicateFilenameNumber(files[i] + std::string("_slice"));
877 if (filetype == vvImageReader::IMAGE || filetype == vvImageReader::IMAGEWITHTIME || filetype == vvImageReader::SLICED)
878 SetImageSucceed = imageManager->SetImage(files[i],filetype, number, j);
880 SetImageSucceed = imageManager->SetImages(files,filetype, number);
883 if (!SetImageSucceed) {
884 QApplication::restoreOverrideCursor();
885 QString error = "Cannot open file \n";
886 error += imageManager->GetLastError().c_str();
887 QMessageBox::information(this,tr("Reading problem"),error);
890 mSlicerManagers.push_back(imageManager);
892 //create an item in the tree with good settings
893 QTreeWidgetItem *item = new QTreeWidgetItem();
894 item->setData(0,Qt::UserRole,files[i].c_str());
895 QFileInfo fileinfo(imageManager->GetFileName().c_str()); //Do not show the path
896 item->setData(COLUMN_IMAGE_NAME,Qt::DisplayRole,fileinfo.fileName());
897 item->setData(1,Qt::UserRole,tr("image"));
898 item->setToolTip(COLUMN_IMAGE_NAME, imageManager->GetListOfAbsoluteFilePathInOneString("image").c_str());
899 qApp->processEvents();
901 //Create the buttons for reload and close
902 qApp->processEvents();
903 QTreePushButton* cButton = new QTreePushButton;
904 cButton->setItem(item);
905 cButton->setColumn(COLUMN_CLOSE_IMAGE);
906 cButton->setToolTip(tr("close image"));
907 cButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/exit.png")));
908 connect(cButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
909 this,SLOT(CloseImage(QTreeWidgetItem*, int)));
911 QTreePushButton* rButton = new QTreePushButton;
912 rButton->setItem(item);
913 rButton->setColumn(COLUMN_RELOAD_IMAGE);
914 rButton->setToolTip(tr("reload image"));
915 rButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/rotateright.png")));
916 connect(rButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
917 this,SLOT(ReloadImage(QTreeWidgetItem*, int)));
919 DataTree->addTopLevelItem(item);
920 DataTree->setItemWidget(item, COLUMN_CLOSE_IMAGE, cButton);
921 DataTree->setItemWidget(item, COLUMN_RELOAD_IMAGE, rButton);
923 //set the id of the image
924 QString id = QDir::current().absoluteFilePath(files[i].c_str()) + QString::number(mSlicerManagers.size()-1);
925 item->setData(COLUMN_IMAGE_NAME,Qt::UserRole,id.toStdString().c_str());
926 mSlicerManagers.back()->SetId(id.toStdString());
928 linkPanel->addImage(imageManager->GetFileName(), id.toStdString());
930 connect(mSlicerManagers.back(), SIGNAL(currentImageChanged(std::string)),
931 this,SLOT(CurrentImageChanged(std::string)));
932 connect(mSlicerManagers.back(), SIGNAL(currentPickedImageChanged(std::string)),
933 this, SLOT(CurrentPickedImageChanged(std::string)));
934 connect(mSlicerManagers.back(), SIGNAL(UpdatePosition(int, double, double, double, double, double, double, double)),
935 this,SLOT(MousePositionChanged(int,double, double, double, double, double, double, double)));
936 connect(mSlicerManagers.back(), SIGNAL(UpdateVector(int, double, double, double, double)),
937 this, SLOT(VectorChanged(int,double,double,double, double)));
938 connect(mSlicerManagers.back(), SIGNAL(UpdateOverlay(int, double, double)),
939 this, SLOT(OverlayChanged(int,double,double)));
940 connect(mSlicerManagers.back(), SIGNAL(UpdateFusion(int, double)),
941 this, SLOT(FusionChanged(int,double)));
942 connect(mSlicerManagers.back(), SIGNAL(WindowLevelChanged()),
943 this,SLOT(WindowLevelChanged()));
944 connect(mSlicerManagers.back(), SIGNAL(UpdateSlice(int,int)),
945 this,SLOT(UpdateSlice(int,int)));
946 connect(mSlicerManagers.back(), SIGNAL(UpdateTSlice(int, int, int)),
947 this,SLOT(UpdateTSlice(int, int, int)));
948 connect(mSlicerManagers.back(), SIGNAL(UpdateTSlice(int, int, int)),
949 this,SLOT(ImageInfoChanged()));
950 connect(mSlicerManagers.back(), SIGNAL(UpdateSliceRange(int,int,int,int,int)),
951 this,SLOT(UpdateSliceRange(int,int,int,int,int)));
952 connect(mSlicerManagers.back(), SIGNAL(UpdateLinkManager(std::string,int,double,double,double,int)),
953 this,SLOT(UpdateLinkManager(std::string,int,double,double,double,int)));
954 connect(mSlicerManagers.back(), SIGNAL(UpdateLinkedNavigation(std::string,vvSlicerManager*,vvSlicer*)),
955 this,SLOT(UpdateLinkedNavigation(std::string,vvSlicerManager*,vvSlicer*)));
956 connect(mSlicerManagers.back(), SIGNAL(ChangeImageWithIndexOffset(vvSlicerManager*,int,int)),
957 this,SLOT(ChangeImageWithIndexOffset(vvSlicerManager*,int,int)));
958 connect(mSlicerManagers.back(),SIGNAL(LandmarkAdded()),landmarksPanel,SLOT(AddPoint()));
961 numberofsuccesulreads++;
965 if (numberofsuccesulreads) {
966 NOViewWidget->show();
967 NEViewWidget->show();
968 SOViewWidget->show();
969 SEViewWidget->show();
974 // Try to guess default WindowLevel
976 mSlicerManagers.back()->GetImage()->GetFirstVTKImageData()->GetScalarRange(range);
977 if ((range[0] == 0) && (range[1] == 1)) {
978 presetComboBox->setCurrentIndex(WL_BINARY);// binary
983 QApplication::restoreOverrideCursor();
985 //------------------------------------------------------------------------------
987 //------------------------------------------------------------------------------
988 void vvMainWindow::UpdateTree()
990 DataTree->resizeColumnToContents(COLUMN_TREE);
991 DataTree->resizeColumnToContents(COLUMN_UL_VIEW);
992 DataTree->resizeColumnToContents(COLUMN_UR_VIEW);
993 DataTree->resizeColumnToContents(COLUMN_DL_VIEW);
994 DataTree->resizeColumnToContents(COLUMN_DR_VIEW);
995 DataTree->resizeColumnToContents(COLUMN_IMAGE_NAME);
996 DataTree->resizeColumnToContents(COLUMN_CLOSE_IMAGE);
997 DataTree->resizeColumnToContents(COLUMN_RELOAD_IMAGE);
999 //------------------------------------------------------------------------------
1001 //------------------------------------------------------------------------------
1002 void vvMainWindow::CurrentImageChanged(std::string id)
1004 if (id == mCurrentSelectedImageId) return; // Do nothing
1006 for (int i = 0; i < DataTree->topLevelItemCount(); i++) {
1007 if (DataTree->topLevelItem(i)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString().toStdString() == id) {
1010 DataTree->topLevelItem(i)->setSelected(0);
1012 for (int child = 0; child < DataTree->topLevelItem(i)->childCount(); child++)
1013 DataTree->topLevelItem(i)->child(child)->setSelected(0);
1016 DataTree->topLevelItem(selected)->setSelected(1);
1017 mCurrentSelectedImageId = id;
1019 landmarksPanel->SetCurrentLandmarks(mSlicerManagers[selected]->GetLandmarks(),
1020 mSlicerManagers[selected]->GetTSlice());
1021 landmarksPanel->SetCurrentPath(mInputPathName.toStdString());
1022 landmarksPanel->SetCurrentImage(mSlicerManagers[selected]->GetFileName().c_str());
1024 emit SelectedImageHasChanged(mSlicerManagers[selected]);
1026 //------------------------------------------------------------------------------
1028 //------------------------------------------------------------------------------
1029 void vvMainWindow::CurrentPickedImageChanged(std::string id)
1031 if (id == mCurrentPickedImageId) return; // Do nothing
1033 for (int i = 0; i < DataTree->topLevelItemCount(); i++) {
1034 if (DataTree->topLevelItem(i)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString().toStdString() == id) {
1037 DataTree->topLevelItem(i)->setSelected(0);
1039 for (int child = 0; child < DataTree->topLevelItem(i)->childCount(); child++)
1040 DataTree->topLevelItem(i)->child(child)->setSelected(0);
1043 DataTree->topLevelItem(selected)->setSelected(1);
1044 mCurrentPickedImageId = id;
1045 mCurrentPickedImageIndex = selected;
1047 //------------------------------------------------------------------------------
1049 //------------------------------------------------------------------------------
1050 void vvMainWindow::ImageInfoChanged()
1052 contextActions[6]->setEnabled(1);
1053 contextActions[5]->setEnabled(1);
1054 actionSave_As->setEnabled(1);
1055 actionAdd_VF_to_current_Image->setEnabled(1);
1056 actionAdd_fusion_image->setEnabled(1);
1057 actionAdd_overlay_image_to_current_image->setEnabled(1);
1058 actionAdd_USSequence_toCT->setEnabled(1);
1059 actionNorth_East_Window->setEnabled(1);
1060 actionNorth_West_Window->setEnabled(1);
1061 actionSouth_East_Window->setEnabled(1);
1062 actionSouth_West_Window->setEnabled(1);
1063 vvToolManager::GetInstance()->EnableToolsInMenu(this, true);
1064 inverseButton->setEnabled(1);
1066 goToCursorPushButton->setEnabled(1);
1068 if (DataTree->selectedItems().size()) {
1069 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1071 colorMapComboBox->setEnabled(1);
1072 for (int i = 0; i < DataTree->topLevelItem(index)->childCount(); i++) {
1073 if (DataTree->topLevelItem(index)->child(i)->data(1,Qt::UserRole).toString() == "overlay" ||
1074 DataTree->topLevelItem(index)->child(i)->data(1,Qt::UserRole).toString() == "fusion" ||
1075 DataTree->topLevelItem(index)->child(i)->data(1,Qt::UserRole).toString() == "fusionSequence") {
1076 colorMapComboBox->setEnabled(0);
1081 std::vector<double> origin;
1082 std::vector<double> inputSpacing;
1083 std::vector<int> inputSize;
1084 std::vector<double> sizeMM;
1085 vtkSmartPointer<vtkMatrix4x4> transformation;
1088 QString inputSizeInBytes;
1089 QString image = DataTree->selectedItems()[0]->data(COLUMN_IMAGE_NAME,Qt::DisplayRole).toString();
1091 int nframes = mSlicerManagers[index]->GetSlicer(0)->GetTMax();
1093 if (nframes > 1 || playMode == 1) {
1094 playButton->setEnabled(1);
1095 frameRateLabel->setEnabled(1);
1096 frameRateSpinBox->setEnabled(1);
1098 playButton->setEnabled(0);
1099 frameRateLabel->setEnabled(0);
1100 frameRateSpinBox->setEnabled(0);
1107 vvImage::Pointer imageSelected;
1108 if (DataTree->topLevelItem(index) == DataTree->selectedItems()[0]) {
1109 imageSelected = mSlicerManagers[index]->GetSlicer(0)->GetImage();
1110 tSlice = mSlicerManagers[index]->GetSlicer(0)->GetTSlice();
1111 } else if (DataTree->selectedItems()[0]->data(1,Qt::UserRole).toString() == "vector") {
1112 imageSelected = mSlicerManagers[index]->GetSlicer(0)->GetVF();
1113 tSlice = mSlicerManagers[index]->GetSlicer(0)->GetOverlayTSlice();
1114 } else if (DataTree->selectedItems()[0]->data(1,Qt::UserRole).toString() == "overlay") {
1115 imageSelected = mSlicerManagers[index]->GetSlicer(0)->GetOverlay();
1116 tSlice = mSlicerManagers[index]->GetSlicer(0)->GetOverlayTSlice();
1117 } else if (DataTree->selectedItems()[0]->data(1,Qt::UserRole).toString() == "fusion") {
1118 imageSelected = mSlicerManagers[index]->GetSlicer(0)->GetFusion();
1119 tSlice = mSlicerManagers[index]->GetSlicer(0)->GetFusionTSlice();
1121 else if (DataTree->selectedItems()[0]->data(1,Qt::UserRole).toString() == "fusionSequence") {
1122 imageSelected = mSlicerManagers[index]->GetSlicer(0)->GetFusion();
1123 tSlice = mSlicerManagers[index]->GetSlicer(0)->GetFusionTSlice();
1125 else if (DataTree->selectedItems()[0]->data(1,Qt::UserRole).toString() == "contour") {
1126 imageSelected = mSlicerManagers[index]->GetSlicer(0)->GetImage();
1127 tSlice = mSlicerManagers[index]->GetSlicer(0)->GetTSlice();
1130 imageSelected = mSlicerManagers[index]->GetSlicer(0)->GetImage();
1131 tSlice = mSlicerManagers[index]->GetSlicer(0)->GetTSlice();
1134 dimension = imageSelected->GetNumberOfDimensions();
1135 origin.resize(dimension);
1136 inputSpacing.resize(dimension);
1137 inputSize.resize(dimension);
1138 sizeMM.resize(dimension);
1139 pixelType = mSlicerManagers[index]->GetImage()->GetScalarTypeAsITKString().c_str();
1140 for (int i = 0; i < dimension; i++) {
1141 origin[i] = imageSelected->GetOrigin()[i];
1142 inputSpacing[i] = imageSelected->GetSpacing()[i];
1143 inputSize[i] = imageSelected->GetSize()[i];
1144 sizeMM[i] = inputSize[i]*inputSpacing[i];
1145 NPixel *= inputSize[i];
1147 inputSizeInBytes = GetSizeInBytes(imageSelected->GetActualMemorySize()*1000);
1149 QString dim = QString::number(dimension) + " (";
1150 dim += pixelType + ")";
1152 infoPanel->setFileName(image);
1153 std::string creationImageTimeValue("No creation time");
1154 itk::ExposeMetaData< std::string > (*imageSelected->GetFirstMetaDataDictionary(), "creationImageTime", creationImageTimeValue);
1155 infoPanel->setImageCreationTime(QString(creationImageTimeValue.c_str()));
1156 infoPanel->setDimension(dim);
1157 infoPanel->setSizePixel(GetVectorIntAsString(inputSize));
1158 infoPanel->setSizeMM(GetVectorDoubleAsString(sizeMM));
1159 infoPanel->setOrigin(GetVectorDoubleAsString(origin));
1160 infoPanel->setSpacing(GetVectorDoubleAsString(inputSpacing));
1161 infoPanel->setNPixel(QString::number(NPixel)+" ("+inputSizeInBytes+")");
1163 transformation = imageSelected->GetTransform()[tSlice]->GetMatrix();
1164 infoPanel->setTransformation(Get4x4MatrixDoubleAsString(transformation));
1166 landmarksPanel->SetCurrentLandmarks(mSlicerManagers[index]->GetLandmarks(),
1167 mSlicerManagers[index]->GetTSlice());
1168 landmarksPanel->SetCurrentPath(mInputPathName.toStdString());
1169 landmarksPanel->SetCurrentImage(mSlicerManagers[index]->GetFileName().c_str());
1171 overlayPanel->getCurrentImageName(mSlicerManagers[index]->GetFileName().c_str());
1172 for (int i = 0; i < 4; i++) {
1173 if (DataTree->selectedItems()[0]->data(i+1,Qt::CheckStateRole).toInt() > 0 || i == 3) {
1174 mSlicerManagers[index]->UpdateInfoOnCursorPosition(i);
1179 // infoPanel->setFileName(image);
1180 // infoPanel->setDimension(dim);
1181 // infoPanel->setSizePixel(GetVectorIntAsString(inputSize));
1182 // infoPanel->setSizeMM(GetVectorDoubleAsString(sizeMM));
1183 // infoPanel->setOrigin(GetVectorDoubleAsString(origin));
1184 // infoPanel->setSpacing(GetVectorDoubleAsString(inputSpacing));
1185 // infoPanel->setNPixel(QString::number(NPixel)+" ("+inputSizeInBytes+")");
1187 // landmarksPanel->SetCurrentLandmarks(mSlicerManagers[index]->GetLandmarks(),
1188 // mSlicerManagers[index]->GetTSlice());
1189 // landmarksPanel->SetCurrentPath(mInputPathName.toStdString());
1190 // landmarksPanel->SetCurrentImage(mSlicerManagers[index]->GetFileName().c_str());
1192 // overlayPanel->getCurrentImageName(mSlicerManagers[index]->GetFileName().c_str());
1193 // for (int i = 0; i < 4; i++) {
1194 // if (DataTree->selectedItems()[0]->data(i+1,Qt::CheckStateRole).toInt() > 0 || i == 3) {
1195 // mSlicerManagers[index]->UpdateInfoOnCursorPosition(i);
1199 WindowLevelChanged();
1201 slicingPresetComboBox->setCurrentIndex(mSlicerManagers[index]->GetSlicingPreset());
1203 if (mSlicerManagers[index]->GetSlicer(0)->GetVF()) {
1204 overlayPanel->getVFName(mSlicerManagers[index]->GetVFName().c_str());
1205 overlayPanel->getVFProperty(mSlicerManagers[index]->GetSlicer(0)->GetVFSubSampling(),
1206 mSlicerManagers[index]->GetSlicer(0)->GetVFScale(),
1207 mSlicerManagers[index]->GetSlicer(0)->GetVFLog());
1209 overlayPanel->getVFName(mSlicerManagers[index]->GetVFName().c_str());
1210 overlayPanel->getVFProperty(-1,-1,-1);
1212 if (mSlicerManagers[index]->GetSlicer(0)->GetOverlay()) {
1213 overlayPanel->getOverlayName(mSlicerManagers[index]->GetOverlayName().c_str());
1215 overlayPanel->getOverlayName(mSlicerManagers[index]->GetOverlayName().c_str());
1218 if (mSlicerManagers[index]->GetSlicer(0)->GetFusion()) {
1219 overlayPanel->getFusionName(mSlicerManagers[index]->GetFusionName().c_str());
1221 overlayPanel->getFusionName(mSlicerManagers[index]->GetFusionName().c_str());
1225 //------------------------------------------------------------------------------
1227 //------------------------------------------------------------------------------
1228 void vvMainWindow::ShowDocumentation()
1230 documentation->show();
1232 //------------------------------------------------------------------------------
1234 //------------------------------------------------------------------------------
1235 void vvMainWindow::PopupRegisterForm(bool checkCanPush)
1237 vvRegisterForm* registerForm = new vvRegisterForm(QUrl("http://www.creatis.insa-lyon.fr/~dsarrut/vvregister/write.php"), getVVSettingsPath(), getSettingsOptionFormat());
1239 registerForm->show();
1241 if(registerForm->canPush()) {
1242 registerForm->show();
1243 registerForm->acquitPushed();//too bad if there is not internet connection anymore.
1247 //------------------------------------------------------------------------------
1249 //------------------------------------------------------------------------------
1250 void vvMainWindow::ShowHelpDialog()
1252 help_dialog->show();
1254 //------------------------------------------------------------------------------
1256 //------------------------------------------------------------------------------
1257 void vvMainWindow::ChangeViewMode()
1259 typedef struct _SIZE{
1260 QSplitter* splitter;
1261 QList<int> size1, size2;
1264 SplitterSize sizes[4];
1265 sizes[0].splitter = OSplitter;
1266 sizes[0].size1.push_back(1);
1267 sizes[0].size1.push_back(0);
1268 sizes[0].size2.push_back(1);
1269 sizes[0].size2.push_back(0);
1270 sizes[0].cols[0] = 2;
1271 sizes[0].cols[1] = 3;
1272 sizes[0].cols[2] = 4;
1274 sizes[1].splitter = ESplitter;
1275 sizes[1].size1.push_back(0);
1276 sizes[1].size1.push_back(1);
1277 sizes[1].size2.push_back(1);
1278 sizes[1].size2.push_back(0);
1279 sizes[1].cols[0] = 1;
1280 sizes[1].cols[1] = 3;
1281 sizes[1].cols[2] = 4;
1283 sizes[2].splitter = OSplitter;
1284 sizes[2].size1.push_back(1);
1285 sizes[2].size1.push_back(0);
1286 sizes[2].size2.push_back(0);
1287 sizes[2].size2.push_back(1);
1288 sizes[2].cols[0] = 1;
1289 sizes[2].cols[1] = 2;
1290 sizes[2].cols[2] = 4;
1292 sizes[3].splitter = ESplitter;
1293 sizes[3].size1.push_back(0);
1294 sizes[3].size1.push_back(1);
1295 sizes[3].size2.push_back(0);
1296 sizes[3].size2.push_back(1);
1297 sizes[3].cols[0] = 1;
1298 sizes[3].cols[1] = 2;
1299 sizes[3].cols[2] = 3;
1301 int slicer = mSlicerManagers[mCurrentPickedImageIndex]->GetSelectedSlicer();
1302 if (viewMode == 1) {
1305 splitter_3->setSizes(sizes[slicer].size1);
1306 sizes[slicer].splitter->setSizes(sizes[slicer].size2);
1307 DataTree->setColumnHidden(sizes[slicer].cols[0],1);
1308 DataTree->setColumnHidden(sizes[slicer].cols[1],1);
1309 DataTree->setColumnHidden(sizes[slicer].cols[2],1);
1317 splitter_3->setSizes(size);
1318 sizes[slicer].splitter->setSizes(size);
1319 DataTree->setColumnHidden(sizes[slicer].cols[0],0);
1320 DataTree->setColumnHidden(sizes[slicer].cols[1],0);
1321 DataTree->setColumnHidden(sizes[slicer].cols[2],0);
1324 UpdateRenderWindows();
1326 ** I don't know why but for both resized QVTKWidget we also need to render
1327 ** the associated Slicer to redraw crosses.
1329 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
1330 // if (DataTree->topLevelItem(i)->data(COLUMN_UL_VIEW,Qt::CheckStateRole).toInt() > 1)
1331 mSlicerManagers[i]->GetSlicer(0)->Render();
1332 mSlicerManagers[i]->GetSlicer(1)->Render();
1333 // if (DataTree->topLevelItem(i)->data(COLUMN_DL_VIEW,Qt::CheckStateRole).toInt() > 1)
1334 mSlicerManagers[i]->GetSlicer(2)->Render();
1335 mSlicerManagers[i]->GetSlicer(3)->Render();
1338 //------------------------------------------------------------------------------
1340 //------------------------------------------------------------------------------
1341 QString vvMainWindow::GetSizeInBytes(unsigned long size)
1343 QString result = "";// QString::number(size);
1344 //result += " bytes (";
1345 if (size > 1000000000) {
1347 result += QString::number(size);
1348 result += "Gb";//)";
1349 } else if (size > 1000000) {
1351 result += QString::number(size);
1352 result += "Mb";//)";
1353 } else if (size > 1000) {
1355 result += QString::number(size);
1356 result += "kb";//)";
1360 //------------------------------------------------------------------------------
1362 //------------------------------------------------------------------------------
1363 QString vvMainWindow::Get4x4MatrixDoubleAsString(vtkSmartPointer<vtkMatrix4x4> matrix, const int precision)
1365 std::ostringstream strmatrix;
1367 // Figure out the number of digits of the integer part of the largest absolute value
1370 for (unsigned int j = 0; j < 4; j++){
1372 for (unsigned int i = 0; i < 4; i++)
1373 absmax = std::max(absmax, vnl_math_abs(matrix->GetElement(i, j)));
1374 unsigned ndigits = (unsigned)std::max(0.,std::log10(absmax))+1;
1375 width[j] = precision+ndigits+3;
1378 // Output with correct width, aligned to the right
1379 for (unsigned int i = 0; i < 4; i++) {
1380 for (unsigned int j = 0; j < 4; j++) {
1381 strmatrix.setf(ios::fixed,ios::floatfield);
1382 strmatrix.precision(precision);
1383 strmatrix.fill(' ');
1384 strmatrix.width(width[j]);
1385 strmatrix << std::right << matrix->GetElement(i, j);
1387 strmatrix << std::endl;
1389 QString result = strmatrix.str().c_str();
1392 //------------------------------------------------------------------------------
1394 //------------------------------------------------------------------------------
1395 QString vvMainWindow::GetVectorDoubleAsString(std::vector<double> vectorDouble)
1398 for (unsigned int i= 0; i < vectorDouble.size(); i++) {
1401 result += QString::number(vectorDouble[i]);
1405 //------------------------------------------------------------------------------
1407 //------------------------------------------------------------------------------
1408 QString vvMainWindow::GetVectorIntAsString(std::vector<int> vectorInt)
1411 for (unsigned int i= 0; i < vectorInt.size(); i++) {
1414 result += QString::number(vectorInt[i]);
1418 //------------------------------------------------------------------------------
1420 //------------------------------------------------------------------------------
1421 //this actually returns the SlicerManager index!
1422 int vvMainWindow::GetSlicerIndexFromItem(QTreeWidgetItem* item)
1424 QString id = item->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString();
1425 for (int i = 0; i < DataTree->topLevelItemCount(); i++) {
1426 if (DataTree->topLevelItem(i)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString() == id)
1431 //------------------------------------------------------------------------------
1433 //------------------------------------------------------------------------------
1434 QTreeWidgetItem* vvMainWindow::GetItemFromSlicerManager(vvSlicerManager* sm)
1436 QString id = sm->GetId().c_str();
1437 for (int i = 0; i < DataTree->topLevelItemCount(); i++) {
1438 if (DataTree->topLevelItem(i)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString() == id)
1439 return DataTree->topLevelItem(i);
1443 //------------------------------------------------------------------------------
1445 //------------------------------------------------------------------------------
1446 void vvMainWindow::DisplayChanged(QTreeWidgetItem *clickedItem, int column)
1448 if ( column >= COLUMN_CLOSE_IMAGE || column <= 0)
1451 // Get parent information (might be the same item)
1452 int slicerManagerIndex = GetSlicerIndexFromItem(clickedItem);
1453 QTreeWidgetItem* clickedParentItem = DataTree->topLevelItem(slicerManagerIndex);
1454 vvSlicer* clickedSlicer = mSlicerManagers[slicerManagerIndex]->GetSlicer(column-1);
1456 // Go over the complete item tree (only 2 levels, parents and children)
1457 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
1458 // Trick to avoid redoing twice the job for a key (sr)
1459 mSlicerManagers[i]->GetSlicer(column-1)->GetRenderWindow()->GetInteractor()->SetKeySym("Crap");
1461 QTreeWidgetItem* currentParentItem = DataTree->topLevelItem(i);
1462 if(currentParentItem != clickedParentItem) {
1463 // Not the branch of the clicked item, uncheck all
1466 currentParentItem->setData(column,Qt::CheckStateRole, 0);
1467 mSlicerManagers[i]->UpdateSlicer(column-1, false);
1470 for (int iChild = 0; iChild < currentParentItem->childCount(); iChild++) {
1471 currentParentItem->child(iChild)->setData(column,Qt::CheckStateRole, 0);
1475 // Branch of the clicked one: get check status from actor visibility in slicer
1476 // and toggle the clicked one
1479 bool vis = clickedSlicer->GetActorVisibility("image", 0);
1480 bool draw = clickedSlicer->GetRenderer()->GetDraw();
1482 // Update slicer (after getting visibility)
1483 mSlicerManagers[slicerManagerIndex]->UpdateSlicer(column-1, true);
1484 mSlicerManagers[slicerManagerIndex]->UpdateInfoOnCursorPosition(column-1);
1485 DisplaySliders(slicerManagerIndex, column-1);
1486 if(clickedParentItem == clickedItem) {
1488 vis = !draw || !vis;
1490 clickedSlicer->SetActorVisibility("image", 0, vis);
1491 clickedParentItem->setData(column, Qt::CheckStateRole, vis?2:0);
1494 std::map<std::string, int> actorTypeCounts;
1495 for (int iChild = 0; iChild < clickedParentItem->childCount(); iChild++) {
1496 QTreeWidgetItem* currentChildItem = clickedParentItem->child(iChild);
1497 std::string actorType = currentChildItem->data(1,Qt::UserRole).toString().toStdString();
1498 vis = clickedSlicer->GetActorVisibility(actorType, actorTypeCounts[actorType]);
1499 if(currentChildItem == clickedItem) {
1500 // Toggle or force visibility if it was not on this branch so far
1501 vis = !draw || !vis;
1502 clickedSlicer->SetActorVisibility(actorType, actorTypeCounts[actorType], vis);
1504 currentChildItem->setData(column, Qt::CheckStateRole, vis?2:0);
1505 actorTypeCounts[actorType]++;
1510 clickedSlicer->Render();
1512 //------------------------------------------------------------------------------
1514 void vvMainWindow::InitSlicers()
1516 if (mSlicerManagers.size()) {
1517 mSlicerManagers.back()->GenerateDefaultLookupTable();
1519 mSlicerManagers.back()->SetSlicerWindow(0,NOViewWidget->GetRenderWindow());
1520 mSlicerManagers.back()->SetSlicerWindow(1,NEViewWidget->GetRenderWindow());
1521 mSlicerManagers.back()->SetSlicerWindow(2,SOViewWidget->GetRenderWindow());
1522 mSlicerManagers.back()->SetSlicerWindow(3,SEViewWidget->GetRenderWindow());
1526 //------------------------------------------------------------------------------
1527 void vvMainWindow::InitDisplay()
1529 if (mSlicerManagers.size()) {
1530 //BE CAREFUL : this is absolutely necessary to set the interactor style
1531 //in order to have the same style instanciation for all SlicerManagers in
1533 for (int j = 0; j < 4; j++) {
1534 vvInteractorStyleNavigator* style = vvInteractorStyleNavigator::New();
1535 style->SetAutoAdjustCameraClippingRange(1);
1536 bool AlreadySelected = false;
1537 for (int i = 0; i < DataTree->topLevelItemCount(); i++) {
1538 mSlicerManagers[i]->SetInteractorStyleNavigator(j,style);
1540 //select the image only if previous are not selected
1541 if (DataTree->topLevelItem(i)->data(j+1,Qt::CheckStateRole).toInt() > 1) {
1542 mSlicerManagers[i]->UpdateSlicer(j,1);
1543 AlreadySelected = true;
1544 } else if (i == DataTree->topLevelItemCount()-1 && !AlreadySelected) {
1545 if (DataTree->selectedItems().size() == 0)
1546 DataTree->topLevelItem(i)->setSelected(1);
1547 DataTree->topLevelItem(i)->setData(j+1,Qt::CheckStateRole,2);
1548 mSlicerManagers[i]->UpdateSlicer(j,1);
1549 DisplaySliders(i,j);
1551 DataTree->topLevelItem(i)->setData(j+1,Qt::CheckStateRole,0);
1552 mSlicerManagers[i]->UpdateSlicer(j,0);
1559 //------------------------------------------------------------------------------
1561 //------------------------------------------------------------------------------
1562 void vvMainWindow::DisplaySliders(int slicer, int window)
1564 if(!mSlicerManagers[slicer]->GetSlicer(window)->GetRenderer()->GetDraw())
1568 mSlicerManagers[slicer]->GetSlicer(window)->GetSliceRange(range);
1569 int position = mSlicerManagers[slicer]->GetSlicer(window)->GetSlice();
1571 verticalSliders[window]->show();
1573 verticalSliders[window]->hide();
1574 verticalSliders[window]->setRange(range[0],range[1]);
1575 verticalSliders[window]->setValue(position);
1579 tRange[1] = mSlicerManagers[slicer]->GetSlicer(window)->GetTMax();
1581 horizontalSliders[window]->show();
1583 horizontalSliders[window]->hide();
1584 horizontalSliders[window]->setRange(tRange[0],tRange[1]);
1585 int tPosition = mSlicerManagers[slicer]->GetSlicer(window)->GetMaxCurrentTSlice();
1586 horizontalSliders[window]->setValue(tPosition);
1588 //------------------------------------------------------------------------------
1590 //------------------------------------------------------------------------------
1591 void vvMainWindow::CloseImage(QTreeWidgetItem* item, int column)
1593 int index = GetSlicerIndexFromItem(item);
1595 if (DataTree->topLevelItem(index) != item) {
1596 QString warning = "Do you really want to close the overlay : ";
1597 warning += item->data(COLUMN_IMAGE_NAME,Qt::DisplayRole).toString();
1598 QMessageBox msgBox(QMessageBox::Warning, tr("Close Overlay"),
1600 msgBox.addButton(tr("Close"), QMessageBox::AcceptRole);
1601 msgBox.addButton(tr("Cancel"), QMessageBox::RejectRole);
1602 if (msgBox.exec() == QMessageBox::AcceptRole) {
1603 std::string overlay_type=item->data(1,Qt::UserRole).toString().toStdString();
1604 int overlay_index=0;
1605 for (int child = 0; child < DataTree->topLevelItem(index)->childCount(); child++) {
1606 if (DataTree->topLevelItem(index)->\
1607 child(child)->data(1,Qt::UserRole).toString().toStdString() == overlay_type)
1609 if (DataTree->topLevelItem(index)->child(child) == item) break;
1611 if (overlay_type=="fusionSequence") {
1612 //removing the overlay sequence in a fusion sequence visualization mode
1613 //reset the transforms
1614 overlayPanel->getFusionSequenceProperty(-1, false, 0, false);
1616 //unlink and untie the slicer managers
1617 RemoveLink(mSlicerManagers[index]->GetId().c_str(), mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->GetId().c_str());
1618 mSlicerManagers[index]->SetFusionSequenceInvolvmentCode(-1);
1619 mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->SetFusionSequenceInvolvmentCode(-1);
1620 for (unsigned i=0 ; i<4 ; i++) {
1621 mSlicerManagers[index]->GetSlicer(i)->SetFusionSequenceCode(-1);
1622 mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->GetSlicer(i)->SetFusionSequenceCode(-1);
1626 mSlicerManagers[index]->RemoveActor(overlay_type, overlay_index-1);
1627 mSlicerManagers[index]->SetColorMap(0);
1628 DataTree->topLevelItem(index)->takeChild(DataTree->topLevelItem(index)->indexOfChild(item));
1629 mSlicerManagers[index]->Render();
1631 } else if (DataTree->topLevelItemCount() <= 1) {
1632 QString warning = "Do you really want to close the image : ";
1633 warning += item->data(COLUMN_IMAGE_NAME,Qt::DisplayRole).toString();
1634 warning += "\nThis is the last image, you're about to close vv !!!";
1635 QMessageBox msgBox(QMessageBox::Warning, tr("Close Image"),
1637 msgBox.addButton(tr("Close vv"), QMessageBox::AcceptRole);
1638 msgBox.addButton(tr("Cancel"), QMessageBox::RejectRole);
1639 if (msgBox.exec() == QMessageBox::AcceptRole) {
1643 QString warning = "Do you really want to close the image : ";
1644 warning += item->data(COLUMN_IMAGE_NAME,Qt::DisplayRole).toString();
1645 QMessageBox msgBox(QMessageBox::Warning, tr("Close Image"),
1647 msgBox.addButton(tr("Close"), QMessageBox::AcceptRole);
1648 msgBox.addButton(tr("Cancel"), QMessageBox::RejectRole);
1649 if (msgBox.exec() == QMessageBox::AcceptRole) {
1651 // Tell tools that we close an image
1652 emit AnImageIsBeingClosed(mSlicerManagers[index]);
1654 std::vector<vvSlicerManager*>::iterator Manageriter = mSlicerManagers.begin();
1655 DataTree->takeTopLevelItem(index);
1656 for (int i = 0; i < index; i++) {
1659 //if the slicer manager was involved in a fusion sequence visualization...
1660 if ( mSlicerManagers[index]->IsInvolvedInFusionSequence() ) {
1661 //in both cases, close the overlay: find it... and close it
1662 //ideally, I should duplicate the code, and avoid calling CloseImage, since this pops up another interactive box
1663 QTreeWidgetItem* overlayItem;
1664 if (mSlicerManagers[index]->IsMainSequenceOfFusionSequence()) {
1665 for (unsigned i=0 ; i<item->childCount() ; i++) {
1666 overlayItem = item->child(i);
1667 this->CloseImage( overlayItem, 0 );
1671 QTreeWidgetItem* linkedItem = this->GetItemFromSlicerManager( mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()] );
1672 for (unsigned i=0 ; i<linkedItem->childCount() ; i++) {
1673 overlayItem = linkedItem->child(i);
1674 this->CloseImage( overlayItem, 0 );
1678 /* -- this is normally already done when closing the overlay.
1679 //reset the transforms
1680 overlayPanel->getFusionSequenceProperty(-1, false, 0, false);
1682 //unlink and untie the slicer managers
1683 RemoveLink(mSlicerManagers[index]->GetId().c_str(), mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->GetId().c_str());
1684 mSlicerManagers[index]->SetFusionSequenceInvolvmentCode(-1);
1685 mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->SetFusionSequenceInvolvmentCode(-1);
1686 for (unsigned i=0 ; i<4 ; i++) {
1687 mSlicerManagers[index]->GetSlicer(i)->SetFusionSequenceCode(-1);
1688 mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->GetSlicer(i)->SetFusionSequenceCode(-1);
1693 linkPanel->removeImage(index);
1694 mSlicerManagers[index]->RemoveActors();
1696 //remove the slicer manager
1697 delete mSlicerManagers[index];
1698 mSlicerManagers.erase(Manageriter);
1706 //------------------------------------------------------------------------------
1708 //------------------------------------------------------------------------------
1709 void vvMainWindow::ReloadImage(QTreeWidgetItem* item, int column)
1711 // int index = GetSlicerIndexFromItem(item);
1712 // QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
1713 // if (item->data(1,Qt::UserRole).toString() == "vector")
1714 // mSlicerManagers[index]->ReloadVF();
1716 // mSlicerManagers[index]->Reload();
1718 // QApplication::restoreOverrideCursor();
1719 int index = GetSlicerIndexFromItem(item);
1720 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
1721 QString role=item->data(1,Qt::UserRole).toString();
1722 if ( role == "vector") {
1723 mSlicerManagers[index]->ReloadVF();
1725 else if (role == "overlay") {
1726 mSlicerManagers[index]->ReloadOverlay();
1728 else if (role == "fusion") {
1729 mSlicerManagers[index]->ReloadFusion();
1731 else if (role == "fusionSequence") {
1732 //both versions of the secondary sequence must be updated.
1733 mSlicerManagers[index]->ReloadFusionSequence();
1734 mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->Reload();
1737 mSlicerManagers[index]->Reload();
1738 //if we update the secondary sequence, then the overlay of the main sequence should also be updated
1739 if (mSlicerManagers[index]->IsSecondarySequenceOfFusionSequence()) mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->ReloadFusionSequence();
1741 // Update view and info
1743 mSlicerManagers[index]->Render();
1744 QApplication::restoreOverrideCursor();
1746 //------------------------------------------------------------------------------
1748 //------------------------------------------------------------------------------
1749 void vvMainWindow::MousePositionChanged(int visibility,double x, double y, double z, double X, double Y, double Z , double value)
1751 infoPanel->setCurrentInfo(visibility,x,y,z,X,Y,Z,value);
1753 //------------------------------------------------------------------------------
1755 //------------------------------------------------------------------------------
1756 void vvMainWindow::VectorChanged(int visibility,double x, double y, double z, double value)
1758 overlayPanel->getCurrentVectorInfo(visibility,x,y,z,value);
1760 //------------------------------------------------------------------------------
1762 //------------------------------------------------------------------------------
1763 void vvMainWindow::OverlayChanged(int visibility, double valueOver, double valueRef)
1765 overlayPanel->getCurrentOverlayInfo(visibility,valueOver, valueRef);
1767 //------------------------------------------------------------------------------
1769 //------------------------------------------------------------------------------
1770 void vvMainWindow::FusionChanged(int visibility, double value)
1772 overlayPanel->getCurrentFusionInfo(visibility,value);
1774 //------------------------------------------------------------------------------
1776 //------------------------------------------------------------------------------
1777 //called when AddOverlayImage, AddFusionSequence
1778 //or when UpdateWindowLevel() is called ; when slicerManager emits WindowLevelChanged
1779 //when ImageInfoChanged() is called
1780 void vvMainWindow::WindowLevelChanged()
1783 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1784 if(index==-1) return;
1785 windowSpinBox->setValue(mSlicerManagers[index]->GetColorWindow());
1786 levelSpinBox->setValue(mSlicerManagers[index]->GetColorLevel());
1787 colorMapComboBox->setCurrentIndex(mSlicerManagers[index]->GetColorMap());
1788 presetComboBox->setCurrentIndex(mSlicerManagers[index]->GetPreset());
1791 if (mSlicerManagers[index]->GetSlicer(0)->GetOverlay())
1792 overlayPanel->getOverlayProperty(mSlicerManagers[index]->GetOverlayColor(),
1793 mSlicerManagers[index]->GetLinkOverlayWindowLevel(),
1794 mSlicerManagers[index]->GetOverlayColorWindow(),
1795 mSlicerManagers[index]->GetOverlayColorLevel());
1797 overlayPanel->getOverlayProperty(-1,0,0.,0.);
1799 // Fusion & SequenceFusion image
1800 if (mSlicerManagers[index]->GetSlicer(0)->GetFusion()) {
1801 overlayPanel->getFusionProperty(mSlicerManagers[index]->GetFusionOpacity(),
1802 mSlicerManagers[index]->GetFusionThresholdOpacity(),
1803 mSlicerManagers[index]->GetFusionColorMap(),
1804 mSlicerManagers[index]->GetFusionWindow(),
1805 mSlicerManagers[index]->GetFusionLevel());
1806 if (mSlicerManagers[index]->IsMainSequenceOfFusionSequence()) {
1807 overlayPanel->getFusionSequenceProperty(mSlicerManagers[index]->GetFusionSequenceFrameIndex(),
1808 mSlicerManagers[index]->GetFusionSequenceSpatialSyncFlag(),
1809 mSlicerManagers[index]->GetFusionSequenceNbFrames(),
1810 mSlicerManagers[index]->GetFusionSequenceTemporalSyncFlag());
1813 else if ( mSlicerManagers[index]->IsSecondarySequenceOfFusionSequence() ) {
1814 //if the image is involved in a fusion sequence, preserve the overlay panel!
1815 int ind = mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager();
1816 overlayPanel->getFusionProperty(mSlicerManagers[ind]->GetFusionOpacity(),
1817 mSlicerManagers[ind]->GetFusionThresholdOpacity(),
1818 mSlicerManagers[ind]->GetFusionColorMap(),
1819 mSlicerManagers[ind]->GetFusionWindow(),
1820 mSlicerManagers[ind]->GetFusionLevel());
1821 overlayPanel->getFusionSequenceProperty(mSlicerManagers[ind]->GetFusionSequenceFrameIndex(),
1822 mSlicerManagers[ind]->GetFusionSequenceSpatialSyncFlag(),
1823 mSlicerManagers[ind]->GetFusionSequenceNbFrames(),
1824 mSlicerManagers[ind]->GetFusionSequenceTemporalSyncFlag());
1828 overlayPanel->getFusionProperty(-1, -1, -1, -1, -1);
1829 overlayPanel->getFusionSequenceProperty(-1, false, 0, false);
1832 //------------------------------------------------------------------------------
1834 //------------------------------------------------------------------------------
1835 void vvMainWindow::WindowLevelEdited()
1837 presetComboBox->setCurrentIndex(WL_USER);
1838 UpdateWindowLevel();
1840 //------------------------------------------------------------------------------
1842 //------------------------------------------------------------------------------
1843 void vvMainWindow::SetWindowLevel(double w, double l)
1845 windowSpinBox->setValue(w);
1846 levelSpinBox->setValue(l);
1847 presetComboBox->setCurrentIndex(WL_USER);
1848 colorMapComboBox->setCurrentIndex(0);
1849 UpdateWindowLevel();
1851 //------------------------------------------------------------------------------
1853 //------------------------------------------------------------------------------
1854 void vvMainWindow::UpdateWindowLevel()
1856 if (DataTree->selectedItems().size()) {
1857 if (presetComboBox->currentIndex() == WL_VENTILATION) //For ventilation
1858 colorMapComboBox->setCurrentIndex(5);
1859 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1860 mSlicerManagers[index]->SetColorWindow(windowSpinBox->value());
1861 mSlicerManagers[index]->SetColorLevel(levelSpinBox->value());
1862 mSlicerManagers[index]->SetPreset(presetComboBox->currentIndex());
1863 mSlicerManagers[index]->Render();
1864 WindowLevelChanged();
1867 //------------------------------------------------------------------------------
1869 //------------------------------------------------------------------------------
1870 void vvMainWindow::UpdateSlicingPreset()
1872 if (DataTree->selectedItems().size()) {
1873 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1874 mSlicerManagers[index]->SetSlicingPreset(vvSlicerManager::SlicingPresetType(slicingPresetComboBox->currentIndex()));
1877 //------------------------------------------------------------------------------
1879 //------------------------------------------------------------------------------
1880 void vvMainWindow::UpdateColorMap()
1882 if (DataTree->selectedItems().size()) {
1883 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1884 mSlicerManagers[index]->SetColorMap(colorMapComboBox->currentIndex());
1885 mSlicerManagers[index]->Render();
1888 //------------------------------------------------------------------------------
1889 void vvMainWindow::SwitchWindowLevel()
1891 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1892 int window = mSlicerManagers[index]->GetColorWindow();
1893 presetComboBox->setCurrentIndex(WL_USER);
1894 windowSpinBox->setValue(-window);
1895 UpdateWindowLevel();
1897 //------------------------------------------------------------------------------
1899 //------------------------------------------------------------------------------
1900 void vvMainWindow::ApplyWindowLevelToAllImages()
1902 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1903 if(index==-1) return;
1904 double window = mSlicerManagers[index]->GetColorWindow();
1905 double level = mSlicerManagers[index]->GetColorLevel();
1907 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
1908 if (mSlicerManagers[i] == NULL)
1910 mSlicerManagers[i]->SetColorWindow(window);
1911 mSlicerManagers[i]->SetColorLevel(level);
1912 mSlicerManagers[i]->SetPreset(WL_USER);
1913 mSlicerManagers[i]->Render();
1916 //------------------------------------------------------------------------------
1918 //------------------------------------------------------------------------------
1919 void vvMainWindow::ApplyWindowToSetOfImages(double window, unsigned int indexMin, unsigned int indexMax)
1921 for (unsigned int i = indexMin; i <= indexMax && i < mSlicerManagers.size(); i++) {
1922 if (mSlicerManagers[i] == NULL)
1924 mSlicerManagers[i]->SetColorWindow(window);
1925 mSlicerManagers[i]->SetPreset(WL_USER);
1926 mSlicerManagers[i]->Render();
1929 //------------------------------------------------------------------------------
1931 //------------------------------------------------------------------------------
1932 void vvMainWindow::ApplyLevelToSetOfImages(double level, unsigned int indexMin, unsigned int indexMax)
1934 for (unsigned int i = indexMin; i <= indexMax && i < mSlicerManagers.size(); i++) {
1935 if (mSlicerManagers[i] == NULL)
1937 mSlicerManagers[i]->SetColorLevel(level);
1938 mSlicerManagers[i]->SetPreset(WL_USER);
1939 mSlicerManagers[i]->Render();
1942 //------------------------------------------------------------------------------
1944 //------------------------------------------------------------------------------
1945 void vvMainWindow::UpdateLinkManager(std::string id, int slicer, double x, double y, double z, int temps)
1947 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
1948 if (mSlicerManagers[i]->GetId() == id) {
1949 mSlicerManagers[i]->GetSlicer(slicer)->SetCurrentPosition(x,y,z,temps);
1950 mSlicerManagers[i]->UpdateViews(0,slicer);
1955 //------------------------------------------------------------------------------
1957 //------------------------------------------------------------------------------
1958 void vvMainWindow::UpdateLinkedNavigation(std::string id, vvSlicerManager * sm, vvSlicer* refSlicer)
1960 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
1961 if (id == mSlicerManagers[i]->GetId()) {
1962 mSlicerManagers[i]->UpdateLinkedNavigation(refSlicer);
1966 //------------------------------------------------------------------------------
1968 //------------------------------------------------------------------------------
1969 void vvMainWindow::ShowContextMenu(QPoint point)
1971 if (!DataTree->selectedItems().size()) {
1972 contextActions[1]->setEnabled(0);
1973 contextActions[2]->setEnabled(0);
1974 contextActions[3]->setEnabled(0);
1975 contextActions[4]->setEnabled(0);
1976 contextActions[5]->setEnabled(0);
1977 contextActions[6]->setEnabled(0);
1979 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1980 contextActions[1]->setEnabled(1);
1981 contextActions[2]->setEnabled(
1982 DataTree->itemWidget(DataTree->selectedItems()[0],
1983 COLUMN_RELOAD_IMAGE)->isEnabled());
1984 contextActions[3]->setEnabled(1);
1985 contextActions[5]->setEnabled(1);
1986 contextActions[6]->setEnabled(1);
1988 if (mSlicerManagers[index]->GetDimension() < 3)
1989 contextActions[4]->setEnabled(0);
1991 contextActions[4]->setEnabled(1);
1993 contextMenu.exec(QCursor::pos());
1995 //------------------------------------------------------------------------------
1997 //------------------------------------------------------------------------------
1998 void vvMainWindow::CloseImage()
2000 CloseImage(DataTree->selectedItems()[0],0);
2002 //------------------------------------------------------------------------------
2004 //------------------------------------------------------------------------------
2005 void vvMainWindow::ReloadImage()
2007 ReloadImage(DataTree->selectedItems()[0],0);
2009 //------------------------------------------------------------------------------
2011 //------------------------------------------------------------------------------
2012 void vvMainWindow::SelectOverlayImage()
2014 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2016 //check if one overlay image is added
2017 for (int child = 0; child < DataTree->topLevelItem(index)->childCount(); child++)
2018 if (DataTree->topLevelItem(index)->child(child)->data(1,Qt::UserRole).toString() == "overlay") {
2019 QString error = "Cannot add more than one compared image\n";
2020 error += "Please remove first ";
2021 error += DataTree->topLevelItem(index)->child(child)->data(COLUMN_IMAGE_NAME,Qt::DisplayRole).toString();
2022 QMessageBox::information(this,tr("Problem adding compared image !"),error);
2026 QString Extensions = EXTENSIONS;
2027 Extensions += ";;All Files (*)";
2028 QStringList files = QFileDialog::getOpenFileNames(this,tr("Load Overlay image"),mInputPathName,Extensions);
2029 if (files.isEmpty())
2032 std::vector<std::string> vecFileNames;
2033 for (int i = 0; i < files.size(); i++) {
2034 vecFileNames.push_back(files[i].toStdString());
2036 AddOverlayImage(index,vecFileNames,vvImageReader::IMAGE);
2038 //------------------------------------------------------------------------------
2040 //------------------------------------------------------------------------------
2041 void vvMainWindow::AddOverlayImage(int index, std::vector<std::string> fileNames, vvImageReader::LoadedImageType type)
2043 QString file(fileNames[0].c_str());
2044 if (QFile::exists(file))
2046 mInputPathName = itksys::SystemTools::GetFilenamePath(file.toStdString()).c_str();
2047 itk::ImageIOBase::Pointer reader = itk::ImageIOFactory::CreateImageIO(
2048 file.toStdString().c_str(), itk::ImageIOFactory::ReadMode);
2049 reader->SetFileName(fileNames[0].c_str());
2050 reader->ReadImageInformation();
2051 std::string component = reader->GetComponentTypeAsString(reader->GetComponentType());
2052 int dimension = reader->GetNumberOfDimensions();
2053 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
2054 vvProgressDialog progress("Opening " + file.toStdString());
2055 qApp->processEvents();
2057 std::string filename = itksys::SystemTools::GetFilenameWithoutExtension(file.toStdString()).c_str();
2058 if (mSlicerManagers[index]->SetOverlay(fileNames,dimension, component,type)) {
2059 //create an item in the tree with good settings
2060 QTreeWidgetItem *item = new QTreeWidgetItem();
2061 item->setData(0,Qt::UserRole,file.toStdString().c_str());
2062 item->setData(1,Qt::UserRole,tr("overlay"));
2063 QFileInfo fileinfo(file); //Do not show the path
2064 item->setData(COLUMN_IMAGE_NAME,Qt::DisplayRole,fileinfo.fileName());
2065 item->setToolTip(COLUMN_IMAGE_NAME, mSlicerManagers[index]->GetListOfAbsoluteFilePathInOneString("overlay").c_str());
2066 qApp->processEvents();
2068 for (int j = 1; j <= 4; j++) {
2069 item->setData(j,Qt::CheckStateRole,DataTree->topLevelItem(index)->data(j,Qt::CheckStateRole));
2072 //Create the buttons for reload and close
2073 qApp->processEvents();
2074 QTreePushButton* cButton = new QTreePushButton;
2075 cButton->setItem(item);
2076 cButton->setColumn(COLUMN_CLOSE_IMAGE);
2077 cButton->setToolTip(tr("close image"));
2078 cButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/exit.png")));
2079 connect(cButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2080 this,SLOT(CloseImage(QTreeWidgetItem*, int)));
2082 QTreePushButton* rButton = new QTreePushButton;
2083 rButton->setItem(item);
2084 rButton->setColumn(COLUMN_RELOAD_IMAGE);
2085 rButton->setToolTip(tr("reload image"));
2086 rButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/rotateright.png")));
2087 connect(rButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2088 this,SLOT(ReloadImage(QTreeWidgetItem*, int)));
2090 DataTree->topLevelItem(index)->setExpanded(1);
2091 DataTree->topLevelItem(index)->addChild(item);
2092 DataTree->setItemWidget(item, COLUMN_CLOSE_IMAGE, cButton);
2093 DataTree->setItemWidget(item, COLUMN_RELOAD_IMAGE, rButton);
2095 //set the id of the image
2096 QString id = DataTree->topLevelItem(index)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString();
2097 item->setData(COLUMN_IMAGE_NAME,Qt::UserRole,id.toStdString().c_str());
2099 qApp->processEvents();
2101 QApplication::restoreOverrideCursor();
2103 // Update the display to update, e.g., the sliders
2104 for(int i=0; i<4; i++)
2105 DisplaySliders(index, i);
2107 QApplication::restoreOverrideCursor();
2108 QString error = "Cannot import the new image.\n";
2109 error += mSlicerManagers[index]->GetLastError().c_str();
2110 QMessageBox::information(this,tr("Problem reading image !"),error);
2112 WindowLevelChanged();
2115 QMessageBox::information(this,tr("Problem reading Overlay !"),"File doesn't exist!");
2117 //------------------------------------------------------------------------------
2120 //------------------------------------------------------------------------------
2121 void vvMainWindow::AddROI(int index, QString file)
2124 // Get slice manager
2128 vvImageReader * mReader = new vvImageReader;
2129 mReader->SetInputFilename(filename.toStdString());
2130 mReader->Update(IMAGE);
2131 if (mReader->GetLastError().size() != 0) {
2132 std::cerr << "Error while reading " << filename.toStdString() << std::endl;
2133 QString error = "Cannot open file \n";
2134 error += mReader->GetLastError().c_str();
2135 QMessageBox::information(this,tr("Reading problem"),error);
2139 vvImage::Pointer roi = mReader->GetOutput();
2141 // Create roi in new tool
2142 vvToolStructureSetManager::AddImage(mCurrentSlicerManager, roi);
2145 //------------------------------------------------------------------------------
2147 //------------------------------------------------------------------------------
2148 void vvMainWindow::SelectFusionImage()
2150 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2152 //check if one fusion image is added
2153 for (int child = 0; child < DataTree->topLevelItem(index)->childCount(); child++)
2154 if ( (DataTree->topLevelItem(index)->child(child)->data(1,Qt::UserRole).toString() == "fusion") ||
2155 (DataTree->topLevelItem(index)->child(child)->data(1,Qt::UserRole).toString() == "fusionSequence") ) {
2156 QString error = "Cannot add more than one fusion image\n";
2157 error += "Please remove first ";
2158 error += DataTree->topLevelItem(index)->child(child)->data(COLUMN_IMAGE_NAME,Qt::DisplayRole).toString();
2159 QMessageBox::information(this,tr("Problem adding fusion image !"),error);
2163 QString Extensions = EXTENSIONS;
2164 Extensions += ";;All Files (*)";
2165 QStringList files = QFileDialog::getOpenFileNames(this,tr("Load Fusion image"),mInputPathName,Extensions);
2166 if (files.isEmpty())
2169 std::vector<std::string> vecFileNames;
2170 for (int i = 0; i < files.size(); i++) {
2171 vecFileNames.push_back(files[i].toStdString());
2173 AddFusionImage(index,vecFileNames,vvImageReader::IMAGE);
2175 //------------------------------------------------------------------------------
2177 //------------------------------------------------------------------------------
2178 void vvMainWindow::ResetTransformationToIdentity()
2180 std::string actorType = DataTree->selectedItems()[0]->data(1,Qt::UserRole).toString().toStdString();
2181 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2182 mSlicerManagers[index]->ResetTransformationToIdentity(actorType);
2185 //------------------------------------------------------------------------------
2187 //------------------------------------------------------------------------------
2188 void vvMainWindow::AddFusionImage(int index, std::vector<std::string> fileNames, vvImageReader::LoadedImageType type)
2190 QString file(fileNames[0].c_str());
2191 if (QFile::exists(file))
2193 mInputPathName = itksys::SystemTools::GetFilenamePath(file.toStdString()).c_str();
2194 itk::ImageIOBase::Pointer reader = itk::ImageIOFactory::CreateImageIO(
2195 file.toStdString().c_str(), itk::ImageIOFactory::ReadMode);
2196 reader->SetFileName(fileNames[0].c_str());
2197 reader->ReadImageInformation();
2198 std::string component = reader->GetComponentTypeAsString(reader->GetComponentType());
2199 int dimension = reader->GetNumberOfDimensions();
2200 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
2201 vvProgressDialog progress("Opening fusion");
2202 qApp->processEvents();
2204 std::string filename = itksys::SystemTools::GetFilenameWithoutExtension(file.toStdString()).c_str();
2205 if (mSlicerManagers[index]->SetFusion(fileNames,dimension, component,type)) {
2206 //create an item in the tree with good settings
2207 QTreeWidgetItem *item = new QTreeWidgetItem();
2208 item->setData(0,Qt::UserRole,file.toStdString().c_str());
2209 item->setData(1,Qt::UserRole,tr("fusion"));
2210 QFileInfo fileinfo(file); //Do not show the path
2211 item->setData(COLUMN_IMAGE_NAME,Qt::DisplayRole,fileinfo.fileName());
2212 item->setToolTip(COLUMN_IMAGE_NAME, mSlicerManagers[index]->GetListOfAbsoluteFilePathInOneString("fusion").c_str());
2213 qApp->processEvents();
2215 for (int j = 1; j <= 4; j++) {
2216 item->setData(j,Qt::CheckStateRole,DataTree->topLevelItem(index)->data(j,Qt::CheckStateRole));
2219 //Create the buttons for reload and close
2220 qApp->processEvents();
2221 QTreePushButton* cButton = new QTreePushButton;
2222 cButton->setItem(item);
2223 cButton->setColumn(COLUMN_CLOSE_IMAGE);
2224 cButton->setToolTip(tr("close image"));
2225 cButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/exit.png")));
2226 connect(cButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2227 this,SLOT(CloseImage(QTreeWidgetItem*, int)));
2229 QTreePushButton* rButton = new QTreePushButton;
2230 rButton->setItem(item);
2231 rButton->setColumn(COLUMN_RELOAD_IMAGE);
2232 rButton->setToolTip(tr("reload image"));
2233 rButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/rotateright.png")));
2234 connect(rButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2235 this,SLOT(ReloadImage(QTreeWidgetItem*, int)));
2237 DataTree->topLevelItem(index)->setExpanded(1);
2238 DataTree->topLevelItem(index)->addChild(item);
2239 DataTree->setItemWidget(item, COLUMN_CLOSE_IMAGE, cButton);
2240 DataTree->setItemWidget(item, COLUMN_RELOAD_IMAGE, rButton);
2242 //set the id of the image
2243 QString id = DataTree->topLevelItem(index)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString();
2244 item->setData(COLUMN_IMAGE_NAME,Qt::UserRole,id.toStdString().c_str());
2246 qApp->processEvents();
2248 QApplication::restoreOverrideCursor();
2250 // Update the display to update, e.g., the sliders
2251 for(int i=0; i<4; i++)
2252 DisplaySliders(index, i);
2254 QApplication::restoreOverrideCursor();
2255 QString error = "Cannot import the new image.\n";
2256 error += mSlicerManagers[index]->GetLastError().c_str();
2257 QMessageBox::information(this,tr("Problem reading image !"),error);
2259 WindowLevelChanged();
2262 QMessageBox::information(this,tr("Problem reading Fusion !"),"File doesn't exist!");
2264 //------------------------------------------------------------------------------
2265 //------------------------------------------------------------------------------
2266 void vvMainWindow::AddLandmarks(int index, std::vector<std::string> files)
2268 if (!landmarksPanel->LoadFromFile(files))
2269 QMessageBox::information(this,tr("Problem reading Landmarks !"),"File doesn't exist!");
2271 landmarksPanel->SetCurrentPath(mInputPathName.toStdString());
2272 landmarksPanel->SetCurrentImage(mSlicerManagers[index]->GetFileName().c_str());
2275 //------------------------------------------------------------------------------
2276 void vvMainWindow::OpenField()
2278 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2279 //check if a vector field has already been added
2280 for (int child = 0; child < DataTree->topLevelItem(index)->childCount(); child++)
2281 if (DataTree->topLevelItem(index)->child(child)->data(1,Qt::UserRole).toString() == "vector") {
2282 QString error = "Cannot add more than one vector field\n";
2283 error += "Please remove first ";
2284 error += DataTree->topLevelItem(index)->child(child)->data(COLUMN_IMAGE_NAME,Qt::DisplayRole).toString();
2285 QMessageBox::information(this,tr("Problem adding vector field!"),error);
2289 QString Extensions = "Images ( *.mhd)";
2290 Extensions += ";;Images ( *.mha)";
2291 Extensions += ";;VF Images ( *.vf)";
2292 Extensions += ";;nii Images ( *.nii)";
2293 Extensions += ";;nrrd Images ( *.nrrd)";
2294 Extensions += ";;nhdr Images ( *.nhdr)";
2295 Extensions += ";;All Files (*)";
2296 QString file = QFileDialog::getOpenFileName(this,tr("Load deformation field"),mInputPathName,Extensions);
2297 if (!file.isEmpty())
2298 AddField(file,index);
2300 //------------------------------------------------------------------------------
2303 //------------------------------------------------------------------------------
2304 void vvMainWindow::AddFieldEntry(QString filename,int index,bool from_disk)
2306 //create an item in the tree with good settings
2307 QTreeWidgetItem *item = new QTreeWidgetItem();
2308 item->setData(0,Qt::UserRole,filename.toStdString().c_str());
2309 item->setData(1,Qt::UserRole,tr("vector"));
2310 QFileInfo fileinfo(filename); //Do not show the path
2311 item->setData(COLUMN_IMAGE_NAME,Qt::DisplayRole,fileinfo.fileName());
2312 item->setToolTip(COLUMN_IMAGE_NAME, mSlicerManagers[index]->GetListOfAbsoluteFilePathInOneString("vector").c_str());
2313 qApp->processEvents();
2315 for (int j = 1; j <= 4; j++) {
2316 item->setData(j,Qt::CheckStateRole,DataTree->topLevelItem(index)->data(j,Qt::CheckStateRole));
2319 //Create the buttons for reload and close
2320 qApp->processEvents();
2321 QTreePushButton* cButton = new QTreePushButton;
2322 cButton->setItem(item);
2323 cButton->setColumn(COLUMN_CLOSE_IMAGE);
2324 cButton->setToolTip(tr("close vector field"));
2325 cButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/exit.png")));
2326 connect(cButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2327 this,SLOT(CloseImage(QTreeWidgetItem*, int)));
2329 QTreePushButton* rButton = new QTreePushButton;
2330 rButton->setItem(item);
2331 rButton->setColumn(COLUMN_RELOAD_IMAGE);
2332 rButton->setToolTip(tr("reload vector field"));
2333 rButton->setEnabled(from_disk);
2334 rButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/rotateright.png")));
2335 connect(rButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2336 this,SLOT(ReloadImage(QTreeWidgetItem*, int)));
2338 DataTree->topLevelItem(index)->setExpanded(1);
2339 DataTree->topLevelItem(index)->addChild(item);
2340 DataTree->setItemWidget(item, COLUMN_RELOAD_IMAGE, rButton);
2341 DataTree->setItemWidget(item, COLUMN_CLOSE_IMAGE, cButton);
2343 //set the id of the image
2344 QString id = DataTree->topLevelItem(index)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString();
2345 item->setData(COLUMN_IMAGE_NAME,Qt::UserRole,id.toStdString().c_str());
2347 qApp->processEvents();
2349 QApplication::restoreOverrideCursor();
2351 //------------------------------------------------------------------------------
2354 //------------------------------------------------------------------------------
2355 void vvMainWindow::AddField(vvImage::Pointer vf,QString file,int index)
2357 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
2358 vvSlicerManager* imageManager = mSlicerManagers[index];
2359 if (imageManager->SetVF(vf,file.toStdString())) {
2360 AddFieldEntry(file,index,false);
2362 QString error = "Cannot import the vector field for this image.\n";
2363 error += imageManager->GetLastError().c_str();
2364 QMessageBox::information(this,tr("Problem reading VF !"),error);
2366 QApplication::restoreOverrideCursor();
2368 //------------------------------------------------------------------------------
2371 //------------------------------------------------------------------------------
2372 void vvMainWindow::AddField(QString file,int index)
2374 if (QFile::exists(file)) {
2375 mInputPathName = itksys::SystemTools::GetFilenamePath(file.toStdString()).c_str();
2377 //init the progress events
2378 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
2379 vvProgressDialog progress("Opening " + file.toStdString());
2380 qApp->processEvents();
2382 //read the vector and put it in the current mSlicerManager
2383 vvSlicerManager* imageManager = mSlicerManagers[index];
2384 qApp->processEvents();
2386 std::string filename = itksys::SystemTools::GetFilenameWithoutExtension(file.toStdString()).c_str();
2387 if (imageManager->SetVF(file.toStdString())) {
2388 imageManager->Render();
2389 AddFieldEntry(file,index,true);
2391 QApplication::restoreOverrideCursor();
2392 QString error = "Cannot import the vector field for this image.\n";
2393 error += imageManager->GetLastError().c_str();
2394 QMessageBox::information(this,tr("Problem reading VF !"),error);
2397 QMessageBox::information(this,tr("Problem reading VF !"),"File doesn't exist!");
2400 //------------------------------------------------------------------------------
2403 //------------------------------------------------------------------------------
2404 void vvMainWindow::SetVFProperty(int subsampling, int scale, int log, int width, double r, double g, double b)
2406 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2407 if (mSlicerManagers[index]->GetSlicer(0)->GetVF()) {
2408 for (int i = 0; i < 4; i++) {
2409 mSlicerManagers[index]->GetSlicer(i)->SetVFSubSampling(subsampling);
2410 mSlicerManagers[index]->GetSlicer(i)->SetVFScale(scale);
2411 mSlicerManagers[index]->GetSlicer(i)->SetVFWidth(width);
2412 mSlicerManagers[index]->GetSlicer(i)->SetVFColor(r,g,b);
2414 mSlicerManagers[index]->GetSlicer(i)->SetVFLog(1);
2416 mSlicerManagers[index]->GetSlicer(i)->SetVFLog(0);
2420 //------------------------------------------------------------------------------
2423 //------------------------------------------------------------------------------
2424 void vvMainWindow::SetOverlayProperty(int color, int linked, double window, double level)
2426 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2427 if (mSlicerManagers[index]->GetSlicer(0)->GetOverlay()) {
2428 mSlicerManagers[index]->SetOverlayColor(color);
2429 mSlicerManagers[index]->SetColorMap(0);
2430 mSlicerManagers[index]->SetLinkOverlayWindowLevel(linked);
2431 mSlicerManagers[index]->SetOverlayColorWindow(window);
2432 mSlicerManagers[index]->SetOverlayColorLevel(level);
2433 mSlicerManagers[index]->Render();
2436 //------------------------------------------------------------------------------
2438 //------------------------------------------------------------------------------
2439 void vvMainWindow::SetFusionProperty(int opacity, int thresOpacity, int colormap,double window, double level, bool showLegend)
2441 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2442 if (mSlicerManagers[index]->GetSlicer(0)->GetFusion()) {
2443 mSlicerManagers[index]->SetFusionColorMap(colormap);
2444 mSlicerManagers[index]->SetFusionOpacity(opacity);
2445 mSlicerManagers[index]->SetFusionThresholdOpacity(thresOpacity);
2446 mSlicerManagers[index]->SetFusionWindow(window);
2447 mSlicerManagers[index]->SetFusionLevel(level);
2448 mSlicerManagers[index]->SetFusionShowLegend(showLegend);
2449 mSlicerManagers[index]->SetColorMap(0);
2450 mSlicerManagers[index]->Render();
2453 //------------------------------------------------------------------------------
2456 //------------------------------------------------------------------------------
2457 void vvMainWindow::SelectFusionSequence()
2459 //get the index of the slicer manager of the main sequence (CT)
2460 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2461 //check if one overlay image is already associated
2462 for (int child = 0; child < DataTree->topLevelItem(index)->childCount(); child++)
2463 if ( (DataTree->topLevelItem(index)->child(child)->data(1,Qt::UserRole).toString() == "fusion") ||
2464 (DataTree->topLevelItem(index)->child(child)->data(1,Qt::UserRole).toString() == "fusionSequence") ) {
2465 QString error = "Cannot add more than one compared image\n";
2466 error += "Please remove first ";
2467 error += DataTree->topLevelItem(index)->child(child)->data(COLUMN_IMAGE_NAME,Qt::DisplayRole).toString();
2468 QMessageBox::information(this,tr("Problem adding compared image !"),error);
2472 QString Extensions = EXTENSIONS;
2473 Extensions += ";;All Files (*)";
2474 QStringList files = QFileDialog::getOpenFileNames(this,tr("Load Overlay image sequence"),mInputPathName,Extensions);
2475 if (files.isEmpty())
2478 std::vector<std::string> vecFileNames;
2479 for (int i = 0; i < files.size(); i++) {
2480 vecFileNames.push_back(files[i].toStdString());
2483 //associate the secondary sequence (US) to the main one
2484 AddFusionSequence(index,vecFileNames,vvImageReader::MERGEDWITHTIME);
2486 //------------------------------------------------------------------------------
2489 //------------------------------------------------------------------------------
2490 void vvMainWindow::SelectFusionSequenceCorrespondances() {
2492 //make sure the index is right?
2493 //in the end, I should attach the temporal data to the right sequence!
2494 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2495 //in case the other sequence got selected, make sure we select the primary sequence
2496 if ( (!mSlicerManagers[index]->GetSlicer(0)->GetFusion()) && mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()>=0 ) {
2497 index = mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager();
2500 //open a dialog box to find a file
2501 //QString Extensions = EXTENSIONS;
2502 QString Extensions = ";;All Files (*)";
2503 QString fileName = QFileDialog::getOpenFileName(this,tr("Load respiratory signal for fused sequence"),mInputPathName,Extensions);
2504 if (fileName.isNull())
2507 //read it as a vector of values
2508 vnl_vector<double> tmpVect;
2511 file.open(fileName.toStdString().c_str());
2512 tmpVect.read_ascii(file);
2515 //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
2516 bool signalOK = true;
2517 unsigned nbFrameMain = mSlicerManagers[index]->GetImage()->GetTransform().size();
2518 unsigned nbFrameSecondary = mSlicerManagers[index]->GetFusionSequenceNbFrames();
2519 std::cout<<"nbFrameMain = "<<nbFrameMain<<", nbFrameSecondary= "<<nbFrameSecondary<<", signal size: "<<tmpVect.size()<<std::endl;
2520 std::vector<unsigned> temporalCorrespondances;
2521 if ( tmpVect.size() == nbFrameMain + nbFrameSecondary ) {
2522 for (unsigned i=0 ; i<tmpVect.size() ; i++) {
2523 if (i<nbFrameMain) { //first part of the file: i -> index in secondary seq.
2524 if ( tmpVect(i)<nbFrameSecondary ) temporalCorrespondances.push_back(tmpVect(i));
2525 else { signalOK=false; break; } //pointing outside the secondary sequence...
2527 else { //first part of the file -> index in secondary seq.
2528 if ( tmpVect(i)<nbFrameMain ) temporalCorrespondances.push_back(tmpVect(i));
2529 else { signalOK=false; break; } //pointing outside the secondary sequence...
2533 else {signalOK=false;}
2534 if (!signalOK) {//else, send a message to signal the failure...
2535 QString error = "The provided temporal correspondances is invalid - check tooltip.\n";
2536 error += "Ignoring file: " + fileName;
2537 QMessageBox::information(this,tr("Problem adding temporal correspondances!"),error);
2541 //for convenience, associate this sequence to both the current slicer manager, and to the linked one
2542 mSlicerManagers[index]->SetFusionSequenceCorrespondances(temporalCorrespondances);
2543 mSlicerManagers[ mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager() ]->SetFusionSequenceCorrespondances(temporalCorrespondances);
2544 overlayPanel->enableFusionSequenceTemporalSync();
2548 //------------------------------------------------------------------------------
2551 //------------------------------------------------------------------------------
2552 //when this function is called index is the slicer manager index corresponding to the main sequence (CT)
2553 //the files behind fileNames points to the data for the secondary sequence
2554 void vvMainWindow::AddFusionSequence(int index, std::vector<std::string> fileNames, vvImageReader::LoadedImageType type)
2556 QString file(fileNames[0].c_str());
2557 if (QFile::exists(file))
2559 mInputPathName = itksys::SystemTools::GetFilenamePath(file.toStdString()).c_str();
2560 itk::ImageIOBase::Pointer reader = itk::ImageIOFactory::CreateImageIO(
2561 file.toStdString().c_str(), itk::ImageIOFactory::ReadMode);
2562 std::sort (fileNames.begin(), fileNames.end());//make sure the files are sorted.
2563 reader->SetFileName(fileNames[0].c_str());
2564 reader->ReadImageInformation();
2565 std::string component = reader->GetComponentTypeAsString(reader->GetComponentType());
2566 int dimension = reader->GetNumberOfDimensions();
2567 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
2568 vvProgressDialog progress("Opening " + file.toStdString());
2569 qApp->processEvents();
2571 std::string filename = itksys::SystemTools::GetFilenameWithoutExtension(file.toStdString()).c_str();
2573 if (mSlicerManagers[index]->SetFusionSequence(fileNames,dimension, component,type)) {
2574 //create an item in the tree with good settings
2575 QTreeWidgetItem *item = new QTreeWidgetItem();
2576 item->setData(0,Qt::UserRole,file.toStdString().c_str());
2577 item->setData(1,Qt::UserRole,tr("fusionSequence"));
2579 QFileInfo fileinfo(file); //Do not show the path
2580 item->setData(COLUMN_IMAGE_NAME,Qt::DisplayRole,fileinfo.fileName());
2581 item->setToolTip(COLUMN_IMAGE_NAME, mSlicerManagers[index]->GetListOfAbsoluteFilePathInOneString("fusionSequence").c_str());
2582 qApp->processEvents();
2583 for (int j = 1; j <= 4; j++) {
2584 item->setData(j,Qt::CheckStateRole,DataTree->topLevelItem(index)->data(j,Qt::CheckStateRole));
2587 //Create the buttons for reload and close
2588 qApp->processEvents();
2589 QTreePushButton* cButton = new QTreePushButton;
2590 cButton->setItem(item);
2591 cButton->setColumn(COLUMN_CLOSE_IMAGE);
2592 cButton->setToolTip(tr("close image"));
2593 cButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/exit.png")));
2594 connect(cButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2595 this,SLOT(CloseImage(QTreeWidgetItem*, int)));
2597 QTreePushButton* rButton = new QTreePushButton;
2598 rButton->setItem(item);
2599 rButton->setColumn(COLUMN_RELOAD_IMAGE);
2600 rButton->setToolTip(tr("reload image"));
2601 rButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/rotateright.png")));
2602 connect(rButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2603 this,SLOT(ReloadImage(QTreeWidgetItem*, int)));
2605 DataTree->topLevelItem(index)->setExpanded(1);
2606 DataTree->topLevelItem(index)->addChild(item);
2607 DataTree->setItemWidget(item, COLUMN_CLOSE_IMAGE, cButton);
2608 DataTree->setItemWidget(item, COLUMN_RELOAD_IMAGE, rButton);
2610 //store the original transform matrix
2611 int indexParent = GetSlicerIndexFromItem( DataTree->topLevelItem(index) );
2612 mSlicerManagers[indexParent]->SetFusionSequenceMainTransformMatrix( mSlicerManagers[indexParent]->GetSlicer(0)->GetImage()->GetTransform()[0]->GetMatrix() );
2614 //set the id of the image
2615 QString id = DataTree->topLevelItem(index)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString();
2616 item->setData(COLUMN_IMAGE_NAME,Qt::UserRole,id.toStdString().c_str());
2618 qApp->processEvents();
2620 //ImageInfoChanged();
2622 QApplication::restoreOverrideCursor();
2623 // Update the display to update, e.g., the sliders
2624 for(int i=0; i<4; i++)
2625 DisplaySliders(index, i);
2628 //This loads the secondary sequence (US) as an independent sequence
2629 LoadImages(fileNames, type);
2630 //reset the transforms to identity
2631 //FIX -- and set the thickness of the US slices to a large value (necessary for visualization purposes...)
2632 double sp_x, sp_y, sp_z;
2633 mSlicerManagers[indexParent]->GetImage()->GetVTKImages()[0]->GetSpacing(sp_x, sp_y, sp_z);
2634 sp_z = std::max(sp_x, std::max(sp_y, sp_z)) + 0.5; //
2635 for (unsigned i=0 ; i<mSlicerManagers.back()->GetImage()->GetTransform().size() ; i++) {
2636 sp_x = mSlicerManagers.back()->GetImage()->GetVTKImages()[i]->GetSpacing()[0];
2637 sp_y = mSlicerManagers.back()->GetImage()->GetVTKImages()[i]->GetSpacing()[1];
2638 mSlicerManagers.back()->GetImage()->GetVTKImages()[i]->SetSpacing( sp_x, sp_y, sp_z);
2639 mSlicerManagers.back()->GetImage()->GetTransform()[i]->Identity();
2640 mSlicerManagers.back()->GetImage()->GetTransform()[i]->Update();
2643 //automatically link both images...
2644 AddLink(mSlicerManagers[indexParent]->GetId().c_str(), mSlicerManagers.back()->GetId().c_str(), false);
2646 //tie the main and secondary sequences by raising flags and informing each another of their respective SlicerManager indices
2647 mSlicerManagers[indexParent]->SetFusionSequenceIndexOfLinkedManager(mSlicerManagers.size()-1);
2648 mSlicerManagers[indexParent]->SetFusionSequenceInvolvmentCode(0); //main sequence
2649 mSlicerManagers.back()->SetFusionSequenceIndexOfLinkedManager(indexParent);
2650 mSlicerManagers.back()->SetFusionSequenceInvolvmentCode(1); //secondary sequence
2651 for (unsigned i=0 ; i<4 ; i++) {
2652 mSlicerManagers.back()->GetSlicer(i)->SetFusionSequenceCode(1); //flag the slicers of the secondary sequence
2656 QApplication::restoreOverrideCursor();
2657 QString error = "Cannot import the new image.\n";
2658 error += mSlicerManagers[index]->GetLastError().c_str();
2659 QMessageBox::information(this,tr("Problem reading image !"),error);
2661 WindowLevelChanged();
2662 ImageInfoChanged(); //this internally calls WindowLevelChanged...
2665 QMessageBox::information(this,tr("Problem reading fusion sequence !"),"File doesn't exist!");
2670 //------------------------------------------------------------------------------
2673 //------------------------------------------------------------------------------
2674 //fusionSequenceFrameIndex and fusionSequenceNbFrames are relative to the secondary sequence (US)
2675 void vvMainWindow::SetFusionSequenceProperty(int fusionSequenceFrameIndex, bool spatialSyncFlag, unsigned int fusionSequenceNbFrames, bool temporalSyncFlag)
2677 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2679 if (!mSlicerManagers[index]->IsInvolvedInFusionSequence()) return;
2681 //check if the focus moved to the linked sequence, and in this case, select the master sequence instead
2682 if (!mSlicerManagers[index]->IsMainSequenceOfFusionSequence()) {
2683 index = mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager();
2685 int secondaryIndex = mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager();
2686 if (secondaryIndex==-1) return; //this should never happen
2687 if ( (!mSlicerManagers[index]->IsMainSequenceOfFusionSequence()) ||
2688 (!mSlicerManagers[secondaryIndex]->IsSecondarySequenceOfFusionSequence()) )
2689 {return;} //this should never happen, raise an exception?
2691 if (mSlicerManagers[index]->GetSlicer(0)->GetFusion()) {
2693 //First, if the spatialSync button is unchecked, then reposition the parent sequence (CT) in its original coordinate frame
2694 if ( (!spatialSyncFlag) && (mSlicerManagers[index]->GetFusionSequenceSpatialSyncFlag()) ) {
2695 for ( unsigned i=0 ; i<mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform().size() ; i++ ) {
2696 mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform()[i]->SetMatrix( mSlicerManagers[index]->GetFusionSequenceMainTransformMatrix() );
2697 mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform()[i]->Update();
2700 for (int i=0; i<mSlicerManagers[index]->GetNumberOfSlicers(); i++) {
2701 mSlicerManagers[index]->GetSlicer(i)->ForceUpdateDisplayExtent();
2702 mSlicerManagers[index]->GetSlicer(i)->Render();
2706 //then, update the property values in the slicer manager
2707 mSlicerManagers[index]->SetFusionSequenceLength(fusionSequenceNbFrames);
2708 mSlicerManagers[index]->SetFusionSequenceSpatialSyncFlag(spatialSyncFlag);
2709 mSlicerManagers[index]->SetFusionSequenceTemporalSyncFlag(temporalSyncFlag);
2710 mSlicerManagers[index]->SetFusionSequenceFrameIndex(fusionSequenceFrameIndex);
2712 //select the right frame of the US sequence
2713 mSlicerManagers[index]->SetFusionSequenceTSlice(fusionSequenceFrameIndex); //here, I should only update the overlayed sequence
2714 mSlicerManagers[secondaryIndex]->SetTSlice(fusionSequenceFrameIndex, false); //this should update the secondary sequence (individual version)
2716 //update the horizontal sliders of the main window
2717 overlayPanel->updateFusionSequenceSliderValueFromWindow(fusionSequenceFrameIndex, false);
2719 if (spatialSyncFlag) { //reslice the CT
2721 if (temporalSyncFlag) { //do the temporal synchronisation
2722 int mainSequenceFrameIndex=0;
2723 //estimate the TSlice to set to the CT
2724 unsigned nbFramesMain = mSlicerManagers[index]->GetImage()->GetTransform().size();
2725 mainSequenceFrameIndex = mSlicerManagers[index]->GetFusionSequenceCorrespondances()[ nbFramesMain + fusionSequenceFrameIndex];
2727 mSlicerManagers[index]->SetTSlice(mainSequenceFrameIndex, false);
2728 //warning, there is a loopback, and modification of the TSlice in main sequence forces an update of the TSlice in secondary, etc...
2732 //Set the transform matrix of the parent sequence (typically CT / 4DCT)
2733 vtkSmartPointer<vtkMatrix4x4> tmpMat = vtkSmartPointer<vtkMatrix4x4>::New();
2734 vtkMatrix4x4::Invert( mSlicerManagers[index]->GetFusionSequenceInitialTransformMatrixAtFrame(fusionSequenceFrameIndex), tmpMat );
2735 for ( unsigned i=0 ; i<mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform().size() ; i++ ) {
2736 mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform()[i]->SetMatrix( mSlicerManagers[index]->GetFusionSequenceMainTransformMatrix() );
2737 mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform()[i]->PreMultiply();
2738 mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform()[i]->Concatenate( tmpMat );
2739 mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform()[i]->Update();
2742 for (int i=0; i<mSlicerManagers[index]->GetNumberOfSlicers(); i++) {
2743 mSlicerManagers[index]->GetSlicer(i)->ForceUpdateDisplayExtent();
2744 mSlicerManagers[index]->GetSlicer(i)->Render();
2751 //------------------------------------------------------------------------------
2754 //------------------------------------------------------------------------------
2755 void vvMainWindow::SaveAs()
2757 if (DataTree->selectedItems()[0]->data(1,Qt::UserRole).toString() == "vector") {
2758 QMessageBox::warning(this,tr("Unsupported type"),tr("Sorry, saving a vector field is unsupported for the moment"));
2762 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2763 int dimension = mSlicerManagers[index]->GetDimension();
2764 QStringList OutputListeFormat;
2765 OutputListeFormat.clear();
2766 if (dimension == 1) {
2767 OutputListeFormat.push_back(".mhd");
2768 OutputListeFormat.push_back(".mha");
2770 if (dimension == 2) {
2771 OutputListeFormat.push_back(".bmp");
2772 OutputListeFormat.push_back(".png");
2773 OutputListeFormat.push_back(".jpeg");
2774 OutputListeFormat.push_back(".tif");
2775 OutputListeFormat.push_back(".mhd");
2776 OutputListeFormat.push_back(".mha");
2777 OutputListeFormat.push_back(".hdr");
2778 OutputListeFormat.push_back(".vox");
2779 } else if (dimension == 3) {
2780 OutputListeFormat.push_back(".mhd");
2781 OutputListeFormat.push_back(".mha");
2782 OutputListeFormat.push_back(".nii");
2783 OutputListeFormat.push_back(".nrrd");
2784 OutputListeFormat.push_back(".nhdr");
2785 OutputListeFormat.push_back(".hdr");
2786 OutputListeFormat.push_back(".vox");
2787 } else if (dimension == 4) {
2788 OutputListeFormat.push_back(".mhd");
2789 OutputListeFormat.push_back(".mha");
2790 OutputListeFormat.push_back(".nii");
2791 OutputListeFormat.push_back(".nrrd");
2792 OutputListeFormat.push_back(".nhdr");
2794 QString Extensions = "AllFiles(*.*)";
2795 for (int i = 0; i < OutputListeFormat.count(); i++) {
2796 Extensions += ";;Images ( *";
2797 Extensions += OutputListeFormat[i];
2800 QString fileName = QFileDialog::getSaveFileName(this,
2802 mSlicerManagers[index]->GetFileName().c_str(),
2804 if (!fileName.isEmpty()) {
2805 std::string fileformat = itksys::SystemTools::GetFilenameLastExtension(fileName.toStdString());
2806 if (OutputListeFormat.contains(
2807 fileformat.c_str())) {
2808 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
2809 std::string action = "Saving";
2810 vvProgressDialog progress("Saving "+fileName.toStdString());
2811 qApp->processEvents();
2812 vvImageWriter::Pointer writer = vvImageWriter::New();
2813 writer->SetOutputFileName(fileName.toStdString());
2814 writer->SetInput(mSlicerManagers[index]->GetImage());
2816 // Check on transform and prompt user
2817 writer->SetSaveTransform(false);
2819 for(int i=0; i<4; i++)
2820 for(int j=0; j<4; j++) {
2821 // TODO SR and BP: check on the list of transforms and not the first only
2822 double elt = mSlicerManagers[index]->GetImage()->GetTransform()[0]->GetMatrix()->GetElement(i,j);
2829 QString warning = "The image has an associated linear transform. Do you want to save it along?";
2830 QMessageBox msgBox(QMessageBox::Warning, tr("Save transform"), warning, 0, this);
2831 msgBox.addButton(tr("Yes"), QMessageBox::AcceptRole);
2832 msgBox.addButton(tr("No"), QMessageBox::RejectRole);
2833 if (msgBox.exec() == QMessageBox::AcceptRole)
2834 writer->SetSaveTransform(true);
2838 QApplication::restoreOverrideCursor();
2839 if (writer->GetLastError().size()) {
2840 QString error = "Saving did not succeed\n";
2841 error += writer->GetLastError().c_str();
2842 QMessageBox::information(this,tr("Saving Problem"),error);
2846 QString error = fileformat.c_str();
2847 if (error.isEmpty())
2848 error += "no file format specified !";
2850 error += " format unknown !!!\n";
2851 QMessageBox::information(this,tr("Saving Problem"),error);
2856 //------------------------------------------------------------------------------
2858 //------------------------------------------------------------------------------
2859 void vvMainWindow::SaveCurrentState()
2861 QString Extensions = "XML Files(*.xml)";
2862 QString fileName = QFileDialog::getSaveFileName(this,
2863 tr("Save Current Window State"),
2867 SaveCurrentStateAs(fileName.toStdString());
2869 //------------------------------------------------------------------------------
2871 //------------------------------------------------------------------------------
2872 void vvMainWindow::SaveCurrentStateAs(const std::string& stateFile)
2874 vvSaveState save_state;
2875 save_state.Run(this, stateFile);
2878 //------------------------------------------------------------------------------
2879 void vvMainWindow::ReadSavedState()
2881 QString Extensions = "XML Files(*.xml)";
2882 QString fileName = QFileDialog::getOpenFileName(this,
2883 tr("Load Window State"),
2887 ReadSavedStateFile(fileName.toStdString());
2889 //------------------------------------------------------------------------------
2891 //------------------------------------------------------------------------------
2892 void vvMainWindow::ReadSavedStateFile(const std::string& stateFile)
2894 vvReadState read_state;
2895 read_state.Run(this, stateFile);
2897 //------------------------------------------------------------------------------
2899 //------------------------------------------------------------------------------
2900 void vvMainWindow::LinkAllImages()
2902 linkPanel->linkAll();
2905 //------------------------------------------------------------------------------
2906 void vvMainWindow::AddLink(QString image1,QString image2,bool fromPanel)
2909 // delegate to linkPanel if call came from elsewhere...
2910 linkPanel->addLinkFromIds(image1, image2);
2914 unsigned int sm1 = 0;
2915 unsigned int sm2 = 0;
2917 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
2918 if (image1.toStdString() == mSlicerManagers[i]->GetId()) {
2919 mSlicerManagers[i]->AddLink(image2.toStdString());
2922 if (image2.toStdString() == mSlicerManagers[i]->GetId()) {
2923 mSlicerManagers[i]->AddLink(image1.toStdString());
2928 if (linkPanel->isLinkAll()) {
2929 emit UpdateLinkedNavigation(mSlicerManagers[sm1]->GetId(), mSlicerManagers[mCurrentPickedImageIndex], mSlicerManagers[mCurrentPickedImageIndex]->GetSlicer(0));
2930 emit UpdateLinkedNavigation(mSlicerManagers[sm2]->GetId(), mSlicerManagers[mCurrentPickedImageIndex], mSlicerManagers[mCurrentPickedImageIndex]->GetSlicer(0));
2932 emit UpdateLinkedNavigation(mSlicerManagers[sm2]->GetId(), mSlicerManagers[sm1], mSlicerManagers[sm1]->GetSlicer(0));
2936 //------------------------------------------------------------------------------
2939 //------------------------------------------------------------------------------
2940 void vvMainWindow::RemoveLink(QString image1,QString image2)
2942 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
2943 if (image1.toStdString() == mSlicerManagers[i]->GetId()) {
2944 mSlicerManagers[i]->RemoveLink(image2.toStdString());
2946 if (image2.toStdString() == mSlicerManagers[i]->GetId()) {
2947 mSlicerManagers[i]->RemoveLink(image1.toStdString());
2951 //------------------------------------------------------------------------------
2953 //------------------------------------------------------------------------------
2954 void vvMainWindow::ChangeImageWithIndexOffset(vvSlicerManager *sm, int slicer, int offset)
2956 if(mSlicerManagers.size()==1)
2960 while(sm != mSlicerManagers[index])
2962 index = (index+offset+mSlicerManagers.size()) % mSlicerManagers.size();
2964 QTreeWidgetItem* item = GetItemFromSlicerManager(mSlicerManagers[index]);
2965 item->setData(slicer+1,Qt::CheckStateRole,2); //change checkbox
2966 CurrentImageChanged(mSlicerManagers[index]->GetId()); //select new image
2967 DisplayChanged(item,slicer+1);
2969 //------------------------------------------------------------------------------
2970 void vvMainWindow::HorizontalSliderMoved(int value,int column, int slicer_index)
2972 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
2973 if (DataTree->topLevelItem(i)->data(column,Qt::CheckStateRole).toInt() > 1) {
2974 //i is the SlicerManager that is in charge of this slicer.
2975 if (mSlicerManagers[i]->IsInvolvedInFusionSequence()) {
2976 //if the slicerManager is involved in a fusionSequence as the secondary sequence, then update the slider position in the overlay panel and everything accordingly
2977 if (mSlicerManagers[i]->IsSecondarySequenceOfFusionSequence()) {
2978 overlayPanel->updateFusionSequenceSliderValueFromWindow(value, true);
2980 else { //if this is the primary sequence that has been modified
2981 if (mSlicerManagers[i]->GetFusionSequenceTemporalSyncFlag()) {
2982 //WARNING: for some obscure reason, there are problems when accessing mSlicerManagers[mSlicerManagers[i]->GetFusionSequenceIndexOfLinkedManager()]->GetFusionSequenceFrameIndex();
2984 int estimatedValue=0;
2985 //estimate a corresponding time index for the secondary (US) sequence, and update it accordingly.
2986 estimatedValue = mSlicerManagers[i]->GetFusionSequenceCorrespondances()[ value ];
2987 //TODO: at the moment, there is a loop in TSlice modifications
2988 //modifying sequence 1 causes seq 2 to update, which in turns update seq1...
2989 //I disable control on seq1 at the moment.
2990 //overlayPanel->updateFusionSequenceSliderValueFromWindow(estimatedValue, true);
2995 for (int j = 0; j < 4; j++) {
2996 mSlicerManagers[i]->SetTSliceInSlicer(value,j);
2998 mSlicerManagers[i]->GetSlicer(slicer_index)->Render();
3003 //------------------------------------------------------------------------------
3006 //------------------------------------------------------------------------------
3007 void vvMainWindow::NOHorizontalSliderMoved()
3009 // if (mCurrentTime == NOHorizontalSlider->value()) return;
3010 HorizontalSliderMoved(NOHorizontalSlider->value(),COLUMN_UL_VIEW,0);
3011 // mCurrentTime = NOHorizontalSlider->value();
3013 //------------------------------------------------------------------------------
3016 //------------------------------------------------------------------------------
3017 void vvMainWindow::NEHorizontalSliderMoved()
3019 // if (mCurrentTime == NEHorizontalSlider->value()) return;
3020 HorizontalSliderMoved(NEHorizontalSlider->value(),COLUMN_UR_VIEW,1);
3021 // mCurrentTime = NEHorizontalSlider->value();
3023 //------------------------------------------------------------------------------
3026 //------------------------------------------------------------------------------
3027 void vvMainWindow::SOHorizontalSliderMoved()
3029 // if (mCurrentTime == SOHorizontalSlider->value()) return;
3030 HorizontalSliderMoved(SOHorizontalSlider->value(),COLUMN_DL_VIEW,2);
3031 // mCurrentTime = SOHorizontalSlider->value();
3033 //------------------------------------------------------------------------------
3036 //------------------------------------------------------------------------------
3037 void vvMainWindow::SEHorizontalSliderMoved()
3039 // if (mCurrentTime == SEHorizontalSlider->value()) return;
3040 HorizontalSliderMoved(SEHorizontalSlider->value(),COLUMN_DR_VIEW,3);
3041 // mCurrentTime = SEHorizontalSlider->value();
3043 //------------------------------------------------------------------------------
3045 //------------------------------------------------------------------------------
3046 void vvMainWindow::NOVerticalSliderChanged()
3048 static int value=-1;
3049 if (value == NOVerticalSlider->value()) return;
3050 else value = NOVerticalSlider->value();
3051 // int value = NOVerticalSlider->value();
3052 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
3053 if (DataTree->topLevelItem(i)->data(COLUMN_UL_VIEW,Qt::CheckStateRole).toInt() > 1) {
3054 if (mSlicerManagers[i]->GetSlicer(0)->GetSlice() != value) {
3055 mSlicerManagers[i]->GetSlicer(0)->SetSlice(value);
3056 mSlicerManagers[i]->VerticalSliderHasChanged(0, value);
3058 // If nor Update/Render -> slider not work
3059 // only render = ok navigation, but for contour Update needed but slower ?
3061 mSlicerManagers[i]->UpdateSlice(0); // <-- DS add this. Not too much update ? YES. but needed for ImageContour ...
3062 //mSlicerManagers[i]->GetSlicer(0)->Render(); // <-- DS add this, needed for contour, seems ok ? not too slow ?
3068 //------------------------------------------------------------------------------
3071 //------------------------------------------------------------------------------
3072 void vvMainWindow::NEVerticalSliderChanged()
3074 static int value=-1;
3075 if (value == NEVerticalSlider->value()) return;
3076 else value = NEVerticalSlider->value();
3077 // int value = NEVerticalSlider->value();
3078 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
3079 if (DataTree->topLevelItem(i)->data(COLUMN_UR_VIEW,Qt::CheckStateRole).toInt() > 1) {
3080 if (mSlicerManagers[i]->GetSlicer(1)->GetSlice() != value) {
3081 mSlicerManagers[i]->GetSlicer(1)->SetSlice(value);
3082 mSlicerManagers[i]->VerticalSliderHasChanged(1, value);
3083 mSlicerManagers[i]->UpdateSlice(1);
3084 //mSlicerManagers[i]->GetSlicer(1)->Render(); // <-- DS add this, needed for contour, seems ok ? not too slow ?
3090 //------------------------------------------------------------------------------
3093 //------------------------------------------------------------------------------
3094 void vvMainWindow::SOVerticalSliderChanged()
3096 static int value=-1;
3097 if (value == SOVerticalSlider->value()) return;
3098 else value = SOVerticalSlider->value();
3099 //int value = SOVerticalSlider->value();
3100 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
3101 if (DataTree->topLevelItem(i)->data(COLUMN_DL_VIEW,Qt::CheckStateRole).toInt() > 1) {
3102 if (mSlicerManagers[i]->GetSlicer(2)->GetSlice() != value) {
3103 mSlicerManagers[i]->GetSlicer(2)->SetSlice(value);
3104 mSlicerManagers[i]->VerticalSliderHasChanged(2, value);
3105 mSlicerManagers[i]->UpdateSlice(2);
3106 //mSlicerManagers[i]->GetSlicer(2)->Render(); // <-- DS add this, needed for contour, seems ok ? not too slow ?
3108 // else { DD("avoid SOVerticalSlider slicer update"); }
3113 //------------------------------------------------------------------------------
3116 //------------------------------------------------------------------------------
3117 void vvMainWindow::SEVerticalSliderChanged()
3119 static int value=-1;
3120 if (value == SEVerticalSlider->value()) return;
3121 else value = SEVerticalSlider->value();
3122 // int value = SEVerticalSlider->value();
3123 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
3124 if (DataTree->topLevelItem(i)->data(COLUMN_DR_VIEW,Qt::CheckStateRole).toInt() > 1) {
3125 if (mSlicerManagers[i]->GetSlicer(3)->GetSlice() != value) {
3126 mSlicerManagers[i]->GetSlicer(3)->SetSlice(value);
3127 mSlicerManagers[i]->VerticalSliderHasChanged(3, value);
3128 mSlicerManagers[i]->UpdateSlice(3);
3129 //mSlicerManagers[i]->GetSlicer(3)->Render(); // <-- DS add this, needed for contour, seems ok ? not too slow ?
3135 //------------------------------------------------------------------------------
3138 //------------------------------------------------------------------------------
3139 void vvMainWindow::UpdateSlice(int slicer, int slice)
3141 // DD("vvMainWindow::UpdateSlice");
3145 // if (slice != NOVerticalSlider->value())
3146 NOVerticalSlider->setValue(slice);
3149 NEVerticalSlider->setValue(slice);
3152 SOVerticalSlider->setValue(slice);
3155 SEVerticalSlider->setValue(slice);
3159 // DD("vvMainWindow:UpdateSlice END");
3161 //------------------------------------------------------------------------------
3164 //------------------------------------------------------------------------------
3165 void vvMainWindow::UpdateTSlice(int slicer, int slice, int code)
3167 //FusionSequence: the slider value should be updated for slicers which show the same sequence as requested
3168 bool doUpdate=false;
3169 if (code==-1) doUpdate=true;
3171 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
3172 if (DataTree->topLevelItem(i)->data(slicer+1,Qt::CheckStateRole).toInt() > 1) {
3173 //i is the active SlicerManager
3174 if (mSlicerManagers[i]->GetFusionSequenceInvolvmentCode()==code) doUpdate=true;
3179 if (!doUpdate) return;
3183 if (NOHorizontalSlider->value()==slice) return;
3184 NOHorizontalSlider->setValue(slice);
3187 if (NEHorizontalSlider->value()==slice) return;
3188 NEHorizontalSlider->setValue(slice);
3191 if (SOHorizontalSlider->value()==slice) return;
3192 SOHorizontalSlider->setValue(slice);
3195 if (SEHorizontalSlider->value()==slice) return;
3196 SEHorizontalSlider->setValue(slice);
3200 //------------------------------------------------------------------------------
3203 //------------------------------------------------------------------------------
3204 void vvMainWindow::UpdateSliceRange(int slicer, int min, int max, int tmin, int tmax)
3206 //int position = int((min+max)/2);
3207 int position = mSlicerManagers[mCurrentPickedImageIndex]->GetSlicer(slicer)->GetSlice();
3209 NOVerticalSlider->setRange(min,max);
3210 NOHorizontalSlider->setRange(tmin,tmax);
3211 NOVerticalSlider->setValue(position);
3212 } else if (slicer == 1) {
3213 NEVerticalSlider->setRange(min,max);
3214 NEHorizontalSlider->setRange(tmin,tmax);
3215 NEVerticalSlider->setValue(position);
3216 } else if (slicer == 2) {
3217 SOVerticalSlider->setRange(min,max);
3218 SOHorizontalSlider->setRange(tmin,tmax);
3219 SOVerticalSlider->setValue(position);
3220 } else if (slicer == 3) {
3221 SEVerticalSlider->setRange(min,max);
3222 SEHorizontalSlider->setRange(tmin,tmax);
3223 SEVerticalSlider->setValue(position);
3226 //------------------------------------------------------------------------------
3229 //------------------------------------------------------------------------------
3230 void vvMainWindow::SaveNOScreenshot()
3232 SaveScreenshot(NOViewWidget);
3234 //------------------------------------------------------------------------------
3237 //------------------------------------------------------------------------------
3238 void vvMainWindow::SaveNEScreenshot()
3240 SaveScreenshot(NEViewWidget);
3242 //------------------------------------------------------------------------------
3245 //------------------------------------------------------------------------------
3246 void vvMainWindow::SaveSOScreenshot()
3248 SaveScreenshot(SOViewWidget);
3250 //------------------------------------------------------------------------------
3253 //------------------------------------------------------------------------------
3254 void vvMainWindow::SaveSEScreenshot()
3256 SaveScreenshot(SEViewWidget);
3258 //------------------------------------------------------------------------------
3261 //------------------------------------------------------------------------------
3262 void vvMainWindow::SaveScreenshotAllSlices()
3264 QVTKWidget *widget = NOViewWidget;
3266 int index = 0;// GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
3267 vvSlicerManager * SM = mSlicerManagers[index];
3268 vvImage * image = SM->GetImage();
3269 vvSlicer * slicer = SM->GetSlicer(0);
3270 int orientation = slicer->GetOrientation();
3271 int nbSlices = image->GetSize()[orientation];
3272 vtkSmartPointer<vtkRenderWindow> renderWindow = widget->GetRenderWindow();
3274 // Select filename base
3275 QString filename = QFileDialog::getSaveFileName(this,
3276 tr("Save As (filename will be completed by slice number)"),
3277 itksys::SystemTools::GetFilenamePath(mSlicerManagers[index]->GetFileName()).c_str(),
3278 "Images( *.png);;Images( *.jpg)");
3281 for(int i=0; i<nbSlices; i++) {
3283 slicer->SetSlice(i); // -> change the slice of the current slicer
3284 SM->UpdateSlice(0); // --> this one emit UpdateSlice
3285 QCoreApplication::flush(); // -> needed to force display of contours
3288 vtkSmartPointer<vtkWindowToImageFilter> windowToImageFilter = vtkSmartPointer<vtkWindowToImageFilter>::New();
3289 windowToImageFilter->SetInput(renderWindow);
3290 windowToImageFilter->SetMagnification(1);
3291 windowToImageFilter->SetInputBufferTypeToRGBA(); //also record the alpha (transparency) channel
3292 windowToImageFilter->Update();
3294 vtkSmartPointer<vtkPNGWriter> writer = vtkSmartPointer<vtkPNGWriter>::New();
3295 std::string fn = itksys::SystemTools::GetFilenameWithoutLastExtension(filename.toStdString());
3296 std::string num = clitk::toString(i);
3297 if (i<10) num = "0"+num;
3298 if (i<100) num = "0"+num;
3299 if (i<1000) num = "0"+num;
3301 fn = itksys::SystemTools::GetFilenamePath(filename.toStdString()) + "/"+ fn
3302 + "_" + num + itksys::SystemTools::GetFilenameLastExtension(filename.toStdString());
3303 writer->SetFileName(fn.c_str());
3304 writer->SetInput(windowToImageFilter->GetOutput());
3308 //------------------------------------------------------------------------------
3311 //------------------------------------------------------------------------------
3312 void vvMainWindow::SaveScreenshot(QVTKWidget *widget)
3314 QString Extensions = "Images( *.png);;";
3315 Extensions += "Images( *.jpg);;";
3316 Extensions += "Images( *.bmp);;";
3317 Extensions += "Images( *.tif);;";
3318 Extensions += "Images( *.ppm)";
3319 #if defined(VTK_USE_FFMPEG_ENCODER) || defined(VTK_USE_VIDEO_FOR_WINDOWS)
3320 Extensions += ";;Video( *.avi)";
3322 #ifdef VTK_USE_MPEG2_ENCODER
3323 Extensions += ";;Video( *.mpg)";
3325 #ifdef CLITK_EXPERIMENTAL
3326 Extensions += ";;Video( *.gif)";
3329 int smIndex=GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
3330 QString fileName = QFileDialog::getSaveFileName(this,
3332 itksys::SystemTools::GetFilenamePath(mSlicerManagers[smIndex]->GetFileName()).c_str(),
3335 if (!fileName.isEmpty()) {
3336 vtkSmartPointer<vtkWindowToImageFilter> w2i = vtkSmartPointer<vtkWindowToImageFilter>::New();
3337 w2i->SetInput(widget->GetRenderWindow());
3339 vtkImageData *image = w2i->GetOutput();
3341 std::string ext(itksys::SystemTools::GetFilenameLastExtension(fileName.toStdString()));
3344 vtkImageWriter *imgwriter = NULL;
3346 imgwriter = vtkBMPWriter::New();
3347 else if (ext==".tif")
3348 imgwriter = vtkTIFFWriter::New();
3349 else if (ext==".ppm")
3350 imgwriter = vtkPNMWriter::New();
3351 else if (ext==".png")
3352 imgwriter = vtkPNGWriter::New();
3353 else if (ext==".jpg")
3354 imgwriter = vtkJPEGWriter::New();
3356 // Snapshot image if not null
3357 if(imgwriter!=NULL) {
3358 imgwriter->SetInput(image);
3359 imgwriter->SetFileName(fileName.toStdString().c_str());
3365 vtkGenericMovieWriter *vidwriter = NULL;
3366 #if CLITK_EXPERIMENTAL == 1
3368 vvAnimatedGIFWriter *gif = vvAnimatedGIFWriter::New();
3373 int fps = QInputDialog::getInteger(this, tr("Number of frames per second"),
3374 tr("FPS:"), 5, 0, 1000, 1, &ok);
3379 int loops = QInputDialog::getInteger(this, tr("Loops"),
3380 tr("Number of loops (0 means infinite):"), 0, 0, 1000000000, 1, &ok);
3382 gif->SetLoops(loops);
3385 QString msg = "Would you like to activate dithering?";
3386 QMessageBox msgBox(QMessageBox::Question, tr("Dithering"),msg, 0, this);
3387 msgBox.addButton(tr("Yes"), QMessageBox::AcceptRole);
3388 msgBox.addButton(tr("No"), QMessageBox::RejectRole);
3389 gif->SetDither(msgBox.exec() == QMessageBox::AcceptRole);
3392 #ifdef VTK_USE_VIDEO_FOR_WINDOWS
3394 vtkAVIWriter *mpg = vtkAVIWriter::New();
3398 int fps = QInputDialog::getInteger(this, tr("Number of frames per second"),
3399 tr("FPS:"), 5, 0, 1024, 1, &ok);
3405 #ifdef VTK_USE_FFMPEG_ENCODER
3407 vtkFFMPEGWriter *mpg = vtkFFMPEGWriter::New();
3411 int fps = QInputDialog::getInteger(this, tr("Number of frames per second"),
3412 tr("FPS:"), 5, 0, 1024, 1, &ok);
3416 mpg->SetBitRateTolerance(int(ceil(12.0*1024*1024/fps)));
3419 #ifdef VTK_USE_MPEG2_ENCODER
3421 vtkMPEG2Writer *mpg = vtkMPEG2Writer::New();
3426 // Take video if not null
3427 if(vidwriter!=NULL){
3428 vidwriter->SetInput(image);
3429 vidwriter->SetFileName(fileName.toStdString().c_str());
3431 int nSlice = mSlicerManagers[smIndex]->GetSlicer(0)->GetTMax();
3432 for(int i=0; i<=nSlice; i++) {
3433 mSlicerManagers[smIndex]->SetNextTSlice(0);
3434 vtkSmartPointer<vtkWindowToImageFilter> w2i = vtkSmartPointer<vtkWindowToImageFilter>::New();
3435 w2i->SetInput(widget->GetRenderWindow());
3437 vidwriter->SetInput(w2i->GetOutput());
3441 vidwriter->Delete();
3445 QMessageBox::information(this,tr("Problem saving screenshot !"),tr("Cannot save image.\nPlease set a file extension !!!"));
3448 //------------------------------------------------------------------------------
3451 //------------------------------------------------------------------------------
3452 void vvMainWindow::GoToCursor()
3454 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
3455 for (int column = 1; column < 5; column++) {
3456 if (DataTree->selectedItems()[0]->data(column,Qt::CheckStateRole).toInt() > 1) {
3457 double* cursorPos = mSlicerManagers[index]->GetSlicer(column-1)->GetCursorPosition();
3458 mSlicerManagers[index]->GetSlicer(column-1)->SetCurrentPosition(
3459 cursorPos[0],cursorPos[1],cursorPos[2],cursorPos[3]);
3460 mSlicerManagers[index]->UpdateViews(1,column-1);
3461 mSlicerManagers[index]->UpdateLinked(column-1);
3466 //------------------------------------------------------------------------------
3468 //------------------------------------------------------------------------------
3469 void vvMainWindow::GoToLandmark()
3471 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
3472 for (int column = 1; column < 5; column++) {
3473 if (DataTree->selectedItems()[0]->data(column,Qt::CheckStateRole).toInt() > 1) {
3474 double* cursorPos = landmarksPanel->GetSelectedPoint();
3475 mSlicerManagers[index]->GetSlicer(column-1)->SetCurrentPosition(
3476 cursorPos[0],cursorPos[1],cursorPos[2],cursorPos[3]);
3477 mSlicerManagers[index]->UpdateViews(1,column-1);
3478 mSlicerManagers[index]->UpdateLinked(column-1);
3483 //------------------------------------------------------------------------------
3485 //------------------------------------------------------------------------------
3486 void vvMainWindow::PlayPause()
3490 playButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/player_play.png")));
3494 int image_number=DataTree->topLevelItemCount();
3496 for (int i=0; i<image_number; i++)
3497 if (mSlicerManagers[i]->GetSlicer(0)->GetTMax() > 0) {
3503 playButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/player_pause.png")));
3504 QTimer::singleShot(1000/mFrameRate, this, SLOT(PlayNext()));
3508 //------------------------------------------------------------------------------
3510 //------------------------------------------------------------------------------
3511 void vvMainWindow::PlayNext()
3513 if (playMode && !this->isHidden()) {
3514 int image_number=DataTree->topLevelItemCount();
3515 ///Only play one slicer per SM, and only if the SM is being displayed
3516 for (int i=0; i<image_number; i++)
3517 for (int j=0; j<4; j++)
3518 if (mSlicerManagers[i]->GetSlicer(0)->GetTMax() > 0 &&
3519 DataTree->topLevelItem(i)->data(j+1,Qt::CheckStateRole).toInt() > 0) {
3520 mSlicerManagers[i]->SetNextTSlice(j);
3523 QTimer::singleShot(1000/mFrameRate, this, SLOT(PlayNext()));
3526 //------------------------------------------------------------------------------
3528 void vvMainWindow::ShowLastImage()
3530 if (mSlicerManagers.size() > 1) {
3531 QTreeWidgetItem * item=DataTree->topLevelItem(DataTree->topLevelItemCount()-1);
3532 CurrentImageChanged(mSlicerManagers.back()->GetId()); //select new image
3533 item->setData(1,Qt::CheckStateRole,2); //show the new image in the first panel
3534 DisplayChanged(item,1);
3538 //------------------------------------------------------------------------------
3539 void vvMainWindow::UpdateRenderWindows()
3541 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
3542 mSlicerManagers[i]->GetSlicer(0)->UpdateLandmarks();
3543 mSlicerManagers[i]->GetSlicer(1)->UpdateLandmarks();
3544 mSlicerManagers[i]->GetSlicer(2)->UpdateLandmarks();
3545 mSlicerManagers[i]->GetSlicer(3)->UpdateLandmarks();
3547 if (NOViewWidget->GetRenderWindow()) NOViewWidget->GetRenderWindow()->Render();
3548 if (NEViewWidget->GetRenderWindow()) NEViewWidget->GetRenderWindow()->Render();
3549 if (SOViewWidget->GetRenderWindow()) SOViewWidget->GetRenderWindow()->Render();
3550 if (SEViewWidget->GetRenderWindow()) SEViewWidget->GetRenderWindow()->Render();
3552 //------------------------------------------------------------------------------
3554 //------------------------------------------------------------------------------
3555 void vvMainWindow::SegmentationOnCurrentImage()
3557 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
3559 vvSegmentationDialog segmentation;
3560 segmentation.SetImage(mSlicerManagers[index]->GetSlicer(0)->GetImage());
3561 segmentation.exec();
3563 //------------------------------------------------------------------------------
3565 void vvMainWindow::SurfaceViewerLaunch()
3567 vvSurfaceViewerDialog surfaceViewer;
3568 surfaceViewer.exec();
3570 //------------------------------------------------------------------------------
3573 //------------------------------------------------------------------------------
3574 int vvMainWindow::GetImageDuplicateFilenameNumber(std::string filename)
3577 for(unsigned int l=0; l<mSlicerManagers.size(); l++) {
3578 vvSlicerManager * v = mSlicerManagers[l];
3579 if (v->GetBaseFileName() ==
3580 vtksys::SystemTools::GetFilenameName(vtksys::SystemTools::GetFilenameWithoutLastExtension(filename))) {
3581 number = std::max(number, v->GetBaseFileNameNumber()+1);
3586 //------------------------------------------------------------------------------
3589 //------------------------------------------------------------------------------
3590 vvSlicerManager* vvMainWindow::AddImage(vvImage::Pointer image,std::string filename)
3592 // Change filename if another image exist with the same name
3593 int number = GetImageDuplicateFilenameNumber(filename);
3595 // Create new SliceManager
3596 vvSlicerManager* slicer_manager = new vvSlicerManager(4);
3597 slicer_manager->SetImage(image);//, IMAGE, number);
3598 // filename = filename+"_"+clitk::toString(number);
3599 slicer_manager->SetFilename(filename, number);
3600 mSlicerManagers.push_back(slicer_manager);
3602 //create an item in the tree with good settings
3603 QTreeWidgetItem *item = new QTreeWidgetItem();
3604 item->setData(0,Qt::UserRole,slicer_manager->GetFileName().c_str());//files[i].c_str());
3605 item->setData(1,Qt::UserRole,tr("image"));
3606 item->setData(COLUMN_IMAGE_NAME,Qt::DisplayRole,slicer_manager->GetFileName().c_str());//filename.c_str());
3607 qApp->processEvents();
3609 for (int j = 1; j <= 4; j++) item->setData(j,Qt::CheckStateRole,1);
3611 //Create the buttons for reload and close
3612 qApp->processEvents();
3613 QTreePushButton* cButton = new QTreePushButton;
3614 cButton->setItem(item);
3615 cButton->setColumn(COLUMN_CLOSE_IMAGE);
3616 cButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/exit.png")));
3617 connect(cButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
3618 this,SLOT(CloseImage(QTreeWidgetItem*, int)));
3620 QTreePushButton* rButton = new QTreePushButton;
3621 rButton->setItem(item);
3622 rButton->setColumn(COLUMN_RELOAD_IMAGE);
3623 rButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/rotateright.png")));
3624 rButton->setEnabled(0);
3625 connect(rButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
3626 this,SLOT(ReloadImage(QTreeWidgetItem*, int)));
3628 DataTree->addTopLevelItem(item);
3629 DataTree->setItemWidget(item, COLUMN_CLOSE_IMAGE, cButton);
3630 DataTree->setItemWidget(item, COLUMN_RELOAD_IMAGE, rButton);
3632 //set the id of the image
3633 QString id = QDir::current().absoluteFilePath(slicer_manager->GetFileName().c_str()) + QString::number(mSlicerManagers.size()-1);
3634 item->setData(COLUMN_IMAGE_NAME,Qt::UserRole,id.toStdString().c_str());
3635 mSlicerManagers.back()->SetId(id.toStdString());
3637 linkPanel->addImage(slicer_manager->GetFileName().c_str()// filename
3638 , id.toStdString());
3640 connect(mSlicerManagers.back(), SIGNAL(currentImageChanged(std::string)),
3641 this, SLOT(CurrentImageChanged(std::string)));
3642 connect(mSlicerManagers.back(), SIGNAL(currentPickedImageChanged(std::string)),
3643 this, SLOT(CurrentPickedImageChanged(std::string)));
3644 connect(mSlicerManagers.back(), SIGNAL(UpdatePosition(int, double, double, double, double, double, double, double)),
3645 this, SLOT(MousePositionChanged(int,double, double, double, double, double, double, double)));
3646 connect(mSlicerManagers.back(), SIGNAL(UpdateVector(int, double, double, double, double)),
3647 this, SLOT(VectorChanged(int,double,double,double, double)));
3648 connect(mSlicerManagers.back(), SIGNAL(UpdateOverlay(int, double, double)),
3649 this, SLOT(OverlayChanged(int,double,double)));
3650 connect(mSlicerManagers.back(), SIGNAL(UpdateFusion(int, double)),
3651 this, SLOT(FusionChanged(int,double)));
3652 //connect(mSlicerManagers.back(), SIGNAL(UpdateFusionSequence(int, bool, unsigned int)),
3653 // this, SLOT(FusionSequenceChanged(int, bool, unsigned int)));
3654 connect(mSlicerManagers.back(), SIGNAL(WindowLevelChanged()),
3655 this,SLOT(WindowLevelChanged()));
3656 connect(mSlicerManagers.back(), SIGNAL(UpdateSlice(int,int)),
3657 this,SLOT(UpdateSlice(int,int)));
3658 connect(mSlicerManagers.back(), SIGNAL(UpdateTSlice(int, int, int)),
3659 this,SLOT(UpdateTSlice(int, int, int)));
3660 connect(mSlicerManagers.back(), SIGNAL(UpdateTSlice(int, int, int)),
3661 this,SLOT(ImageInfoChanged()));
3662 connect(mSlicerManagers.back(), SIGNAL(UpdateSliceRange(int,int,int,int,int)),
3663 this,SLOT(UpdateSliceRange(int,int,int,int,int)));
3664 connect(mSlicerManagers.back(), SIGNAL(UpdateLinkManager(std::string,int,double,double,double,int)),
3665 this,SLOT(UpdateLinkManager(std::string,int,double,double,double,int)));
3666 connect(mSlicerManagers.back(), SIGNAL(UpdateLinkedNavigation(std::string,vvSlicerManager*,vvSlicer*)),
3667 this,SLOT(UpdateLinkedNavigation(std::string,vvSlicerManager*,vvSlicer*)));
3668 connect(mSlicerManagers.back(), SIGNAL(ChangeImageWithIndexOffset(vvSlicerManager*,int,int)),
3669 this,SLOT(ChangeImageWithIndexOffset(vvSlicerManager*,int,int)));
3670 connect(mSlicerManagers.back(), SIGNAL(LandmarkAdded()),landmarksPanel,SLOT(AddPoint()));
3674 qApp->processEvents();
3678 qApp->processEvents();
3682 return slicer_manager;
3684 //------------------------------------------------------------------------------
3687 //------------------------------------------------------------------------------
3688 void vvMainWindow::UpdateCurrentSlicer()
3691 if (DataTree->selectedItems().size() > 0) {
3692 index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
3694 mSlicerManagerCurrentIndex = index;
3696 //------------------------------------------------------------------------------