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 #ifdef CLITK_USE_PACS_CONNECTION
51 #include "vvQPacsConnection.h"
53 #include "clitkConfiguration.h"
57 #include <itkImageFileReader.h>
58 #include <itkByteSwapper.h>
59 #include <itkCommand.h>
60 #include <itkNumericSeriesFileNames.h>
63 #include <vtkImageData.h>
64 #include <vtkImageActor.h>
65 #include <vtkCornerAnnotation.h>
66 #include <vtkRenderWindow.h>
67 #include <vtkRenderWindowInteractor.h>
68 #include <vtkRenderer.h>
69 #include <vtkRendererCollection.h>
70 #include <vtkWindowToImageFilter.h>
71 #include <vtkBMPWriter.h>
72 #include <vtkTIFFWriter.h>
73 #include <vtkPNMWriter.h>
74 #include <vtkPNGWriter.h>
75 #include <vtkJPEGWriter.h>
76 #include <vtkGenericMovieWriter.h>
77 #ifdef CLITK_EXPERIMENTAL
78 # include <vvAnimatedGIFWriter.h>
80 #ifdef VTK_USE_VIDEO_FOR_WINDOWS
81 # include <vtkAVIWriter.h>
83 #ifdef VTK_USE_FFMPEG_ENCODER
84 # include <vtkFFMPEGWriter.h>
86 #ifdef VTK_USE_MPEG2_ENCODER
87 # include <vtkMPEG2Writer.h>
89 #include <vtkMatrix4x4.h>
90 #include <vtkTransform.h>
99 #define COLUMN_UL_VIEW 1
100 #define COLUMN_UR_VIEW 2
101 #define COLUMN_DL_VIEW 3
102 #define COLUMN_DR_VIEW 4
103 #define COLUMN_CLOSE_IMAGE 5
104 #define COLUMN_RELOAD_IMAGE 6
105 #define COLUMN_IMAGE_NAME 7
107 #ifdef CLITK_PRIVATE_FEATURES
108 #define EXTENSIONS "Images ( *.bmp *.png *.jpeg *.jpg *.tif *.mhd *.mha *.hdr *.vox *.his *.xdr *.SCAN *.nii *.nrrd *.nhdr *.refscan *.nii.gz *.usf *.svl)"
110 #define EXTENSIONS "Images ( *.bmp *.png *.jpeg *.jpg *.tif *.mhd *.mha *.hdr *.vox *.his *.xdr *.SCAN *.nii *.nrrd *.nhdr *.refscan *.nii.gz)"
115 0,Qt::UserRole full filename
116 1,Qt::CheckStateRole checkbutton UL View
117 1,Qt::UserRole overlay, fusion or vector
118 2,Qt::CheckStateRole checkbutton UR View
119 3,Qt::CheckStateRole checkbutton DL View
120 4,Qt::CheckStateRole checkbutton DR View
122 5,Qt::UserRole mSlicerManager id*/
124 //------------------------------------------------------------------------------
125 vvMainWindow::vvMainWindow():vvMainWindowBase()
127 setupUi(this); // this sets up the GUI
130 mMenuTools = menuTools;
131 // mMenuSegmentation = menuSegmentation;
132 mContextMenu = &contextMenu;
133 mMenuExperimentalTools = menuExperimental;
136 mCurrentSelectedImageId = "";
137 mCurrentPickedImageId = "";
138 mCurrentPickedImageIndex = 0;
140 //Init the contextMenu
141 this->setContextMenuPolicy(Qt::CustomContextMenu);
142 contextActions.resize(0);
143 QAction* actionOpen_new_image = contextMenu.addAction(QIcon(QString::fromUtf8(":/common/icons/fileopen.png")),
144 tr("O&pen new Image"));
145 actionOpen_new_image->setShortcut(QKeySequence(tr("Ctrl+O")));
146 connect(actionOpen_new_image,SIGNAL(triggered()),this,SLOT(OpenImages()));
147 contextActions.push_back(actionOpen_new_image);
148 contextMenu.addSeparator();
150 QAction* actionClose_Image = contextMenu.addAction(QIcon(QString::fromUtf8(":/common/icons/exit.png")),
151 tr("Close Current Image"));
152 connect(actionClose_Image,SIGNAL(triggered()),this,SLOT(CloseImage()));
153 contextActions.push_back(actionClose_Image);
155 QAction* actionReload_image = contextMenu.addAction(QIcon(QString::fromUtf8(":/common/icons/rotateright.png")),
156 tr("Reload Current Image"));
157 connect(actionReload_image,SIGNAL(triggered()),this,SLOT(ReloadImage()));
158 contextActions.push_back(actionReload_image);
160 QAction* actionSave_image = contextMenu.addAction(QIcon(QString::fromUtf8(":/common/icons/filesave.png")),
161 tr("Save Current Image"));
162 connect(actionSave_image,SIGNAL(triggered()),this,SLOT(SaveAs()));
163 contextActions.push_back(actionSave_image);
165 QAction* actionSave_state = contextMenu.addAction(QIcon(QString::fromUtf8(":/common/icons/filesave.png")),
166 tr("Save Current State"));
167 connect(actionSave_state,SIGNAL(triggered()),this,SLOT(SaveCurrentState()));
168 contextActions.push_back(actionSave_state);
170 QAction* actionRead_state = contextMenu.addAction(QIcon(QString::fromUtf8(":/common/icons/filesave.png")),
171 tr("Read Saved State"));
172 connect(actionRead_state,SIGNAL(triggered()),this,SLOT(ReadSavedState()));
173 contextActions.push_back(actionRead_state);
175 contextMenu.addSeparator();
177 contextMenu.addAction(actionAdd_VF_to_current_Image);
178 contextActions.push_back(actionAdd_VF_to_current_Image);
180 //QAction* actionAdd_Overlay_to_current_Image = menuOverlay->addAction(QIcon(QString::fromUtf8(":/common/icons/GPSup.png")),
181 // tr("Add overlay image to current image"));
182 contextMenu.addAction(actionAdd_overlay_image_to_current_image);
183 contextActions.push_back(actionAdd_overlay_image_to_current_image);
185 contextMenu.addAction(actionAdd_fusion_image);
186 contextActions.push_back(actionAdd_fusion_image);
188 #ifdef CLITK_EXPERIMENTAL
189 contextMenu.addAction(actionAdd_USSequence_toCT);
190 contextActions.push_back(actionAdd_USSequence_toCT);
194 contextMenu.addSeparator();
195 QAction* actionResetMatrix = contextMenu.addAction(QIcon(QString::fromUtf8(":/common/icons/identity.png")),
196 tr("Reset transformation to identity"));
197 connect(actionResetMatrix, SIGNAL(triggered()), this,SLOT(ResetTransformationToIdentity()));
201 QMenu * m = new QMenu(menubar);
203 // m->setObjectName(QString::fromUtf8("TOTOTO"));
204 contextMenu.addMenu(m);
205 QAction * a = m->addAction(QIcon(QString::fromUtf8(":/common/icons/GPSup.png")),
207 QAction * b = m->addAction(QIcon(QString::fromUtf8(":/common/icons/GPSup.png")),
211 connect(a,SIGNAL(triggered()),this,SLOT(AddFusionImage()));
215 mSlicerManagers.resize(0);
225 header.append("Name");
227 DataTree->setHeaderLabels(header);
228 DataTree->resizeColumnToContents(COLUMN_TREE);
229 DataTree->resizeColumnToContents(COLUMN_UL_VIEW);
230 DataTree->resizeColumnToContents(COLUMN_UR_VIEW);
231 DataTree->resizeColumnToContents(COLUMN_DL_VIEW);
232 DataTree->resizeColumnToContents(COLUMN_DR_VIEW);
233 DataTree->resizeColumnToContents(COLUMN_CLOSE_IMAGE);
234 DataTree->resizeColumnToContents(COLUMN_RELOAD_IMAGE);
235 DataTree->resizeColumnToContents(COLUMN_IMAGE_NAME);
238 documentation = new vvDocumentation();
239 help_dialog = new vvHelpDialog();
240 dicomSeriesSelector = new vvDicomSeriesSelector();
241 #ifdef CLITK_USE_PACS_CONNECTION
242 PacsConnection = new vvQPacsConnection();
245 inverseButton->setEnabled(0);
246 actionAdd_overlay_image_to_current_image->setEnabled(0);
247 actionSave_As->setEnabled(0);
248 actionAdd_VF_to_current_Image->setEnabled(0);
249 actionAdd_fusion_image->setEnabled(0);
250 actionAdd_USSequence_toCT->setEnabled(0);
253 verticalSliders.push_back(NOVerticalSlider);
254 verticalSliders.push_back(NEVerticalSlider);
255 verticalSliders.push_back(SOVerticalSlider);
256 verticalSliders.push_back(SEVerticalSlider);
258 for (int i =0; i < 4; i++)
259 verticalSliders[i]->hide();
261 horizontalSliders.push_back(NOHorizontalSlider);
262 horizontalSliders.push_back(NEHorizontalSlider);
263 horizontalSliders.push_back(SOHorizontalSlider);
264 horizontalSliders.push_back(SEHorizontalSlider);
266 for (int i =0; i < 4; i++)
267 horizontalSliders[i]->hide();
270 connect(NOVerticalSlider,SIGNAL(valueChanged(int)),this,SLOT(NOVerticalSliderChanged()));
271 connect(NEVerticalSlider,SIGNAL(valueChanged(int)),this,SLOT(NEVerticalSliderChanged()));
272 connect(SOVerticalSlider,SIGNAL(valueChanged(int)),this,SLOT(SOVerticalSliderChanged()));
273 connect(SEVerticalSlider,SIGNAL(valueChanged(int)),this,SLOT(SEVerticalSliderChanged()));
275 connect(NOHorizontalSlider,SIGNAL(valueChanged(int)),this,SLOT(NOHorizontalSliderMoved()));
276 connect(NEHorizontalSlider,SIGNAL(valueChanged(int)),this,SLOT(NEHorizontalSliderMoved()));
277 connect(SOHorizontalSlider,SIGNAL(valueChanged(int)),this,SLOT(SOHorizontalSliderMoved()));
278 connect(SEHorizontalSlider,SIGNAL(valueChanged(int)),this,SLOT(SEHorizontalSliderMoved()));
281 connect(actionCompute_mid_position_image,SIGNAL(triggered()),this,SLOT(ComputeMidPosition()));
282 connect(actionDeformable_Registration,SIGNAL(triggered()),this,SLOT(ComputeDeformableRegistration()));
283 connect(actionWarp_image_with_vector_field,SIGNAL(triggered()),this,SLOT(WarpImage()));
284 connect(actionLoad_images,SIGNAL(triggered()),this,SLOT(OpenImages()));
285 connect(actionOpen_Dicom,SIGNAL(triggered()),this,SLOT(OpenDicom()));
286 #ifdef CLITK_USE_PACS_CONNECTION
287 connect(actionConnect_Pacs,SIGNAL(triggered()),this,SLOT(ConnectPacs()));
289 // connect(actionOpen_Dicom_Struct,SIGNAL(triggered()),this,SLOT(OpenDCStructContour()));
290 connect(actionOpen_VTK_contour,SIGNAL(triggered()),this,SLOT(OpenVTKContour()));
291 connect(actionOpen_Multiple_Images_As_One,SIGNAL(triggered()),this,SLOT(MergeImages()));
292 connect(actionSlice_Image_As_Multiple_Images,SIGNAL(triggered()),this,SLOT(SliceImages()));
293 connect(actionOpen_Image_With_Time,SIGNAL(triggered()),this,SLOT(OpenImageWithTime()));
294 connect(actionMerge_images_as_n_dim_t, SIGNAL(triggered()), this, SLOT(MergeImagesWithTime()));
295 connect(actionSave_As,SIGNAL(triggered()),this,SLOT(SaveAs()));
296 connect(actionSave_current_state,SIGNAL(triggered()),this,SLOT(SaveCurrentState()));
297 connect(actionRead_saved_state,SIGNAL(triggered()),this,SLOT(ReadSavedState()));
298 connect(actionExit,SIGNAL(triggered()),this,SLOT(close()));
299 connect(actionAdd_VF_to_current_Image,SIGNAL(triggered()),this,SLOT(OpenField()));
300 connect(actionAdd_fusion_image,SIGNAL(triggered()),this,SLOT(SelectFusionImage()));
301 connect(actionAdd_overlay_image_to_current_image,SIGNAL(triggered()), this,SLOT(SelectOverlayImage()));
302 connect(actionAdd_USSequence_toCT,SIGNAL(triggered()), this,SLOT(SelectFusionSequence()));
303 connect(actionNavigation_Help,SIGNAL(triggered()),this,SLOT(ShowHelpDialog()));
304 connect(actionDocumentation,SIGNAL(triggered()),this,SLOT(ShowDocumentation()));
305 connect(actionRegister_vv,SIGNAL(triggered()),this,SLOT(PopupRegisterForm()));
307 connect(overlayPanel, SIGNAL(FusionSequenceCorrespondancesButtonPressed()), this, SLOT(SelectFusionSequenceCorrespondances()));
310 ///////////////////////////////////////////////
311 connect(actionSegmentation,SIGNAL(triggered()),this,SLOT(SegmentationOnCurrentImage()));
312 connect(actionSurface_Viewer,SIGNAL(triggered()),this,SLOT(SurfaceViewerLaunch()));
313 ///////////////////////////////////////////////
315 actionNorth_East_Window->setEnabled(0);
316 actionNorth_West_Window->setEnabled(0);
317 actionSouth_East_Window->setEnabled(0);
318 actionSouth_West_Window->setEnabled(0);
320 connect(actionNorth_East_Window,SIGNAL(triggered()),this,SLOT(SaveNEScreenshot()));
321 connect(actionNorth_West_Window,SIGNAL(triggered()),this,SLOT(SaveNOScreenshot()));
322 connect(actionSouth_East_Window,SIGNAL(triggered()),this,SLOT(SaveSEScreenshot()));
323 connect(actionSouth_West_Window,SIGNAL(triggered()),this,SLOT(SaveSOScreenshot()));
324 connect(actionSave_all_slices,SIGNAL(triggered()),this,SLOT(SaveScreenshotAllSlices()));
326 connect(DataTree,SIGNAL(itemSelectionChanged()),this,SLOT(ImageInfoChanged()));
327 connect(DataTree,SIGNAL(itemClicked(QTreeWidgetItem*, int)),this,
328 SLOT(DisplayChanged(QTreeWidgetItem*, int)));
330 connect(viewButton,SIGNAL(clicked()),this, SLOT(ChangeViewMode()) );
331 connect(windowSpinBox,SIGNAL(editingFinished()),this,SLOT(WindowLevelEdited()));
332 connect(levelSpinBox,SIGNAL(editingFinished()),this,SLOT(WindowLevelEdited()));
333 connect(colorMapComboBox,SIGNAL(currentIndexChanged(int)),this,SLOT(UpdateColorMap()));
334 connect(presetComboBox,SIGNAL(currentIndexChanged(int)),this,SLOT(UpdateWindowLevel()));
335 connect(slicingPresetComboBox, SIGNAL(currentIndexChanged(int)),this,SLOT(UpdateSlicingPreset()));
336 connect(inverseButton,SIGNAL(clicked()),this,SLOT(SwitchWindowLevel()));
337 connect(applyWindowLevelToAllButton,SIGNAL(clicked()),this,SLOT(ApplyWindowLevelToAllImages()));
339 connect(this,SIGNAL(customContextMenuRequested(QPoint)),this,SLOT(ShowContextMenu(QPoint)));
341 connect(linkPanel,SIGNAL(addLink(QString,QString,bool)),this,SLOT(AddLink(QString,QString,bool)));
342 connect(linkPanel,SIGNAL(removeLink(QString,QString)),this,SLOT(RemoveLink(QString,QString)));
343 connect(overlayPanel,SIGNAL(VFPropertyUpdated(int,int,int,int,double,double,double)),this,SLOT(SetVFProperty(int,int,int,int,double,double,double)));
344 connect(overlayPanel,SIGNAL(OverlayPropertyUpdated(int,int,double,double)),
345 this,SLOT(SetOverlayProperty(int,int,double,double)));
346 connect(overlayPanel,SIGNAL(FusionPropertyUpdated(int,int,int,double,double, bool)),
347 this,SLOT(SetFusionProperty(int,int,int,double,double, bool)));
348 connect(landmarksPanel,SIGNAL(UpdateRenderWindows()),this,SLOT(UpdateRenderWindows()));
349 connect(landmarksPanel,SIGNAL(SelectedPointChanged()),this,SLOT(GoToLandmark()));
351 connect(overlayPanel,SIGNAL(FusionSequencePropertyUpdated(int, bool, unsigned int, bool)),
352 this,SLOT(SetFusionSequenceProperty(int, bool,unsigned int, bool)));
357 playButton->setEnabled(0);
358 frameRateLabel->setEnabled(0);
359 frameRateSpinBox->setEnabled(0);
360 connect(playButton, SIGNAL(clicked()),this,SLOT(PlayPause()));
361 connect(frameRateSpinBox, SIGNAL(valueChanged(int)),this,SLOT(ChangeFrameRate(int)));
363 goToCursorPushButton->setEnabled(0);
364 connect(goToCursorPushButton, SIGNAL(clicked()),this,SLOT(GoToCursor()));
366 NOViewWidget->hide();
367 NEViewWidget->hide();
368 SOViewWidget->hide();
369 SEViewWidget->hide();
371 //Recently opened files
372 std::list<std::string> recent_files = GetRecentlyOpenedImages();
373 recentlyOpenedFilesMenu=NULL;
374 if ( !recent_files.empty() ) {
375 createRecentlyOpenedFilesMenu();
376 updateRecentlyOpenedFilesMenu(recent_files);
379 // Adding all new tools (insertion in the menu)
380 vvToolManager::GetInstance()->InsertToolsInMenu(this);
381 vvToolManager::GetInstance()->EnableToolsInMenu(this, false);
383 if (!CLITK_EXPERIMENTAL)
384 menuExperimental->menuAction()->setVisible(false);
387 QTimer * timerMemory = new QTimer(this);
388 //timerMemory->setInterval(5);
389 connect(timerMemory, SIGNAL(timeout()), this, SLOT(UpdateMemoryUsage()));
390 timerMemory->start(2000);
393 //------------------------------------------------------------------------------
394 void vvMainWindow::show()
396 vvMainWindowBase::show();
397 PopupRegisterForm(true);
399 //------------------------------------------------------------------------------
400 void vvMainWindow::UpdateMemoryUsage()
402 // clitk::PrintMemory(true);
403 if (clitk::GetMemoryUsageInMb() == 0) infoPanel->setMemoryInMb("NA");
404 else infoPanel->setMemoryInMb(QString::number(clitk::GetMemoryUsageInMb())+" MiB");
406 //------------------------------------------------------------------------------
409 //------------------------------------------------------------------------------
410 void vvMainWindow::createRecentlyOpenedFilesMenu()
412 recentlyOpenedFilesMenu = new QMenu("Recently opened files...");
413 recentlyOpenedFilesMenu->setIcon(QIcon(QString::fromUtf8(":/common/icons/open.png")));
414 menuFile->insertMenu(actionOpen_Image_With_Time,recentlyOpenedFilesMenu);
415 menuFile->insertSeparator(actionOpen_Image_With_Time);
417 //------------------------------------------------------------------------------
420 //------------------------------------------------------------------------------
422 void vvMainWindow::updateRecentlyOpenedFilesMenu(const std::list<std::string> &recent_files)
424 if(recentlyOpenedFilesMenu==NULL) {
425 createRecentlyOpenedFilesMenu();
427 recentlyOpenedFilesMenu->clear();
429 for (std::list<std::string>::const_iterator i = recent_files.begin(); i!=recent_files.end(); i++) {
430 QAction* current=new QAction(QIcon(QString::fromUtf8(":/common/icons/open.png")), i->c_str(),this);
431 recentlyOpenedFilesMenu->addAction(current);
432 connect(current,SIGNAL(triggered()),this,SLOT(OpenRecentImage()));
435 //------------------------------------------------------------------------------
438 //------------------------------------------------------------------------------
439 void vvMainWindow::ComputeMidPosition()
442 int index=GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
443 int ref = QInputDialog::getInteger(this,"Chose reference phase","Reference phase",0,0,\
444 mSlicerManagers[index]->GetImage()->GetVTKImages().size()-1,1,&ok);
447 midp.slicer_manager = mSlicerManagers[index];
448 midp.reference_image_index = ref;
449 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
452 QMessageBox::warning(this, "Error computing midposition image",midp.error_message.c_str());
454 QFileInfo info(midp.slicer_manager->GetFileName().c_str());
455 AddImage(midp.output,info.path().toStdString()+"/"+info.completeBaseName().toStdString()+"_midposition.mhd");
457 QApplication::restoreOverrideCursor();
460 //------------------------------------------------------------------------------
463 //------------------------------------------------------------------------------
464 void vvMainWindow::AddContour(int image_index, vvMesh::Pointer contour, bool propagation)
466 QTreeWidgetItem *item = new QTreeWidgetItem();
467 item->setData(0,Qt::UserRole,"filename.vtk");
468 item->setData(1,Qt::UserRole,tr("contour"));
470 brush.setColor(QColor(contour->r*255,contour->g*255,contour->b*255));
471 brush.setStyle(Qt::SolidPattern);
472 item->setData(COLUMN_IMAGE_NAME,Qt::BackgroundRole,brush);
473 // item->setData(COLUMN_IMAGE_NAME,Qt::DisplayRole,contour->structure_name.c_str());
475 for (int j = 1; j <= 4; j++)
476 item->setData(j,Qt::CheckStateRole,DataTree->topLevelItem(image_index)->data(j,Qt::CheckStateRole));
478 QTreePushButton* cButton = new QTreePushButton;
479 cButton->setItem(item);
480 cButton->setColumn(COLUMN_CLOSE_IMAGE);
481 cButton->setToolTip(tr("close image"));
482 cButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/exit.png")));
483 connect(cButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
484 this,SLOT(CloseImage(QTreeWidgetItem*, int)));
486 QTreePushButton* rButton = new QTreePushButton;
487 rButton->setItem(item);
488 rButton->setColumn(COLUMN_RELOAD_IMAGE);
489 rButton->setToolTip(tr("reload image"));
490 rButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/rotateright.png")));
491 rButton->setEnabled(false);
493 //connect(rButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
494 //this,SLOT(ReloadImage(QTreeWidgetItem*, int)));
496 DataTree->topLevelItem(image_index)->setExpanded(1);
497 DataTree->topLevelItem(image_index)->addChild(item);
498 DataTree->setItemWidget(item, COLUMN_CLOSE_IMAGE, cButton);
499 DataTree->setItemWidget(item, COLUMN_RELOAD_IMAGE, rButton);
500 QString id = DataTree->topLevelItem(image_index)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString();
501 item->setData(COLUMN_IMAGE_NAME,Qt::UserRole,id.toStdString().c_str());
504 mSlicerManagers[image_index]->AddContour(contour,propagation);
505 mSlicerManagers[image_index]->Render();
507 //------------------------------------------------------------------------------
510 //------------------------------------------------------------------------------
511 void vvMainWindow::OpenVTKContour()
513 if (mSlicerManagers.size() > 0) {
514 QString Extensions = "Images ( *.vtk *.obj)";
515 Extensions += ";;All Files (*)";
516 QString file = QFileDialog::getOpenFileName(this,tr("Open vtkPolyData"),mInputPathName,Extensions);
519 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
520 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
522 reader.SetImage(mSlicerManagers[index]->GetImage());
523 reader.SetModeToVTK();
524 reader.SetFilename(file.toStdString());
526 AddContour(index,reader.GetOutput()[0],false);
527 QApplication::restoreOverrideCursor();
530 //------------------------------------------------------------------------------
533 //------------------------------------------------------------------------------
534 void vvMainWindow::AddDCStructContour(int index, QString file)
537 reader.SetFilename(file.toStdString());
538 vvStructSelector selector;
539 selector.SetStructures(reader.GetROINames());
540 if (!mSlicerManagers[index]->GetVF().IsNull())
541 selector.EnablePropagationCheckBox();
542 if (selector.exec()) {
543 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
544 reader.SetSelectedItems(selector.getSelectedItems());
545 reader.SetImage(mSlicerManagers[index]->GetImage());
546 if (selector.PropagationEnabled())
547 reader.SetPropagationVF(mSlicerManagers[index]->GetVF());
549 std::vector<vvMesh::Pointer> contours=reader.GetOutput();
550 for (std::vector<vvMesh::Pointer>::iterator i=contours.begin();
551 i!=contours.end(); i++)
552 AddContour(index,*i,selector.PropagationEnabled());
553 QApplication::restoreOverrideCursor();
557 //------------------------------------------------------------------------------
558 void vvMainWindow::OpenDCStructContour()
560 if (mSlicerManagers.size() > 0) {
561 QString Extensions = "Dicom Files ( *.dcm RS*)";
562 Extensions += ";;All Files (*)";
563 QString file = QFileDialog::getOpenFileName(this,tr("Merge Images"),mInputPathName,Extensions);
566 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
567 AddDCStructContour(index, file);
570 //------------------------------------------------------------------------------
573 //------------------------------------------------------------------------------
574 void vvMainWindow::ComputeDeformableRegistration()
576 if (mSlicerManagers.size() > 0) {
577 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
578 vvDeformationDialog dialog(index,mSlicerManagers);
580 std::string base_name=itksys::SystemTools::GetFilenameWithoutExtension(mSlicerManagers[dialog.GetInputFileIndex()]->GetFileName());
581 AddField(dialog.GetOutput(),dialog.getFieldFile(),dialog.GetInputFileIndex());
582 WarpImage(dialog.GetSelectedSlicer(),dialog.GetReferenceFrameIndex());
584 std::cout << "Error or user cancellation while computing deformation field..." << std::endl;
585 } else QMessageBox::information(this, "Need to open image","You must open an image first.");
587 //------------------------------------------------------------------------------
590 //------------------------------------------------------------------------------
591 void vvMainWindow::WarpImage()
593 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
594 if (!mSlicerManagers[index]->GetVF().IsNull()) {
596 int ref = QInputDialog::getInteger(this,"Chose reference phase","Reference phase",0,0,\
597 mSlicerManagers[index]->GetImage()->GetVTKImages().size()-1,1,&ok);
599 WarpImage(mSlicerManagers[index],ref);
602 QMessageBox::warning(this,tr("No vector field"),tr("Sorry, can't warp without a vector field"));
604 //------------------------------------------------------------------------------
607 //------------------------------------------------------------------------------
608 void vvMainWindow::WarpImage(vvSlicerManager* selected_slicer,int reference_phase)
610 if (!selected_slicer->GetVF().IsNull()) {
611 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
612 QFileInfo info(selected_slicer->GetFileName().c_str());
613 vvImageWarp warp(selected_slicer->GetImage(),selected_slicer->GetVF(),
614 reference_phase,this);
615 if (warp.ComputeWarpedImage()) {
616 AddImage(warp.GetWarpedImage(),info.path().toStdString()+"/"+info.completeBaseName().toStdString()+"_warped.mhd");
617 AddImage(warp.GetDiffImage() ,info.path().toStdString()+"/"+info.completeBaseName().toStdString()+"_diff.mhd");
618 AddImage(warp.GetJacobianImage() ,info.path().toStdString()+"/"+info.completeBaseName().toStdString()+"_jacobian.mhd");
619 QApplication::restoreOverrideCursor();
621 QApplication::restoreOverrideCursor();
622 QMessageBox::warning(this,tr("Different spacings"),tr("The vector field and image spacings must be the same in order to warp."));
625 QMessageBox::warning(this,tr("No vector field"),tr("Sorry, can't warp without a vector field."));
627 //------------------------------------------------------------------------------
630 //------------------------------------------------------------------------------
631 vvMainWindow::~vvMainWindow()
633 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
634 if (mSlicerManagers[i] != NULL)
635 delete mSlicerManagers[i];
638 //------------------------------------------------------------------------------
640 //------------------------------------------------------------------------------
641 QTabWidget * vvMainWindow::GetTab()
645 //------------------------------------------------------------------------------
648 //------------------------------------------------------------------------------
649 void vvMainWindow::MergeImages()
651 QString Extensions = EXTENSIONS;
652 Extensions += ";;All Files (*)";
653 QStringList files = QFileDialog::getOpenFileNames(this,tr("Merge Images"),mInputPathName,Extensions);
656 mInputPathName = itksys::SystemTools::GetFilenamePath(files[0].toStdString()).c_str();
657 std::vector<std::string> vector;
659 unsigned int currentDim = 0;
660 std::vector<double> currentSpacing;
661 std::vector<int> currentSize;
662 std::vector<double> currentOrigin;
664 for (int i = 0; i < files.size(); i++) {
665 itk::ImageIOBase::Pointer reader = itk::ImageIOFactory::CreateImageIO(
666 files[i].toStdString().c_str(), itk::ImageIOFactory::ReadMode);
667 reader->SetFileName(files[i].toStdString().c_str());
668 reader->ReadImageInformation();
670 //NOViewWidget->hide();
671 //NEViewWidget->hide();
672 //SOViewWidget->hide();
673 //SEViewWidget->hide();
675 currentDim = reader->GetNumberOfDimensions();
677 for (unsigned int j = 0; j < currentDim; j++) {
680 currentSpacing.resize(currentDim);
681 currentSize.resize(currentDim);
682 currentOrigin.resize(currentDim);
684 currentOrigin[j] = reader->GetOrigin(j);
685 currentSpacing[j] = reader->GetSpacing(j);
686 currentSize[j] = reader->GetDimensions(j);
687 } else if (currentDim != reader->GetNumberOfDimensions()
688 || currentSpacing[j] != reader->GetSpacing(j)
689 || currentSize[j] != (int)reader->GetDimensions(j)
690 || currentOrigin[j] != reader->GetOrigin(j)) {
691 QString error = "Cannot read file (too different from others ";
692 error += files[i].toStdString().c_str();
693 QMessageBox::information(this,tr("Reading problem"),error);
699 vector.push_back(files[i].toStdString());
702 if (vector.size() > 0)
703 LoadImages(vector, vvImageReader::MERGED);
705 //------------------------------------------------------------------------------
707 //------------------------------------------------------------------------------
708 void vvMainWindow::SliceImages()
710 QString Extensions = EXTENSIONS;
711 Extensions += ";;All Files (*)";
713 QStringList files = QFileDialog::getOpenFileNames(this,tr("Slice Images"),mInputPathName,Extensions);
716 mInputPathName = itksys::SystemTools::GetFilenamePath(files[0].toStdString()).c_str();
717 std::vector<std::string> vector;
718 for (int i = 0; i < files.size(); i++)
719 vector.push_back(files[i].toStdString());
720 LoadImages(vector, vvImageReader::SLICED);
722 //------------------------------------------------------------------------------
724 //------------------------------------------------------------------------------
725 void vvMainWindow::MergeImagesWithTime()
727 QString Extensions = EXTENSIONS;
728 Extensions += ";;All Files (*)";
729 QStringList files = QFileDialog::getOpenFileNames(this,tr("Merge Images With Time"),mInputPathName,Extensions);
732 mInputPathName = itksys::SystemTools::GetFilenamePath(files[0].toStdString()).c_str();
733 std::vector<std::string> vector;
735 for (int i = 0; i < files.size(); i++)
736 vector.push_back(files[i].toStdString());
737 sort(vector.begin(),vector.end());
738 if (vector.size() > 1)
739 LoadImages(vector, vvImageReader::MERGEDWITHTIME);
741 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.");
743 //------------------------------------------------------------------------------
746 //------------------------------------------------------------------------------
747 void vvMainWindow::OpenDicom()
749 std::vector<std::string> files;
751 //std::cout << "dicomSeriesSelector " << std::endl;
752 if (dicomSeriesSelector->exec() == QDialog::Accepted) {
753 files = *(dicomSeriesSelector->GetFilenames());
754 LoadImages(files, vvImageReader::DICOM);
757 #ifdef CLITK_USE_PACS_CONNECTION
758 void vvMainWindow::ConnectPacs()
760 std::vector<std::string> files;
762 //std::cout << "dicomSeriesSelector " << std::endl;
763 if (PacsConnection->exec() == QDialog::Accepted) {
764 files = PacsConnection->getFileNames();
765 LoadImages(files, vvImageReader::DICOM);
766 PacsConnection->clearMove();
771 //------------------------------------------------------------------------------
773 //------------------------------------------------------------------------------
774 void vvMainWindow::OpenImages()
776 QString Extensions = EXTENSIONS;
777 Extensions += ";;All Files (*)";
779 QStringList files = QFileDialog::getOpenFileNames(this,tr("Load Images"),mInputPathName,Extensions);
782 mInputPathName = itksys::SystemTools::GetFilenamePath(files[0].toStdString()).c_str();
783 std::vector<std::string> vector;
784 for (int i = 0; i < files.size(); i++)
785 vector.push_back(files[i].toStdString());
786 LoadImages(vector, vvImageReader::IMAGE);
788 //------------------------------------------------------------------------------
789 void vvMainWindow::OpenRecentImage()
791 QAction * caller = qobject_cast<QAction*>(sender());
792 std::vector<std::string> images;
793 images.push_back(caller->text().toStdString());
794 mInputPathName = itksys::SystemTools::GetFilenamePath(images[0]).c_str();
795 LoadImages(images, vvImageReader::IMAGE);
797 //------------------------------------------------------------------------------
800 //------------------------------------------------------------------------------
801 void vvMainWindow::OpenImageWithTime()
803 QString Extensions = EXTENSIONS;
804 Extensions += ";;All Files (*)";
806 QStringList files = QFileDialog::getOpenFileNames(this,tr("Load Images With Time"),mInputPathName,Extensions);
809 mInputPathName = itksys::SystemTools::GetFilenamePath(files[0].toStdString()).c_str();
810 std::vector<std::string> vector;
811 for (int i = 0; i < files.size(); i++) {
812 vector.push_back(files[i].toStdString());
814 LoadImages(vector, vvImageReader::IMAGEWITHTIME);
816 //------------------------------------------------------------------------------
819 //------------------------------------------------------------------------------
820 void vvMainWindow::LoadImages(std::vector<std::string> files, vvImageReader::LoadedImageType filetype)
822 //Separate the way to open images and dicoms
824 if (filetype == vvImageReader::IMAGE || filetype == vvImageReader::IMAGEWITHTIME)
825 fileSize = files.size();
829 // For SLICED, we need the number of slices (ndim and #slices)
830 std::vector<unsigned int> nSlices;
831 nSlices.resize(files.size());
832 std::fill(nSlices.begin(), nSlices.end(), 1);
833 if (filetype == vvImageReader::SLICED) {
834 for (int i = 0; i < fileSize; i++) {
835 itk::ImageIOBase::Pointer header = clitk::readImageHeader(files[i]);
836 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
839 QString error = "Cannot open file \n";
840 error += files[i].c_str();
841 QMessageBox::information(this,tr("Reading problem"),error);
844 if (header->GetNumberOfDimensions() < 3) {
846 QString error = "Dimension problem. Cannot slice \n";
847 error += files[i].c_str();
848 QMessageBox::information(this,tr("Reading problem"),error);
851 nSlices[i] = header->GetDimensions( header->GetNumberOfDimensions()-1 );
855 //Only add to the list of recently opened files when a single file is opened,
856 //to avoid polluting the list of recently opened files
857 if (files.size() == 1) {
858 QFileInfo finfo=tr(files[0].c_str());
859 AddToRecentlyOpenedImages(finfo.absoluteFilePath().toStdString());
860 updateRecentlyOpenedFilesMenu(GetRecentlyOpenedImages());
862 //init the progress events
863 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
864 vvProgressDialog progress("Opening " + files[0],fileSize>1);
865 qApp->processEvents();
867 int numberofsuccesulreads=0;
868 //open images as 1 or multiples
869 for (int i = 0; i < fileSize; i++) {
870 progress.SetText("Opening " + files[i]);
871 progress.SetProgress(i,fileSize);
872 qApp->processEvents();
874 for (unsigned int j = 0; j < nSlices[i]; j++) {
875 //read the image and put it in mSlicerManagers
876 vvSlicerManager* imageManager = new vvSlicerManager(4);
877 qApp->processEvents();
879 bool SetImageSucceed=false;
881 // Change filename if an image with the same already exist
882 int number = GetImageDuplicateFilenameNumber(files[i] + std::string("_slice"));
884 if (filetype == vvImageReader::IMAGE || filetype == vvImageReader::IMAGEWITHTIME || filetype == vvImageReader::SLICED)
885 SetImageSucceed = imageManager->SetImage(files[i],filetype, number, j);
887 SetImageSucceed = imageManager->SetImages(files,filetype, number);
890 if (!SetImageSucceed) {
891 QApplication::restoreOverrideCursor();
892 QString error = "Cannot open file \n";
893 error += imageManager->GetLastError().c_str();
894 QMessageBox::information(this,tr("Reading problem"),error);
897 mSlicerManagers.push_back(imageManager);
899 //create an item in the tree with good settings
900 QTreeWidgetItem *item = new QTreeWidgetItem();
901 item->setData(0,Qt::UserRole,files[i].c_str());
902 QFileInfo fileinfo(imageManager->GetFileName().c_str()); //Do not show the path
903 item->setData(COLUMN_IMAGE_NAME,Qt::DisplayRole,fileinfo.fileName());
904 item->setData(1,Qt::UserRole,tr("image"));
905 item->setToolTip(COLUMN_IMAGE_NAME, imageManager->GetListOfAbsoluteFilePathInOneString("image").c_str());
906 qApp->processEvents();
908 //Create the buttons for reload and close
909 qApp->processEvents();
910 QTreePushButton* cButton = new QTreePushButton;
911 cButton->setItem(item);
912 cButton->setColumn(COLUMN_CLOSE_IMAGE);
913 cButton->setToolTip(tr("close image"));
914 cButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/exit.png")));
915 connect(cButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
916 this,SLOT(CloseImage(QTreeWidgetItem*, int)));
918 QTreePushButton* rButton = new QTreePushButton;
919 rButton->setItem(item);
920 rButton->setColumn(COLUMN_RELOAD_IMAGE);
921 rButton->setToolTip(tr("reload image"));
922 rButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/rotateright.png")));
923 connect(rButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
924 this,SLOT(ReloadImage(QTreeWidgetItem*, int)));
926 DataTree->addTopLevelItem(item);
927 DataTree->setItemWidget(item, COLUMN_CLOSE_IMAGE, cButton);
928 DataTree->setItemWidget(item, COLUMN_RELOAD_IMAGE, rButton);
930 //set the id of the image
931 QString id = QDir::current().absoluteFilePath(files[i].c_str()) + QString::number(mSlicerManagers.size()-1);
932 item->setData(COLUMN_IMAGE_NAME,Qt::UserRole,id.toStdString().c_str());
933 mSlicerManagers.back()->SetId(id.toStdString());
935 linkPanel->addImage(imageManager->GetFileName(), id.toStdString());
937 connect(mSlicerManagers.back(), SIGNAL(currentImageChanged(std::string)),
938 this,SLOT(CurrentImageChanged(std::string)));
939 connect(mSlicerManagers.back(), SIGNAL(currentPickedImageChanged(std::string)),
940 this, SLOT(CurrentPickedImageChanged(std::string)));
941 connect(mSlicerManagers.back(), SIGNAL(UpdatePosition(int, double, double, double, double, double, double, double)),
942 this,SLOT(MousePositionChanged(int,double, double, double, double, double, double, double)));
943 connect(mSlicerManagers.back(), SIGNAL(UpdateVector(int, double, double, double, double)),
944 this, SLOT(VectorChanged(int,double,double,double, double)));
945 connect(mSlicerManagers.back(), SIGNAL(UpdateOverlay(int, double, double)),
946 this, SLOT(OverlayChanged(int,double,double)));
947 connect(mSlicerManagers.back(), SIGNAL(UpdateFusion(int, double)),
948 this, SLOT(FusionChanged(int,double)));
949 connect(mSlicerManagers.back(), SIGNAL(WindowLevelChanged()),
950 this,SLOT(WindowLevelChanged()));
951 connect(mSlicerManagers.back(), SIGNAL(UpdateSlice(int,int)),
952 this,SLOT(UpdateSlice(int,int)));
953 connect(mSlicerManagers.back(), SIGNAL(UpdateTSlice(int, int, int)),
954 this,SLOT(UpdateTSlice(int, int, int)));
955 connect(mSlicerManagers.back(), SIGNAL(UpdateTSlice(int, int, int)),
956 this,SLOT(ImageInfoChanged()));
957 connect(mSlicerManagers.back(), SIGNAL(UpdateSliceRange(int,int,int,int,int)),
958 this,SLOT(UpdateSliceRange(int,int,int,int,int)));
959 connect(mSlicerManagers.back(), SIGNAL(UpdateLinkManager(std::string,int,double,double,double,int)),
960 this,SLOT(UpdateLinkManager(std::string,int,double,double,double,int)));
961 connect(mSlicerManagers.back(), SIGNAL(UpdateLinkedNavigation(std::string,vvSlicerManager*,vvSlicer*)),
962 this,SLOT(UpdateLinkedNavigation(std::string,vvSlicerManager*,vvSlicer*)));
963 connect(mSlicerManagers.back(), SIGNAL(ChangeImageWithIndexOffset(vvSlicerManager*,int,int)),
964 this,SLOT(ChangeImageWithIndexOffset(vvSlicerManager*,int,int)));
965 connect(mSlicerManagers.back(),SIGNAL(LandmarkAdded()),landmarksPanel,SLOT(AddPoint()));
968 numberofsuccesulreads++;
972 if (numberofsuccesulreads) {
973 NOViewWidget->show();
974 NEViewWidget->show();
975 SOViewWidget->show();
976 SEViewWidget->show();
981 // Try to guess default WindowLevel
983 mSlicerManagers.back()->GetImage()->GetFirstVTKImageData()->GetScalarRange(range);
984 if ((range[0] == 0) && (range[1] == 1)) {
985 presetComboBox->setCurrentIndex(WL_BINARY);// binary
990 QApplication::restoreOverrideCursor();
992 //------------------------------------------------------------------------------
994 //------------------------------------------------------------------------------
995 void vvMainWindow::UpdateTree()
997 DataTree->resizeColumnToContents(COLUMN_TREE);
998 DataTree->resizeColumnToContents(COLUMN_UL_VIEW);
999 DataTree->resizeColumnToContents(COLUMN_UR_VIEW);
1000 DataTree->resizeColumnToContents(COLUMN_DL_VIEW);
1001 DataTree->resizeColumnToContents(COLUMN_DR_VIEW);
1002 DataTree->resizeColumnToContents(COLUMN_IMAGE_NAME);
1003 DataTree->resizeColumnToContents(COLUMN_CLOSE_IMAGE);
1004 DataTree->resizeColumnToContents(COLUMN_RELOAD_IMAGE);
1006 //------------------------------------------------------------------------------
1008 //------------------------------------------------------------------------------
1009 void vvMainWindow::CurrentImageChanged(std::string id)
1011 if (id == mCurrentSelectedImageId) return; // Do nothing
1013 for (int i = 0; i < DataTree->topLevelItemCount(); i++) {
1014 if (DataTree->topLevelItem(i)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString().toStdString() == id) {
1017 DataTree->topLevelItem(i)->setSelected(0);
1019 for (int child = 0; child < DataTree->topLevelItem(i)->childCount(); child++)
1020 DataTree->topLevelItem(i)->child(child)->setSelected(0);
1023 DataTree->topLevelItem(selected)->setSelected(1);
1024 mCurrentSelectedImageId = id;
1026 landmarksPanel->SetCurrentLandmarks(mSlicerManagers[selected]->GetLandmarks(),
1027 mSlicerManagers[selected]->GetTSlice());
1028 landmarksPanel->SetCurrentPath(mInputPathName.toStdString());
1029 landmarksPanel->SetCurrentImage(mSlicerManagers[selected]->GetFileName().c_str());
1031 emit SelectedImageHasChanged(mSlicerManagers[selected]);
1033 //------------------------------------------------------------------------------
1035 //------------------------------------------------------------------------------
1036 void vvMainWindow::CurrentPickedImageChanged(std::string id)
1038 if (id == mCurrentPickedImageId) return; // Do nothing
1040 for (int i = 0; i < DataTree->topLevelItemCount(); i++) {
1041 if (DataTree->topLevelItem(i)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString().toStdString() == id) {
1044 DataTree->topLevelItem(i)->setSelected(0);
1046 for (int child = 0; child < DataTree->topLevelItem(i)->childCount(); child++)
1047 DataTree->topLevelItem(i)->child(child)->setSelected(0);
1050 DataTree->topLevelItem(selected)->setSelected(1);
1051 mCurrentPickedImageId = id;
1052 mCurrentPickedImageIndex = selected;
1054 //------------------------------------------------------------------------------
1056 //------------------------------------------------------------------------------
1057 void vvMainWindow::ImageInfoChanged()
1059 contextActions[6]->setEnabled(1);
1060 contextActions[5]->setEnabled(1);
1061 actionSave_As->setEnabled(1);
1062 actionAdd_VF_to_current_Image->setEnabled(1);
1063 actionAdd_fusion_image->setEnabled(1);
1064 actionAdd_overlay_image_to_current_image->setEnabled(1);
1065 actionAdd_USSequence_toCT->setEnabled(1);
1066 actionNorth_East_Window->setEnabled(1);
1067 actionNorth_West_Window->setEnabled(1);
1068 actionSouth_East_Window->setEnabled(1);
1069 actionSouth_West_Window->setEnabled(1);
1070 vvToolManager::GetInstance()->EnableToolsInMenu(this, true);
1071 inverseButton->setEnabled(1);
1073 goToCursorPushButton->setEnabled(1);
1075 if (DataTree->selectedItems().size()) {
1076 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1078 colorMapComboBox->setEnabled(1);
1079 for (int i = 0; i < DataTree->topLevelItem(index)->childCount(); i++) {
1080 if (DataTree->topLevelItem(index)->child(i)->data(1,Qt::UserRole).toString() == "overlay" ||
1081 DataTree->topLevelItem(index)->child(i)->data(1,Qt::UserRole).toString() == "fusion" ||
1082 DataTree->topLevelItem(index)->child(i)->data(1,Qt::UserRole).toString() == "fusionSequence") {
1083 colorMapComboBox->setEnabled(0);
1088 std::vector<double> origin;
1089 std::vector<double> inputSpacing;
1090 std::vector<int> inputSize;
1091 std::vector<double> sizeMM;
1092 vtkSmartPointer<vtkMatrix4x4> transformation;
1095 QString inputSizeInBytes;
1096 QString image = DataTree->selectedItems()[0]->data(COLUMN_IMAGE_NAME,Qt::DisplayRole).toString();
1098 int nframes = mSlicerManagers[index]->GetSlicer(0)->GetTMax();
1100 if (nframes > 1 || playMode == 1) {
1101 playButton->setEnabled(1);
1102 frameRateLabel->setEnabled(1);
1103 frameRateSpinBox->setEnabled(1);
1105 playButton->setEnabled(0);
1106 frameRateLabel->setEnabled(0);
1107 frameRateSpinBox->setEnabled(0);
1114 vvImage::Pointer imageSelected;
1115 if (DataTree->topLevelItem(index) == DataTree->selectedItems()[0]) {
1116 imageSelected = mSlicerManagers[index]->GetSlicer(0)->GetImage();
1117 tSlice = mSlicerManagers[index]->GetSlicer(0)->GetTSlice();
1118 } else if (DataTree->selectedItems()[0]->data(1,Qt::UserRole).toString() == "vector") {
1119 imageSelected = mSlicerManagers[index]->GetSlicer(0)->GetVF();
1120 tSlice = mSlicerManagers[index]->GetSlicer(0)->GetOverlayTSlice();
1121 } else if (DataTree->selectedItems()[0]->data(1,Qt::UserRole).toString() == "overlay") {
1122 imageSelected = mSlicerManagers[index]->GetSlicer(0)->GetOverlay();
1123 tSlice = mSlicerManagers[index]->GetSlicer(0)->GetOverlayTSlice();
1124 } else if (DataTree->selectedItems()[0]->data(1,Qt::UserRole).toString() == "fusion") {
1125 imageSelected = mSlicerManagers[index]->GetSlicer(0)->GetFusion();
1126 tSlice = mSlicerManagers[index]->GetSlicer(0)->GetFusionTSlice();
1128 else if (DataTree->selectedItems()[0]->data(1,Qt::UserRole).toString() == "fusionSequence") {
1129 imageSelected = mSlicerManagers[index]->GetSlicer(0)->GetFusion();
1130 tSlice = mSlicerManagers[index]->GetSlicer(0)->GetFusionTSlice();
1132 else if (DataTree->selectedItems()[0]->data(1,Qt::UserRole).toString() == "contour") {
1133 imageSelected = mSlicerManagers[index]->GetSlicer(0)->GetImage();
1134 tSlice = mSlicerManagers[index]->GetSlicer(0)->GetTSlice();
1137 imageSelected = mSlicerManagers[index]->GetSlicer(0)->GetImage();
1138 tSlice = mSlicerManagers[index]->GetSlicer(0)->GetTSlice();
1141 dimension = imageSelected->GetNumberOfDimensions();
1142 origin.resize(dimension);
1143 inputSpacing.resize(dimension);
1144 inputSize.resize(dimension);
1145 sizeMM.resize(dimension);
1146 pixelType = mSlicerManagers[index]->GetImage()->GetScalarTypeAsITKString().c_str();
1147 for (int i = 0; i < dimension; i++) {
1148 origin[i] = imageSelected->GetOrigin()[i];
1149 inputSpacing[i] = imageSelected->GetSpacing()[i];
1150 inputSize[i] = imageSelected->GetSize()[i];
1151 sizeMM[i] = inputSize[i]*inputSpacing[i];
1152 NPixel *= inputSize[i];
1154 inputSizeInBytes = GetSizeInBytes(imageSelected->GetActualMemorySize()*1000);
1156 QString dim = QString::number(dimension) + " (";
1157 dim += pixelType + ")";
1159 infoPanel->setFileName(image);
1160 std::string creationImageTimeValue("No creation time");
1161 itk::ExposeMetaData< std::string > (*imageSelected->GetFirstMetaDataDictionary(), "creationImageTime", creationImageTimeValue);
1162 infoPanel->setImageCreationTime(QString(creationImageTimeValue.c_str()));
1163 infoPanel->setDimension(dim);
1164 infoPanel->setSizePixel(GetVectorIntAsString(inputSize));
1165 infoPanel->setSizeMM(GetVectorDoubleAsString(sizeMM));
1166 infoPanel->setOrigin(GetVectorDoubleAsString(origin));
1167 infoPanel->setSpacing(GetVectorDoubleAsString(inputSpacing));
1168 infoPanel->setNPixel(QString::number(NPixel)+" ("+inputSizeInBytes+")");
1170 transformation = imageSelected->GetTransform()[tSlice]->GetMatrix();
1171 infoPanel->setTransformation(Get4x4MatrixDoubleAsString(transformation));
1173 landmarksPanel->SetCurrentLandmarks(mSlicerManagers[index]->GetLandmarks(),
1174 mSlicerManagers[index]->GetTSlice());
1175 landmarksPanel->SetCurrentPath(mInputPathName.toStdString());
1176 landmarksPanel->SetCurrentImage(mSlicerManagers[index]->GetFileName().c_str());
1178 overlayPanel->getCurrentImageName(mSlicerManagers[index]->GetFileName().c_str());
1179 for (int i = 0; i < 4; i++) {
1180 if (DataTree->selectedItems()[0]->data(i+1,Qt::CheckStateRole).toInt() > 0 || i == 3) {
1181 mSlicerManagers[index]->UpdateInfoOnCursorPosition(i);
1186 // infoPanel->setFileName(image);
1187 // infoPanel->setDimension(dim);
1188 // infoPanel->setSizePixel(GetVectorIntAsString(inputSize));
1189 // infoPanel->setSizeMM(GetVectorDoubleAsString(sizeMM));
1190 // infoPanel->setOrigin(GetVectorDoubleAsString(origin));
1191 // infoPanel->setSpacing(GetVectorDoubleAsString(inputSpacing));
1192 // infoPanel->setNPixel(QString::number(NPixel)+" ("+inputSizeInBytes+")");
1194 // landmarksPanel->SetCurrentLandmarks(mSlicerManagers[index]->GetLandmarks(),
1195 // mSlicerManagers[index]->GetTSlice());
1196 // landmarksPanel->SetCurrentPath(mInputPathName.toStdString());
1197 // landmarksPanel->SetCurrentImage(mSlicerManagers[index]->GetFileName().c_str());
1199 // overlayPanel->getCurrentImageName(mSlicerManagers[index]->GetFileName().c_str());
1200 // for (int i = 0; i < 4; i++) {
1201 // if (DataTree->selectedItems()[0]->data(i+1,Qt::CheckStateRole).toInt() > 0 || i == 3) {
1202 // mSlicerManagers[index]->UpdateInfoOnCursorPosition(i);
1206 WindowLevelChanged();
1208 slicingPresetComboBox->setCurrentIndex(mSlicerManagers[index]->GetSlicingPreset());
1210 if (mSlicerManagers[index]->GetSlicer(0)->GetVF()) {
1211 overlayPanel->getVFName(mSlicerManagers[index]->GetVFName().c_str());
1212 overlayPanel->getVFProperty(mSlicerManagers[index]->GetSlicer(0)->GetVFSubSampling(),
1213 mSlicerManagers[index]->GetSlicer(0)->GetVFScale(),
1214 mSlicerManagers[index]->GetSlicer(0)->GetVFLog());
1216 overlayPanel->getVFName(mSlicerManagers[index]->GetVFName().c_str());
1217 overlayPanel->getVFProperty(-1,-1,-1);
1219 if (mSlicerManagers[index]->GetSlicer(0)->GetOverlay()) {
1220 overlayPanel->getOverlayName(mSlicerManagers[index]->GetOverlayName().c_str());
1222 overlayPanel->getOverlayName(mSlicerManagers[index]->GetOverlayName().c_str());
1225 if (mSlicerManagers[index]->GetSlicer(0)->GetFusion()) {
1226 overlayPanel->getFusionName(mSlicerManagers[index]->GetFusionName().c_str());
1228 overlayPanel->getFusionName(mSlicerManagers[index]->GetFusionName().c_str());
1232 //------------------------------------------------------------------------------
1234 //------------------------------------------------------------------------------
1235 void vvMainWindow::ShowDocumentation()
1237 documentation->show();
1239 //------------------------------------------------------------------------------
1241 //------------------------------------------------------------------------------
1242 void vvMainWindow::PopupRegisterForm(bool checkCanPush)
1244 vvRegisterForm* registerForm = new vvRegisterForm(QUrl("http://www.creatis.insa-lyon.fr/~dsarrut/vvregister/write.php"), getVVSettingsPath(), getSettingsOptionFormat());
1246 registerForm->show();
1248 if(registerForm->canPush()) {
1249 registerForm->show();
1250 registerForm->acquitPushed();//too bad if there is not internet connection anymore.
1254 //------------------------------------------------------------------------------
1256 //------------------------------------------------------------------------------
1257 void vvMainWindow::ShowHelpDialog()
1259 help_dialog->show();
1261 //------------------------------------------------------------------------------
1263 //------------------------------------------------------------------------------
1264 void vvMainWindow::ChangeViewMode()
1266 typedef struct _SIZE{
1267 QSplitter* splitter;
1268 QList<int> size1, size2;
1271 SplitterSize sizes[4];
1272 sizes[0].splitter = OSplitter;
1273 sizes[0].size1.push_back(1);
1274 sizes[0].size1.push_back(0);
1275 sizes[0].size2.push_back(1);
1276 sizes[0].size2.push_back(0);
1277 sizes[0].cols[0] = 2;
1278 sizes[0].cols[1] = 3;
1279 sizes[0].cols[2] = 4;
1281 sizes[1].splitter = ESplitter;
1282 sizes[1].size1.push_back(0);
1283 sizes[1].size1.push_back(1);
1284 sizes[1].size2.push_back(1);
1285 sizes[1].size2.push_back(0);
1286 sizes[1].cols[0] = 1;
1287 sizes[1].cols[1] = 3;
1288 sizes[1].cols[2] = 4;
1290 sizes[2].splitter = OSplitter;
1291 sizes[2].size1.push_back(1);
1292 sizes[2].size1.push_back(0);
1293 sizes[2].size2.push_back(0);
1294 sizes[2].size2.push_back(1);
1295 sizes[2].cols[0] = 1;
1296 sizes[2].cols[1] = 2;
1297 sizes[2].cols[2] = 4;
1299 sizes[3].splitter = ESplitter;
1300 sizes[3].size1.push_back(0);
1301 sizes[3].size1.push_back(1);
1302 sizes[3].size2.push_back(0);
1303 sizes[3].size2.push_back(1);
1304 sizes[3].cols[0] = 1;
1305 sizes[3].cols[1] = 2;
1306 sizes[3].cols[2] = 3;
1308 int slicer = mSlicerManagers[mCurrentPickedImageIndex]->GetSelectedSlicer();
1309 if (viewMode == 1) {
1312 splitter_3->setSizes(sizes[slicer].size1);
1313 sizes[slicer].splitter->setSizes(sizes[slicer].size2);
1314 DataTree->setColumnHidden(sizes[slicer].cols[0],1);
1315 DataTree->setColumnHidden(sizes[slicer].cols[1],1);
1316 DataTree->setColumnHidden(sizes[slicer].cols[2],1);
1324 splitter_3->setSizes(size);
1325 sizes[slicer].splitter->setSizes(size);
1326 DataTree->setColumnHidden(sizes[slicer].cols[0],0);
1327 DataTree->setColumnHidden(sizes[slicer].cols[1],0);
1328 DataTree->setColumnHidden(sizes[slicer].cols[2],0);
1331 UpdateRenderWindows();
1333 ** I don't know why but for both resized QVTKWidget we also need to render
1334 ** the associated Slicer to redraw crosses.
1336 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
1337 // if (DataTree->topLevelItem(i)->data(COLUMN_UL_VIEW,Qt::CheckStateRole).toInt() > 1)
1338 mSlicerManagers[i]->GetSlicer(0)->Render();
1339 mSlicerManagers[i]->GetSlicer(1)->Render();
1340 // if (DataTree->topLevelItem(i)->data(COLUMN_DL_VIEW,Qt::CheckStateRole).toInt() > 1)
1341 mSlicerManagers[i]->GetSlicer(2)->Render();
1342 mSlicerManagers[i]->GetSlicer(3)->Render();
1345 //------------------------------------------------------------------------------
1347 //------------------------------------------------------------------------------
1348 QString vvMainWindow::GetSizeInBytes(unsigned long size)
1350 QString result = "";// QString::number(size);
1351 //result += " bytes (";
1352 if (size > 1000000000) {
1354 result += QString::number(size);
1355 result += "Gb";//)";
1356 } else if (size > 1000000) {
1358 result += QString::number(size);
1359 result += "Mb";//)";
1360 } else if (size > 1000) {
1362 result += QString::number(size);
1363 result += "kb";//)";
1367 //------------------------------------------------------------------------------
1369 //------------------------------------------------------------------------------
1370 QString vvMainWindow::Get4x4MatrixDoubleAsString(vtkSmartPointer<vtkMatrix4x4> matrix, const int precision)
1372 std::ostringstream strmatrix;
1374 // Figure out the number of digits of the integer part of the largest absolute value
1377 for (unsigned int j = 0; j < 4; j++){
1379 for (unsigned int i = 0; i < 4; i++)
1380 absmax = std::max(absmax, vnl_math_abs(matrix->GetElement(i, j)));
1381 unsigned ndigits = (unsigned)std::max(0.,std::log10(absmax))+1;
1382 width[j] = precision+ndigits+3;
1385 // Output with correct width, aligned to the right
1386 for (unsigned int i = 0; i < 4; i++) {
1387 for (unsigned int j = 0; j < 4; j++) {
1388 strmatrix.setf(ios::fixed,ios::floatfield);
1389 strmatrix.precision(precision);
1390 strmatrix.fill(' ');
1391 strmatrix.width(width[j]);
1392 strmatrix << std::right << matrix->GetElement(i, j);
1394 strmatrix << std::endl;
1396 QString result = strmatrix.str().c_str();
1399 //------------------------------------------------------------------------------
1401 //------------------------------------------------------------------------------
1402 QString vvMainWindow::GetVectorDoubleAsString(std::vector<double> vectorDouble)
1405 for (unsigned int i= 0; i < vectorDouble.size(); i++) {
1408 result += QString::number(vectorDouble[i]);
1412 //------------------------------------------------------------------------------
1414 //------------------------------------------------------------------------------
1415 QString vvMainWindow::GetVectorIntAsString(std::vector<int> vectorInt)
1418 for (unsigned int i= 0; i < vectorInt.size(); i++) {
1421 result += QString::number(vectorInt[i]);
1425 //------------------------------------------------------------------------------
1427 //------------------------------------------------------------------------------
1428 //this actually returns the SlicerManager index!
1429 int vvMainWindow::GetSlicerIndexFromItem(QTreeWidgetItem* item)
1431 QString id = item->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString();
1432 for (int i = 0; i < DataTree->topLevelItemCount(); i++) {
1433 if (DataTree->topLevelItem(i)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString() == id)
1438 //------------------------------------------------------------------------------
1440 //------------------------------------------------------------------------------
1441 QTreeWidgetItem* vvMainWindow::GetItemFromSlicerManager(vvSlicerManager* sm)
1443 QString id = sm->GetId().c_str();
1444 for (int i = 0; i < DataTree->topLevelItemCount(); i++) {
1445 if (DataTree->topLevelItem(i)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString() == id)
1446 return DataTree->topLevelItem(i);
1450 //------------------------------------------------------------------------------
1452 //------------------------------------------------------------------------------
1453 void vvMainWindow::DisplayChanged(QTreeWidgetItem *clickedItem, int column)
1455 if ( column >= COLUMN_CLOSE_IMAGE || column <= 0)
1458 // Get parent information (might be the same item)
1459 int slicerManagerIndex = GetSlicerIndexFromItem(clickedItem);
1460 QTreeWidgetItem* clickedParentItem = DataTree->topLevelItem(slicerManagerIndex);
1461 vvSlicer* clickedSlicer = mSlicerManagers[slicerManagerIndex]->GetSlicer(column-1);
1463 // Go over the complete item tree (only 2 levels, parents and children)
1464 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
1465 // Trick to avoid redoing twice the job for a key (sr)
1466 mSlicerManagers[i]->GetSlicer(column-1)->GetRenderWindow()->GetInteractor()->SetKeySym("Crap");
1468 QTreeWidgetItem* currentParentItem = DataTree->topLevelItem(i);
1469 if(currentParentItem != clickedParentItem) {
1470 // Not the branch of the clicked item, uncheck all
1473 currentParentItem->setData(column,Qt::CheckStateRole, 0);
1474 mSlicerManagers[i]->UpdateSlicer(column-1, false);
1477 for (int iChild = 0; iChild < currentParentItem->childCount(); iChild++) {
1478 currentParentItem->child(iChild)->setData(column,Qt::CheckStateRole, 0);
1482 // Branch of the clicked one: get check status from actor visibility in slicer
1483 // and toggle the clicked one
1486 bool vis = clickedSlicer->GetActorVisibility("image", 0);
1487 bool draw = clickedSlicer->GetRenderer()->GetDraw();
1489 // Update slicer (after getting visibility)
1490 mSlicerManagers[slicerManagerIndex]->UpdateSlicer(column-1, true);
1491 mSlicerManagers[slicerManagerIndex]->UpdateInfoOnCursorPosition(column-1);
1492 DisplaySliders(slicerManagerIndex, column-1);
1493 if(clickedParentItem == clickedItem) {
1495 vis = !draw || !vis;
1497 clickedSlicer->SetActorVisibility("image", 0, vis);
1498 clickedParentItem->setData(column, Qt::CheckStateRole, vis?2:0);
1501 std::map<std::string, int> actorTypeCounts;
1502 for (int iChild = 0; iChild < clickedParentItem->childCount(); iChild++) {
1503 QTreeWidgetItem* currentChildItem = clickedParentItem->child(iChild);
1504 std::string actorType = currentChildItem->data(1,Qt::UserRole).toString().toStdString();
1505 vis = clickedSlicer->GetActorVisibility(actorType, actorTypeCounts[actorType]);
1506 if(currentChildItem == clickedItem) {
1507 // Toggle or force visibility if it was not on this branch so far
1508 vis = !draw || !vis;
1509 clickedSlicer->SetActorVisibility(actorType, actorTypeCounts[actorType], vis);
1511 currentChildItem->setData(column, Qt::CheckStateRole, vis?2:0);
1512 actorTypeCounts[actorType]++;
1517 clickedSlicer->Render();
1519 //------------------------------------------------------------------------------
1521 void vvMainWindow::InitSlicers()
1523 if (mSlicerManagers.size()) {
1524 mSlicerManagers.back()->GenerateDefaultLookupTable();
1526 mSlicerManagers.back()->SetSlicerWindow(0,NOViewWidget->GetRenderWindow());
1527 mSlicerManagers.back()->SetSlicerWindow(1,NEViewWidget->GetRenderWindow());
1528 mSlicerManagers.back()->SetSlicerWindow(2,SOViewWidget->GetRenderWindow());
1529 mSlicerManagers.back()->SetSlicerWindow(3,SEViewWidget->GetRenderWindow());
1533 //------------------------------------------------------------------------------
1534 void vvMainWindow::InitDisplay()
1536 if (mSlicerManagers.size()) {
1537 //BE CAREFUL : this is absolutely necessary to set the interactor style
1538 //in order to have the same style instanciation for all SlicerManagers in
1540 for (int j = 0; j < 4; j++) {
1541 vvInteractorStyleNavigator* style = vvInteractorStyleNavigator::New();
1542 style->SetAutoAdjustCameraClippingRange(1);
1543 bool AlreadySelected = false;
1544 for (int i = 0; i < DataTree->topLevelItemCount(); i++) {
1545 mSlicerManagers[i]->SetInteractorStyleNavigator(j,style);
1547 //select the image only if previous are not selected
1548 if (DataTree->topLevelItem(i)->data(j+1,Qt::CheckStateRole).toInt() > 1) {
1549 mSlicerManagers[i]->UpdateSlicer(j,1);
1550 AlreadySelected = true;
1551 } else if (i == DataTree->topLevelItemCount()-1 && !AlreadySelected) {
1552 if (DataTree->selectedItems().size() == 0)
1553 DataTree->topLevelItem(i)->setSelected(1);
1554 DataTree->topLevelItem(i)->setData(j+1,Qt::CheckStateRole,2);
1555 mSlicerManagers[i]->UpdateSlicer(j,1);
1556 DisplaySliders(i,j);
1558 DataTree->topLevelItem(i)->setData(j+1,Qt::CheckStateRole,0);
1559 mSlicerManagers[i]->UpdateSlicer(j,0);
1566 //------------------------------------------------------------------------------
1568 //------------------------------------------------------------------------------
1569 void vvMainWindow::DisplaySliders(int slicer, int window)
1571 if(!mSlicerManagers[slicer]->GetSlicer(window)->GetRenderer()->GetDraw())
1575 mSlicerManagers[slicer]->GetSlicer(window)->GetSliceRange(range);
1576 int position = mSlicerManagers[slicer]->GetSlicer(window)->GetSlice();
1578 verticalSliders[window]->show();
1580 verticalSliders[window]->hide();
1581 verticalSliders[window]->setRange(range[0],range[1]);
1582 verticalSliders[window]->setValue(position);
1586 tRange[1] = mSlicerManagers[slicer]->GetSlicer(window)->GetTMax();
1588 horizontalSliders[window]->show();
1590 horizontalSliders[window]->hide();
1591 horizontalSliders[window]->setRange(tRange[0],tRange[1]);
1592 int tPosition = mSlicerManagers[slicer]->GetSlicer(window)->GetMaxCurrentTSlice();
1593 horizontalSliders[window]->setValue(tPosition);
1595 //------------------------------------------------------------------------------
1597 //------------------------------------------------------------------------------
1598 void vvMainWindow::CloseImage(QTreeWidgetItem* item, int column)
1600 int index = GetSlicerIndexFromItem(item);
1602 if (DataTree->topLevelItem(index) != item) {
1603 QString warning = "Do you really want to close the overlay : ";
1604 warning += item->data(COLUMN_IMAGE_NAME,Qt::DisplayRole).toString();
1605 QMessageBox msgBox(QMessageBox::Warning, tr("Close Overlay"),
1607 msgBox.addButton(tr("Close"), QMessageBox::AcceptRole);
1608 msgBox.addButton(tr("Cancel"), QMessageBox::RejectRole);
1609 if (msgBox.exec() == QMessageBox::AcceptRole) {
1610 std::string overlay_type=item->data(1,Qt::UserRole).toString().toStdString();
1611 int overlay_index=0;
1612 for (int child = 0; child < DataTree->topLevelItem(index)->childCount(); child++) {
1613 if (DataTree->topLevelItem(index)->\
1614 child(child)->data(1,Qt::UserRole).toString().toStdString() == overlay_type)
1616 if (DataTree->topLevelItem(index)->child(child) == item) break;
1618 if (overlay_type=="fusionSequence") {
1619 //removing the overlay sequence in a fusion sequence visualization mode
1620 //reset the transforms
1621 overlayPanel->getFusionSequenceProperty(-1, false, 0, false);
1623 //unlink and untie the slicer managers
1624 RemoveLink(mSlicerManagers[index]->GetId().c_str(), mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->GetId().c_str());
1625 mSlicerManagers[index]->SetFusionSequenceInvolvmentCode(-1);
1626 mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->SetFusionSequenceInvolvmentCode(-1);
1627 for (unsigned i=0 ; i<4 ; i++) {
1628 mSlicerManagers[index]->GetSlicer(i)->SetFusionSequenceCode(-1);
1629 mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->GetSlicer(i)->SetFusionSequenceCode(-1);
1633 mSlicerManagers[index]->RemoveActor(overlay_type, overlay_index-1);
1634 mSlicerManagers[index]->SetColorMap(0);
1635 DataTree->topLevelItem(index)->takeChild(DataTree->topLevelItem(index)->indexOfChild(item));
1636 mSlicerManagers[index]->Render();
1638 } else if (DataTree->topLevelItemCount() <= 1) {
1639 QString warning = "Do you really want to close the image : ";
1640 warning += item->data(COLUMN_IMAGE_NAME,Qt::DisplayRole).toString();
1641 warning += "\nThis is the last image, you're about to close vv !!!";
1642 QMessageBox msgBox(QMessageBox::Warning, tr("Close Image"),
1644 msgBox.addButton(tr("Close vv"), QMessageBox::AcceptRole);
1645 msgBox.addButton(tr("Cancel"), QMessageBox::RejectRole);
1646 if (msgBox.exec() == QMessageBox::AcceptRole) {
1650 QString warning = "Do you really want to close the image : ";
1651 warning += item->data(COLUMN_IMAGE_NAME,Qt::DisplayRole).toString();
1652 QMessageBox msgBox(QMessageBox::Warning, tr("Close Image"),
1654 msgBox.addButton(tr("Close"), QMessageBox::AcceptRole);
1655 msgBox.addButton(tr("Cancel"), QMessageBox::RejectRole);
1656 if (msgBox.exec() == QMessageBox::AcceptRole) {
1658 // Tell tools that we close an image
1659 emit AnImageIsBeingClosed(mSlicerManagers[index]);
1661 std::vector<vvSlicerManager*>::iterator Manageriter = mSlicerManagers.begin();
1662 DataTree->takeTopLevelItem(index);
1663 for (int i = 0; i < index; i++) {
1666 //if the slicer manager was involved in a fusion sequence visualization...
1667 if ( mSlicerManagers[index]->IsInvolvedInFusionSequence() ) {
1668 //in both cases, close the overlay: find it... and close it
1669 //ideally, I should duplicate the code, and avoid calling CloseImage, since this pops up another interactive box
1670 QTreeWidgetItem* overlayItem;
1671 if (mSlicerManagers[index]->IsMainSequenceOfFusionSequence()) {
1672 for (unsigned i=0 ; i<item->childCount() ; i++) {
1673 overlayItem = item->child(i);
1674 this->CloseImage( overlayItem, 0 );
1678 QTreeWidgetItem* linkedItem = this->GetItemFromSlicerManager( mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()] );
1679 for (unsigned i=0 ; i<linkedItem->childCount() ; i++) {
1680 overlayItem = linkedItem->child(i);
1681 this->CloseImage( overlayItem, 0 );
1685 /* -- this is normally already done when closing the overlay.
1686 //reset the transforms
1687 overlayPanel->getFusionSequenceProperty(-1, false, 0, false);
1689 //unlink and untie the slicer managers
1690 RemoveLink(mSlicerManagers[index]->GetId().c_str(), mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->GetId().c_str());
1691 mSlicerManagers[index]->SetFusionSequenceInvolvmentCode(-1);
1692 mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->SetFusionSequenceInvolvmentCode(-1);
1693 for (unsigned i=0 ; i<4 ; i++) {
1694 mSlicerManagers[index]->GetSlicer(i)->SetFusionSequenceCode(-1);
1695 mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->GetSlicer(i)->SetFusionSequenceCode(-1);
1700 linkPanel->removeImage(index);
1701 mSlicerManagers[index]->RemoveActors();
1703 //remove the slicer manager
1704 delete mSlicerManagers[index];
1705 mSlicerManagers.erase(Manageriter);
1713 //------------------------------------------------------------------------------
1715 //------------------------------------------------------------------------------
1716 void vvMainWindow::ReloadImage(QTreeWidgetItem* item, int column)
1718 // int index = GetSlicerIndexFromItem(item);
1719 // QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
1720 // if (item->data(1,Qt::UserRole).toString() == "vector")
1721 // mSlicerManagers[index]->ReloadVF();
1723 // mSlicerManagers[index]->Reload();
1725 // QApplication::restoreOverrideCursor();
1726 int index = GetSlicerIndexFromItem(item);
1727 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
1728 QString role=item->data(1,Qt::UserRole).toString();
1729 if ( role == "vector") {
1730 mSlicerManagers[index]->ReloadVF();
1732 else if (role == "overlay") {
1733 mSlicerManagers[index]->ReloadOverlay();
1735 else if (role == "fusion") {
1736 mSlicerManagers[index]->ReloadFusion();
1738 else if (role == "fusionSequence") {
1739 //both versions of the secondary sequence must be updated.
1740 mSlicerManagers[index]->ReloadFusionSequence();
1741 mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->Reload();
1744 mSlicerManagers[index]->Reload();
1745 //if we update the secondary sequence, then the overlay of the main sequence should also be updated
1746 if (mSlicerManagers[index]->IsSecondarySequenceOfFusionSequence()) mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->ReloadFusionSequence();
1748 // Update view and info
1750 mSlicerManagers[index]->Render();
1751 QApplication::restoreOverrideCursor();
1753 //------------------------------------------------------------------------------
1755 //------------------------------------------------------------------------------
1756 void vvMainWindow::MousePositionChanged(int visibility,double x, double y, double z, double X, double Y, double Z , double value)
1758 infoPanel->setCurrentInfo(visibility,x,y,z,X,Y,Z,value);
1760 //------------------------------------------------------------------------------
1762 //------------------------------------------------------------------------------
1763 void vvMainWindow::VectorChanged(int visibility,double x, double y, double z, double value)
1765 overlayPanel->getCurrentVectorInfo(visibility,x,y,z,value);
1767 //------------------------------------------------------------------------------
1769 //------------------------------------------------------------------------------
1770 void vvMainWindow::OverlayChanged(int visibility, double valueOver, double valueRef)
1772 overlayPanel->getCurrentOverlayInfo(visibility,valueOver, valueRef);
1774 //------------------------------------------------------------------------------
1776 //------------------------------------------------------------------------------
1777 void vvMainWindow::FusionChanged(int visibility, double value)
1779 overlayPanel->getCurrentFusionInfo(visibility,value);
1781 //------------------------------------------------------------------------------
1783 //------------------------------------------------------------------------------
1784 //called when AddOverlayImage, AddFusionSequence
1785 //or when UpdateWindowLevel() is called ; when slicerManager emits WindowLevelChanged
1786 //when ImageInfoChanged() is called
1787 void vvMainWindow::WindowLevelChanged()
1790 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1791 if(index==-1) return;
1792 windowSpinBox->setValue(mSlicerManagers[index]->GetColorWindow());
1793 levelSpinBox->setValue(mSlicerManagers[index]->GetColorLevel());
1794 colorMapComboBox->setCurrentIndex(mSlicerManagers[index]->GetColorMap());
1795 presetComboBox->setCurrentIndex(mSlicerManagers[index]->GetPreset());
1798 if (mSlicerManagers[index]->GetSlicer(0)->GetOverlay())
1799 overlayPanel->getOverlayProperty(mSlicerManagers[index]->GetOverlayColor(),
1800 mSlicerManagers[index]->GetLinkOverlayWindowLevel(),
1801 mSlicerManagers[index]->GetOverlayColorWindow(),
1802 mSlicerManagers[index]->GetOverlayColorLevel());
1804 overlayPanel->getOverlayProperty(-1,0,0.,0.);
1806 // Fusion & SequenceFusion image
1807 if (mSlicerManagers[index]->GetSlicer(0)->GetFusion()) {
1808 overlayPanel->getFusionProperty(mSlicerManagers[index]->GetFusionOpacity(),
1809 mSlicerManagers[index]->GetFusionThresholdOpacity(),
1810 mSlicerManagers[index]->GetFusionColorMap(),
1811 mSlicerManagers[index]->GetFusionWindow(),
1812 mSlicerManagers[index]->GetFusionLevel());
1813 if (mSlicerManagers[index]->IsMainSequenceOfFusionSequence()) {
1814 overlayPanel->getFusionSequenceProperty(mSlicerManagers[index]->GetFusionSequenceFrameIndex(),
1815 mSlicerManagers[index]->GetFusionSequenceSpatialSyncFlag(),
1816 mSlicerManagers[index]->GetFusionSequenceNbFrames(),
1817 mSlicerManagers[index]->GetFusionSequenceTemporalSyncFlag());
1820 else if ( mSlicerManagers[index]->IsSecondarySequenceOfFusionSequence() ) {
1821 //if the image is involved in a fusion sequence, preserve the overlay panel!
1822 int ind = mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager();
1823 overlayPanel->getFusionProperty(mSlicerManagers[ind]->GetFusionOpacity(),
1824 mSlicerManagers[ind]->GetFusionThresholdOpacity(),
1825 mSlicerManagers[ind]->GetFusionColorMap(),
1826 mSlicerManagers[ind]->GetFusionWindow(),
1827 mSlicerManagers[ind]->GetFusionLevel());
1828 overlayPanel->getFusionSequenceProperty(mSlicerManagers[ind]->GetFusionSequenceFrameIndex(),
1829 mSlicerManagers[ind]->GetFusionSequenceSpatialSyncFlag(),
1830 mSlicerManagers[ind]->GetFusionSequenceNbFrames(),
1831 mSlicerManagers[ind]->GetFusionSequenceTemporalSyncFlag());
1835 overlayPanel->getFusionProperty(-1, -1, -1, -1, -1);
1836 overlayPanel->getFusionSequenceProperty(-1, false, 0, false);
1839 //------------------------------------------------------------------------------
1841 //------------------------------------------------------------------------------
1842 void vvMainWindow::WindowLevelEdited()
1844 presetComboBox->setCurrentIndex(WL_USER);
1845 UpdateWindowLevel();
1847 //------------------------------------------------------------------------------
1849 //------------------------------------------------------------------------------
1850 void vvMainWindow::SetWindowLevel(double w, double l)
1852 windowSpinBox->setValue(w);
1853 levelSpinBox->setValue(l);
1854 presetComboBox->setCurrentIndex(WL_USER);
1855 colorMapComboBox->setCurrentIndex(0);
1856 UpdateWindowLevel();
1858 //------------------------------------------------------------------------------
1860 //------------------------------------------------------------------------------
1861 void vvMainWindow::UpdateWindowLevel()
1863 if (DataTree->selectedItems().size()) {
1864 if (presetComboBox->currentIndex() == WL_VENTILATION) //For ventilation
1865 colorMapComboBox->setCurrentIndex(5);
1866 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1867 mSlicerManagers[index]->SetColorWindow(windowSpinBox->value());
1868 mSlicerManagers[index]->SetColorLevel(levelSpinBox->value());
1869 mSlicerManagers[index]->SetPreset(presetComboBox->currentIndex());
1870 mSlicerManagers[index]->Render();
1871 WindowLevelChanged();
1874 //------------------------------------------------------------------------------
1876 //------------------------------------------------------------------------------
1877 void vvMainWindow::UpdateSlicingPreset()
1879 if (DataTree->selectedItems().size()) {
1880 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1881 mSlicerManagers[index]->SetSlicingPreset(vvSlicerManager::SlicingPresetType(slicingPresetComboBox->currentIndex()));
1884 //------------------------------------------------------------------------------
1886 //------------------------------------------------------------------------------
1887 void vvMainWindow::UpdateColorMap()
1889 if (DataTree->selectedItems().size()) {
1890 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1891 mSlicerManagers[index]->SetColorMap(colorMapComboBox->currentIndex());
1892 mSlicerManagers[index]->Render();
1895 //------------------------------------------------------------------------------
1896 void vvMainWindow::SwitchWindowLevel()
1898 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1899 int window = mSlicerManagers[index]->GetColorWindow();
1900 presetComboBox->setCurrentIndex(WL_USER);
1901 windowSpinBox->setValue(-window);
1902 UpdateWindowLevel();
1904 //------------------------------------------------------------------------------
1906 //------------------------------------------------------------------------------
1907 void vvMainWindow::ApplyWindowLevelToAllImages()
1909 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1910 if(index==-1) return;
1911 double window = mSlicerManagers[index]->GetColorWindow();
1912 double level = mSlicerManagers[index]->GetColorLevel();
1914 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
1915 if (mSlicerManagers[i] == NULL)
1917 mSlicerManagers[i]->SetColorWindow(window);
1918 mSlicerManagers[i]->SetColorLevel(level);
1919 mSlicerManagers[i]->SetPreset(WL_USER);
1920 mSlicerManagers[i]->Render();
1923 //------------------------------------------------------------------------------
1925 //------------------------------------------------------------------------------
1926 void vvMainWindow::ApplyWindowToSetOfImages(double window, unsigned int indexMin, unsigned int indexMax)
1928 for (unsigned int i = indexMin; i <= indexMax && i < mSlicerManagers.size(); i++) {
1929 if (mSlicerManagers[i] == NULL)
1931 mSlicerManagers[i]->SetColorWindow(window);
1932 mSlicerManagers[i]->SetPreset(WL_USER);
1933 mSlicerManagers[i]->Render();
1936 //------------------------------------------------------------------------------
1938 //------------------------------------------------------------------------------
1939 void vvMainWindow::ApplyLevelToSetOfImages(double level, unsigned int indexMin, unsigned int indexMax)
1941 for (unsigned int i = indexMin; i <= indexMax && i < mSlicerManagers.size(); i++) {
1942 if (mSlicerManagers[i] == NULL)
1944 mSlicerManagers[i]->SetColorLevel(level);
1945 mSlicerManagers[i]->SetPreset(WL_USER);
1946 mSlicerManagers[i]->Render();
1949 //------------------------------------------------------------------------------
1951 //------------------------------------------------------------------------------
1952 void vvMainWindow::UpdateLinkManager(std::string id, int slicer, double x, double y, double z, int temps)
1954 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
1955 if (mSlicerManagers[i]->GetId() == id) {
1956 mSlicerManagers[i]->GetSlicer(slicer)->SetCurrentPosition(x,y,z,temps);
1957 mSlicerManagers[i]->UpdateViews(0,slicer);
1962 //------------------------------------------------------------------------------
1964 //------------------------------------------------------------------------------
1965 void vvMainWindow::UpdateLinkedNavigation(std::string id, vvSlicerManager * sm, vvSlicer* refSlicer)
1967 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
1968 if (id == mSlicerManagers[i]->GetId()) {
1969 mSlicerManagers[i]->UpdateLinkedNavigation(refSlicer);
1973 //------------------------------------------------------------------------------
1975 //------------------------------------------------------------------------------
1976 void vvMainWindow::ShowContextMenu(QPoint point)
1978 if (!DataTree->selectedItems().size()) {
1979 contextActions[1]->setEnabled(0);
1980 contextActions[2]->setEnabled(0);
1981 contextActions[3]->setEnabled(0);
1982 contextActions[4]->setEnabled(0);
1983 contextActions[5]->setEnabled(0);
1984 contextActions[6]->setEnabled(0);
1986 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1987 contextActions[1]->setEnabled(1);
1988 contextActions[2]->setEnabled(
1989 DataTree->itemWidget(DataTree->selectedItems()[0],
1990 COLUMN_RELOAD_IMAGE)->isEnabled());
1991 contextActions[3]->setEnabled(1);
1992 contextActions[5]->setEnabled(1);
1993 contextActions[6]->setEnabled(1);
1995 if (mSlicerManagers[index]->GetDimension() < 3)
1996 contextActions[4]->setEnabled(0);
1998 contextActions[4]->setEnabled(1);
2000 contextMenu.exec(QCursor::pos());
2002 //------------------------------------------------------------------------------
2004 //------------------------------------------------------------------------------
2005 void vvMainWindow::CloseImage()
2007 CloseImage(DataTree->selectedItems()[0],0);
2009 //------------------------------------------------------------------------------
2011 //------------------------------------------------------------------------------
2012 void vvMainWindow::ReloadImage()
2014 ReloadImage(DataTree->selectedItems()[0],0);
2016 //------------------------------------------------------------------------------
2018 //------------------------------------------------------------------------------
2019 void vvMainWindow::SelectOverlayImage()
2021 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2023 //check if one overlay image is added
2024 for (int child = 0; child < DataTree->topLevelItem(index)->childCount(); child++)
2025 if (DataTree->topLevelItem(index)->child(child)->data(1,Qt::UserRole).toString() == "overlay") {
2026 QString error = "Cannot add more than one compared image\n";
2027 error += "Please remove first ";
2028 error += DataTree->topLevelItem(index)->child(child)->data(COLUMN_IMAGE_NAME,Qt::DisplayRole).toString();
2029 QMessageBox::information(this,tr("Problem adding compared image !"),error);
2033 QString Extensions = EXTENSIONS;
2034 Extensions += ";;All Files (*)";
2035 QStringList files = QFileDialog::getOpenFileNames(this,tr("Load Overlay image"),mInputPathName,Extensions);
2036 if (files.isEmpty())
2039 std::vector<std::string> vecFileNames;
2040 for (int i = 0; i < files.size(); i++) {
2041 vecFileNames.push_back(files[i].toStdString());
2043 AddOverlayImage(index,vecFileNames,vvImageReader::IMAGE);
2045 //------------------------------------------------------------------------------
2047 //------------------------------------------------------------------------------
2048 void vvMainWindow::AddOverlayImage(int index, std::vector<std::string> fileNames, vvImageReader::LoadedImageType type)
2050 QString file(fileNames[0].c_str());
2051 if (QFile::exists(file))
2053 mInputPathName = itksys::SystemTools::GetFilenamePath(file.toStdString()).c_str();
2054 itk::ImageIOBase::Pointer reader = itk::ImageIOFactory::CreateImageIO(
2055 file.toStdString().c_str(), itk::ImageIOFactory::ReadMode);
2056 reader->SetFileName(fileNames[0].c_str());
2057 reader->ReadImageInformation();
2058 std::string component = reader->GetComponentTypeAsString(reader->GetComponentType());
2059 int dimension = reader->GetNumberOfDimensions();
2060 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
2061 vvProgressDialog progress("Opening " + file.toStdString());
2062 qApp->processEvents();
2064 std::string filename = itksys::SystemTools::GetFilenameWithoutExtension(file.toStdString()).c_str();
2065 if (mSlicerManagers[index]->SetOverlay(fileNames,dimension, component,type)) {
2066 //create an item in the tree with good settings
2067 QTreeWidgetItem *item = new QTreeWidgetItem();
2068 item->setData(0,Qt::UserRole,file.toStdString().c_str());
2069 item->setData(1,Qt::UserRole,tr("overlay"));
2070 QFileInfo fileinfo(file); //Do not show the path
2071 item->setData(COLUMN_IMAGE_NAME,Qt::DisplayRole,fileinfo.fileName());
2072 item->setToolTip(COLUMN_IMAGE_NAME, mSlicerManagers[index]->GetListOfAbsoluteFilePathInOneString("overlay").c_str());
2073 qApp->processEvents();
2075 for (int j = 1; j <= 4; j++) {
2076 item->setData(j,Qt::CheckStateRole,DataTree->topLevelItem(index)->data(j,Qt::CheckStateRole));
2079 //Create the buttons for reload and close
2080 qApp->processEvents();
2081 QTreePushButton* cButton = new QTreePushButton;
2082 cButton->setItem(item);
2083 cButton->setColumn(COLUMN_CLOSE_IMAGE);
2084 cButton->setToolTip(tr("close image"));
2085 cButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/exit.png")));
2086 connect(cButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2087 this,SLOT(CloseImage(QTreeWidgetItem*, int)));
2089 QTreePushButton* rButton = new QTreePushButton;
2090 rButton->setItem(item);
2091 rButton->setColumn(COLUMN_RELOAD_IMAGE);
2092 rButton->setToolTip(tr("reload image"));
2093 rButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/rotateright.png")));
2094 connect(rButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2095 this,SLOT(ReloadImage(QTreeWidgetItem*, int)));
2097 DataTree->topLevelItem(index)->setExpanded(1);
2098 DataTree->topLevelItem(index)->addChild(item);
2099 DataTree->setItemWidget(item, COLUMN_CLOSE_IMAGE, cButton);
2100 DataTree->setItemWidget(item, COLUMN_RELOAD_IMAGE, rButton);
2102 //set the id of the image
2103 QString id = DataTree->topLevelItem(index)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString();
2104 item->setData(COLUMN_IMAGE_NAME,Qt::UserRole,id.toStdString().c_str());
2106 qApp->processEvents();
2108 QApplication::restoreOverrideCursor();
2110 // Update the display to update, e.g., the sliders
2111 for(int i=0; i<4; i++)
2112 DisplaySliders(index, i);
2114 QApplication::restoreOverrideCursor();
2115 QString error = "Cannot import the new image.\n";
2116 error += mSlicerManagers[index]->GetLastError().c_str();
2117 QMessageBox::information(this,tr("Problem reading image !"),error);
2119 WindowLevelChanged();
2122 QMessageBox::information(this,tr("Problem reading Overlay !"),"File doesn't exist!");
2124 //------------------------------------------------------------------------------
2127 //------------------------------------------------------------------------------
2128 void vvMainWindow::AddROI(int index, QString file)
2131 // Get slice manager
2135 vvImageReader * mReader = new vvImageReader;
2136 mReader->SetInputFilename(filename.toStdString());
2137 mReader->Update(IMAGE);
2138 if (mReader->GetLastError().size() != 0) {
2139 std::cerr << "Error while reading " << filename.toStdString() << std::endl;
2140 QString error = "Cannot open file \n";
2141 error += mReader->GetLastError().c_str();
2142 QMessageBox::information(this,tr("Reading problem"),error);
2146 vvImage::Pointer roi = mReader->GetOutput();
2148 // Create roi in new tool
2149 vvToolStructureSetManager::AddImage(mCurrentSlicerManager, roi);
2152 //------------------------------------------------------------------------------
2154 //------------------------------------------------------------------------------
2155 void vvMainWindow::SelectFusionImage()
2157 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2159 //check if one fusion image is added
2160 for (int child = 0; child < DataTree->topLevelItem(index)->childCount(); child++)
2161 if ( (DataTree->topLevelItem(index)->child(child)->data(1,Qt::UserRole).toString() == "fusion") ||
2162 (DataTree->topLevelItem(index)->child(child)->data(1,Qt::UserRole).toString() == "fusionSequence") ) {
2163 QString error = "Cannot add more than one fusion image\n";
2164 error += "Please remove first ";
2165 error += DataTree->topLevelItem(index)->child(child)->data(COLUMN_IMAGE_NAME,Qt::DisplayRole).toString();
2166 QMessageBox::information(this,tr("Problem adding fusion image !"),error);
2170 QString Extensions = EXTENSIONS;
2171 Extensions += ";;All Files (*)";
2172 QStringList files = QFileDialog::getOpenFileNames(this,tr("Load Fusion image"),mInputPathName,Extensions);
2173 if (files.isEmpty())
2176 std::vector<std::string> vecFileNames;
2177 for (int i = 0; i < files.size(); i++) {
2178 vecFileNames.push_back(files[i].toStdString());
2180 AddFusionImage(index,vecFileNames,vvImageReader::IMAGE);
2182 //------------------------------------------------------------------------------
2184 //------------------------------------------------------------------------------
2185 void vvMainWindow::ResetTransformationToIdentity()
2187 std::string actorType = DataTree->selectedItems()[0]->data(1,Qt::UserRole).toString().toStdString();
2188 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2189 mSlicerManagers[index]->ResetTransformationToIdentity(actorType);
2192 //------------------------------------------------------------------------------
2194 //------------------------------------------------------------------------------
2195 void vvMainWindow::AddFusionImage(int index, std::vector<std::string> fileNames, vvImageReader::LoadedImageType type)
2197 QString file(fileNames[0].c_str());
2198 if (QFile::exists(file))
2200 mInputPathName = itksys::SystemTools::GetFilenamePath(file.toStdString()).c_str();
2201 itk::ImageIOBase::Pointer reader = itk::ImageIOFactory::CreateImageIO(
2202 file.toStdString().c_str(), itk::ImageIOFactory::ReadMode);
2203 reader->SetFileName(fileNames[0].c_str());
2204 reader->ReadImageInformation();
2205 std::string component = reader->GetComponentTypeAsString(reader->GetComponentType());
2206 int dimension = reader->GetNumberOfDimensions();
2207 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
2208 vvProgressDialog progress("Opening fusion");
2209 qApp->processEvents();
2211 std::string filename = itksys::SystemTools::GetFilenameWithoutExtension(file.toStdString()).c_str();
2212 if (mSlicerManagers[index]->SetFusion(fileNames,dimension, component,type)) {
2213 //create an item in the tree with good settings
2214 QTreeWidgetItem *item = new QTreeWidgetItem();
2215 item->setData(0,Qt::UserRole,file.toStdString().c_str());
2216 item->setData(1,Qt::UserRole,tr("fusion"));
2217 QFileInfo fileinfo(file); //Do not show the path
2218 item->setData(COLUMN_IMAGE_NAME,Qt::DisplayRole,fileinfo.fileName());
2219 item->setToolTip(COLUMN_IMAGE_NAME, mSlicerManagers[index]->GetListOfAbsoluteFilePathInOneString("fusion").c_str());
2220 qApp->processEvents();
2222 for (int j = 1; j <= 4; j++) {
2223 item->setData(j,Qt::CheckStateRole,DataTree->topLevelItem(index)->data(j,Qt::CheckStateRole));
2226 //Create the buttons for reload and close
2227 qApp->processEvents();
2228 QTreePushButton* cButton = new QTreePushButton;
2229 cButton->setItem(item);
2230 cButton->setColumn(COLUMN_CLOSE_IMAGE);
2231 cButton->setToolTip(tr("close image"));
2232 cButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/exit.png")));
2233 connect(cButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2234 this,SLOT(CloseImage(QTreeWidgetItem*, int)));
2236 QTreePushButton* rButton = new QTreePushButton;
2237 rButton->setItem(item);
2238 rButton->setColumn(COLUMN_RELOAD_IMAGE);
2239 rButton->setToolTip(tr("reload image"));
2240 rButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/rotateright.png")));
2241 connect(rButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2242 this,SLOT(ReloadImage(QTreeWidgetItem*, int)));
2244 DataTree->topLevelItem(index)->setExpanded(1);
2245 DataTree->topLevelItem(index)->addChild(item);
2246 DataTree->setItemWidget(item, COLUMN_CLOSE_IMAGE, cButton);
2247 DataTree->setItemWidget(item, COLUMN_RELOAD_IMAGE, rButton);
2249 //set the id of the image
2250 QString id = DataTree->topLevelItem(index)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString();
2251 item->setData(COLUMN_IMAGE_NAME,Qt::UserRole,id.toStdString().c_str());
2253 qApp->processEvents();
2255 QApplication::restoreOverrideCursor();
2257 // Update the display to update, e.g., the sliders
2258 for(int i=0; i<4; i++)
2259 DisplaySliders(index, i);
2261 QApplication::restoreOverrideCursor();
2262 QString error = "Cannot import the new image.\n";
2263 error += mSlicerManagers[index]->GetLastError().c_str();
2264 QMessageBox::information(this,tr("Problem reading image !"),error);
2266 WindowLevelChanged();
2269 QMessageBox::information(this,tr("Problem reading Fusion !"),"File doesn't exist!");
2271 //------------------------------------------------------------------------------
2272 //------------------------------------------------------------------------------
2273 void vvMainWindow::AddLandmarks(int index, std::vector<std::string> files)
2275 if (!landmarksPanel->LoadFromFile(files))
2276 QMessageBox::information(this,tr("Problem reading Landmarks !"),"File doesn't exist!");
2278 landmarksPanel->SetCurrentPath(mInputPathName.toStdString());
2279 landmarksPanel->SetCurrentImage(mSlicerManagers[index]->GetFileName().c_str());
2282 //------------------------------------------------------------------------------
2283 void vvMainWindow::OpenField()
2285 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2286 //check if a vector field has already been added
2287 for (int child = 0; child < DataTree->topLevelItem(index)->childCount(); child++)
2288 if (DataTree->topLevelItem(index)->child(child)->data(1,Qt::UserRole).toString() == "vector") {
2289 QString error = "Cannot add more than one vector field\n";
2290 error += "Please remove first ";
2291 error += DataTree->topLevelItem(index)->child(child)->data(COLUMN_IMAGE_NAME,Qt::DisplayRole).toString();
2292 QMessageBox::information(this,tr("Problem adding vector field!"),error);
2296 QString Extensions = "Images ( *.mhd)";
2297 Extensions += ";;Images ( *.mha)";
2298 Extensions += ";;VF Images ( *.vf)";
2299 Extensions += ";;nii Images ( *.nii)";
2300 Extensions += ";;nrrd Images ( *.nrrd)";
2301 Extensions += ";;nhdr Images ( *.nhdr)";
2302 Extensions += ";;All Files (*)";
2303 QString file = QFileDialog::getOpenFileName(this,tr("Load deformation field"),mInputPathName,Extensions);
2304 if (!file.isEmpty())
2305 AddField(file,index);
2307 //------------------------------------------------------------------------------
2310 //------------------------------------------------------------------------------
2311 void vvMainWindow::AddFieldEntry(QString filename,int index,bool from_disk)
2313 //create an item in the tree with good settings
2314 QTreeWidgetItem *item = new QTreeWidgetItem();
2315 item->setData(0,Qt::UserRole,filename.toStdString().c_str());
2316 item->setData(1,Qt::UserRole,tr("vector"));
2317 QFileInfo fileinfo(filename); //Do not show the path
2318 item->setData(COLUMN_IMAGE_NAME,Qt::DisplayRole,fileinfo.fileName());
2319 item->setToolTip(COLUMN_IMAGE_NAME, mSlicerManagers[index]->GetListOfAbsoluteFilePathInOneString("vector").c_str());
2320 qApp->processEvents();
2322 for (int j = 1; j <= 4; j++) {
2323 item->setData(j,Qt::CheckStateRole,DataTree->topLevelItem(index)->data(j,Qt::CheckStateRole));
2326 //Create the buttons for reload and close
2327 qApp->processEvents();
2328 QTreePushButton* cButton = new QTreePushButton;
2329 cButton->setItem(item);
2330 cButton->setColumn(COLUMN_CLOSE_IMAGE);
2331 cButton->setToolTip(tr("close vector field"));
2332 cButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/exit.png")));
2333 connect(cButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2334 this,SLOT(CloseImage(QTreeWidgetItem*, int)));
2336 QTreePushButton* rButton = new QTreePushButton;
2337 rButton->setItem(item);
2338 rButton->setColumn(COLUMN_RELOAD_IMAGE);
2339 rButton->setToolTip(tr("reload vector field"));
2340 rButton->setEnabled(from_disk);
2341 rButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/rotateright.png")));
2342 connect(rButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2343 this,SLOT(ReloadImage(QTreeWidgetItem*, int)));
2345 DataTree->topLevelItem(index)->setExpanded(1);
2346 DataTree->topLevelItem(index)->addChild(item);
2347 DataTree->setItemWidget(item, COLUMN_RELOAD_IMAGE, rButton);
2348 DataTree->setItemWidget(item, COLUMN_CLOSE_IMAGE, cButton);
2350 //set the id of the image
2351 QString id = DataTree->topLevelItem(index)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString();
2352 item->setData(COLUMN_IMAGE_NAME,Qt::UserRole,id.toStdString().c_str());
2354 qApp->processEvents();
2356 QApplication::restoreOverrideCursor();
2358 //------------------------------------------------------------------------------
2361 //------------------------------------------------------------------------------
2362 void vvMainWindow::AddField(vvImage::Pointer vf,QString file,int index)
2364 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
2365 vvSlicerManager* imageManager = mSlicerManagers[index];
2366 if (imageManager->SetVF(vf,file.toStdString())) {
2367 AddFieldEntry(file,index,false);
2369 QString error = "Cannot import the vector field for this image.\n";
2370 error += imageManager->GetLastError().c_str();
2371 QMessageBox::information(this,tr("Problem reading VF !"),error);
2373 QApplication::restoreOverrideCursor();
2375 //------------------------------------------------------------------------------
2378 //------------------------------------------------------------------------------
2379 void vvMainWindow::AddField(QString file,int index)
2381 if (QFile::exists(file)) {
2382 mInputPathName = itksys::SystemTools::GetFilenamePath(file.toStdString()).c_str();
2384 //init the progress events
2385 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
2386 vvProgressDialog progress("Opening " + file.toStdString());
2387 qApp->processEvents();
2389 //read the vector and put it in the current mSlicerManager
2390 vvSlicerManager* imageManager = mSlicerManagers[index];
2391 qApp->processEvents();
2393 std::string filename = itksys::SystemTools::GetFilenameWithoutExtension(file.toStdString()).c_str();
2394 if (imageManager->SetVF(file.toStdString())) {
2395 imageManager->Render();
2396 AddFieldEntry(file,index,true);
2398 QApplication::restoreOverrideCursor();
2399 QString error = "Cannot import the vector field for this image.\n";
2400 error += imageManager->GetLastError().c_str();
2401 QMessageBox::information(this,tr("Problem reading VF !"),error);
2404 QMessageBox::information(this,tr("Problem reading VF !"),"File doesn't exist!");
2407 //------------------------------------------------------------------------------
2410 //------------------------------------------------------------------------------
2411 void vvMainWindow::SetVFProperty(int subsampling, int scale, int log, int width, double r, double g, double b)
2413 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2414 if (mSlicerManagers[index]->GetSlicer(0)->GetVF()) {
2415 for (int i = 0; i < 4; i++) {
2416 mSlicerManagers[index]->GetSlicer(i)->SetVFSubSampling(subsampling);
2417 mSlicerManagers[index]->GetSlicer(i)->SetVFScale(scale);
2418 mSlicerManagers[index]->GetSlicer(i)->SetVFWidth(width);
2419 mSlicerManagers[index]->GetSlicer(i)->SetVFColor(r,g,b);
2421 mSlicerManagers[index]->GetSlicer(i)->SetVFLog(1);
2423 mSlicerManagers[index]->GetSlicer(i)->SetVFLog(0);
2427 //------------------------------------------------------------------------------
2430 //------------------------------------------------------------------------------
2431 void vvMainWindow::SetOverlayProperty(int color, int linked, double window, double level)
2433 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2434 if (mSlicerManagers[index]->GetSlicer(0)->GetOverlay()) {
2435 mSlicerManagers[index]->SetOverlayColor(color);
2436 mSlicerManagers[index]->SetColorMap(0);
2437 mSlicerManagers[index]->SetLinkOverlayWindowLevel(linked);
2438 mSlicerManagers[index]->SetOverlayColorWindow(window);
2439 mSlicerManagers[index]->SetOverlayColorLevel(level);
2440 mSlicerManagers[index]->Render();
2443 //------------------------------------------------------------------------------
2445 //------------------------------------------------------------------------------
2446 void vvMainWindow::SetFusionProperty(int opacity, int thresOpacity, int colormap,double window, double level, bool showLegend)
2448 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2449 if (mSlicerManagers[index]->GetSlicer(0)->GetFusion()) {
2450 mSlicerManagers[index]->SetFusionColorMap(colormap);
2451 mSlicerManagers[index]->SetFusionOpacity(opacity);
2452 mSlicerManagers[index]->SetFusionThresholdOpacity(thresOpacity);
2453 mSlicerManagers[index]->SetFusionWindow(window);
2454 mSlicerManagers[index]->SetFusionLevel(level);
2455 mSlicerManagers[index]->SetFusionShowLegend(showLegend);
2456 mSlicerManagers[index]->SetColorMap(0);
2457 mSlicerManagers[index]->Render();
2460 //------------------------------------------------------------------------------
2463 //------------------------------------------------------------------------------
2464 void vvMainWindow::SelectFusionSequence()
2466 //get the index of the slicer manager of the main sequence (CT)
2467 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2468 //check if one overlay image is already associated
2469 for (int child = 0; child < DataTree->topLevelItem(index)->childCount(); child++)
2470 if ( (DataTree->topLevelItem(index)->child(child)->data(1,Qt::UserRole).toString() == "fusion") ||
2471 (DataTree->topLevelItem(index)->child(child)->data(1,Qt::UserRole).toString() == "fusionSequence") ) {
2472 QString error = "Cannot add more than one compared image\n";
2473 error += "Please remove first ";
2474 error += DataTree->topLevelItem(index)->child(child)->data(COLUMN_IMAGE_NAME,Qt::DisplayRole).toString();
2475 QMessageBox::information(this,tr("Problem adding compared image !"),error);
2479 QString Extensions = EXTENSIONS;
2480 Extensions += ";;All Files (*)";
2481 QStringList files = QFileDialog::getOpenFileNames(this,tr("Load Overlay image sequence"),mInputPathName,Extensions);
2482 if (files.isEmpty())
2485 std::vector<std::string> vecFileNames;
2486 for (int i = 0; i < files.size(); i++) {
2487 vecFileNames.push_back(files[i].toStdString());
2490 //associate the secondary sequence (US) to the main one
2491 AddFusionSequence(index,vecFileNames,vvImageReader::MERGEDWITHTIME);
2493 //------------------------------------------------------------------------------
2496 //------------------------------------------------------------------------------
2497 void vvMainWindow::SelectFusionSequenceCorrespondances() {
2499 //make sure the index is right?
2500 //in the end, I should attach the temporal data to the right sequence!
2501 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2502 //in case the other sequence got selected, make sure we select the primary sequence
2503 if ( (!mSlicerManagers[index]->GetSlicer(0)->GetFusion()) && mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()>=0 ) {
2504 index = mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager();
2507 //open a dialog box to find a file
2508 //QString Extensions = EXTENSIONS;
2509 QString Extensions = ";;All Files (*)";
2510 QString fileName = QFileDialog::getOpenFileName(this,tr("Load respiratory signal for fused sequence"),mInputPathName,Extensions);
2511 if (fileName.isNull())
2514 //read it as a vector of values
2515 vnl_vector<double> tmpVect;
2518 file.open(fileName.toStdString().c_str());
2519 tmpVect.read_ascii(file);
2522 //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
2523 bool signalOK = true;
2524 unsigned nbFrameMain = mSlicerManagers[index]->GetImage()->GetTransform().size();
2525 unsigned nbFrameSecondary = mSlicerManagers[index]->GetFusionSequenceNbFrames();
2526 std::cout<<"nbFrameMain = "<<nbFrameMain<<", nbFrameSecondary= "<<nbFrameSecondary<<", signal size: "<<tmpVect.size()<<std::endl;
2527 std::vector<unsigned> temporalCorrespondances;
2528 if ( tmpVect.size() == nbFrameMain + nbFrameSecondary ) {
2529 for (unsigned i=0 ; i<tmpVect.size() ; i++) {
2530 if (i<nbFrameMain) { //first part of the file: i -> index in secondary seq.
2531 if ( tmpVect(i)<nbFrameSecondary ) temporalCorrespondances.push_back(tmpVect(i));
2532 else { signalOK=false; break; } //pointing outside the secondary sequence...
2534 else { //first part of the file -> index in secondary seq.
2535 if ( tmpVect(i)<nbFrameMain ) temporalCorrespondances.push_back(tmpVect(i));
2536 else { signalOK=false; break; } //pointing outside the secondary sequence...
2540 else {signalOK=false;}
2541 if (!signalOK) {//else, send a message to signal the failure...
2542 QString error = "The provided temporal correspondances is invalid - check tooltip.\n";
2543 error += "Ignoring file: " + fileName;
2544 QMessageBox::information(this,tr("Problem adding temporal correspondances!"),error);
2548 //for convenience, associate this sequence to both the current slicer manager, and to the linked one
2549 mSlicerManagers[index]->SetFusionSequenceCorrespondances(temporalCorrespondances);
2550 mSlicerManagers[ mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager() ]->SetFusionSequenceCorrespondances(temporalCorrespondances);
2551 overlayPanel->enableFusionSequenceTemporalSync();
2555 //------------------------------------------------------------------------------
2558 //------------------------------------------------------------------------------
2559 //when this function is called index is the slicer manager index corresponding to the main sequence (CT)
2560 //the files behind fileNames points to the data for the secondary sequence
2561 void vvMainWindow::AddFusionSequence(int index, std::vector<std::string> fileNames, vvImageReader::LoadedImageType type)
2563 QString file(fileNames[0].c_str());
2564 if (QFile::exists(file))
2566 mInputPathName = itksys::SystemTools::GetFilenamePath(file.toStdString()).c_str();
2567 itk::ImageIOBase::Pointer reader = itk::ImageIOFactory::CreateImageIO(
2568 file.toStdString().c_str(), itk::ImageIOFactory::ReadMode);
2569 std::sort (fileNames.begin(), fileNames.end());//make sure the files are sorted.
2570 reader->SetFileName(fileNames[0].c_str());
2571 reader->ReadImageInformation();
2572 std::string component = reader->GetComponentTypeAsString(reader->GetComponentType());
2573 int dimension = reader->GetNumberOfDimensions();
2574 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
2575 vvProgressDialog progress("Opening " + file.toStdString());
2576 qApp->processEvents();
2578 std::string filename = itksys::SystemTools::GetFilenameWithoutExtension(file.toStdString()).c_str();
2580 if (mSlicerManagers[index]->SetFusionSequence(fileNames,dimension, component,type)) {
2581 //create an item in the tree with good settings
2582 QTreeWidgetItem *item = new QTreeWidgetItem();
2583 item->setData(0,Qt::UserRole,file.toStdString().c_str());
2584 item->setData(1,Qt::UserRole,tr("fusionSequence"));
2586 QFileInfo fileinfo(file); //Do not show the path
2587 item->setData(COLUMN_IMAGE_NAME,Qt::DisplayRole,fileinfo.fileName());
2588 item->setToolTip(COLUMN_IMAGE_NAME, mSlicerManagers[index]->GetListOfAbsoluteFilePathInOneString("fusionSequence").c_str());
2589 qApp->processEvents();
2590 for (int j = 1; j <= 4; j++) {
2591 item->setData(j,Qt::CheckStateRole,DataTree->topLevelItem(index)->data(j,Qt::CheckStateRole));
2594 //Create the buttons for reload and close
2595 qApp->processEvents();
2596 QTreePushButton* cButton = new QTreePushButton;
2597 cButton->setItem(item);
2598 cButton->setColumn(COLUMN_CLOSE_IMAGE);
2599 cButton->setToolTip(tr("close image"));
2600 cButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/exit.png")));
2601 connect(cButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2602 this,SLOT(CloseImage(QTreeWidgetItem*, int)));
2604 QTreePushButton* rButton = new QTreePushButton;
2605 rButton->setItem(item);
2606 rButton->setColumn(COLUMN_RELOAD_IMAGE);
2607 rButton->setToolTip(tr("reload image"));
2608 rButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/rotateright.png")));
2609 connect(rButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2610 this,SLOT(ReloadImage(QTreeWidgetItem*, int)));
2612 DataTree->topLevelItem(index)->setExpanded(1);
2613 DataTree->topLevelItem(index)->addChild(item);
2614 DataTree->setItemWidget(item, COLUMN_CLOSE_IMAGE, cButton);
2615 DataTree->setItemWidget(item, COLUMN_RELOAD_IMAGE, rButton);
2617 //store the original transform matrix
2618 int indexParent = GetSlicerIndexFromItem( DataTree->topLevelItem(index) );
2619 mSlicerManagers[indexParent]->SetFusionSequenceMainTransformMatrix( mSlicerManagers[indexParent]->GetSlicer(0)->GetImage()->GetTransform()[0]->GetMatrix() );
2621 //set the id of the image
2622 QString id = DataTree->topLevelItem(index)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString();
2623 item->setData(COLUMN_IMAGE_NAME,Qt::UserRole,id.toStdString().c_str());
2625 qApp->processEvents();
2627 //ImageInfoChanged();
2629 QApplication::restoreOverrideCursor();
2630 // Update the display to update, e.g., the sliders
2631 for(int i=0; i<4; i++)
2632 DisplaySliders(index, i);
2635 //This loads the secondary sequence (US) as an independent sequence
2636 LoadImages(fileNames, type);
2637 //reset the transforms to identity
2638 //FIX -- and set the thickness of the US slices to a large value (necessary for visualization purposes...)
2639 double sp_x, sp_y, sp_z;
2640 mSlicerManagers[indexParent]->GetImage()->GetVTKImages()[0]->GetSpacing(sp_x, sp_y, sp_z);
2641 sp_z = std::max(sp_x, std::max(sp_y, sp_z)) + 0.5; //
2642 for (unsigned i=0 ; i<mSlicerManagers.back()->GetImage()->GetTransform().size() ; i++) {
2643 sp_x = mSlicerManagers.back()->GetImage()->GetVTKImages()[i]->GetSpacing()[0];
2644 sp_y = mSlicerManagers.back()->GetImage()->GetVTKImages()[i]->GetSpacing()[1];
2645 mSlicerManagers.back()->GetImage()->GetVTKImages()[i]->SetSpacing( sp_x, sp_y, sp_z);
2646 mSlicerManagers.back()->GetImage()->GetTransform()[i]->Identity();
2647 mSlicerManagers.back()->GetImage()->GetTransform()[i]->Update();
2650 //automatically link both images...
2651 AddLink(mSlicerManagers[indexParent]->GetId().c_str(), mSlicerManagers.back()->GetId().c_str(), false);
2653 //tie the main and secondary sequences by raising flags and informing each another of their respective SlicerManager indices
2654 mSlicerManagers[indexParent]->SetFusionSequenceIndexOfLinkedManager(mSlicerManagers.size()-1);
2655 mSlicerManagers[indexParent]->SetFusionSequenceInvolvmentCode(0); //main sequence
2656 mSlicerManagers.back()->SetFusionSequenceIndexOfLinkedManager(indexParent);
2657 mSlicerManagers.back()->SetFusionSequenceInvolvmentCode(1); //secondary sequence
2658 for (unsigned i=0 ; i<4 ; i++) {
2659 mSlicerManagers.back()->GetSlicer(i)->SetFusionSequenceCode(1); //flag the slicers of the secondary sequence
2663 QApplication::restoreOverrideCursor();
2664 QString error = "Cannot import the new image.\n";
2665 error += mSlicerManagers[index]->GetLastError().c_str();
2666 QMessageBox::information(this,tr("Problem reading image !"),error);
2668 WindowLevelChanged();
2669 ImageInfoChanged(); //this internally calls WindowLevelChanged...
2672 QMessageBox::information(this,tr("Problem reading fusion sequence !"),"File doesn't exist!");
2677 //------------------------------------------------------------------------------
2680 //------------------------------------------------------------------------------
2681 //fusionSequenceFrameIndex and fusionSequenceNbFrames are relative to the secondary sequence (US)
2682 void vvMainWindow::SetFusionSequenceProperty(int fusionSequenceFrameIndex, bool spatialSyncFlag, unsigned int fusionSequenceNbFrames, bool temporalSyncFlag)
2684 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2686 if (!mSlicerManagers[index]->IsInvolvedInFusionSequence()) return;
2688 //check if the focus moved to the linked sequence, and in this case, select the master sequence instead
2689 if (!mSlicerManagers[index]->IsMainSequenceOfFusionSequence()) {
2690 index = mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager();
2692 int secondaryIndex = mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager();
2693 if (secondaryIndex==-1) return; //this should never happen
2694 if ( (!mSlicerManagers[index]->IsMainSequenceOfFusionSequence()) ||
2695 (!mSlicerManagers[secondaryIndex]->IsSecondarySequenceOfFusionSequence()) )
2696 {return;} //this should never happen, raise an exception?
2698 if (mSlicerManagers[index]->GetSlicer(0)->GetFusion()) {
2700 //First, if the spatialSync button is unchecked, then reposition the parent sequence (CT) in its original coordinate frame
2701 if ( (!spatialSyncFlag) && (mSlicerManagers[index]->GetFusionSequenceSpatialSyncFlag()) ) {
2702 for ( unsigned i=0 ; i<mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform().size() ; i++ ) {
2703 mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform()[i]->SetMatrix( mSlicerManagers[index]->GetFusionSequenceMainTransformMatrix() );
2704 mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform()[i]->Update();
2707 for (int i=0; i<mSlicerManagers[index]->GetNumberOfSlicers(); i++) {
2708 mSlicerManagers[index]->GetSlicer(i)->ForceUpdateDisplayExtent();
2709 mSlicerManagers[index]->GetSlicer(i)->Render();
2713 //then, update the property values in the slicer manager
2714 mSlicerManagers[index]->SetFusionSequenceLength(fusionSequenceNbFrames);
2715 mSlicerManagers[index]->SetFusionSequenceSpatialSyncFlag(spatialSyncFlag);
2716 mSlicerManagers[index]->SetFusionSequenceTemporalSyncFlag(temporalSyncFlag);
2717 mSlicerManagers[index]->SetFusionSequenceFrameIndex(fusionSequenceFrameIndex);
2719 //select the right frame of the US sequence
2720 mSlicerManagers[index]->SetFusionSequenceTSlice(fusionSequenceFrameIndex); //here, I should only update the overlayed sequence
2721 mSlicerManagers[secondaryIndex]->SetTSlice(fusionSequenceFrameIndex, false); //this should update the secondary sequence (individual version)
2723 //update the horizontal sliders of the main window
2724 overlayPanel->updateFusionSequenceSliderValueFromWindow(fusionSequenceFrameIndex, false);
2726 if (spatialSyncFlag) { //reslice the CT
2728 if (temporalSyncFlag) { //do the temporal synchronisation
2729 int mainSequenceFrameIndex=0;
2730 //estimate the TSlice to set to the CT
2731 unsigned nbFramesMain = mSlicerManagers[index]->GetImage()->GetTransform().size();
2732 mainSequenceFrameIndex = mSlicerManagers[index]->GetFusionSequenceCorrespondances()[ nbFramesMain + fusionSequenceFrameIndex];
2734 mSlicerManagers[index]->SetTSlice(mainSequenceFrameIndex, false);
2735 //warning, there is a loopback, and modification of the TSlice in main sequence forces an update of the TSlice in secondary, etc...
2739 //Set the transform matrix of the parent sequence (typically CT / 4DCT)
2740 vtkSmartPointer<vtkMatrix4x4> tmpMat = vtkSmartPointer<vtkMatrix4x4>::New();
2741 vtkMatrix4x4::Invert( mSlicerManagers[index]->GetFusionSequenceInitialTransformMatrixAtFrame(fusionSequenceFrameIndex), tmpMat );
2742 for ( unsigned i=0 ; i<mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform().size() ; i++ ) {
2743 mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform()[i]->SetMatrix( mSlicerManagers[index]->GetFusionSequenceMainTransformMatrix() );
2744 mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform()[i]->PreMultiply();
2745 mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform()[i]->Concatenate( tmpMat );
2746 mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform()[i]->Update();
2749 for (int i=0; i<mSlicerManagers[index]->GetNumberOfSlicers(); i++) {
2750 mSlicerManagers[index]->GetSlicer(i)->ForceUpdateDisplayExtent();
2751 mSlicerManagers[index]->GetSlicer(i)->Render();
2758 //------------------------------------------------------------------------------
2761 //------------------------------------------------------------------------------
2762 void vvMainWindow::SaveAs()
2764 if (DataTree->selectedItems()[0]->data(1,Qt::UserRole).toString() == "vector") {
2765 QMessageBox::warning(this,tr("Unsupported type"),tr("Sorry, saving a vector field is unsupported for the moment"));
2769 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2770 int dimension = mSlicerManagers[index]->GetDimension();
2771 QStringList OutputListeFormat;
2772 OutputListeFormat.clear();
2773 if (dimension == 1) {
2774 OutputListeFormat.push_back(".mhd");
2775 OutputListeFormat.push_back(".mha");
2777 if (dimension == 2) {
2778 OutputListeFormat.push_back(".bmp");
2779 OutputListeFormat.push_back(".png");
2780 OutputListeFormat.push_back(".jpeg");
2781 OutputListeFormat.push_back(".tif");
2782 OutputListeFormat.push_back(".mhd");
2783 OutputListeFormat.push_back(".mha");
2784 OutputListeFormat.push_back(".hdr");
2785 OutputListeFormat.push_back(".vox");
2786 } else if (dimension == 3) {
2787 OutputListeFormat.push_back(".mhd");
2788 OutputListeFormat.push_back(".mha");
2789 OutputListeFormat.push_back(".nii");
2790 OutputListeFormat.push_back(".nrrd");
2791 OutputListeFormat.push_back(".nhdr");
2792 OutputListeFormat.push_back(".hdr");
2793 OutputListeFormat.push_back(".vox");
2794 } else if (dimension == 4) {
2795 OutputListeFormat.push_back(".mhd");
2796 OutputListeFormat.push_back(".mha");
2797 OutputListeFormat.push_back(".nii");
2798 OutputListeFormat.push_back(".nrrd");
2799 OutputListeFormat.push_back(".nhdr");
2801 QString Extensions = "AllFiles(*.*)";
2802 for (int i = 0; i < OutputListeFormat.count(); i++) {
2803 Extensions += ";;Images ( *";
2804 Extensions += OutputListeFormat[i];
2807 QString fileName = QFileDialog::getSaveFileName(this,
2809 mSlicerManagers[index]->GetFileName().c_str(),
2811 if (!fileName.isEmpty()) {
2812 std::string fileformat = itksys::SystemTools::GetFilenameLastExtension(fileName.toStdString());
2813 if (OutputListeFormat.contains(
2814 fileformat.c_str())) {
2815 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
2816 std::string action = "Saving";
2817 vvProgressDialog progress("Saving "+fileName.toStdString());
2818 qApp->processEvents();
2819 vvImageWriter::Pointer writer = vvImageWriter::New();
2820 writer->SetOutputFileName(fileName.toStdString());
2821 writer->SetInput(mSlicerManagers[index]->GetImage());
2823 // Check on transform and prompt user
2824 writer->SetSaveTransform(false);
2826 for(int i=0; i<4; i++)
2827 for(int j=0; j<4; j++) {
2828 // TODO SR and BP: check on the list of transforms and not the first only
2829 double elt = mSlicerManagers[index]->GetImage()->GetTransform()[0]->GetMatrix()->GetElement(i,j);
2836 QString warning = "The image has an associated linear transform. Do you want to save it along?";
2837 QMessageBox msgBox(QMessageBox::Warning, tr("Save transform"), warning, 0, this);
2838 msgBox.addButton(tr("Yes"), QMessageBox::AcceptRole);
2839 msgBox.addButton(tr("No"), QMessageBox::RejectRole);
2840 if (msgBox.exec() == QMessageBox::AcceptRole)
2841 writer->SetSaveTransform(true);
2845 QApplication::restoreOverrideCursor();
2846 if (writer->GetLastError().size()) {
2847 QString error = "Saving did not succeed\n";
2848 error += writer->GetLastError().c_str();
2849 QMessageBox::information(this,tr("Saving Problem"),error);
2853 QString error = fileformat.c_str();
2854 if (error.isEmpty())
2855 error += "no file format specified !";
2857 error += " format unknown !!!\n";
2858 QMessageBox::information(this,tr("Saving Problem"),error);
2863 //------------------------------------------------------------------------------
2865 //------------------------------------------------------------------------------
2866 void vvMainWindow::SaveCurrentState()
2868 QString Extensions = "XML Files(*.xml)";
2869 QString fileName = QFileDialog::getSaveFileName(this,
2870 tr("Save Current Window State"),
2874 SaveCurrentStateAs(fileName.toStdString());
2876 //------------------------------------------------------------------------------
2878 //------------------------------------------------------------------------------
2879 void vvMainWindow::SaveCurrentStateAs(const std::string& stateFile)
2881 vvSaveState save_state;
2882 save_state.Run(this, stateFile);
2885 //------------------------------------------------------------------------------
2886 void vvMainWindow::ReadSavedState()
2888 QString Extensions = "XML Files(*.xml)";
2889 QString fileName = QFileDialog::getOpenFileName(this,
2890 tr("Load Window State"),
2894 ReadSavedStateFile(fileName.toStdString());
2896 //------------------------------------------------------------------------------
2898 //------------------------------------------------------------------------------
2899 void vvMainWindow::ReadSavedStateFile(const std::string& stateFile)
2901 vvReadState read_state;
2902 read_state.Run(this, stateFile);
2904 //------------------------------------------------------------------------------
2906 //------------------------------------------------------------------------------
2907 void vvMainWindow::LinkAllImages()
2909 linkPanel->linkAll();
2912 //------------------------------------------------------------------------------
2913 void vvMainWindow::AddLink(QString image1,QString image2,bool fromPanel)
2916 // delegate to linkPanel if call came from elsewhere...
2917 linkPanel->addLinkFromIds(image1, image2);
2921 unsigned int sm1 = 0;
2922 unsigned int sm2 = 0;
2924 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
2925 if (image1.toStdString() == mSlicerManagers[i]->GetId()) {
2926 mSlicerManagers[i]->AddLink(image2.toStdString());
2929 if (image2.toStdString() == mSlicerManagers[i]->GetId()) {
2930 mSlicerManagers[i]->AddLink(image1.toStdString());
2935 if (linkPanel->isLinkAll()) {
2936 emit UpdateLinkedNavigation(mSlicerManagers[sm1]->GetId(), mSlicerManagers[mCurrentPickedImageIndex], mSlicerManagers[mCurrentPickedImageIndex]->GetSlicer(0));
2937 emit UpdateLinkedNavigation(mSlicerManagers[sm2]->GetId(), mSlicerManagers[mCurrentPickedImageIndex], mSlicerManagers[mCurrentPickedImageIndex]->GetSlicer(0));
2939 emit UpdateLinkedNavigation(mSlicerManagers[sm2]->GetId(), mSlicerManagers[sm1], mSlicerManagers[sm1]->GetSlicer(0));
2943 //------------------------------------------------------------------------------
2946 //------------------------------------------------------------------------------
2947 void vvMainWindow::RemoveLink(QString image1,QString image2)
2949 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
2950 if (image1.toStdString() == mSlicerManagers[i]->GetId()) {
2951 mSlicerManagers[i]->RemoveLink(image2.toStdString());
2953 if (image2.toStdString() == mSlicerManagers[i]->GetId()) {
2954 mSlicerManagers[i]->RemoveLink(image1.toStdString());
2958 //------------------------------------------------------------------------------
2960 //------------------------------------------------------------------------------
2961 void vvMainWindow::ChangeImageWithIndexOffset(vvSlicerManager *sm, int slicer, int offset)
2963 if(mSlicerManagers.size()==1)
2967 while(sm != mSlicerManagers[index])
2969 index = (index+offset+mSlicerManagers.size()) % mSlicerManagers.size();
2971 QTreeWidgetItem* item = GetItemFromSlicerManager(mSlicerManagers[index]);
2972 item->setData(slicer+1,Qt::CheckStateRole,2); //change checkbox
2973 CurrentImageChanged(mSlicerManagers[index]->GetId()); //select new image
2974 DisplayChanged(item,slicer+1);
2976 //------------------------------------------------------------------------------
2977 void vvMainWindow::HorizontalSliderMoved(int value,int column, int slicer_index)
2979 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
2980 if (DataTree->topLevelItem(i)->data(column,Qt::CheckStateRole).toInt() > 1) {
2981 //i is the SlicerManager that is in charge of this slicer.
2982 if (mSlicerManagers[i]->IsInvolvedInFusionSequence()) {
2983 //if the slicerManager is involved in a fusionSequence as the secondary sequence, then update the slider position in the overlay panel and everything accordingly
2984 if (mSlicerManagers[i]->IsSecondarySequenceOfFusionSequence()) {
2985 overlayPanel->updateFusionSequenceSliderValueFromWindow(value, true);
2987 else { //if this is the primary sequence that has been modified
2988 if (mSlicerManagers[i]->GetFusionSequenceTemporalSyncFlag()) {
2989 //WARNING: for some obscure reason, there are problems when accessing mSlicerManagers[mSlicerManagers[i]->GetFusionSequenceIndexOfLinkedManager()]->GetFusionSequenceFrameIndex();
2991 int estimatedValue=0;
2992 //estimate a corresponding time index for the secondary (US) sequence, and update it accordingly.
2993 estimatedValue = mSlicerManagers[i]->GetFusionSequenceCorrespondances()[ value ];
2994 //TODO: at the moment, there is a loop in TSlice modifications
2995 //modifying sequence 1 causes seq 2 to update, which in turns update seq1...
2996 //I disable control on seq1 at the moment.
2997 //overlayPanel->updateFusionSequenceSliderValueFromWindow(estimatedValue, true);
3002 for (int j = 0; j < 4; j++) {
3003 mSlicerManagers[i]->SetTSliceInSlicer(value,j);
3005 mSlicerManagers[i]->GetSlicer(slicer_index)->Render();
3010 //------------------------------------------------------------------------------
3013 //------------------------------------------------------------------------------
3014 void vvMainWindow::NOHorizontalSliderMoved()
3016 // if (mCurrentTime == NOHorizontalSlider->value()) return;
3017 HorizontalSliderMoved(NOHorizontalSlider->value(),COLUMN_UL_VIEW,0);
3018 // mCurrentTime = NOHorizontalSlider->value();
3020 //------------------------------------------------------------------------------
3023 //------------------------------------------------------------------------------
3024 void vvMainWindow::NEHorizontalSliderMoved()
3026 // if (mCurrentTime == NEHorizontalSlider->value()) return;
3027 HorizontalSliderMoved(NEHorizontalSlider->value(),COLUMN_UR_VIEW,1);
3028 // mCurrentTime = NEHorizontalSlider->value();
3030 //------------------------------------------------------------------------------
3033 //------------------------------------------------------------------------------
3034 void vvMainWindow::SOHorizontalSliderMoved()
3036 // if (mCurrentTime == SOHorizontalSlider->value()) return;
3037 HorizontalSliderMoved(SOHorizontalSlider->value(),COLUMN_DL_VIEW,2);
3038 // mCurrentTime = SOHorizontalSlider->value();
3040 //------------------------------------------------------------------------------
3043 //------------------------------------------------------------------------------
3044 void vvMainWindow::SEHorizontalSliderMoved()
3046 // if (mCurrentTime == SEHorizontalSlider->value()) return;
3047 HorizontalSliderMoved(SEHorizontalSlider->value(),COLUMN_DR_VIEW,3);
3048 // mCurrentTime = SEHorizontalSlider->value();
3050 //------------------------------------------------------------------------------
3052 //------------------------------------------------------------------------------
3053 void vvMainWindow::NOVerticalSliderChanged()
3055 static int value=-1;
3056 if (value == NOVerticalSlider->value()) return;
3057 else value = NOVerticalSlider->value();
3058 // int value = NOVerticalSlider->value();
3059 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
3060 if (DataTree->topLevelItem(i)->data(COLUMN_UL_VIEW,Qt::CheckStateRole).toInt() > 1) {
3061 if (mSlicerManagers[i]->GetSlicer(0)->GetSlice() != value) {
3062 mSlicerManagers[i]->GetSlicer(0)->SetSlice(value);
3063 mSlicerManagers[i]->VerticalSliderHasChanged(0, value);
3065 // If nor Update/Render -> slider not work
3066 // only render = ok navigation, but for contour Update needed but slower ?
3068 mSlicerManagers[i]->UpdateSlice(0); // <-- DS add this. Not too much update ? YES. but needed for ImageContour ...
3069 //mSlicerManagers[i]->GetSlicer(0)->Render(); // <-- DS add this, needed for contour, seems ok ? not too slow ?
3075 //------------------------------------------------------------------------------
3078 //------------------------------------------------------------------------------
3079 void vvMainWindow::NEVerticalSliderChanged()
3081 static int value=-1;
3082 if (value == NEVerticalSlider->value()) return;
3083 else value = NEVerticalSlider->value();
3084 // int value = NEVerticalSlider->value();
3085 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
3086 if (DataTree->topLevelItem(i)->data(COLUMN_UR_VIEW,Qt::CheckStateRole).toInt() > 1) {
3087 if (mSlicerManagers[i]->GetSlicer(1)->GetSlice() != value) {
3088 mSlicerManagers[i]->GetSlicer(1)->SetSlice(value);
3089 mSlicerManagers[i]->VerticalSliderHasChanged(1, value);
3090 mSlicerManagers[i]->UpdateSlice(1);
3091 //mSlicerManagers[i]->GetSlicer(1)->Render(); // <-- DS add this, needed for contour, seems ok ? not too slow ?
3097 //------------------------------------------------------------------------------
3100 //------------------------------------------------------------------------------
3101 void vvMainWindow::SOVerticalSliderChanged()
3103 static int value=-1;
3104 if (value == SOVerticalSlider->value()) return;
3105 else value = SOVerticalSlider->value();
3106 //int value = SOVerticalSlider->value();
3107 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
3108 if (DataTree->topLevelItem(i)->data(COLUMN_DL_VIEW,Qt::CheckStateRole).toInt() > 1) {
3109 if (mSlicerManagers[i]->GetSlicer(2)->GetSlice() != value) {
3110 mSlicerManagers[i]->GetSlicer(2)->SetSlice(value);
3111 mSlicerManagers[i]->VerticalSliderHasChanged(2, value);
3112 mSlicerManagers[i]->UpdateSlice(2);
3113 //mSlicerManagers[i]->GetSlicer(2)->Render(); // <-- DS add this, needed for contour, seems ok ? not too slow ?
3115 // else { DD("avoid SOVerticalSlider slicer update"); }
3120 //------------------------------------------------------------------------------
3123 //------------------------------------------------------------------------------
3124 void vvMainWindow::SEVerticalSliderChanged()
3126 static int value=-1;
3127 if (value == SEVerticalSlider->value()) return;
3128 else value = SEVerticalSlider->value();
3129 // int value = SEVerticalSlider->value();
3130 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
3131 if (DataTree->topLevelItem(i)->data(COLUMN_DR_VIEW,Qt::CheckStateRole).toInt() > 1) {
3132 if (mSlicerManagers[i]->GetSlicer(3)->GetSlice() != value) {
3133 mSlicerManagers[i]->GetSlicer(3)->SetSlice(value);
3134 mSlicerManagers[i]->VerticalSliderHasChanged(3, value);
3135 mSlicerManagers[i]->UpdateSlice(3);
3136 //mSlicerManagers[i]->GetSlicer(3)->Render(); // <-- DS add this, needed for contour, seems ok ? not too slow ?
3142 //------------------------------------------------------------------------------
3145 //------------------------------------------------------------------------------
3146 void vvMainWindow::UpdateSlice(int slicer, int slice)
3148 // DD("vvMainWindow::UpdateSlice");
3152 // if (slice != NOVerticalSlider->value())
3153 NOVerticalSlider->setValue(slice);
3156 NEVerticalSlider->setValue(slice);
3159 SOVerticalSlider->setValue(slice);
3162 SEVerticalSlider->setValue(slice);
3166 // DD("vvMainWindow:UpdateSlice END");
3168 //------------------------------------------------------------------------------
3171 //------------------------------------------------------------------------------
3172 void vvMainWindow::UpdateTSlice(int slicer, int slice, int code)
3174 //FusionSequence: the slider value should be updated for slicers which show the same sequence as requested
3175 bool doUpdate=false;
3176 if (code==-1) doUpdate=true;
3178 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
3179 if (DataTree->topLevelItem(i)->data(slicer+1,Qt::CheckStateRole).toInt() > 1) {
3180 //i is the active SlicerManager
3181 if (mSlicerManagers[i]->GetFusionSequenceInvolvmentCode()==code) doUpdate=true;
3186 if (!doUpdate) return;
3190 if (NOHorizontalSlider->value()==slice) return;
3191 NOHorizontalSlider->setValue(slice);
3194 if (NEHorizontalSlider->value()==slice) return;
3195 NEHorizontalSlider->setValue(slice);
3198 if (SOHorizontalSlider->value()==slice) return;
3199 SOHorizontalSlider->setValue(slice);
3202 if (SEHorizontalSlider->value()==slice) return;
3203 SEHorizontalSlider->setValue(slice);
3207 //------------------------------------------------------------------------------
3210 //------------------------------------------------------------------------------
3211 void vvMainWindow::UpdateSliceRange(int slicer, int min, int max, int tmin, int tmax)
3213 //int position = int((min+max)/2);
3214 int position = mSlicerManagers[mCurrentPickedImageIndex]->GetSlicer(slicer)->GetSlice();
3216 NOVerticalSlider->setRange(min,max);
3217 NOHorizontalSlider->setRange(tmin,tmax);
3218 NOVerticalSlider->setValue(position);
3219 } else if (slicer == 1) {
3220 NEVerticalSlider->setRange(min,max);
3221 NEHorizontalSlider->setRange(tmin,tmax);
3222 NEVerticalSlider->setValue(position);
3223 } else if (slicer == 2) {
3224 SOVerticalSlider->setRange(min,max);
3225 SOHorizontalSlider->setRange(tmin,tmax);
3226 SOVerticalSlider->setValue(position);
3227 } else if (slicer == 3) {
3228 SEVerticalSlider->setRange(min,max);
3229 SEHorizontalSlider->setRange(tmin,tmax);
3230 SEVerticalSlider->setValue(position);
3233 //------------------------------------------------------------------------------
3236 //------------------------------------------------------------------------------
3237 void vvMainWindow::SaveNOScreenshot()
3239 SaveScreenshot(NOViewWidget);
3241 //------------------------------------------------------------------------------
3244 //------------------------------------------------------------------------------
3245 void vvMainWindow::SaveNEScreenshot()
3247 SaveScreenshot(NEViewWidget);
3249 //------------------------------------------------------------------------------
3252 //------------------------------------------------------------------------------
3253 void vvMainWindow::SaveSOScreenshot()
3255 SaveScreenshot(SOViewWidget);
3257 //------------------------------------------------------------------------------
3260 //------------------------------------------------------------------------------
3261 void vvMainWindow::SaveSEScreenshot()
3263 SaveScreenshot(SEViewWidget);
3265 //------------------------------------------------------------------------------
3268 //------------------------------------------------------------------------------
3269 void vvMainWindow::SaveScreenshotAllSlices()
3271 QVTKWidget *widget = NOViewWidget;
3273 int index = 0;// GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
3274 vvSlicerManager * SM = mSlicerManagers[index];
3275 vvImage * image = SM->GetImage();
3276 vvSlicer * slicer = SM->GetSlicer(0);
3277 int orientation = slicer->GetOrientation();
3278 int nbSlices = image->GetSize()[orientation];
3279 vtkSmartPointer<vtkRenderWindow> renderWindow = widget->GetRenderWindow();
3281 // Select filename base
3282 QString filename = QFileDialog::getSaveFileName(this,
3283 tr("Save As (filename will be completed by slice number)"),
3284 itksys::SystemTools::GetFilenamePath(mSlicerManagers[index]->GetFileName()).c_str(),
3285 "Images( *.png);;Images( *.jpg)");
3288 for(int i=0; i<nbSlices; i++) {
3290 slicer->SetSlice(i); // -> change the slice of the current slicer
3291 SM->UpdateSlice(0); // --> this one emit UpdateSlice
3292 QCoreApplication::flush(); // -> needed to force display of contours
3295 vtkSmartPointer<vtkWindowToImageFilter> windowToImageFilter = vtkSmartPointer<vtkWindowToImageFilter>::New();
3296 windowToImageFilter->SetInput(renderWindow);
3297 windowToImageFilter->SetMagnification(1);
3298 windowToImageFilter->SetInputBufferTypeToRGBA(); //also record the alpha (transparency) channel
3299 windowToImageFilter->Update();
3301 vtkSmartPointer<vtkPNGWriter> writer = vtkSmartPointer<vtkPNGWriter>::New();
3302 std::string fn = itksys::SystemTools::GetFilenameWithoutLastExtension(filename.toStdString());
3303 std::string num = clitk::toString(i);
3304 if (i<10) num = "0"+num;
3305 if (i<100) num = "0"+num;
3306 if (i<1000) num = "0"+num;
3308 fn = itksys::SystemTools::GetFilenamePath(filename.toStdString()) + "/"+ fn
3309 + "_" + num + itksys::SystemTools::GetFilenameLastExtension(filename.toStdString());
3310 writer->SetFileName(fn.c_str());
3311 writer->SetInput(windowToImageFilter->GetOutput());
3315 //------------------------------------------------------------------------------
3318 //------------------------------------------------------------------------------
3319 void vvMainWindow::SaveScreenshot(QVTKWidget *widget)
3321 QString Extensions = "Images( *.png);;";
3322 Extensions += "Images( *.jpg);;";
3323 Extensions += "Images( *.bmp);;";
3324 Extensions += "Images( *.tif);;";
3325 Extensions += "Images( *.ppm)";
3326 #if defined(VTK_USE_FFMPEG_ENCODER) || defined(VTK_USE_VIDEO_FOR_WINDOWS)
3327 Extensions += ";;Video( *.avi)";
3329 #ifdef VTK_USE_MPEG2_ENCODER
3330 Extensions += ";;Video( *.mpg)";
3332 #ifdef CLITK_EXPERIMENTAL
3333 Extensions += ";;Video( *.gif)";
3336 int smIndex=GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
3337 QString fileName = QFileDialog::getSaveFileName(this,
3339 itksys::SystemTools::GetFilenamePath(mSlicerManagers[smIndex]->GetFileName()).c_str(),
3342 if (!fileName.isEmpty()) {
3343 vtkSmartPointer<vtkWindowToImageFilter> w2i = vtkSmartPointer<vtkWindowToImageFilter>::New();
3344 w2i->SetInput(widget->GetRenderWindow());
3346 vtkImageData *image = w2i->GetOutput();
3348 std::string ext(itksys::SystemTools::GetFilenameLastExtension(fileName.toStdString()));
3351 vtkImageWriter *imgwriter = NULL;
3353 imgwriter = vtkBMPWriter::New();
3354 else if (ext==".tif")
3355 imgwriter = vtkTIFFWriter::New();
3356 else if (ext==".ppm")
3357 imgwriter = vtkPNMWriter::New();
3358 else if (ext==".png")
3359 imgwriter = vtkPNGWriter::New();
3360 else if (ext==".jpg")
3361 imgwriter = vtkJPEGWriter::New();
3363 // Snapshot image if not null
3364 if(imgwriter!=NULL) {
3365 imgwriter->SetInput(image);
3366 imgwriter->SetFileName(fileName.toStdString().c_str());
3372 vtkGenericMovieWriter *vidwriter = NULL;
3373 #if CLITK_EXPERIMENTAL == 1
3375 vvAnimatedGIFWriter *gif = vvAnimatedGIFWriter::New();
3380 int fps = QInputDialog::getInteger(this, tr("Number of frames per second"),
3381 tr("FPS:"), 5, 0, 1000, 1, &ok);
3386 int loops = QInputDialog::getInteger(this, tr("Loops"),
3387 tr("Number of loops (0 means infinite):"), 0, 0, 1000000000, 1, &ok);
3389 gif->SetLoops(loops);
3392 QString msg = "Would you like to activate dithering?";
3393 QMessageBox msgBox(QMessageBox::Question, tr("Dithering"),msg, 0, this);
3394 msgBox.addButton(tr("Yes"), QMessageBox::AcceptRole);
3395 msgBox.addButton(tr("No"), QMessageBox::RejectRole);
3396 gif->SetDither(msgBox.exec() == QMessageBox::AcceptRole);
3399 #ifdef VTK_USE_VIDEO_FOR_WINDOWS
3401 vtkAVIWriter *mpg = vtkAVIWriter::New();
3405 int fps = QInputDialog::getInteger(this, tr("Number of frames per second"),
3406 tr("FPS:"), 5, 0, 1024, 1, &ok);
3412 #ifdef VTK_USE_FFMPEG_ENCODER
3414 vtkFFMPEGWriter *mpg = vtkFFMPEGWriter::New();
3418 int fps = QInputDialog::getInteger(this, tr("Number of frames per second"),
3419 tr("FPS:"), 5, 0, 1024, 1, &ok);
3423 mpg->SetBitRateTolerance(int(ceil(12.0*1024*1024/fps)));
3426 #ifdef VTK_USE_MPEG2_ENCODER
3428 vtkMPEG2Writer *mpg = vtkMPEG2Writer::New();
3433 // Take video if not null
3434 if(vidwriter!=NULL){
3435 vidwriter->SetInput(image);
3436 vidwriter->SetFileName(fileName.toStdString().c_str());
3438 int nSlice = mSlicerManagers[smIndex]->GetSlicer(0)->GetTMax();
3439 for(int i=0; i<=nSlice; i++) {
3440 mSlicerManagers[smIndex]->SetNextTSlice(0);
3441 vtkSmartPointer<vtkWindowToImageFilter> w2i = vtkSmartPointer<vtkWindowToImageFilter>::New();
3442 w2i->SetInput(widget->GetRenderWindow());
3444 vidwriter->SetInput(w2i->GetOutput());
3448 vidwriter->Delete();
3452 QMessageBox::information(this,tr("Problem saving screenshot !"),tr("Cannot save image.\nPlease set a file extension !!!"));
3455 //------------------------------------------------------------------------------
3458 //------------------------------------------------------------------------------
3459 void vvMainWindow::GoToCursor()
3461 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
3462 for (int column = 1; column < 5; column++) {
3463 if (DataTree->selectedItems()[0]->data(column,Qt::CheckStateRole).toInt() > 1) {
3464 double* cursorPos = mSlicerManagers[index]->GetSlicer(column-1)->GetCursorPosition();
3465 mSlicerManagers[index]->GetSlicer(column-1)->SetCurrentPosition(
3466 cursorPos[0],cursorPos[1],cursorPos[2],cursorPos[3]);
3467 mSlicerManagers[index]->UpdateViews(1,column-1);
3468 mSlicerManagers[index]->UpdateLinked(column-1);
3473 //------------------------------------------------------------------------------
3475 //------------------------------------------------------------------------------
3476 void vvMainWindow::GoToLandmark()
3478 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
3479 for (int column = 1; column < 5; column++) {
3480 if (DataTree->selectedItems()[0]->data(column,Qt::CheckStateRole).toInt() > 1) {
3481 double* cursorPos = landmarksPanel->GetSelectedPoint();
3482 mSlicerManagers[index]->GetSlicer(column-1)->SetCurrentPosition(
3483 cursorPos[0],cursorPos[1],cursorPos[2],cursorPos[3]);
3484 mSlicerManagers[index]->UpdateViews(1,column-1);
3485 mSlicerManagers[index]->UpdateLinked(column-1);
3490 //------------------------------------------------------------------------------
3492 //------------------------------------------------------------------------------
3493 void vvMainWindow::PlayPause()
3497 playButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/player_play.png")));
3501 int image_number=DataTree->topLevelItemCount();
3503 for (int i=0; i<image_number; i++)
3504 if (mSlicerManagers[i]->GetSlicer(0)->GetTMax() > 0) {
3510 playButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/player_pause.png")));
3511 QTimer::singleShot(1000/mFrameRate, this, SLOT(PlayNext()));
3515 //------------------------------------------------------------------------------
3517 //------------------------------------------------------------------------------
3518 void vvMainWindow::PlayNext()
3520 if (playMode && !this->isHidden()) {
3521 int image_number=DataTree->topLevelItemCount();
3522 ///Only play one slicer per SM, and only if the SM is being displayed
3523 for (int i=0; i<image_number; i++)
3524 for (int j=0; j<4; j++)
3525 if (mSlicerManagers[i]->GetSlicer(0)->GetTMax() > 0 &&
3526 DataTree->topLevelItem(i)->data(j+1,Qt::CheckStateRole).toInt() > 0) {
3527 mSlicerManagers[i]->SetNextTSlice(j);
3530 QTimer::singleShot(1000/mFrameRate, this, SLOT(PlayNext()));
3533 //------------------------------------------------------------------------------
3535 void vvMainWindow::ShowLastImage()
3537 if (mSlicerManagers.size() > 1) {
3538 QTreeWidgetItem * item=DataTree->topLevelItem(DataTree->topLevelItemCount()-1);
3539 CurrentImageChanged(mSlicerManagers.back()->GetId()); //select new image
3540 item->setData(1,Qt::CheckStateRole,2); //show the new image in the first panel
3541 DisplayChanged(item,1);
3545 //------------------------------------------------------------------------------
3546 void vvMainWindow::UpdateRenderWindows()
3548 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
3549 mSlicerManagers[i]->GetSlicer(0)->UpdateLandmarks();
3550 mSlicerManagers[i]->GetSlicer(1)->UpdateLandmarks();
3551 mSlicerManagers[i]->GetSlicer(2)->UpdateLandmarks();
3552 mSlicerManagers[i]->GetSlicer(3)->UpdateLandmarks();
3554 if (NOViewWidget->GetRenderWindow()) NOViewWidget->GetRenderWindow()->Render();
3555 if (NEViewWidget->GetRenderWindow()) NEViewWidget->GetRenderWindow()->Render();
3556 if (SOViewWidget->GetRenderWindow()) SOViewWidget->GetRenderWindow()->Render();
3557 if (SEViewWidget->GetRenderWindow()) SEViewWidget->GetRenderWindow()->Render();
3559 //------------------------------------------------------------------------------
3561 //------------------------------------------------------------------------------
3562 void vvMainWindow::SegmentationOnCurrentImage()
3564 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
3566 vvSegmentationDialog segmentation;
3567 segmentation.SetImage(mSlicerManagers[index]->GetSlicer(0)->GetImage());
3568 segmentation.exec();
3570 //------------------------------------------------------------------------------
3572 void vvMainWindow::SurfaceViewerLaunch()
3574 vvSurfaceViewerDialog surfaceViewer;
3575 surfaceViewer.exec();
3577 //------------------------------------------------------------------------------
3580 //------------------------------------------------------------------------------
3581 int vvMainWindow::GetImageDuplicateFilenameNumber(std::string filename)
3584 for(unsigned int l=0; l<mSlicerManagers.size(); l++) {
3585 vvSlicerManager * v = mSlicerManagers[l];
3586 if (v->GetBaseFileName() ==
3587 vtksys::SystemTools::GetFilenameName(vtksys::SystemTools::GetFilenameWithoutLastExtension(filename))) {
3588 number = std::max(number, v->GetBaseFileNameNumber()+1);
3593 //------------------------------------------------------------------------------
3596 //------------------------------------------------------------------------------
3597 vvSlicerManager* vvMainWindow::AddImage(vvImage::Pointer image,std::string filename)
3599 // Change filename if another image exist with the same name
3600 int number = GetImageDuplicateFilenameNumber(filename);
3602 // Create new SliceManager
3603 vvSlicerManager* slicer_manager = new vvSlicerManager(4);
3604 slicer_manager->SetImage(image);//, IMAGE, number);
3605 // filename = filename+"_"+clitk::toString(number);
3606 slicer_manager->SetFilename(filename, number);
3607 mSlicerManagers.push_back(slicer_manager);
3609 //create an item in the tree with good settings
3610 QTreeWidgetItem *item = new QTreeWidgetItem();
3611 item->setData(0,Qt::UserRole,slicer_manager->GetFileName().c_str());//files[i].c_str());
3612 item->setData(1,Qt::UserRole,tr("image"));
3613 item->setData(COLUMN_IMAGE_NAME,Qt::DisplayRole,slicer_manager->GetFileName().c_str());//filename.c_str());
3614 qApp->processEvents();
3616 for (int j = 1; j <= 4; j++) item->setData(j,Qt::CheckStateRole,1);
3618 //Create the buttons for reload and close
3619 qApp->processEvents();
3620 QTreePushButton* cButton = new QTreePushButton;
3621 cButton->setItem(item);
3622 cButton->setColumn(COLUMN_CLOSE_IMAGE);
3623 cButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/exit.png")));
3624 connect(cButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
3625 this,SLOT(CloseImage(QTreeWidgetItem*, int)));
3627 QTreePushButton* rButton = new QTreePushButton;
3628 rButton->setItem(item);
3629 rButton->setColumn(COLUMN_RELOAD_IMAGE);
3630 rButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/rotateright.png")));
3631 rButton->setEnabled(0);
3632 connect(rButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
3633 this,SLOT(ReloadImage(QTreeWidgetItem*, int)));
3635 DataTree->addTopLevelItem(item);
3636 DataTree->setItemWidget(item, COLUMN_CLOSE_IMAGE, cButton);
3637 DataTree->setItemWidget(item, COLUMN_RELOAD_IMAGE, rButton);
3639 //set the id of the image
3640 QString id = QDir::current().absoluteFilePath(slicer_manager->GetFileName().c_str()) + QString::number(mSlicerManagers.size()-1);
3641 item->setData(COLUMN_IMAGE_NAME,Qt::UserRole,id.toStdString().c_str());
3642 mSlicerManagers.back()->SetId(id.toStdString());
3644 linkPanel->addImage(slicer_manager->GetFileName().c_str()// filename
3645 , id.toStdString());
3647 connect(mSlicerManagers.back(), SIGNAL(currentImageChanged(std::string)),
3648 this, SLOT(CurrentImageChanged(std::string)));
3649 connect(mSlicerManagers.back(), SIGNAL(currentPickedImageChanged(std::string)),
3650 this, SLOT(CurrentPickedImageChanged(std::string)));
3651 connect(mSlicerManagers.back(), SIGNAL(UpdatePosition(int, double, double, double, double, double, double, double)),
3652 this, SLOT(MousePositionChanged(int,double, double, double, double, double, double, double)));
3653 connect(mSlicerManagers.back(), SIGNAL(UpdateVector(int, double, double, double, double)),
3654 this, SLOT(VectorChanged(int,double,double,double, double)));
3655 connect(mSlicerManagers.back(), SIGNAL(UpdateOverlay(int, double, double)),
3656 this, SLOT(OverlayChanged(int,double,double)));
3657 connect(mSlicerManagers.back(), SIGNAL(UpdateFusion(int, double)),
3658 this, SLOT(FusionChanged(int,double)));
3659 //connect(mSlicerManagers.back(), SIGNAL(UpdateFusionSequence(int, bool, unsigned int)),
3660 // this, SLOT(FusionSequenceChanged(int, bool, unsigned int)));
3661 connect(mSlicerManagers.back(), SIGNAL(WindowLevelChanged()),
3662 this,SLOT(WindowLevelChanged()));
3663 connect(mSlicerManagers.back(), SIGNAL(UpdateSlice(int,int)),
3664 this,SLOT(UpdateSlice(int,int)));
3665 connect(mSlicerManagers.back(), SIGNAL(UpdateTSlice(int, int, int)),
3666 this,SLOT(UpdateTSlice(int, int, int)));
3667 connect(mSlicerManagers.back(), SIGNAL(UpdateTSlice(int, int, int)),
3668 this,SLOT(ImageInfoChanged()));
3669 connect(mSlicerManagers.back(), SIGNAL(UpdateSliceRange(int,int,int,int,int)),
3670 this,SLOT(UpdateSliceRange(int,int,int,int,int)));
3671 connect(mSlicerManagers.back(), SIGNAL(UpdateLinkManager(std::string,int,double,double,double,int)),
3672 this,SLOT(UpdateLinkManager(std::string,int,double,double,double,int)));
3673 connect(mSlicerManagers.back(), SIGNAL(UpdateLinkedNavigation(std::string,vvSlicerManager*,vvSlicer*)),
3674 this,SLOT(UpdateLinkedNavigation(std::string,vvSlicerManager*,vvSlicer*)));
3675 connect(mSlicerManagers.back(), SIGNAL(ChangeImageWithIndexOffset(vvSlicerManager*,int,int)),
3676 this,SLOT(ChangeImageWithIndexOffset(vvSlicerManager*,int,int)));
3677 connect(mSlicerManagers.back(), SIGNAL(LandmarkAdded()),landmarksPanel,SLOT(AddPoint()));
3681 qApp->processEvents();
3685 qApp->processEvents();
3689 return slicer_manager;
3691 //------------------------------------------------------------------------------
3694 //------------------------------------------------------------------------------
3695 void vvMainWindow::UpdateCurrentSlicer()
3698 if (DataTree->selectedItems().size() > 0) {
3699 index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
3701 mSlicerManagerCurrentIndex = index;
3703 //------------------------------------------------------------------------------