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_SYSTEM_GDCM
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_SYSTEM_GDCM
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_SYSTEM_GDCM
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_SYSTEM_GDCM
758 void vvMainWindow::ConnectPacs()
760 std::vector<std::string> files;
762 //std::cout << "dicomSeriesSelector " << std::endl;
763 if (PacsConnection->exec() == QDialog::Accepted) {
764 // files = *(pacsconnect->GetFilenames());
765 // LoadImages(files, vvImageReader::DICOM);
770 //------------------------------------------------------------------------------
772 //------------------------------------------------------------------------------
773 void vvMainWindow::OpenImages()
775 QString Extensions = EXTENSIONS;
776 Extensions += ";;All Files (*)";
778 QStringList files = QFileDialog::getOpenFileNames(this,tr("Load Images"),mInputPathName,Extensions);
781 mInputPathName = itksys::SystemTools::GetFilenamePath(files[0].toStdString()).c_str();
782 std::vector<std::string> vector;
783 for (int i = 0; i < files.size(); i++)
784 vector.push_back(files[i].toStdString());
785 LoadImages(vector, vvImageReader::IMAGE);
787 //------------------------------------------------------------------------------
788 void vvMainWindow::OpenRecentImage()
790 QAction * caller = qobject_cast<QAction*>(sender());
791 std::vector<std::string> images;
792 images.push_back(caller->text().toStdString());
793 mInputPathName = itksys::SystemTools::GetFilenamePath(images[0]).c_str();
794 LoadImages(images, vvImageReader::IMAGE);
796 //------------------------------------------------------------------------------
799 //------------------------------------------------------------------------------
800 void vvMainWindow::OpenImageWithTime()
802 QString Extensions = EXTENSIONS;
803 Extensions += ";;All Files (*)";
805 QStringList files = QFileDialog::getOpenFileNames(this,tr("Load Images With Time"),mInputPathName,Extensions);
808 mInputPathName = itksys::SystemTools::GetFilenamePath(files[0].toStdString()).c_str();
809 std::vector<std::string> vector;
810 for (int i = 0; i < files.size(); i++) {
811 vector.push_back(files[i].toStdString());
813 LoadImages(vector, vvImageReader::IMAGEWITHTIME);
815 //------------------------------------------------------------------------------
818 //------------------------------------------------------------------------------
819 void vvMainWindow::LoadImages(std::vector<std::string> files, vvImageReader::LoadedImageType filetype)
821 //Separate the way to open images and dicoms
823 if (filetype == vvImageReader::IMAGE || filetype == vvImageReader::IMAGEWITHTIME)
824 fileSize = files.size();
828 // For SLICED, we need the number of slices (ndim and #slices)
829 std::vector<unsigned int> nSlices;
830 nSlices.resize(files.size());
831 std::fill(nSlices.begin(), nSlices.end(), 1);
832 if (filetype == vvImageReader::SLICED) {
833 for (int i = 0; i < fileSize; i++) {
834 itk::ImageIOBase::Pointer header = clitk::readImageHeader(files[i]);
835 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
838 QString error = "Cannot open file \n";
839 error += files[i].c_str();
840 QMessageBox::information(this,tr("Reading problem"),error);
843 if (header->GetNumberOfDimensions() < 3) {
845 QString error = "Dimension problem. Cannot slice \n";
846 error += files[i].c_str();
847 QMessageBox::information(this,tr("Reading problem"),error);
850 nSlices[i] = header->GetDimensions( header->GetNumberOfDimensions()-1 );
854 //Only add to the list of recently opened files when a single file is opened,
855 //to avoid polluting the list of recently opened files
856 if (files.size() == 1) {
857 QFileInfo finfo=tr(files[0].c_str());
858 AddToRecentlyOpenedImages(finfo.absoluteFilePath().toStdString());
859 updateRecentlyOpenedFilesMenu(GetRecentlyOpenedImages());
861 //init the progress events
862 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
863 vvProgressDialog progress("Opening " + files[0],fileSize>1);
864 qApp->processEvents();
866 int numberofsuccesulreads=0;
867 //open images as 1 or multiples
868 for (int i = 0; i < fileSize; i++) {
869 progress.SetText("Opening " + files[i]);
870 progress.SetProgress(i,fileSize);
871 qApp->processEvents();
873 for (unsigned int j = 0; j < nSlices[i]; j++) {
874 //read the image and put it in mSlicerManagers
875 vvSlicerManager* imageManager = new vvSlicerManager(4);
876 qApp->processEvents();
878 bool SetImageSucceed=false;
880 // Change filename if an image with the same already exist
881 int number = GetImageDuplicateFilenameNumber(files[i] + std::string("_slice"));
883 if (filetype == vvImageReader::IMAGE || filetype == vvImageReader::IMAGEWITHTIME || filetype == vvImageReader::SLICED)
884 SetImageSucceed = imageManager->SetImage(files[i],filetype, number, j);
886 SetImageSucceed = imageManager->SetImages(files,filetype, number);
889 if (!SetImageSucceed) {
890 QApplication::restoreOverrideCursor();
891 QString error = "Cannot open file \n";
892 error += imageManager->GetLastError().c_str();
893 QMessageBox::information(this,tr("Reading problem"),error);
896 mSlicerManagers.push_back(imageManager);
898 //create an item in the tree with good settings
899 QTreeWidgetItem *item = new QTreeWidgetItem();
900 item->setData(0,Qt::UserRole,files[i].c_str());
901 QFileInfo fileinfo(imageManager->GetFileName().c_str()); //Do not show the path
902 item->setData(COLUMN_IMAGE_NAME,Qt::DisplayRole,fileinfo.fileName());
903 item->setData(1,Qt::UserRole,tr("image"));
904 item->setToolTip(COLUMN_IMAGE_NAME, imageManager->GetListOfAbsoluteFilePathInOneString("image").c_str());
905 qApp->processEvents();
907 //Create the buttons for reload and close
908 qApp->processEvents();
909 QTreePushButton* cButton = new QTreePushButton;
910 cButton->setItem(item);
911 cButton->setColumn(COLUMN_CLOSE_IMAGE);
912 cButton->setToolTip(tr("close image"));
913 cButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/exit.png")));
914 connect(cButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
915 this,SLOT(CloseImage(QTreeWidgetItem*, int)));
917 QTreePushButton* rButton = new QTreePushButton;
918 rButton->setItem(item);
919 rButton->setColumn(COLUMN_RELOAD_IMAGE);
920 rButton->setToolTip(tr("reload image"));
921 rButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/rotateright.png")));
922 connect(rButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
923 this,SLOT(ReloadImage(QTreeWidgetItem*, int)));
925 DataTree->addTopLevelItem(item);
926 DataTree->setItemWidget(item, COLUMN_CLOSE_IMAGE, cButton);
927 DataTree->setItemWidget(item, COLUMN_RELOAD_IMAGE, rButton);
929 //set the id of the image
930 QString id = QDir::current().absoluteFilePath(files[i].c_str()) + QString::number(mSlicerManagers.size()-1);
931 item->setData(COLUMN_IMAGE_NAME,Qt::UserRole,id.toStdString().c_str());
932 mSlicerManagers.back()->SetId(id.toStdString());
934 linkPanel->addImage(imageManager->GetFileName(), id.toStdString());
936 connect(mSlicerManagers.back(), SIGNAL(currentImageChanged(std::string)),
937 this,SLOT(CurrentImageChanged(std::string)));
938 connect(mSlicerManagers.back(), SIGNAL(currentPickedImageChanged(std::string)),
939 this, SLOT(CurrentPickedImageChanged(std::string)));
940 connect(mSlicerManagers.back(), SIGNAL(UpdatePosition(int, double, double, double, double, double, double, double)),
941 this,SLOT(MousePositionChanged(int,double, double, double, double, double, double, double)));
942 connect(mSlicerManagers.back(), SIGNAL(UpdateVector(int, double, double, double, double)),
943 this, SLOT(VectorChanged(int,double,double,double, double)));
944 connect(mSlicerManagers.back(), SIGNAL(UpdateOverlay(int, double, double)),
945 this, SLOT(OverlayChanged(int,double,double)));
946 connect(mSlicerManagers.back(), SIGNAL(UpdateFusion(int, double)),
947 this, SLOT(FusionChanged(int,double)));
948 connect(mSlicerManagers.back(), SIGNAL(WindowLevelChanged()),
949 this,SLOT(WindowLevelChanged()));
950 connect(mSlicerManagers.back(), SIGNAL(UpdateSlice(int,int)),
951 this,SLOT(UpdateSlice(int,int)));
952 connect(mSlicerManagers.back(), SIGNAL(UpdateTSlice(int, int, int)),
953 this,SLOT(UpdateTSlice(int, int, int)));
954 connect(mSlicerManagers.back(), SIGNAL(UpdateTSlice(int, int, int)),
955 this,SLOT(ImageInfoChanged()));
956 connect(mSlicerManagers.back(), SIGNAL(UpdateSliceRange(int,int,int,int,int)),
957 this,SLOT(UpdateSliceRange(int,int,int,int,int)));
958 connect(mSlicerManagers.back(), SIGNAL(UpdateLinkManager(std::string,int,double,double,double,int)),
959 this,SLOT(UpdateLinkManager(std::string,int,double,double,double,int)));
960 connect(mSlicerManagers.back(), SIGNAL(UpdateLinkedNavigation(std::string,vvSlicerManager*,vvSlicer*)),
961 this,SLOT(UpdateLinkedNavigation(std::string,vvSlicerManager*,vvSlicer*)));
962 connect(mSlicerManagers.back(), SIGNAL(ChangeImageWithIndexOffset(vvSlicerManager*,int,int)),
963 this,SLOT(ChangeImageWithIndexOffset(vvSlicerManager*,int,int)));
964 connect(mSlicerManagers.back(),SIGNAL(LandmarkAdded()),landmarksPanel,SLOT(AddPoint()));
967 numberofsuccesulreads++;
971 if (numberofsuccesulreads) {
972 NOViewWidget->show();
973 NEViewWidget->show();
974 SOViewWidget->show();
975 SEViewWidget->show();
980 // Try to guess default WindowLevel
982 mSlicerManagers.back()->GetImage()->GetFirstVTKImageData()->GetScalarRange(range);
983 if ((range[0] == 0) && (range[1] == 1)) {
984 presetComboBox->setCurrentIndex(WL_BINARY);// binary
989 QApplication::restoreOverrideCursor();
991 //------------------------------------------------------------------------------
993 //------------------------------------------------------------------------------
994 void vvMainWindow::UpdateTree()
996 DataTree->resizeColumnToContents(COLUMN_TREE);
997 DataTree->resizeColumnToContents(COLUMN_UL_VIEW);
998 DataTree->resizeColumnToContents(COLUMN_UR_VIEW);
999 DataTree->resizeColumnToContents(COLUMN_DL_VIEW);
1000 DataTree->resizeColumnToContents(COLUMN_DR_VIEW);
1001 DataTree->resizeColumnToContents(COLUMN_IMAGE_NAME);
1002 DataTree->resizeColumnToContents(COLUMN_CLOSE_IMAGE);
1003 DataTree->resizeColumnToContents(COLUMN_RELOAD_IMAGE);
1005 //------------------------------------------------------------------------------
1007 //------------------------------------------------------------------------------
1008 void vvMainWindow::CurrentImageChanged(std::string id)
1010 if (id == mCurrentSelectedImageId) return; // Do nothing
1012 for (int i = 0; i < DataTree->topLevelItemCount(); i++) {
1013 if (DataTree->topLevelItem(i)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString().toStdString() == id) {
1016 DataTree->topLevelItem(i)->setSelected(0);
1018 for (int child = 0; child < DataTree->topLevelItem(i)->childCount(); child++)
1019 DataTree->topLevelItem(i)->child(child)->setSelected(0);
1022 DataTree->topLevelItem(selected)->setSelected(1);
1023 mCurrentSelectedImageId = id;
1025 landmarksPanel->SetCurrentLandmarks(mSlicerManagers[selected]->GetLandmarks(),
1026 mSlicerManagers[selected]->GetTSlice());
1027 landmarksPanel->SetCurrentPath(mInputPathName.toStdString());
1028 landmarksPanel->SetCurrentImage(mSlicerManagers[selected]->GetFileName().c_str());
1030 emit SelectedImageHasChanged(mSlicerManagers[selected]);
1032 //------------------------------------------------------------------------------
1034 //------------------------------------------------------------------------------
1035 void vvMainWindow::CurrentPickedImageChanged(std::string id)
1037 if (id == mCurrentPickedImageId) return; // Do nothing
1039 for (int i = 0; i < DataTree->topLevelItemCount(); i++) {
1040 if (DataTree->topLevelItem(i)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString().toStdString() == id) {
1043 DataTree->topLevelItem(i)->setSelected(0);
1045 for (int child = 0; child < DataTree->topLevelItem(i)->childCount(); child++)
1046 DataTree->topLevelItem(i)->child(child)->setSelected(0);
1049 DataTree->topLevelItem(selected)->setSelected(1);
1050 mCurrentPickedImageId = id;
1051 mCurrentPickedImageIndex = selected;
1053 //------------------------------------------------------------------------------
1055 //------------------------------------------------------------------------------
1056 void vvMainWindow::ImageInfoChanged()
1058 contextActions[6]->setEnabled(1);
1059 contextActions[5]->setEnabled(1);
1060 actionSave_As->setEnabled(1);
1061 actionAdd_VF_to_current_Image->setEnabled(1);
1062 actionAdd_fusion_image->setEnabled(1);
1063 actionAdd_overlay_image_to_current_image->setEnabled(1);
1064 actionAdd_USSequence_toCT->setEnabled(1);
1065 actionNorth_East_Window->setEnabled(1);
1066 actionNorth_West_Window->setEnabled(1);
1067 actionSouth_East_Window->setEnabled(1);
1068 actionSouth_West_Window->setEnabled(1);
1069 vvToolManager::GetInstance()->EnableToolsInMenu(this, true);
1070 inverseButton->setEnabled(1);
1072 goToCursorPushButton->setEnabled(1);
1074 if (DataTree->selectedItems().size()) {
1075 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1077 colorMapComboBox->setEnabled(1);
1078 for (int i = 0; i < DataTree->topLevelItem(index)->childCount(); i++) {
1079 if (DataTree->topLevelItem(index)->child(i)->data(1,Qt::UserRole).toString() == "overlay" ||
1080 DataTree->topLevelItem(index)->child(i)->data(1,Qt::UserRole).toString() == "fusion" ||
1081 DataTree->topLevelItem(index)->child(i)->data(1,Qt::UserRole).toString() == "fusionSequence") {
1082 colorMapComboBox->setEnabled(0);
1087 std::vector<double> origin;
1088 std::vector<double> inputSpacing;
1089 std::vector<int> inputSize;
1090 std::vector<double> sizeMM;
1091 vtkSmartPointer<vtkMatrix4x4> transformation;
1094 QString inputSizeInBytes;
1095 QString image = DataTree->selectedItems()[0]->data(COLUMN_IMAGE_NAME,Qt::DisplayRole).toString();
1097 int nframes = mSlicerManagers[index]->GetSlicer(0)->GetTMax();
1099 if (nframes > 1 || playMode == 1) {
1100 playButton->setEnabled(1);
1101 frameRateLabel->setEnabled(1);
1102 frameRateSpinBox->setEnabled(1);
1104 playButton->setEnabled(0);
1105 frameRateLabel->setEnabled(0);
1106 frameRateSpinBox->setEnabled(0);
1113 vvImage::Pointer imageSelected;
1114 if (DataTree->topLevelItem(index) == DataTree->selectedItems()[0]) {
1115 imageSelected = mSlicerManagers[index]->GetSlicer(0)->GetImage();
1116 tSlice = mSlicerManagers[index]->GetSlicer(0)->GetTSlice();
1117 } else if (DataTree->selectedItems()[0]->data(1,Qt::UserRole).toString() == "vector") {
1118 imageSelected = mSlicerManagers[index]->GetSlicer(0)->GetVF();
1119 tSlice = mSlicerManagers[index]->GetSlicer(0)->GetOverlayTSlice();
1120 } else if (DataTree->selectedItems()[0]->data(1,Qt::UserRole).toString() == "overlay") {
1121 imageSelected = mSlicerManagers[index]->GetSlicer(0)->GetOverlay();
1122 tSlice = mSlicerManagers[index]->GetSlicer(0)->GetOverlayTSlice();
1123 } else if (DataTree->selectedItems()[0]->data(1,Qt::UserRole).toString() == "fusion") {
1124 imageSelected = mSlicerManagers[index]->GetSlicer(0)->GetFusion();
1125 tSlice = mSlicerManagers[index]->GetSlicer(0)->GetFusionTSlice();
1127 else if (DataTree->selectedItems()[0]->data(1,Qt::UserRole).toString() == "fusionSequence") {
1128 imageSelected = mSlicerManagers[index]->GetSlicer(0)->GetFusion();
1129 tSlice = mSlicerManagers[index]->GetSlicer(0)->GetFusionTSlice();
1131 else if (DataTree->selectedItems()[0]->data(1,Qt::UserRole).toString() == "contour") {
1132 imageSelected = mSlicerManagers[index]->GetSlicer(0)->GetImage();
1133 tSlice = mSlicerManagers[index]->GetSlicer(0)->GetTSlice();
1136 imageSelected = mSlicerManagers[index]->GetSlicer(0)->GetImage();
1137 tSlice = mSlicerManagers[index]->GetSlicer(0)->GetTSlice();
1140 dimension = imageSelected->GetNumberOfDimensions();
1141 origin.resize(dimension);
1142 inputSpacing.resize(dimension);
1143 inputSize.resize(dimension);
1144 sizeMM.resize(dimension);
1145 pixelType = mSlicerManagers[index]->GetImage()->GetScalarTypeAsITKString().c_str();
1146 for (int i = 0; i < dimension; i++) {
1147 origin[i] = imageSelected->GetOrigin()[i];
1148 inputSpacing[i] = imageSelected->GetSpacing()[i];
1149 inputSize[i] = imageSelected->GetSize()[i];
1150 sizeMM[i] = inputSize[i]*inputSpacing[i];
1151 NPixel *= inputSize[i];
1153 inputSizeInBytes = GetSizeInBytes(imageSelected->GetActualMemorySize()*1000);
1155 QString dim = QString::number(dimension) + " (";
1156 dim += pixelType + ")";
1158 infoPanel->setFileName(image);
1159 std::string creationImageTimeValue("No creation time");
1160 itk::ExposeMetaData< std::string > (*imageSelected->GetFirstMetaDataDictionary(), "creationImageTime", creationImageTimeValue);
1161 infoPanel->setImageCreationTime(QString(creationImageTimeValue.c_str()));
1162 infoPanel->setDimension(dim);
1163 infoPanel->setSizePixel(GetVectorIntAsString(inputSize));
1164 infoPanel->setSizeMM(GetVectorDoubleAsString(sizeMM));
1165 infoPanel->setOrigin(GetVectorDoubleAsString(origin));
1166 infoPanel->setSpacing(GetVectorDoubleAsString(inputSpacing));
1167 infoPanel->setNPixel(QString::number(NPixel)+" ("+inputSizeInBytes+")");
1169 transformation = imageSelected->GetTransform()[tSlice]->GetMatrix();
1170 infoPanel->setTransformation(Get4x4MatrixDoubleAsString(transformation));
1172 landmarksPanel->SetCurrentLandmarks(mSlicerManagers[index]->GetLandmarks(),
1173 mSlicerManagers[index]->GetTSlice());
1174 landmarksPanel->SetCurrentPath(mInputPathName.toStdString());
1175 landmarksPanel->SetCurrentImage(mSlicerManagers[index]->GetFileName().c_str());
1177 overlayPanel->getCurrentImageName(mSlicerManagers[index]->GetFileName().c_str());
1178 for (int i = 0; i < 4; i++) {
1179 if (DataTree->selectedItems()[0]->data(i+1,Qt::CheckStateRole).toInt() > 0 || i == 3) {
1180 mSlicerManagers[index]->UpdateInfoOnCursorPosition(i);
1185 // infoPanel->setFileName(image);
1186 // infoPanel->setDimension(dim);
1187 // infoPanel->setSizePixel(GetVectorIntAsString(inputSize));
1188 // infoPanel->setSizeMM(GetVectorDoubleAsString(sizeMM));
1189 // infoPanel->setOrigin(GetVectorDoubleAsString(origin));
1190 // infoPanel->setSpacing(GetVectorDoubleAsString(inputSpacing));
1191 // infoPanel->setNPixel(QString::number(NPixel)+" ("+inputSizeInBytes+")");
1193 // landmarksPanel->SetCurrentLandmarks(mSlicerManagers[index]->GetLandmarks(),
1194 // mSlicerManagers[index]->GetTSlice());
1195 // landmarksPanel->SetCurrentPath(mInputPathName.toStdString());
1196 // landmarksPanel->SetCurrentImage(mSlicerManagers[index]->GetFileName().c_str());
1198 // overlayPanel->getCurrentImageName(mSlicerManagers[index]->GetFileName().c_str());
1199 // for (int i = 0; i < 4; i++) {
1200 // if (DataTree->selectedItems()[0]->data(i+1,Qt::CheckStateRole).toInt() > 0 || i == 3) {
1201 // mSlicerManagers[index]->UpdateInfoOnCursorPosition(i);
1205 WindowLevelChanged();
1207 slicingPresetComboBox->setCurrentIndex(mSlicerManagers[index]->GetSlicingPreset());
1209 if (mSlicerManagers[index]->GetSlicer(0)->GetVF()) {
1210 overlayPanel->getVFName(mSlicerManagers[index]->GetVFName().c_str());
1211 overlayPanel->getVFProperty(mSlicerManagers[index]->GetSlicer(0)->GetVFSubSampling(),
1212 mSlicerManagers[index]->GetSlicer(0)->GetVFScale(),
1213 mSlicerManagers[index]->GetSlicer(0)->GetVFLog());
1215 overlayPanel->getVFName(mSlicerManagers[index]->GetVFName().c_str());
1216 overlayPanel->getVFProperty(-1,-1,-1);
1218 if (mSlicerManagers[index]->GetSlicer(0)->GetOverlay()) {
1219 overlayPanel->getOverlayName(mSlicerManagers[index]->GetOverlayName().c_str());
1221 overlayPanel->getOverlayName(mSlicerManagers[index]->GetOverlayName().c_str());
1224 if (mSlicerManagers[index]->GetSlicer(0)->GetFusion()) {
1225 overlayPanel->getFusionName(mSlicerManagers[index]->GetFusionName().c_str());
1227 overlayPanel->getFusionName(mSlicerManagers[index]->GetFusionName().c_str());
1231 //------------------------------------------------------------------------------
1233 //------------------------------------------------------------------------------
1234 void vvMainWindow::ShowDocumentation()
1236 documentation->show();
1238 //------------------------------------------------------------------------------
1240 //------------------------------------------------------------------------------
1241 void vvMainWindow::PopupRegisterForm(bool checkCanPush)
1243 vvRegisterForm* registerForm = new vvRegisterForm(QUrl("http://www.creatis.insa-lyon.fr/~dsarrut/vvregister/write.php"), getVVSettingsPath(), getSettingsOptionFormat());
1245 registerForm->show();
1247 if(registerForm->canPush()) {
1248 registerForm->show();
1249 registerForm->acquitPushed();//too bad if there is not internet connection anymore.
1253 //------------------------------------------------------------------------------
1255 //------------------------------------------------------------------------------
1256 void vvMainWindow::ShowHelpDialog()
1258 help_dialog->show();
1260 //------------------------------------------------------------------------------
1262 //------------------------------------------------------------------------------
1263 void vvMainWindow::ChangeViewMode()
1265 typedef struct _SIZE{
1266 QSplitter* splitter;
1267 QList<int> size1, size2;
1270 SplitterSize sizes[4];
1271 sizes[0].splitter = OSplitter;
1272 sizes[0].size1.push_back(1);
1273 sizes[0].size1.push_back(0);
1274 sizes[0].size2.push_back(1);
1275 sizes[0].size2.push_back(0);
1276 sizes[0].cols[0] = 2;
1277 sizes[0].cols[1] = 3;
1278 sizes[0].cols[2] = 4;
1280 sizes[1].splitter = ESplitter;
1281 sizes[1].size1.push_back(0);
1282 sizes[1].size1.push_back(1);
1283 sizes[1].size2.push_back(1);
1284 sizes[1].size2.push_back(0);
1285 sizes[1].cols[0] = 1;
1286 sizes[1].cols[1] = 3;
1287 sizes[1].cols[2] = 4;
1289 sizes[2].splitter = OSplitter;
1290 sizes[2].size1.push_back(1);
1291 sizes[2].size1.push_back(0);
1292 sizes[2].size2.push_back(0);
1293 sizes[2].size2.push_back(1);
1294 sizes[2].cols[0] = 1;
1295 sizes[2].cols[1] = 2;
1296 sizes[2].cols[2] = 4;
1298 sizes[3].splitter = ESplitter;
1299 sizes[3].size1.push_back(0);
1300 sizes[3].size1.push_back(1);
1301 sizes[3].size2.push_back(0);
1302 sizes[3].size2.push_back(1);
1303 sizes[3].cols[0] = 1;
1304 sizes[3].cols[1] = 2;
1305 sizes[3].cols[2] = 3;
1307 int slicer = mSlicerManagers[mCurrentPickedImageIndex]->GetSelectedSlicer();
1308 if (viewMode == 1) {
1311 splitter_3->setSizes(sizes[slicer].size1);
1312 sizes[slicer].splitter->setSizes(sizes[slicer].size2);
1313 DataTree->setColumnHidden(sizes[slicer].cols[0],1);
1314 DataTree->setColumnHidden(sizes[slicer].cols[1],1);
1315 DataTree->setColumnHidden(sizes[slicer].cols[2],1);
1323 splitter_3->setSizes(size);
1324 sizes[slicer].splitter->setSizes(size);
1325 DataTree->setColumnHidden(sizes[slicer].cols[0],0);
1326 DataTree->setColumnHidden(sizes[slicer].cols[1],0);
1327 DataTree->setColumnHidden(sizes[slicer].cols[2],0);
1330 UpdateRenderWindows();
1332 ** I don't know why but for both resized QVTKWidget we also need to render
1333 ** the associated Slicer to redraw crosses.
1335 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
1336 // if (DataTree->topLevelItem(i)->data(COLUMN_UL_VIEW,Qt::CheckStateRole).toInt() > 1)
1337 mSlicerManagers[i]->GetSlicer(0)->Render();
1338 mSlicerManagers[i]->GetSlicer(1)->Render();
1339 // if (DataTree->topLevelItem(i)->data(COLUMN_DL_VIEW,Qt::CheckStateRole).toInt() > 1)
1340 mSlicerManagers[i]->GetSlicer(2)->Render();
1341 mSlicerManagers[i]->GetSlicer(3)->Render();
1344 //------------------------------------------------------------------------------
1346 //------------------------------------------------------------------------------
1347 QString vvMainWindow::GetSizeInBytes(unsigned long size)
1349 QString result = "";// QString::number(size);
1350 //result += " bytes (";
1351 if (size > 1000000000) {
1353 result += QString::number(size);
1354 result += "Gb";//)";
1355 } else if (size > 1000000) {
1357 result += QString::number(size);
1358 result += "Mb";//)";
1359 } else if (size > 1000) {
1361 result += QString::number(size);
1362 result += "kb";//)";
1366 //------------------------------------------------------------------------------
1368 //------------------------------------------------------------------------------
1369 QString vvMainWindow::Get4x4MatrixDoubleAsString(vtkSmartPointer<vtkMatrix4x4> matrix, const int precision)
1371 std::ostringstream strmatrix;
1373 // Figure out the number of digits of the integer part of the largest absolute value
1376 for (unsigned int j = 0; j < 4; j++){
1378 for (unsigned int i = 0; i < 4; i++)
1379 absmax = std::max(absmax, vnl_math_abs(matrix->GetElement(i, j)));
1380 unsigned ndigits = (unsigned)std::max(0.,std::log10(absmax))+1;
1381 width[j] = precision+ndigits+3;
1384 // Output with correct width, aligned to the right
1385 for (unsigned int i = 0; i < 4; i++) {
1386 for (unsigned int j = 0; j < 4; j++) {
1387 strmatrix.setf(ios::fixed,ios::floatfield);
1388 strmatrix.precision(precision);
1389 strmatrix.fill(' ');
1390 strmatrix.width(width[j]);
1391 strmatrix << std::right << matrix->GetElement(i, j);
1393 strmatrix << std::endl;
1395 QString result = strmatrix.str().c_str();
1398 //------------------------------------------------------------------------------
1400 //------------------------------------------------------------------------------
1401 QString vvMainWindow::GetVectorDoubleAsString(std::vector<double> vectorDouble)
1404 for (unsigned int i= 0; i < vectorDouble.size(); i++) {
1407 result += QString::number(vectorDouble[i]);
1411 //------------------------------------------------------------------------------
1413 //------------------------------------------------------------------------------
1414 QString vvMainWindow::GetVectorIntAsString(std::vector<int> vectorInt)
1417 for (unsigned int i= 0; i < vectorInt.size(); i++) {
1420 result += QString::number(vectorInt[i]);
1424 //------------------------------------------------------------------------------
1426 //------------------------------------------------------------------------------
1427 //this actually returns the SlicerManager index!
1428 int vvMainWindow::GetSlicerIndexFromItem(QTreeWidgetItem* item)
1430 QString id = item->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString();
1431 for (int i = 0; i < DataTree->topLevelItemCount(); i++) {
1432 if (DataTree->topLevelItem(i)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString() == id)
1437 //------------------------------------------------------------------------------
1439 //------------------------------------------------------------------------------
1440 QTreeWidgetItem* vvMainWindow::GetItemFromSlicerManager(vvSlicerManager* sm)
1442 QString id = sm->GetId().c_str();
1443 for (int i = 0; i < DataTree->topLevelItemCount(); i++) {
1444 if (DataTree->topLevelItem(i)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString() == id)
1445 return DataTree->topLevelItem(i);
1449 //------------------------------------------------------------------------------
1451 //------------------------------------------------------------------------------
1452 void vvMainWindow::DisplayChanged(QTreeWidgetItem *clickedItem, int column)
1454 if ( column >= COLUMN_CLOSE_IMAGE || column <= 0)
1457 // Get parent information (might be the same item)
1458 int slicerManagerIndex = GetSlicerIndexFromItem(clickedItem);
1459 QTreeWidgetItem* clickedParentItem = DataTree->topLevelItem(slicerManagerIndex);
1460 vvSlicer* clickedSlicer = mSlicerManagers[slicerManagerIndex]->GetSlicer(column-1);
1462 // Go over the complete item tree (only 2 levels, parents and children)
1463 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
1464 // Trick to avoid redoing twice the job for a key (sr)
1465 mSlicerManagers[i]->GetSlicer(column-1)->GetRenderWindow()->GetInteractor()->SetKeySym("Crap");
1467 QTreeWidgetItem* currentParentItem = DataTree->topLevelItem(i);
1468 if(currentParentItem != clickedParentItem) {
1469 // Not the branch of the clicked item, uncheck all
1472 currentParentItem->setData(column,Qt::CheckStateRole, 0);
1473 mSlicerManagers[i]->UpdateSlicer(column-1, false);
1476 for (int iChild = 0; iChild < currentParentItem->childCount(); iChild++) {
1477 currentParentItem->child(iChild)->setData(column,Qt::CheckStateRole, 0);
1481 // Branch of the clicked one: get check status from actor visibility in slicer
1482 // and toggle the clicked one
1485 bool vis = clickedSlicer->GetActorVisibility("image", 0);
1486 bool draw = clickedSlicer->GetRenderer()->GetDraw();
1488 // Update slicer (after getting visibility)
1489 mSlicerManagers[slicerManagerIndex]->UpdateSlicer(column-1, true);
1490 mSlicerManagers[slicerManagerIndex]->UpdateInfoOnCursorPosition(column-1);
1491 DisplaySliders(slicerManagerIndex, column-1);
1492 if(clickedParentItem == clickedItem) {
1494 vis = !draw || !vis;
1496 clickedSlicer->SetActorVisibility("image", 0, vis);
1497 clickedParentItem->setData(column, Qt::CheckStateRole, vis?2:0);
1500 std::map<std::string, int> actorTypeCounts;
1501 for (int iChild = 0; iChild < clickedParentItem->childCount(); iChild++) {
1502 QTreeWidgetItem* currentChildItem = clickedParentItem->child(iChild);
1503 std::string actorType = currentChildItem->data(1,Qt::UserRole).toString().toStdString();
1504 vis = clickedSlicer->GetActorVisibility(actorType, actorTypeCounts[actorType]);
1505 if(currentChildItem == clickedItem) {
1506 // Toggle or force visibility if it was not on this branch so far
1507 vis = !draw || !vis;
1508 clickedSlicer->SetActorVisibility(actorType, actorTypeCounts[actorType], vis);
1510 currentChildItem->setData(column, Qt::CheckStateRole, vis?2:0);
1511 actorTypeCounts[actorType]++;
1516 clickedSlicer->Render();
1518 //------------------------------------------------------------------------------
1520 void vvMainWindow::InitSlicers()
1522 if (mSlicerManagers.size()) {
1523 mSlicerManagers.back()->GenerateDefaultLookupTable();
1525 mSlicerManagers.back()->SetSlicerWindow(0,NOViewWidget->GetRenderWindow());
1526 mSlicerManagers.back()->SetSlicerWindow(1,NEViewWidget->GetRenderWindow());
1527 mSlicerManagers.back()->SetSlicerWindow(2,SOViewWidget->GetRenderWindow());
1528 mSlicerManagers.back()->SetSlicerWindow(3,SEViewWidget->GetRenderWindow());
1532 //------------------------------------------------------------------------------
1533 void vvMainWindow::InitDisplay()
1535 if (mSlicerManagers.size()) {
1536 //BE CAREFUL : this is absolutely necessary to set the interactor style
1537 //in order to have the same style instanciation for all SlicerManagers in
1539 for (int j = 0; j < 4; j++) {
1540 vvInteractorStyleNavigator* style = vvInteractorStyleNavigator::New();
1541 style->SetAutoAdjustCameraClippingRange(1);
1542 bool AlreadySelected = false;
1543 for (int i = 0; i < DataTree->topLevelItemCount(); i++) {
1544 mSlicerManagers[i]->SetInteractorStyleNavigator(j,style);
1546 //select the image only if previous are not selected
1547 if (DataTree->topLevelItem(i)->data(j+1,Qt::CheckStateRole).toInt() > 1) {
1548 mSlicerManagers[i]->UpdateSlicer(j,1);
1549 AlreadySelected = true;
1550 } else if (i == DataTree->topLevelItemCount()-1 && !AlreadySelected) {
1551 if (DataTree->selectedItems().size() == 0)
1552 DataTree->topLevelItem(i)->setSelected(1);
1553 DataTree->topLevelItem(i)->setData(j+1,Qt::CheckStateRole,2);
1554 mSlicerManagers[i]->UpdateSlicer(j,1);
1555 DisplaySliders(i,j);
1557 DataTree->topLevelItem(i)->setData(j+1,Qt::CheckStateRole,0);
1558 mSlicerManagers[i]->UpdateSlicer(j,0);
1565 //------------------------------------------------------------------------------
1567 //------------------------------------------------------------------------------
1568 void vvMainWindow::DisplaySliders(int slicer, int window)
1570 if(!mSlicerManagers[slicer]->GetSlicer(window)->GetRenderer()->GetDraw())
1574 mSlicerManagers[slicer]->GetSlicer(window)->GetSliceRange(range);
1575 int position = mSlicerManagers[slicer]->GetSlicer(window)->GetSlice();
1577 verticalSliders[window]->show();
1579 verticalSliders[window]->hide();
1580 verticalSliders[window]->setRange(range[0],range[1]);
1581 verticalSliders[window]->setValue(position);
1585 tRange[1] = mSlicerManagers[slicer]->GetSlicer(window)->GetTMax();
1587 horizontalSliders[window]->show();
1589 horizontalSliders[window]->hide();
1590 horizontalSliders[window]->setRange(tRange[0],tRange[1]);
1591 int tPosition = mSlicerManagers[slicer]->GetSlicer(window)->GetMaxCurrentTSlice();
1592 horizontalSliders[window]->setValue(tPosition);
1594 //------------------------------------------------------------------------------
1596 //------------------------------------------------------------------------------
1597 void vvMainWindow::CloseImage(QTreeWidgetItem* item, int column)
1599 int index = GetSlicerIndexFromItem(item);
1601 if (DataTree->topLevelItem(index) != item) {
1602 QString warning = "Do you really want to close the overlay : ";
1603 warning += item->data(COLUMN_IMAGE_NAME,Qt::DisplayRole).toString();
1604 QMessageBox msgBox(QMessageBox::Warning, tr("Close Overlay"),
1606 msgBox.addButton(tr("Close"), QMessageBox::AcceptRole);
1607 msgBox.addButton(tr("Cancel"), QMessageBox::RejectRole);
1608 if (msgBox.exec() == QMessageBox::AcceptRole) {
1609 std::string overlay_type=item->data(1,Qt::UserRole).toString().toStdString();
1610 int overlay_index=0;
1611 for (int child = 0; child < DataTree->topLevelItem(index)->childCount(); child++) {
1612 if (DataTree->topLevelItem(index)->\
1613 child(child)->data(1,Qt::UserRole).toString().toStdString() == overlay_type)
1615 if (DataTree->topLevelItem(index)->child(child) == item) break;
1617 if (overlay_type=="fusionSequence") {
1618 //removing the overlay sequence in a fusion sequence visualization mode
1619 //reset the transforms
1620 overlayPanel->getFusionSequenceProperty(-1, false, 0, false);
1622 //unlink and untie the slicer managers
1623 RemoveLink(mSlicerManagers[index]->GetId().c_str(), mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->GetId().c_str());
1624 mSlicerManagers[index]->SetFusionSequenceInvolvmentCode(-1);
1625 mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->SetFusionSequenceInvolvmentCode(-1);
1626 for (unsigned i=0 ; i<4 ; i++) {
1627 mSlicerManagers[index]->GetSlicer(i)->SetFusionSequenceCode(-1);
1628 mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->GetSlicer(i)->SetFusionSequenceCode(-1);
1632 mSlicerManagers[index]->RemoveActor(overlay_type, overlay_index-1);
1633 mSlicerManagers[index]->SetColorMap(0);
1634 DataTree->topLevelItem(index)->takeChild(DataTree->topLevelItem(index)->indexOfChild(item));
1635 mSlicerManagers[index]->Render();
1637 } else if (DataTree->topLevelItemCount() <= 1) {
1638 QString warning = "Do you really want to close the image : ";
1639 warning += item->data(COLUMN_IMAGE_NAME,Qt::DisplayRole).toString();
1640 warning += "\nThis is the last image, you're about to close vv !!!";
1641 QMessageBox msgBox(QMessageBox::Warning, tr("Close Image"),
1643 msgBox.addButton(tr("Close vv"), QMessageBox::AcceptRole);
1644 msgBox.addButton(tr("Cancel"), QMessageBox::RejectRole);
1645 if (msgBox.exec() == QMessageBox::AcceptRole) {
1649 QString warning = "Do you really want to close the image : ";
1650 warning += item->data(COLUMN_IMAGE_NAME,Qt::DisplayRole).toString();
1651 QMessageBox msgBox(QMessageBox::Warning, tr("Close Image"),
1653 msgBox.addButton(tr("Close"), QMessageBox::AcceptRole);
1654 msgBox.addButton(tr("Cancel"), QMessageBox::RejectRole);
1655 if (msgBox.exec() == QMessageBox::AcceptRole) {
1657 // Tell tools that we close an image
1658 emit AnImageIsBeingClosed(mSlicerManagers[index]);
1660 std::vector<vvSlicerManager*>::iterator Manageriter = mSlicerManagers.begin();
1661 DataTree->takeTopLevelItem(index);
1662 for (int i = 0; i < index; i++) {
1665 //if the slicer manager was involved in a fusion sequence visualization...
1666 if ( mSlicerManagers[index]->IsInvolvedInFusionSequence() ) {
1667 //in both cases, close the overlay: find it... and close it
1668 //ideally, I should duplicate the code, and avoid calling CloseImage, since this pops up another interactive box
1669 QTreeWidgetItem* overlayItem;
1670 if (mSlicerManagers[index]->IsMainSequenceOfFusionSequence()) {
1671 for (unsigned i=0 ; i<item->childCount() ; i++) {
1672 overlayItem = item->child(i);
1673 this->CloseImage( overlayItem, 0 );
1677 QTreeWidgetItem* linkedItem = this->GetItemFromSlicerManager( mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()] );
1678 for (unsigned i=0 ; i<linkedItem->childCount() ; i++) {
1679 overlayItem = linkedItem->child(i);
1680 this->CloseImage( overlayItem, 0 );
1684 /* -- this is normally already done when closing the overlay.
1685 //reset the transforms
1686 overlayPanel->getFusionSequenceProperty(-1, false, 0, false);
1688 //unlink and untie the slicer managers
1689 RemoveLink(mSlicerManagers[index]->GetId().c_str(), mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->GetId().c_str());
1690 mSlicerManagers[index]->SetFusionSequenceInvolvmentCode(-1);
1691 mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->SetFusionSequenceInvolvmentCode(-1);
1692 for (unsigned i=0 ; i<4 ; i++) {
1693 mSlicerManagers[index]->GetSlicer(i)->SetFusionSequenceCode(-1);
1694 mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->GetSlicer(i)->SetFusionSequenceCode(-1);
1699 linkPanel->removeImage(index);
1700 mSlicerManagers[index]->RemoveActors();
1702 //remove the slicer manager
1703 delete mSlicerManagers[index];
1704 mSlicerManagers.erase(Manageriter);
1712 //------------------------------------------------------------------------------
1714 //------------------------------------------------------------------------------
1715 void vvMainWindow::ReloadImage(QTreeWidgetItem* item, int column)
1717 // int index = GetSlicerIndexFromItem(item);
1718 // QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
1719 // if (item->data(1,Qt::UserRole).toString() == "vector")
1720 // mSlicerManagers[index]->ReloadVF();
1722 // mSlicerManagers[index]->Reload();
1724 // QApplication::restoreOverrideCursor();
1725 int index = GetSlicerIndexFromItem(item);
1726 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
1727 QString role=item->data(1,Qt::UserRole).toString();
1728 if ( role == "vector") {
1729 mSlicerManagers[index]->ReloadVF();
1731 else if (role == "overlay") {
1732 mSlicerManagers[index]->ReloadOverlay();
1734 else if (role == "fusion") {
1735 mSlicerManagers[index]->ReloadFusion();
1737 else if (role == "fusionSequence") {
1738 //both versions of the secondary sequence must be updated.
1739 mSlicerManagers[index]->ReloadFusionSequence();
1740 mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->Reload();
1743 mSlicerManagers[index]->Reload();
1744 //if we update the secondary sequence, then the overlay of the main sequence should also be updated
1745 if (mSlicerManagers[index]->IsSecondarySequenceOfFusionSequence()) mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->ReloadFusionSequence();
1747 // Update view and info
1749 mSlicerManagers[index]->Render();
1750 QApplication::restoreOverrideCursor();
1752 //------------------------------------------------------------------------------
1754 //------------------------------------------------------------------------------
1755 void vvMainWindow::MousePositionChanged(int visibility,double x, double y, double z, double X, double Y, double Z , double value)
1757 infoPanel->setCurrentInfo(visibility,x,y,z,X,Y,Z,value);
1759 //------------------------------------------------------------------------------
1761 //------------------------------------------------------------------------------
1762 void vvMainWindow::VectorChanged(int visibility,double x, double y, double z, double value)
1764 overlayPanel->getCurrentVectorInfo(visibility,x,y,z,value);
1766 //------------------------------------------------------------------------------
1768 //------------------------------------------------------------------------------
1769 void vvMainWindow::OverlayChanged(int visibility, double valueOver, double valueRef)
1771 overlayPanel->getCurrentOverlayInfo(visibility,valueOver, valueRef);
1773 //------------------------------------------------------------------------------
1775 //------------------------------------------------------------------------------
1776 void vvMainWindow::FusionChanged(int visibility, double value)
1778 overlayPanel->getCurrentFusionInfo(visibility,value);
1780 //------------------------------------------------------------------------------
1782 //------------------------------------------------------------------------------
1783 //called when AddOverlayImage, AddFusionSequence
1784 //or when UpdateWindowLevel() is called ; when slicerManager emits WindowLevelChanged
1785 //when ImageInfoChanged() is called
1786 void vvMainWindow::WindowLevelChanged()
1789 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1790 if(index==-1) return;
1791 windowSpinBox->setValue(mSlicerManagers[index]->GetColorWindow());
1792 levelSpinBox->setValue(mSlicerManagers[index]->GetColorLevel());
1793 colorMapComboBox->setCurrentIndex(mSlicerManagers[index]->GetColorMap());
1794 presetComboBox->setCurrentIndex(mSlicerManagers[index]->GetPreset());
1797 if (mSlicerManagers[index]->GetSlicer(0)->GetOverlay())
1798 overlayPanel->getOverlayProperty(mSlicerManagers[index]->GetOverlayColor(),
1799 mSlicerManagers[index]->GetLinkOverlayWindowLevel(),
1800 mSlicerManagers[index]->GetOverlayColorWindow(),
1801 mSlicerManagers[index]->GetOverlayColorLevel());
1803 overlayPanel->getOverlayProperty(-1,0,0.,0.);
1805 // Fusion & SequenceFusion image
1806 if (mSlicerManagers[index]->GetSlicer(0)->GetFusion()) {
1807 overlayPanel->getFusionProperty(mSlicerManagers[index]->GetFusionOpacity(),
1808 mSlicerManagers[index]->GetFusionThresholdOpacity(),
1809 mSlicerManagers[index]->GetFusionColorMap(),
1810 mSlicerManagers[index]->GetFusionWindow(),
1811 mSlicerManagers[index]->GetFusionLevel());
1812 if (mSlicerManagers[index]->IsMainSequenceOfFusionSequence()) {
1813 overlayPanel->getFusionSequenceProperty(mSlicerManagers[index]->GetFusionSequenceFrameIndex(),
1814 mSlicerManagers[index]->GetFusionSequenceSpatialSyncFlag(),
1815 mSlicerManagers[index]->GetFusionSequenceNbFrames(),
1816 mSlicerManagers[index]->GetFusionSequenceTemporalSyncFlag());
1819 else if ( mSlicerManagers[index]->IsSecondarySequenceOfFusionSequence() ) {
1820 //if the image is involved in a fusion sequence, preserve the overlay panel!
1821 int ind = mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager();
1822 overlayPanel->getFusionProperty(mSlicerManagers[ind]->GetFusionOpacity(),
1823 mSlicerManagers[ind]->GetFusionThresholdOpacity(),
1824 mSlicerManagers[ind]->GetFusionColorMap(),
1825 mSlicerManagers[ind]->GetFusionWindow(),
1826 mSlicerManagers[ind]->GetFusionLevel());
1827 overlayPanel->getFusionSequenceProperty(mSlicerManagers[ind]->GetFusionSequenceFrameIndex(),
1828 mSlicerManagers[ind]->GetFusionSequenceSpatialSyncFlag(),
1829 mSlicerManagers[ind]->GetFusionSequenceNbFrames(),
1830 mSlicerManagers[ind]->GetFusionSequenceTemporalSyncFlag());
1834 overlayPanel->getFusionProperty(-1, -1, -1, -1, -1);
1835 overlayPanel->getFusionSequenceProperty(-1, false, 0, false);
1838 //------------------------------------------------------------------------------
1840 //------------------------------------------------------------------------------
1841 void vvMainWindow::WindowLevelEdited()
1843 presetComboBox->setCurrentIndex(WL_USER);
1844 UpdateWindowLevel();
1846 //------------------------------------------------------------------------------
1848 //------------------------------------------------------------------------------
1849 void vvMainWindow::SetWindowLevel(double w, double l)
1851 windowSpinBox->setValue(w);
1852 levelSpinBox->setValue(l);
1853 presetComboBox->setCurrentIndex(WL_USER);
1854 colorMapComboBox->setCurrentIndex(0);
1855 UpdateWindowLevel();
1857 //------------------------------------------------------------------------------
1859 //------------------------------------------------------------------------------
1860 void vvMainWindow::UpdateWindowLevel()
1862 if (DataTree->selectedItems().size()) {
1863 if (presetComboBox->currentIndex() == WL_VENTILATION) //For ventilation
1864 colorMapComboBox->setCurrentIndex(5);
1865 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1866 mSlicerManagers[index]->SetColorWindow(windowSpinBox->value());
1867 mSlicerManagers[index]->SetColorLevel(levelSpinBox->value());
1868 mSlicerManagers[index]->SetPreset(presetComboBox->currentIndex());
1869 mSlicerManagers[index]->Render();
1870 WindowLevelChanged();
1873 //------------------------------------------------------------------------------
1875 //------------------------------------------------------------------------------
1876 void vvMainWindow::UpdateSlicingPreset()
1878 if (DataTree->selectedItems().size()) {
1879 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1880 mSlicerManagers[index]->SetSlicingPreset(vvSlicerManager::SlicingPresetType(slicingPresetComboBox->currentIndex()));
1883 //------------------------------------------------------------------------------
1885 //------------------------------------------------------------------------------
1886 void vvMainWindow::UpdateColorMap()
1888 if (DataTree->selectedItems().size()) {
1889 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1890 mSlicerManagers[index]->SetColorMap(colorMapComboBox->currentIndex());
1891 mSlicerManagers[index]->Render();
1894 //------------------------------------------------------------------------------
1895 void vvMainWindow::SwitchWindowLevel()
1897 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1898 int window = mSlicerManagers[index]->GetColorWindow();
1899 presetComboBox->setCurrentIndex(WL_USER);
1900 windowSpinBox->setValue(-window);
1901 UpdateWindowLevel();
1903 //------------------------------------------------------------------------------
1905 //------------------------------------------------------------------------------
1906 void vvMainWindow::ApplyWindowLevelToAllImages()
1908 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1909 if(index==-1) return;
1910 double window = mSlicerManagers[index]->GetColorWindow();
1911 double level = mSlicerManagers[index]->GetColorLevel();
1913 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
1914 if (mSlicerManagers[i] == NULL)
1916 mSlicerManagers[i]->SetColorWindow(window);
1917 mSlicerManagers[i]->SetColorLevel(level);
1918 mSlicerManagers[i]->SetPreset(WL_USER);
1919 mSlicerManagers[i]->Render();
1922 //------------------------------------------------------------------------------
1924 //------------------------------------------------------------------------------
1925 void vvMainWindow::ApplyWindowToSetOfImages(double window, unsigned int indexMin, unsigned int indexMax)
1927 for (unsigned int i = indexMin; i <= indexMax && i < mSlicerManagers.size(); i++) {
1928 if (mSlicerManagers[i] == NULL)
1930 mSlicerManagers[i]->SetColorWindow(window);
1931 mSlicerManagers[i]->SetPreset(WL_USER);
1932 mSlicerManagers[i]->Render();
1935 //------------------------------------------------------------------------------
1937 //------------------------------------------------------------------------------
1938 void vvMainWindow::ApplyLevelToSetOfImages(double level, unsigned int indexMin, unsigned int indexMax)
1940 for (unsigned int i = indexMin; i <= indexMax && i < mSlicerManagers.size(); i++) {
1941 if (mSlicerManagers[i] == NULL)
1943 mSlicerManagers[i]->SetColorLevel(level);
1944 mSlicerManagers[i]->SetPreset(WL_USER);
1945 mSlicerManagers[i]->Render();
1948 //------------------------------------------------------------------------------
1950 //------------------------------------------------------------------------------
1951 void vvMainWindow::UpdateLinkManager(std::string id, int slicer, double x, double y, double z, int temps)
1953 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
1954 if (mSlicerManagers[i]->GetId() == id) {
1955 mSlicerManagers[i]->GetSlicer(slicer)->SetCurrentPosition(x,y,z,temps);
1956 mSlicerManagers[i]->UpdateViews(0,slicer);
1961 //------------------------------------------------------------------------------
1963 //------------------------------------------------------------------------------
1964 void vvMainWindow::UpdateLinkedNavigation(std::string id, vvSlicerManager * sm, vvSlicer* refSlicer)
1966 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
1967 if (id == mSlicerManagers[i]->GetId()) {
1968 mSlicerManagers[i]->UpdateLinkedNavigation(refSlicer);
1972 //------------------------------------------------------------------------------
1974 //------------------------------------------------------------------------------
1975 void vvMainWindow::ShowContextMenu(QPoint point)
1977 if (!DataTree->selectedItems().size()) {
1978 contextActions[1]->setEnabled(0);
1979 contextActions[2]->setEnabled(0);
1980 contextActions[3]->setEnabled(0);
1981 contextActions[4]->setEnabled(0);
1982 contextActions[5]->setEnabled(0);
1983 contextActions[6]->setEnabled(0);
1985 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1986 contextActions[1]->setEnabled(1);
1987 contextActions[2]->setEnabled(
1988 DataTree->itemWidget(DataTree->selectedItems()[0],
1989 COLUMN_RELOAD_IMAGE)->isEnabled());
1990 contextActions[3]->setEnabled(1);
1991 contextActions[5]->setEnabled(1);
1992 contextActions[6]->setEnabled(1);
1994 if (mSlicerManagers[index]->GetDimension() < 3)
1995 contextActions[4]->setEnabled(0);
1997 contextActions[4]->setEnabled(1);
1999 contextMenu.exec(QCursor::pos());
2001 //------------------------------------------------------------------------------
2003 //------------------------------------------------------------------------------
2004 void vvMainWindow::CloseImage()
2006 CloseImage(DataTree->selectedItems()[0],0);
2008 //------------------------------------------------------------------------------
2010 //------------------------------------------------------------------------------
2011 void vvMainWindow::ReloadImage()
2013 ReloadImage(DataTree->selectedItems()[0],0);
2015 //------------------------------------------------------------------------------
2017 //------------------------------------------------------------------------------
2018 void vvMainWindow::SelectOverlayImage()
2020 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2022 //check if one overlay image is added
2023 for (int child = 0; child < DataTree->topLevelItem(index)->childCount(); child++)
2024 if (DataTree->topLevelItem(index)->child(child)->data(1,Qt::UserRole).toString() == "overlay") {
2025 QString error = "Cannot add more than one compared image\n";
2026 error += "Please remove first ";
2027 error += DataTree->topLevelItem(index)->child(child)->data(COLUMN_IMAGE_NAME,Qt::DisplayRole).toString();
2028 QMessageBox::information(this,tr("Problem adding compared image !"),error);
2032 QString Extensions = EXTENSIONS;
2033 Extensions += ";;All Files (*)";
2034 QStringList files = QFileDialog::getOpenFileNames(this,tr("Load Overlay image"),mInputPathName,Extensions);
2035 if (files.isEmpty())
2038 std::vector<std::string> vecFileNames;
2039 for (int i = 0; i < files.size(); i++) {
2040 vecFileNames.push_back(files[i].toStdString());
2042 AddOverlayImage(index,vecFileNames,vvImageReader::IMAGE);
2044 //------------------------------------------------------------------------------
2046 //------------------------------------------------------------------------------
2047 void vvMainWindow::AddOverlayImage(int index, std::vector<std::string> fileNames, vvImageReader::LoadedImageType type)
2049 QString file(fileNames[0].c_str());
2050 if (QFile::exists(file))
2052 mInputPathName = itksys::SystemTools::GetFilenamePath(file.toStdString()).c_str();
2053 itk::ImageIOBase::Pointer reader = itk::ImageIOFactory::CreateImageIO(
2054 file.toStdString().c_str(), itk::ImageIOFactory::ReadMode);
2055 reader->SetFileName(fileNames[0].c_str());
2056 reader->ReadImageInformation();
2057 std::string component = reader->GetComponentTypeAsString(reader->GetComponentType());
2058 int dimension = reader->GetNumberOfDimensions();
2059 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
2060 vvProgressDialog progress("Opening " + file.toStdString());
2061 qApp->processEvents();
2063 std::string filename = itksys::SystemTools::GetFilenameWithoutExtension(file.toStdString()).c_str();
2064 if (mSlicerManagers[index]->SetOverlay(fileNames,dimension, component,type)) {
2065 //create an item in the tree with good settings
2066 QTreeWidgetItem *item = new QTreeWidgetItem();
2067 item->setData(0,Qt::UserRole,file.toStdString().c_str());
2068 item->setData(1,Qt::UserRole,tr("overlay"));
2069 QFileInfo fileinfo(file); //Do not show the path
2070 item->setData(COLUMN_IMAGE_NAME,Qt::DisplayRole,fileinfo.fileName());
2071 item->setToolTip(COLUMN_IMAGE_NAME, mSlicerManagers[index]->GetListOfAbsoluteFilePathInOneString("overlay").c_str());
2072 qApp->processEvents();
2074 for (int j = 1; j <= 4; j++) {
2075 item->setData(j,Qt::CheckStateRole,DataTree->topLevelItem(index)->data(j,Qt::CheckStateRole));
2078 //Create the buttons for reload and close
2079 qApp->processEvents();
2080 QTreePushButton* cButton = new QTreePushButton;
2081 cButton->setItem(item);
2082 cButton->setColumn(COLUMN_CLOSE_IMAGE);
2083 cButton->setToolTip(tr("close image"));
2084 cButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/exit.png")));
2085 connect(cButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2086 this,SLOT(CloseImage(QTreeWidgetItem*, int)));
2088 QTreePushButton* rButton = new QTreePushButton;
2089 rButton->setItem(item);
2090 rButton->setColumn(COLUMN_RELOAD_IMAGE);
2091 rButton->setToolTip(tr("reload image"));
2092 rButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/rotateright.png")));
2093 connect(rButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2094 this,SLOT(ReloadImage(QTreeWidgetItem*, int)));
2096 DataTree->topLevelItem(index)->setExpanded(1);
2097 DataTree->topLevelItem(index)->addChild(item);
2098 DataTree->setItemWidget(item, COLUMN_CLOSE_IMAGE, cButton);
2099 DataTree->setItemWidget(item, COLUMN_RELOAD_IMAGE, rButton);
2101 //set the id of the image
2102 QString id = DataTree->topLevelItem(index)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString();
2103 item->setData(COLUMN_IMAGE_NAME,Qt::UserRole,id.toStdString().c_str());
2105 qApp->processEvents();
2107 QApplication::restoreOverrideCursor();
2109 // Update the display to update, e.g., the sliders
2110 for(int i=0; i<4; i++)
2111 DisplaySliders(index, i);
2113 QApplication::restoreOverrideCursor();
2114 QString error = "Cannot import the new image.\n";
2115 error += mSlicerManagers[index]->GetLastError().c_str();
2116 QMessageBox::information(this,tr("Problem reading image !"),error);
2118 WindowLevelChanged();
2121 QMessageBox::information(this,tr("Problem reading Overlay !"),"File doesn't exist!");
2123 //------------------------------------------------------------------------------
2126 //------------------------------------------------------------------------------
2127 void vvMainWindow::AddROI(int index, QString file)
2130 // Get slice manager
2134 vvImageReader * mReader = new vvImageReader;
2135 mReader->SetInputFilename(filename.toStdString());
2136 mReader->Update(IMAGE);
2137 if (mReader->GetLastError().size() != 0) {
2138 std::cerr << "Error while reading " << filename.toStdString() << std::endl;
2139 QString error = "Cannot open file \n";
2140 error += mReader->GetLastError().c_str();
2141 QMessageBox::information(this,tr("Reading problem"),error);
2145 vvImage::Pointer roi = mReader->GetOutput();
2147 // Create roi in new tool
2148 vvToolStructureSetManager::AddImage(mCurrentSlicerManager, roi);
2151 //------------------------------------------------------------------------------
2153 //------------------------------------------------------------------------------
2154 void vvMainWindow::SelectFusionImage()
2156 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2158 //check if one fusion image is added
2159 for (int child = 0; child < DataTree->topLevelItem(index)->childCount(); child++)
2160 if ( (DataTree->topLevelItem(index)->child(child)->data(1,Qt::UserRole).toString() == "fusion") ||
2161 (DataTree->topLevelItem(index)->child(child)->data(1,Qt::UserRole).toString() == "fusionSequence") ) {
2162 QString error = "Cannot add more than one fusion image\n";
2163 error += "Please remove first ";
2164 error += DataTree->topLevelItem(index)->child(child)->data(COLUMN_IMAGE_NAME,Qt::DisplayRole).toString();
2165 QMessageBox::information(this,tr("Problem adding fusion image !"),error);
2169 QString Extensions = EXTENSIONS;
2170 Extensions += ";;All Files (*)";
2171 QStringList files = QFileDialog::getOpenFileNames(this,tr("Load Fusion image"),mInputPathName,Extensions);
2172 if (files.isEmpty())
2175 std::vector<std::string> vecFileNames;
2176 for (int i = 0; i < files.size(); i++) {
2177 vecFileNames.push_back(files[i].toStdString());
2179 AddFusionImage(index,vecFileNames,vvImageReader::IMAGE);
2181 //------------------------------------------------------------------------------
2183 //------------------------------------------------------------------------------
2184 void vvMainWindow::ResetTransformationToIdentity()
2186 std::string actorType = DataTree->selectedItems()[0]->data(1,Qt::UserRole).toString().toStdString();
2187 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2188 mSlicerManagers[index]->ResetTransformationToIdentity(actorType);
2191 //------------------------------------------------------------------------------
2193 //------------------------------------------------------------------------------
2194 void vvMainWindow::AddFusionImage(int index, std::vector<std::string> fileNames, vvImageReader::LoadedImageType type)
2196 QString file(fileNames[0].c_str());
2197 if (QFile::exists(file))
2199 mInputPathName = itksys::SystemTools::GetFilenamePath(file.toStdString()).c_str();
2200 itk::ImageIOBase::Pointer reader = itk::ImageIOFactory::CreateImageIO(
2201 file.toStdString().c_str(), itk::ImageIOFactory::ReadMode);
2202 reader->SetFileName(fileNames[0].c_str());
2203 reader->ReadImageInformation();
2204 std::string component = reader->GetComponentTypeAsString(reader->GetComponentType());
2205 int dimension = reader->GetNumberOfDimensions();
2206 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
2207 vvProgressDialog progress("Opening fusion");
2208 qApp->processEvents();
2210 std::string filename = itksys::SystemTools::GetFilenameWithoutExtension(file.toStdString()).c_str();
2211 if (mSlicerManagers[index]->SetFusion(fileNames,dimension, component,type)) {
2212 //create an item in the tree with good settings
2213 QTreeWidgetItem *item = new QTreeWidgetItem();
2214 item->setData(0,Qt::UserRole,file.toStdString().c_str());
2215 item->setData(1,Qt::UserRole,tr("fusion"));
2216 QFileInfo fileinfo(file); //Do not show the path
2217 item->setData(COLUMN_IMAGE_NAME,Qt::DisplayRole,fileinfo.fileName());
2218 item->setToolTip(COLUMN_IMAGE_NAME, mSlicerManagers[index]->GetListOfAbsoluteFilePathInOneString("fusion").c_str());
2219 qApp->processEvents();
2221 for (int j = 1; j <= 4; j++) {
2222 item->setData(j,Qt::CheckStateRole,DataTree->topLevelItem(index)->data(j,Qt::CheckStateRole));
2225 //Create the buttons for reload and close
2226 qApp->processEvents();
2227 QTreePushButton* cButton = new QTreePushButton;
2228 cButton->setItem(item);
2229 cButton->setColumn(COLUMN_CLOSE_IMAGE);
2230 cButton->setToolTip(tr("close image"));
2231 cButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/exit.png")));
2232 connect(cButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2233 this,SLOT(CloseImage(QTreeWidgetItem*, int)));
2235 QTreePushButton* rButton = new QTreePushButton;
2236 rButton->setItem(item);
2237 rButton->setColumn(COLUMN_RELOAD_IMAGE);
2238 rButton->setToolTip(tr("reload image"));
2239 rButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/rotateright.png")));
2240 connect(rButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2241 this,SLOT(ReloadImage(QTreeWidgetItem*, int)));
2243 DataTree->topLevelItem(index)->setExpanded(1);
2244 DataTree->topLevelItem(index)->addChild(item);
2245 DataTree->setItemWidget(item, COLUMN_CLOSE_IMAGE, cButton);
2246 DataTree->setItemWidget(item, COLUMN_RELOAD_IMAGE, rButton);
2248 //set the id of the image
2249 QString id = DataTree->topLevelItem(index)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString();
2250 item->setData(COLUMN_IMAGE_NAME,Qt::UserRole,id.toStdString().c_str());
2252 qApp->processEvents();
2254 QApplication::restoreOverrideCursor();
2256 // Update the display to update, e.g., the sliders
2257 for(int i=0; i<4; i++)
2258 DisplaySliders(index, i);
2260 QApplication::restoreOverrideCursor();
2261 QString error = "Cannot import the new image.\n";
2262 error += mSlicerManagers[index]->GetLastError().c_str();
2263 QMessageBox::information(this,tr("Problem reading image !"),error);
2265 WindowLevelChanged();
2268 QMessageBox::information(this,tr("Problem reading Fusion !"),"File doesn't exist!");
2270 //------------------------------------------------------------------------------
2271 //------------------------------------------------------------------------------
2272 void vvMainWindow::AddLandmarks(int index, std::vector<std::string> files)
2274 if (!landmarksPanel->LoadFromFile(files))
2275 QMessageBox::information(this,tr("Problem reading Landmarks !"),"File doesn't exist!");
2277 landmarksPanel->SetCurrentPath(mInputPathName.toStdString());
2278 landmarksPanel->SetCurrentImage(mSlicerManagers[index]->GetFileName().c_str());
2281 //------------------------------------------------------------------------------
2282 void vvMainWindow::OpenField()
2284 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2285 //check if a vector field has already been added
2286 for (int child = 0; child < DataTree->topLevelItem(index)->childCount(); child++)
2287 if (DataTree->topLevelItem(index)->child(child)->data(1,Qt::UserRole).toString() == "vector") {
2288 QString error = "Cannot add more than one vector field\n";
2289 error += "Please remove first ";
2290 error += DataTree->topLevelItem(index)->child(child)->data(COLUMN_IMAGE_NAME,Qt::DisplayRole).toString();
2291 QMessageBox::information(this,tr("Problem adding vector field!"),error);
2295 QString Extensions = "Images ( *.mhd)";
2296 Extensions += ";;Images ( *.mha)";
2297 Extensions += ";;VF Images ( *.vf)";
2298 Extensions += ";;nii Images ( *.nii)";
2299 Extensions += ";;nrrd Images ( *.nrrd)";
2300 Extensions += ";;nhdr Images ( *.nhdr)";
2301 Extensions += ";;All Files (*)";
2302 QString file = QFileDialog::getOpenFileName(this,tr("Load deformation field"),mInputPathName,Extensions);
2303 if (!file.isEmpty())
2304 AddField(file,index);
2306 //------------------------------------------------------------------------------
2309 //------------------------------------------------------------------------------
2310 void vvMainWindow::AddFieldEntry(QString filename,int index,bool from_disk)
2312 //create an item in the tree with good settings
2313 QTreeWidgetItem *item = new QTreeWidgetItem();
2314 item->setData(0,Qt::UserRole,filename.toStdString().c_str());
2315 item->setData(1,Qt::UserRole,tr("vector"));
2316 QFileInfo fileinfo(filename); //Do not show the path
2317 item->setData(COLUMN_IMAGE_NAME,Qt::DisplayRole,fileinfo.fileName());
2318 item->setToolTip(COLUMN_IMAGE_NAME, mSlicerManagers[index]->GetListOfAbsoluteFilePathInOneString("vector").c_str());
2319 qApp->processEvents();
2321 for (int j = 1; j <= 4; j++) {
2322 item->setData(j,Qt::CheckStateRole,DataTree->topLevelItem(index)->data(j,Qt::CheckStateRole));
2325 //Create the buttons for reload and close
2326 qApp->processEvents();
2327 QTreePushButton* cButton = new QTreePushButton;
2328 cButton->setItem(item);
2329 cButton->setColumn(COLUMN_CLOSE_IMAGE);
2330 cButton->setToolTip(tr("close vector field"));
2331 cButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/exit.png")));
2332 connect(cButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2333 this,SLOT(CloseImage(QTreeWidgetItem*, int)));
2335 QTreePushButton* rButton = new QTreePushButton;
2336 rButton->setItem(item);
2337 rButton->setColumn(COLUMN_RELOAD_IMAGE);
2338 rButton->setToolTip(tr("reload vector field"));
2339 rButton->setEnabled(from_disk);
2340 rButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/rotateright.png")));
2341 connect(rButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2342 this,SLOT(ReloadImage(QTreeWidgetItem*, int)));
2344 DataTree->topLevelItem(index)->setExpanded(1);
2345 DataTree->topLevelItem(index)->addChild(item);
2346 DataTree->setItemWidget(item, COLUMN_RELOAD_IMAGE, rButton);
2347 DataTree->setItemWidget(item, COLUMN_CLOSE_IMAGE, cButton);
2349 //set the id of the image
2350 QString id = DataTree->topLevelItem(index)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString();
2351 item->setData(COLUMN_IMAGE_NAME,Qt::UserRole,id.toStdString().c_str());
2353 qApp->processEvents();
2355 QApplication::restoreOverrideCursor();
2357 //------------------------------------------------------------------------------
2360 //------------------------------------------------------------------------------
2361 void vvMainWindow::AddField(vvImage::Pointer vf,QString file,int index)
2363 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
2364 vvSlicerManager* imageManager = mSlicerManagers[index];
2365 if (imageManager->SetVF(vf,file.toStdString())) {
2366 AddFieldEntry(file,index,false);
2368 QString error = "Cannot import the vector field for this image.\n";
2369 error += imageManager->GetLastError().c_str();
2370 QMessageBox::information(this,tr("Problem reading VF !"),error);
2372 QApplication::restoreOverrideCursor();
2374 //------------------------------------------------------------------------------
2377 //------------------------------------------------------------------------------
2378 void vvMainWindow::AddField(QString file,int index)
2380 if (QFile::exists(file)) {
2381 mInputPathName = itksys::SystemTools::GetFilenamePath(file.toStdString()).c_str();
2383 //init the progress events
2384 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
2385 vvProgressDialog progress("Opening " + file.toStdString());
2386 qApp->processEvents();
2388 //read the vector and put it in the current mSlicerManager
2389 vvSlicerManager* imageManager = mSlicerManagers[index];
2390 qApp->processEvents();
2392 std::string filename = itksys::SystemTools::GetFilenameWithoutExtension(file.toStdString()).c_str();
2393 if (imageManager->SetVF(file.toStdString())) {
2394 imageManager->Render();
2395 AddFieldEntry(file,index,true);
2397 QApplication::restoreOverrideCursor();
2398 QString error = "Cannot import the vector field for this image.\n";
2399 error += imageManager->GetLastError().c_str();
2400 QMessageBox::information(this,tr("Problem reading VF !"),error);
2403 QMessageBox::information(this,tr("Problem reading VF !"),"File doesn't exist!");
2406 //------------------------------------------------------------------------------
2409 //------------------------------------------------------------------------------
2410 void vvMainWindow::SetVFProperty(int subsampling, int scale, int log, int width, double r, double g, double b)
2412 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2413 if (mSlicerManagers[index]->GetSlicer(0)->GetVF()) {
2414 for (int i = 0; i < 4; i++) {
2415 mSlicerManagers[index]->GetSlicer(i)->SetVFSubSampling(subsampling);
2416 mSlicerManagers[index]->GetSlicer(i)->SetVFScale(scale);
2417 mSlicerManagers[index]->GetSlicer(i)->SetVFWidth(width);
2418 mSlicerManagers[index]->GetSlicer(i)->SetVFColor(r,g,b);
2420 mSlicerManagers[index]->GetSlicer(i)->SetVFLog(1);
2422 mSlicerManagers[index]->GetSlicer(i)->SetVFLog(0);
2426 //------------------------------------------------------------------------------
2429 //------------------------------------------------------------------------------
2430 void vvMainWindow::SetOverlayProperty(int color, int linked, double window, double level)
2432 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2433 if (mSlicerManagers[index]->GetSlicer(0)->GetOverlay()) {
2434 mSlicerManagers[index]->SetOverlayColor(color);
2435 mSlicerManagers[index]->SetColorMap(0);
2436 mSlicerManagers[index]->SetLinkOverlayWindowLevel(linked);
2437 mSlicerManagers[index]->SetOverlayColorWindow(window);
2438 mSlicerManagers[index]->SetOverlayColorLevel(level);
2439 mSlicerManagers[index]->Render();
2442 //------------------------------------------------------------------------------
2444 //------------------------------------------------------------------------------
2445 void vvMainWindow::SetFusionProperty(int opacity, int thresOpacity, int colormap,double window, double level, bool showLegend)
2447 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2448 if (mSlicerManagers[index]->GetSlicer(0)->GetFusion()) {
2449 mSlicerManagers[index]->SetFusionColorMap(colormap);
2450 mSlicerManagers[index]->SetFusionOpacity(opacity);
2451 mSlicerManagers[index]->SetFusionThresholdOpacity(thresOpacity);
2452 mSlicerManagers[index]->SetFusionWindow(window);
2453 mSlicerManagers[index]->SetFusionLevel(level);
2454 mSlicerManagers[index]->SetFusionShowLegend(showLegend);
2455 mSlicerManagers[index]->SetColorMap(0);
2456 mSlicerManagers[index]->Render();
2459 //------------------------------------------------------------------------------
2462 //------------------------------------------------------------------------------
2463 void vvMainWindow::SelectFusionSequence()
2465 //get the index of the slicer manager of the main sequence (CT)
2466 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2467 //check if one overlay image is already associated
2468 for (int child = 0; child < DataTree->topLevelItem(index)->childCount(); child++)
2469 if ( (DataTree->topLevelItem(index)->child(child)->data(1,Qt::UserRole).toString() == "fusion") ||
2470 (DataTree->topLevelItem(index)->child(child)->data(1,Qt::UserRole).toString() == "fusionSequence") ) {
2471 QString error = "Cannot add more than one compared image\n";
2472 error += "Please remove first ";
2473 error += DataTree->topLevelItem(index)->child(child)->data(COLUMN_IMAGE_NAME,Qt::DisplayRole).toString();
2474 QMessageBox::information(this,tr("Problem adding compared image !"),error);
2478 QString Extensions = EXTENSIONS;
2479 Extensions += ";;All Files (*)";
2480 QStringList files = QFileDialog::getOpenFileNames(this,tr("Load Overlay image sequence"),mInputPathName,Extensions);
2481 if (files.isEmpty())
2484 std::vector<std::string> vecFileNames;
2485 for (int i = 0; i < files.size(); i++) {
2486 vecFileNames.push_back(files[i].toStdString());
2489 //associate the secondary sequence (US) to the main one
2490 AddFusionSequence(index,vecFileNames,vvImageReader::MERGEDWITHTIME);
2492 //------------------------------------------------------------------------------
2495 //------------------------------------------------------------------------------
2496 void vvMainWindow::SelectFusionSequenceCorrespondances() {
2498 //make sure the index is right?
2499 //in the end, I should attach the temporal data to the right sequence!
2500 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2501 //in case the other sequence got selected, make sure we select the primary sequence
2502 if ( (!mSlicerManagers[index]->GetSlicer(0)->GetFusion()) && mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()>=0 ) {
2503 index = mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager();
2506 //open a dialog box to find a file
2507 //QString Extensions = EXTENSIONS;
2508 QString Extensions = ";;All Files (*)";
2509 QString fileName = QFileDialog::getOpenFileName(this,tr("Load respiratory signal for fused sequence"),mInputPathName,Extensions);
2510 if (fileName.isNull())
2513 //read it as a vector of values
2514 vnl_vector<double> tmpVect;
2517 file.open(fileName.toStdString().c_str());
2518 tmpVect.read_ascii(file);
2521 //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
2522 bool signalOK = true;
2523 unsigned nbFrameMain = mSlicerManagers[index]->GetImage()->GetTransform().size();
2524 unsigned nbFrameSecondary = mSlicerManagers[index]->GetFusionSequenceNbFrames();
2525 std::cout<<"nbFrameMain = "<<nbFrameMain<<", nbFrameSecondary= "<<nbFrameSecondary<<", signal size: "<<tmpVect.size()<<std::endl;
2526 std::vector<unsigned> temporalCorrespondances;
2527 if ( tmpVect.size() == nbFrameMain + nbFrameSecondary ) {
2528 for (unsigned i=0 ; i<tmpVect.size() ; i++) {
2529 if (i<nbFrameMain) { //first part of the file: i -> index in secondary seq.
2530 if ( tmpVect(i)<nbFrameSecondary ) temporalCorrespondances.push_back(tmpVect(i));
2531 else { signalOK=false; break; } //pointing outside the secondary sequence...
2533 else { //first part of the file -> index in secondary seq.
2534 if ( tmpVect(i)<nbFrameMain ) temporalCorrespondances.push_back(tmpVect(i));
2535 else { signalOK=false; break; } //pointing outside the secondary sequence...
2539 else {signalOK=false;}
2540 if (!signalOK) {//else, send a message to signal the failure...
2541 QString error = "The provided temporal correspondances is invalid - check tooltip.\n";
2542 error += "Ignoring file: " + fileName;
2543 QMessageBox::information(this,tr("Problem adding temporal correspondances!"),error);
2547 //for convenience, associate this sequence to both the current slicer manager, and to the linked one
2548 mSlicerManagers[index]->SetFusionSequenceCorrespondances(temporalCorrespondances);
2549 mSlicerManagers[ mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager() ]->SetFusionSequenceCorrespondances(temporalCorrespondances);
2550 overlayPanel->enableFusionSequenceTemporalSync();
2554 //------------------------------------------------------------------------------
2557 //------------------------------------------------------------------------------
2558 //when this function is called index is the slicer manager index corresponding to the main sequence (CT)
2559 //the files behind fileNames points to the data for the secondary sequence
2560 void vvMainWindow::AddFusionSequence(int index, std::vector<std::string> fileNames, vvImageReader::LoadedImageType type)
2562 QString file(fileNames[0].c_str());
2563 if (QFile::exists(file))
2565 mInputPathName = itksys::SystemTools::GetFilenamePath(file.toStdString()).c_str();
2566 itk::ImageIOBase::Pointer reader = itk::ImageIOFactory::CreateImageIO(
2567 file.toStdString().c_str(), itk::ImageIOFactory::ReadMode);
2568 std::sort (fileNames.begin(), fileNames.end());//make sure the files are sorted.
2569 reader->SetFileName(fileNames[0].c_str());
2570 reader->ReadImageInformation();
2571 std::string component = reader->GetComponentTypeAsString(reader->GetComponentType());
2572 int dimension = reader->GetNumberOfDimensions();
2573 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
2574 vvProgressDialog progress("Opening " + file.toStdString());
2575 qApp->processEvents();
2577 std::string filename = itksys::SystemTools::GetFilenameWithoutExtension(file.toStdString()).c_str();
2579 if (mSlicerManagers[index]->SetFusionSequence(fileNames,dimension, component,type)) {
2580 //create an item in the tree with good settings
2581 QTreeWidgetItem *item = new QTreeWidgetItem();
2582 item->setData(0,Qt::UserRole,file.toStdString().c_str());
2583 item->setData(1,Qt::UserRole,tr("fusionSequence"));
2585 QFileInfo fileinfo(file); //Do not show the path
2586 item->setData(COLUMN_IMAGE_NAME,Qt::DisplayRole,fileinfo.fileName());
2587 item->setToolTip(COLUMN_IMAGE_NAME, mSlicerManagers[index]->GetListOfAbsoluteFilePathInOneString("fusionSequence").c_str());
2588 qApp->processEvents();
2589 for (int j = 1; j <= 4; j++) {
2590 item->setData(j,Qt::CheckStateRole,DataTree->topLevelItem(index)->data(j,Qt::CheckStateRole));
2593 //Create the buttons for reload and close
2594 qApp->processEvents();
2595 QTreePushButton* cButton = new QTreePushButton;
2596 cButton->setItem(item);
2597 cButton->setColumn(COLUMN_CLOSE_IMAGE);
2598 cButton->setToolTip(tr("close image"));
2599 cButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/exit.png")));
2600 connect(cButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2601 this,SLOT(CloseImage(QTreeWidgetItem*, int)));
2603 QTreePushButton* rButton = new QTreePushButton;
2604 rButton->setItem(item);
2605 rButton->setColumn(COLUMN_RELOAD_IMAGE);
2606 rButton->setToolTip(tr("reload image"));
2607 rButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/rotateright.png")));
2608 connect(rButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2609 this,SLOT(ReloadImage(QTreeWidgetItem*, int)));
2611 DataTree->topLevelItem(index)->setExpanded(1);
2612 DataTree->topLevelItem(index)->addChild(item);
2613 DataTree->setItemWidget(item, COLUMN_CLOSE_IMAGE, cButton);
2614 DataTree->setItemWidget(item, COLUMN_RELOAD_IMAGE, rButton);
2616 //store the original transform matrix
2617 int indexParent = GetSlicerIndexFromItem( DataTree->topLevelItem(index) );
2618 mSlicerManagers[indexParent]->SetFusionSequenceMainTransformMatrix( mSlicerManagers[indexParent]->GetSlicer(0)->GetImage()->GetTransform()[0]->GetMatrix() );
2620 //set the id of the image
2621 QString id = DataTree->topLevelItem(index)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString();
2622 item->setData(COLUMN_IMAGE_NAME,Qt::UserRole,id.toStdString().c_str());
2624 qApp->processEvents();
2626 //ImageInfoChanged();
2628 QApplication::restoreOverrideCursor();
2629 // Update the display to update, e.g., the sliders
2630 for(int i=0; i<4; i++)
2631 DisplaySliders(index, i);
2634 //This loads the secondary sequence (US) as an independent sequence
2635 LoadImages(fileNames, type);
2636 //reset the transforms to identity
2637 //FIX -- and set the thickness of the US slices to a large value (necessary for visualization purposes...)
2638 double sp_x, sp_y, sp_z;
2639 mSlicerManagers[indexParent]->GetImage()->GetVTKImages()[0]->GetSpacing(sp_x, sp_y, sp_z);
2640 sp_z = std::max(sp_x, std::max(sp_y, sp_z)) + 0.5; //
2641 for (unsigned i=0 ; i<mSlicerManagers.back()->GetImage()->GetTransform().size() ; i++) {
2642 sp_x = mSlicerManagers.back()->GetImage()->GetVTKImages()[i]->GetSpacing()[0];
2643 sp_y = mSlicerManagers.back()->GetImage()->GetVTKImages()[i]->GetSpacing()[1];
2644 mSlicerManagers.back()->GetImage()->GetVTKImages()[i]->SetSpacing( sp_x, sp_y, sp_z);
2645 mSlicerManagers.back()->GetImage()->GetTransform()[i]->Identity();
2646 mSlicerManagers.back()->GetImage()->GetTransform()[i]->Update();
2649 //automatically link both images...
2650 AddLink(mSlicerManagers[indexParent]->GetId().c_str(), mSlicerManagers.back()->GetId().c_str(), false);
2652 //tie the main and secondary sequences by raising flags and informing each another of their respective SlicerManager indices
2653 mSlicerManagers[indexParent]->SetFusionSequenceIndexOfLinkedManager(mSlicerManagers.size()-1);
2654 mSlicerManagers[indexParent]->SetFusionSequenceInvolvmentCode(0); //main sequence
2655 mSlicerManagers.back()->SetFusionSequenceIndexOfLinkedManager(indexParent);
2656 mSlicerManagers.back()->SetFusionSequenceInvolvmentCode(1); //secondary sequence
2657 for (unsigned i=0 ; i<4 ; i++) {
2658 mSlicerManagers.back()->GetSlicer(i)->SetFusionSequenceCode(1); //flag the slicers of the secondary sequence
2662 QApplication::restoreOverrideCursor();
2663 QString error = "Cannot import the new image.\n";
2664 error += mSlicerManagers[index]->GetLastError().c_str();
2665 QMessageBox::information(this,tr("Problem reading image !"),error);
2667 WindowLevelChanged();
2668 ImageInfoChanged(); //this internally calls WindowLevelChanged...
2671 QMessageBox::information(this,tr("Problem reading fusion sequence !"),"File doesn't exist!");
2676 //------------------------------------------------------------------------------
2679 //------------------------------------------------------------------------------
2680 //fusionSequenceFrameIndex and fusionSequenceNbFrames are relative to the secondary sequence (US)
2681 void vvMainWindow::SetFusionSequenceProperty(int fusionSequenceFrameIndex, bool spatialSyncFlag, unsigned int fusionSequenceNbFrames, bool temporalSyncFlag)
2683 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2685 if (!mSlicerManagers[index]->IsInvolvedInFusionSequence()) return;
2687 //check if the focus moved to the linked sequence, and in this case, select the master sequence instead
2688 if (!mSlicerManagers[index]->IsMainSequenceOfFusionSequence()) {
2689 index = mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager();
2691 int secondaryIndex = mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager();
2692 if (secondaryIndex==-1) return; //this should never happen
2693 if ( (!mSlicerManagers[index]->IsMainSequenceOfFusionSequence()) ||
2694 (!mSlicerManagers[secondaryIndex]->IsSecondarySequenceOfFusionSequence()) )
2695 {return;} //this should never happen, raise an exception?
2697 if (mSlicerManagers[index]->GetSlicer(0)->GetFusion()) {
2699 //First, if the spatialSync button is unchecked, then reposition the parent sequence (CT) in its original coordinate frame
2700 if ( (!spatialSyncFlag) && (mSlicerManagers[index]->GetFusionSequenceSpatialSyncFlag()) ) {
2701 for ( unsigned i=0 ; i<mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform().size() ; i++ ) {
2702 mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform()[i]->SetMatrix( mSlicerManagers[index]->GetFusionSequenceMainTransformMatrix() );
2703 mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform()[i]->Update();
2706 for (int i=0; i<mSlicerManagers[index]->GetNumberOfSlicers(); i++) {
2707 mSlicerManagers[index]->GetSlicer(i)->ForceUpdateDisplayExtent();
2708 mSlicerManagers[index]->GetSlicer(i)->Render();
2712 //then, update the property values in the slicer manager
2713 mSlicerManagers[index]->SetFusionSequenceLength(fusionSequenceNbFrames);
2714 mSlicerManagers[index]->SetFusionSequenceSpatialSyncFlag(spatialSyncFlag);
2715 mSlicerManagers[index]->SetFusionSequenceTemporalSyncFlag(temporalSyncFlag);
2716 mSlicerManagers[index]->SetFusionSequenceFrameIndex(fusionSequenceFrameIndex);
2718 //select the right frame of the US sequence
2719 mSlicerManagers[index]->SetFusionSequenceTSlice(fusionSequenceFrameIndex); //here, I should only update the overlayed sequence
2720 mSlicerManagers[secondaryIndex]->SetTSlice(fusionSequenceFrameIndex, false); //this should update the secondary sequence (individual version)
2722 //update the horizontal sliders of the main window
2723 overlayPanel->updateFusionSequenceSliderValueFromWindow(fusionSequenceFrameIndex, false);
2725 if (spatialSyncFlag) { //reslice the CT
2727 if (temporalSyncFlag) { //do the temporal synchronisation
2728 int mainSequenceFrameIndex=0;
2729 //estimate the TSlice to set to the CT
2730 unsigned nbFramesMain = mSlicerManagers[index]->GetImage()->GetTransform().size();
2731 mainSequenceFrameIndex = mSlicerManagers[index]->GetFusionSequenceCorrespondances()[ nbFramesMain + fusionSequenceFrameIndex];
2733 mSlicerManagers[index]->SetTSlice(mainSequenceFrameIndex, false);
2734 //warning, there is a loopback, and modification of the TSlice in main sequence forces an update of the TSlice in secondary, etc...
2738 //Set the transform matrix of the parent sequence (typically CT / 4DCT)
2739 vtkSmartPointer<vtkMatrix4x4> tmpMat = vtkSmartPointer<vtkMatrix4x4>::New();
2740 vtkMatrix4x4::Invert( mSlicerManagers[index]->GetFusionSequenceInitialTransformMatrixAtFrame(fusionSequenceFrameIndex), tmpMat );
2741 for ( unsigned i=0 ; i<mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform().size() ; i++ ) {
2742 mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform()[i]->SetMatrix( mSlicerManagers[index]->GetFusionSequenceMainTransformMatrix() );
2743 mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform()[i]->PreMultiply();
2744 mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform()[i]->Concatenate( tmpMat );
2745 mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform()[i]->Update();
2748 for (int i=0; i<mSlicerManagers[index]->GetNumberOfSlicers(); i++) {
2749 mSlicerManagers[index]->GetSlicer(i)->ForceUpdateDisplayExtent();
2750 mSlicerManagers[index]->GetSlicer(i)->Render();
2757 //------------------------------------------------------------------------------
2760 //------------------------------------------------------------------------------
2761 void vvMainWindow::SaveAs()
2763 if (DataTree->selectedItems()[0]->data(1,Qt::UserRole).toString() == "vector") {
2764 QMessageBox::warning(this,tr("Unsupported type"),tr("Sorry, saving a vector field is unsupported for the moment"));
2768 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2769 int dimension = mSlicerManagers[index]->GetDimension();
2770 QStringList OutputListeFormat;
2771 OutputListeFormat.clear();
2772 if (dimension == 1) {
2773 OutputListeFormat.push_back(".mhd");
2774 OutputListeFormat.push_back(".mha");
2776 if (dimension == 2) {
2777 OutputListeFormat.push_back(".bmp");
2778 OutputListeFormat.push_back(".png");
2779 OutputListeFormat.push_back(".jpeg");
2780 OutputListeFormat.push_back(".tif");
2781 OutputListeFormat.push_back(".mhd");
2782 OutputListeFormat.push_back(".mha");
2783 OutputListeFormat.push_back(".hdr");
2784 OutputListeFormat.push_back(".vox");
2785 } else if (dimension == 3) {
2786 OutputListeFormat.push_back(".mhd");
2787 OutputListeFormat.push_back(".mha");
2788 OutputListeFormat.push_back(".nii");
2789 OutputListeFormat.push_back(".nrrd");
2790 OutputListeFormat.push_back(".nhdr");
2791 OutputListeFormat.push_back(".hdr");
2792 OutputListeFormat.push_back(".vox");
2793 } else if (dimension == 4) {
2794 OutputListeFormat.push_back(".mhd");
2795 OutputListeFormat.push_back(".mha");
2796 OutputListeFormat.push_back(".nii");
2797 OutputListeFormat.push_back(".nrrd");
2798 OutputListeFormat.push_back(".nhdr");
2800 QString Extensions = "AllFiles(*.*)";
2801 for (int i = 0; i < OutputListeFormat.count(); i++) {
2802 Extensions += ";;Images ( *";
2803 Extensions += OutputListeFormat[i];
2806 QString fileName = QFileDialog::getSaveFileName(this,
2808 mSlicerManagers[index]->GetFileName().c_str(),
2810 if (!fileName.isEmpty()) {
2811 std::string fileformat = itksys::SystemTools::GetFilenameLastExtension(fileName.toStdString());
2812 if (OutputListeFormat.contains(
2813 fileformat.c_str())) {
2814 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
2815 std::string action = "Saving";
2816 vvProgressDialog progress("Saving "+fileName.toStdString());
2817 qApp->processEvents();
2818 vvImageWriter::Pointer writer = vvImageWriter::New();
2819 writer->SetOutputFileName(fileName.toStdString());
2820 writer->SetInput(mSlicerManagers[index]->GetImage());
2822 // Check on transform and prompt user
2823 writer->SetSaveTransform(false);
2825 for(int i=0; i<4; i++)
2826 for(int j=0; j<4; j++) {
2827 // TODO SR and BP: check on the list of transforms and not the first only
2828 double elt = mSlicerManagers[index]->GetImage()->GetTransform()[0]->GetMatrix()->GetElement(i,j);
2835 QString warning = "The image has an associated linear transform. Do you want to save it along?";
2836 QMessageBox msgBox(QMessageBox::Warning, tr("Save transform"), warning, 0, this);
2837 msgBox.addButton(tr("Yes"), QMessageBox::AcceptRole);
2838 msgBox.addButton(tr("No"), QMessageBox::RejectRole);
2839 if (msgBox.exec() == QMessageBox::AcceptRole)
2840 writer->SetSaveTransform(true);
2844 QApplication::restoreOverrideCursor();
2845 if (writer->GetLastError().size()) {
2846 QString error = "Saving did not succeed\n";
2847 error += writer->GetLastError().c_str();
2848 QMessageBox::information(this,tr("Saving Problem"),error);
2852 QString error = fileformat.c_str();
2853 if (error.isEmpty())
2854 error += "no file format specified !";
2856 error += " format unknown !!!\n";
2857 QMessageBox::information(this,tr("Saving Problem"),error);
2862 //------------------------------------------------------------------------------
2864 //------------------------------------------------------------------------------
2865 void vvMainWindow::SaveCurrentState()
2867 QString Extensions = "XML Files(*.xml)";
2868 QString fileName = QFileDialog::getSaveFileName(this,
2869 tr("Save Current Window State"),
2873 SaveCurrentStateAs(fileName.toStdString());
2875 //------------------------------------------------------------------------------
2877 //------------------------------------------------------------------------------
2878 void vvMainWindow::SaveCurrentStateAs(const std::string& stateFile)
2880 vvSaveState save_state;
2881 save_state.Run(this, stateFile);
2884 //------------------------------------------------------------------------------
2885 void vvMainWindow::ReadSavedState()
2887 QString Extensions = "XML Files(*.xml)";
2888 QString fileName = QFileDialog::getOpenFileName(this,
2889 tr("Load Window State"),
2893 ReadSavedStateFile(fileName.toStdString());
2895 //------------------------------------------------------------------------------
2897 //------------------------------------------------------------------------------
2898 void vvMainWindow::ReadSavedStateFile(const std::string& stateFile)
2900 vvReadState read_state;
2901 read_state.Run(this, stateFile);
2903 //------------------------------------------------------------------------------
2905 //------------------------------------------------------------------------------
2906 void vvMainWindow::LinkAllImages()
2908 linkPanel->linkAll();
2911 //------------------------------------------------------------------------------
2912 void vvMainWindow::AddLink(QString image1,QString image2,bool fromPanel)
2915 // delegate to linkPanel if call came from elsewhere...
2916 linkPanel->addLinkFromIds(image1, image2);
2920 unsigned int sm1 = 0;
2921 unsigned int sm2 = 0;
2923 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
2924 if (image1.toStdString() == mSlicerManagers[i]->GetId()) {
2925 mSlicerManagers[i]->AddLink(image2.toStdString());
2928 if (image2.toStdString() == mSlicerManagers[i]->GetId()) {
2929 mSlicerManagers[i]->AddLink(image1.toStdString());
2934 if (linkPanel->isLinkAll()) {
2935 emit UpdateLinkedNavigation(mSlicerManagers[sm1]->GetId(), mSlicerManagers[mCurrentPickedImageIndex], mSlicerManagers[mCurrentPickedImageIndex]->GetSlicer(0));
2936 emit UpdateLinkedNavigation(mSlicerManagers[sm2]->GetId(), mSlicerManagers[mCurrentPickedImageIndex], mSlicerManagers[mCurrentPickedImageIndex]->GetSlicer(0));
2938 emit UpdateLinkedNavigation(mSlicerManagers[sm2]->GetId(), mSlicerManagers[sm1], mSlicerManagers[sm1]->GetSlicer(0));
2942 //------------------------------------------------------------------------------
2945 //------------------------------------------------------------------------------
2946 void vvMainWindow::RemoveLink(QString image1,QString image2)
2948 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
2949 if (image1.toStdString() == mSlicerManagers[i]->GetId()) {
2950 mSlicerManagers[i]->RemoveLink(image2.toStdString());
2952 if (image2.toStdString() == mSlicerManagers[i]->GetId()) {
2953 mSlicerManagers[i]->RemoveLink(image1.toStdString());
2957 //------------------------------------------------------------------------------
2959 //------------------------------------------------------------------------------
2960 void vvMainWindow::ChangeImageWithIndexOffset(vvSlicerManager *sm, int slicer, int offset)
2962 if(mSlicerManagers.size()==1)
2966 while(sm != mSlicerManagers[index])
2968 index = (index+offset+mSlicerManagers.size()) % mSlicerManagers.size();
2970 QTreeWidgetItem* item = GetItemFromSlicerManager(mSlicerManagers[index]);
2971 item->setData(slicer+1,Qt::CheckStateRole,2); //change checkbox
2972 CurrentImageChanged(mSlicerManagers[index]->GetId()); //select new image
2973 DisplayChanged(item,slicer+1);
2975 //------------------------------------------------------------------------------
2976 void vvMainWindow::HorizontalSliderMoved(int value,int column, int slicer_index)
2978 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
2979 if (DataTree->topLevelItem(i)->data(column,Qt::CheckStateRole).toInt() > 1) {
2980 //i is the SlicerManager that is in charge of this slicer.
2981 if (mSlicerManagers[i]->IsInvolvedInFusionSequence()) {
2982 //if the slicerManager is involved in a fusionSequence as the secondary sequence, then update the slider position in the overlay panel and everything accordingly
2983 if (mSlicerManagers[i]->IsSecondarySequenceOfFusionSequence()) {
2984 overlayPanel->updateFusionSequenceSliderValueFromWindow(value, true);
2986 else { //if this is the primary sequence that has been modified
2987 if (mSlicerManagers[i]->GetFusionSequenceTemporalSyncFlag()) {
2988 //WARNING: for some obscure reason, there are problems when accessing mSlicerManagers[mSlicerManagers[i]->GetFusionSequenceIndexOfLinkedManager()]->GetFusionSequenceFrameIndex();
2990 int estimatedValue=0;
2991 //estimate a corresponding time index for the secondary (US) sequence, and update it accordingly.
2992 estimatedValue = mSlicerManagers[i]->GetFusionSequenceCorrespondances()[ value ];
2993 //TODO: at the moment, there is a loop in TSlice modifications
2994 //modifying sequence 1 causes seq 2 to update, which in turns update seq1...
2995 //I disable control on seq1 at the moment.
2996 //overlayPanel->updateFusionSequenceSliderValueFromWindow(estimatedValue, true);
3001 for (int j = 0; j < 4; j++) {
3002 mSlicerManagers[i]->SetTSliceInSlicer(value,j);
3004 mSlicerManagers[i]->GetSlicer(slicer_index)->Render();
3009 //------------------------------------------------------------------------------
3012 //------------------------------------------------------------------------------
3013 void vvMainWindow::NOHorizontalSliderMoved()
3015 // if (mCurrentTime == NOHorizontalSlider->value()) return;
3016 HorizontalSliderMoved(NOHorizontalSlider->value(),COLUMN_UL_VIEW,0);
3017 // mCurrentTime = NOHorizontalSlider->value();
3019 //------------------------------------------------------------------------------
3022 //------------------------------------------------------------------------------
3023 void vvMainWindow::NEHorizontalSliderMoved()
3025 // if (mCurrentTime == NEHorizontalSlider->value()) return;
3026 HorizontalSliderMoved(NEHorizontalSlider->value(),COLUMN_UR_VIEW,1);
3027 // mCurrentTime = NEHorizontalSlider->value();
3029 //------------------------------------------------------------------------------
3032 //------------------------------------------------------------------------------
3033 void vvMainWindow::SOHorizontalSliderMoved()
3035 // if (mCurrentTime == SOHorizontalSlider->value()) return;
3036 HorizontalSliderMoved(SOHorizontalSlider->value(),COLUMN_DL_VIEW,2);
3037 // mCurrentTime = SOHorizontalSlider->value();
3039 //------------------------------------------------------------------------------
3042 //------------------------------------------------------------------------------
3043 void vvMainWindow::SEHorizontalSliderMoved()
3045 // if (mCurrentTime == SEHorizontalSlider->value()) return;
3046 HorizontalSliderMoved(SEHorizontalSlider->value(),COLUMN_DR_VIEW,3);
3047 // mCurrentTime = SEHorizontalSlider->value();
3049 //------------------------------------------------------------------------------
3051 //------------------------------------------------------------------------------
3052 void vvMainWindow::NOVerticalSliderChanged()
3054 static int value=-1;
3055 if (value == NOVerticalSlider->value()) return;
3056 else value = NOVerticalSlider->value();
3057 // int value = NOVerticalSlider->value();
3058 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
3059 if (DataTree->topLevelItem(i)->data(COLUMN_UL_VIEW,Qt::CheckStateRole).toInt() > 1) {
3060 if (mSlicerManagers[i]->GetSlicer(0)->GetSlice() != value) {
3061 mSlicerManagers[i]->GetSlicer(0)->SetSlice(value);
3062 mSlicerManagers[i]->VerticalSliderHasChanged(0, value);
3064 // If nor Update/Render -> slider not work
3065 // only render = ok navigation, but for contour Update needed but slower ?
3067 mSlicerManagers[i]->UpdateSlice(0); // <-- DS add this. Not too much update ? YES. but needed for ImageContour ...
3068 //mSlicerManagers[i]->GetSlicer(0)->Render(); // <-- DS add this, needed for contour, seems ok ? not too slow ?
3074 //------------------------------------------------------------------------------
3077 //------------------------------------------------------------------------------
3078 void vvMainWindow::NEVerticalSliderChanged()
3080 static int value=-1;
3081 if (value == NEVerticalSlider->value()) return;
3082 else value = NEVerticalSlider->value();
3083 // int value = NEVerticalSlider->value();
3084 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
3085 if (DataTree->topLevelItem(i)->data(COLUMN_UR_VIEW,Qt::CheckStateRole).toInt() > 1) {
3086 if (mSlicerManagers[i]->GetSlicer(1)->GetSlice() != value) {
3087 mSlicerManagers[i]->GetSlicer(1)->SetSlice(value);
3088 mSlicerManagers[i]->VerticalSliderHasChanged(1, value);
3089 mSlicerManagers[i]->UpdateSlice(1);
3090 //mSlicerManagers[i]->GetSlicer(1)->Render(); // <-- DS add this, needed for contour, seems ok ? not too slow ?
3096 //------------------------------------------------------------------------------
3099 //------------------------------------------------------------------------------
3100 void vvMainWindow::SOVerticalSliderChanged()
3102 static int value=-1;
3103 if (value == SOVerticalSlider->value()) return;
3104 else value = SOVerticalSlider->value();
3105 //int value = SOVerticalSlider->value();
3106 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
3107 if (DataTree->topLevelItem(i)->data(COLUMN_DL_VIEW,Qt::CheckStateRole).toInt() > 1) {
3108 if (mSlicerManagers[i]->GetSlicer(2)->GetSlice() != value) {
3109 mSlicerManagers[i]->GetSlicer(2)->SetSlice(value);
3110 mSlicerManagers[i]->VerticalSliderHasChanged(2, value);
3111 mSlicerManagers[i]->UpdateSlice(2);
3112 //mSlicerManagers[i]->GetSlicer(2)->Render(); // <-- DS add this, needed for contour, seems ok ? not too slow ?
3114 // else { DD("avoid SOVerticalSlider slicer update"); }
3119 //------------------------------------------------------------------------------
3122 //------------------------------------------------------------------------------
3123 void vvMainWindow::SEVerticalSliderChanged()
3125 static int value=-1;
3126 if (value == SEVerticalSlider->value()) return;
3127 else value = SEVerticalSlider->value();
3128 // int value = SEVerticalSlider->value();
3129 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
3130 if (DataTree->topLevelItem(i)->data(COLUMN_DR_VIEW,Qt::CheckStateRole).toInt() > 1) {
3131 if (mSlicerManagers[i]->GetSlicer(3)->GetSlice() != value) {
3132 mSlicerManagers[i]->GetSlicer(3)->SetSlice(value);
3133 mSlicerManagers[i]->VerticalSliderHasChanged(3, value);
3134 mSlicerManagers[i]->UpdateSlice(3);
3135 //mSlicerManagers[i]->GetSlicer(3)->Render(); // <-- DS add this, needed for contour, seems ok ? not too slow ?
3141 //------------------------------------------------------------------------------
3144 //------------------------------------------------------------------------------
3145 void vvMainWindow::UpdateSlice(int slicer, int slice)
3147 // DD("vvMainWindow::UpdateSlice");
3151 // if (slice != NOVerticalSlider->value())
3152 NOVerticalSlider->setValue(slice);
3155 NEVerticalSlider->setValue(slice);
3158 SOVerticalSlider->setValue(slice);
3161 SEVerticalSlider->setValue(slice);
3165 // DD("vvMainWindow:UpdateSlice END");
3167 //------------------------------------------------------------------------------
3170 //------------------------------------------------------------------------------
3171 void vvMainWindow::UpdateTSlice(int slicer, int slice, int code)
3173 //FusionSequence: the slider value should be updated for slicers which show the same sequence as requested
3174 bool doUpdate=false;
3175 if (code==-1) doUpdate=true;
3177 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
3178 if (DataTree->topLevelItem(i)->data(slicer+1,Qt::CheckStateRole).toInt() > 1) {
3179 //i is the active SlicerManager
3180 if (mSlicerManagers[i]->GetFusionSequenceInvolvmentCode()==code) doUpdate=true;
3185 if (!doUpdate) return;
3189 if (NOHorizontalSlider->value()==slice) return;
3190 NOHorizontalSlider->setValue(slice);
3193 if (NEHorizontalSlider->value()==slice) return;
3194 NEHorizontalSlider->setValue(slice);
3197 if (SOHorizontalSlider->value()==slice) return;
3198 SOHorizontalSlider->setValue(slice);
3201 if (SEHorizontalSlider->value()==slice) return;
3202 SEHorizontalSlider->setValue(slice);
3206 //------------------------------------------------------------------------------
3209 //------------------------------------------------------------------------------
3210 void vvMainWindow::UpdateSliceRange(int slicer, int min, int max, int tmin, int tmax)
3212 //int position = int((min+max)/2);
3213 int position = mSlicerManagers[mCurrentPickedImageIndex]->GetSlicer(slicer)->GetSlice();
3215 NOVerticalSlider->setRange(min,max);
3216 NOHorizontalSlider->setRange(tmin,tmax);
3217 NOVerticalSlider->setValue(position);
3218 } else if (slicer == 1) {
3219 NEVerticalSlider->setRange(min,max);
3220 NEHorizontalSlider->setRange(tmin,tmax);
3221 NEVerticalSlider->setValue(position);
3222 } else if (slicer == 2) {
3223 SOVerticalSlider->setRange(min,max);
3224 SOHorizontalSlider->setRange(tmin,tmax);
3225 SOVerticalSlider->setValue(position);
3226 } else if (slicer == 3) {
3227 SEVerticalSlider->setRange(min,max);
3228 SEHorizontalSlider->setRange(tmin,tmax);
3229 SEVerticalSlider->setValue(position);
3232 //------------------------------------------------------------------------------
3235 //------------------------------------------------------------------------------
3236 void vvMainWindow::SaveNOScreenshot()
3238 SaveScreenshot(NOViewWidget);
3240 //------------------------------------------------------------------------------
3243 //------------------------------------------------------------------------------
3244 void vvMainWindow::SaveNEScreenshot()
3246 SaveScreenshot(NEViewWidget);
3248 //------------------------------------------------------------------------------
3251 //------------------------------------------------------------------------------
3252 void vvMainWindow::SaveSOScreenshot()
3254 SaveScreenshot(SOViewWidget);
3256 //------------------------------------------------------------------------------
3259 //------------------------------------------------------------------------------
3260 void vvMainWindow::SaveSEScreenshot()
3262 SaveScreenshot(SEViewWidget);
3264 //------------------------------------------------------------------------------
3267 //------------------------------------------------------------------------------
3268 void vvMainWindow::SaveScreenshotAllSlices()
3270 QVTKWidget *widget = NOViewWidget;
3272 int index = 0;// GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
3273 vvSlicerManager * SM = mSlicerManagers[index];
3274 vvImage * image = SM->GetImage();
3275 vvSlicer * slicer = SM->GetSlicer(0);
3276 int orientation = slicer->GetOrientation();
3277 int nbSlices = image->GetSize()[orientation];
3278 vtkSmartPointer<vtkRenderWindow> renderWindow = widget->GetRenderWindow();
3280 // Select filename base
3281 QString filename = QFileDialog::getSaveFileName(this,
3282 tr("Save As (filename will be completed by slice number)"),
3283 itksys::SystemTools::GetFilenamePath(mSlicerManagers[index]->GetFileName()).c_str(),
3284 "Images( *.png);;Images( *.jpg)");
3287 for(int i=0; i<nbSlices; i++) {
3289 slicer->SetSlice(i); // -> change the slice of the current slicer
3290 SM->UpdateSlice(0); // --> this one emit UpdateSlice
3291 QCoreApplication::flush(); // -> needed to force display of contours
3294 vtkSmartPointer<vtkWindowToImageFilter> windowToImageFilter = vtkSmartPointer<vtkWindowToImageFilter>::New();
3295 windowToImageFilter->SetInput(renderWindow);
3296 windowToImageFilter->SetMagnification(1);
3297 windowToImageFilter->SetInputBufferTypeToRGBA(); //also record the alpha (transparency) channel
3298 windowToImageFilter->Update();
3300 vtkSmartPointer<vtkPNGWriter> writer = vtkSmartPointer<vtkPNGWriter>::New();
3301 std::string fn = itksys::SystemTools::GetFilenameWithoutLastExtension(filename.toStdString());
3302 std::string num = clitk::toString(i);
3303 if (i<10) num = "0"+num;
3304 if (i<100) num = "0"+num;
3305 if (i<1000) num = "0"+num;
3307 fn = itksys::SystemTools::GetFilenamePath(filename.toStdString()) + "/"+ fn
3308 + "_" + num + itksys::SystemTools::GetFilenameLastExtension(filename.toStdString());
3309 writer->SetFileName(fn.c_str());
3310 writer->SetInput(windowToImageFilter->GetOutput());
3314 //------------------------------------------------------------------------------
3317 //------------------------------------------------------------------------------
3318 void vvMainWindow::SaveScreenshot(QVTKWidget *widget)
3320 QString Extensions = "Images( *.png);;";
3321 Extensions += "Images( *.jpg);;";
3322 Extensions += "Images( *.bmp);;";
3323 Extensions += "Images( *.tif);;";
3324 Extensions += "Images( *.ppm)";
3325 #if defined(VTK_USE_FFMPEG_ENCODER) || defined(VTK_USE_VIDEO_FOR_WINDOWS)
3326 Extensions += ";;Video( *.avi)";
3328 #ifdef VTK_USE_MPEG2_ENCODER
3329 Extensions += ";;Video( *.mpg)";
3331 #ifdef CLITK_EXPERIMENTAL
3332 Extensions += ";;Video( *.gif)";
3335 int smIndex=GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
3336 QString fileName = QFileDialog::getSaveFileName(this,
3338 itksys::SystemTools::GetFilenamePath(mSlicerManagers[smIndex]->GetFileName()).c_str(),
3341 if (!fileName.isEmpty()) {
3342 vtkSmartPointer<vtkWindowToImageFilter> w2i = vtkSmartPointer<vtkWindowToImageFilter>::New();
3343 w2i->SetInput(widget->GetRenderWindow());
3345 vtkImageData *image = w2i->GetOutput();
3347 std::string ext(itksys::SystemTools::GetFilenameLastExtension(fileName.toStdString()));
3350 vtkImageWriter *imgwriter = NULL;
3352 imgwriter = vtkBMPWriter::New();
3353 else if (ext==".tif")
3354 imgwriter = vtkTIFFWriter::New();
3355 else if (ext==".ppm")
3356 imgwriter = vtkPNMWriter::New();
3357 else if (ext==".png")
3358 imgwriter = vtkPNGWriter::New();
3359 else if (ext==".jpg")
3360 imgwriter = vtkJPEGWriter::New();
3362 // Snapshot image if not null
3363 if(imgwriter!=NULL) {
3364 imgwriter->SetInput(image);
3365 imgwriter->SetFileName(fileName.toStdString().c_str());
3371 vtkGenericMovieWriter *vidwriter = NULL;
3372 #if CLITK_EXPERIMENTAL == 1
3374 vvAnimatedGIFWriter *gif = vvAnimatedGIFWriter::New();
3379 int fps = QInputDialog::getInteger(this, tr("Number of frames per second"),
3380 tr("FPS:"), 5, 0, 1000, 1, &ok);
3385 int loops = QInputDialog::getInteger(this, tr("Loops"),
3386 tr("Number of loops (0 means infinite):"), 0, 0, 1000000000, 1, &ok);
3388 gif->SetLoops(loops);
3391 QString msg = "Would you like to activate dithering?";
3392 QMessageBox msgBox(QMessageBox::Question, tr("Dithering"),msg, 0, this);
3393 msgBox.addButton(tr("Yes"), QMessageBox::AcceptRole);
3394 msgBox.addButton(tr("No"), QMessageBox::RejectRole);
3395 gif->SetDither(msgBox.exec() == QMessageBox::AcceptRole);
3398 #ifdef VTK_USE_VIDEO_FOR_WINDOWS
3400 vtkAVIWriter *mpg = vtkAVIWriter::New();
3404 int fps = QInputDialog::getInteger(this, tr("Number of frames per second"),
3405 tr("FPS:"), 5, 0, 1024, 1, &ok);
3411 #ifdef VTK_USE_FFMPEG_ENCODER
3413 vtkFFMPEGWriter *mpg = vtkFFMPEGWriter::New();
3417 int fps = QInputDialog::getInteger(this, tr("Number of frames per second"),
3418 tr("FPS:"), 5, 0, 1024, 1, &ok);
3422 mpg->SetBitRateTolerance(int(ceil(12.0*1024*1024/fps)));
3425 #ifdef VTK_USE_MPEG2_ENCODER
3427 vtkMPEG2Writer *mpg = vtkMPEG2Writer::New();
3432 // Take video if not null
3433 if(vidwriter!=NULL){
3434 vidwriter->SetInput(image);
3435 vidwriter->SetFileName(fileName.toStdString().c_str());
3437 int nSlice = mSlicerManagers[smIndex]->GetSlicer(0)->GetTMax();
3438 for(int i=0; i<=nSlice; i++) {
3439 mSlicerManagers[smIndex]->SetNextTSlice(0);
3440 vtkSmartPointer<vtkWindowToImageFilter> w2i = vtkSmartPointer<vtkWindowToImageFilter>::New();
3441 w2i->SetInput(widget->GetRenderWindow());
3443 vidwriter->SetInput(w2i->GetOutput());
3447 vidwriter->Delete();
3451 QMessageBox::information(this,tr("Problem saving screenshot !"),tr("Cannot save image.\nPlease set a file extension !!!"));
3454 //------------------------------------------------------------------------------
3457 //------------------------------------------------------------------------------
3458 void vvMainWindow::GoToCursor()
3460 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
3461 for (int column = 1; column < 5; column++) {
3462 if (DataTree->selectedItems()[0]->data(column,Qt::CheckStateRole).toInt() > 1) {
3463 double* cursorPos = mSlicerManagers[index]->GetSlicer(column-1)->GetCursorPosition();
3464 mSlicerManagers[index]->GetSlicer(column-1)->SetCurrentPosition(
3465 cursorPos[0],cursorPos[1],cursorPos[2],cursorPos[3]);
3466 mSlicerManagers[index]->UpdateViews(1,column-1);
3467 mSlicerManagers[index]->UpdateLinked(column-1);
3472 //------------------------------------------------------------------------------
3474 //------------------------------------------------------------------------------
3475 void vvMainWindow::GoToLandmark()
3477 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
3478 for (int column = 1; column < 5; column++) {
3479 if (DataTree->selectedItems()[0]->data(column,Qt::CheckStateRole).toInt() > 1) {
3480 double* cursorPos = landmarksPanel->GetSelectedPoint();
3481 mSlicerManagers[index]->GetSlicer(column-1)->SetCurrentPosition(
3482 cursorPos[0],cursorPos[1],cursorPos[2],cursorPos[3]);
3483 mSlicerManagers[index]->UpdateViews(1,column-1);
3484 mSlicerManagers[index]->UpdateLinked(column-1);
3489 //------------------------------------------------------------------------------
3491 //------------------------------------------------------------------------------
3492 void vvMainWindow::PlayPause()
3496 playButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/player_play.png")));
3500 int image_number=DataTree->topLevelItemCount();
3502 for (int i=0; i<image_number; i++)
3503 if (mSlicerManagers[i]->GetSlicer(0)->GetTMax() > 0) {
3509 playButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/player_pause.png")));
3510 QTimer::singleShot(1000/mFrameRate, this, SLOT(PlayNext()));
3514 //------------------------------------------------------------------------------
3516 //------------------------------------------------------------------------------
3517 void vvMainWindow::PlayNext()
3519 if (playMode && !this->isHidden()) {
3520 int image_number=DataTree->topLevelItemCount();
3521 ///Only play one slicer per SM, and only if the SM is being displayed
3522 for (int i=0; i<image_number; i++)
3523 for (int j=0; j<4; j++)
3524 if (mSlicerManagers[i]->GetSlicer(0)->GetTMax() > 0 &&
3525 DataTree->topLevelItem(i)->data(j+1,Qt::CheckStateRole).toInt() > 0) {
3526 mSlicerManagers[i]->SetNextTSlice(j);
3529 QTimer::singleShot(1000/mFrameRate, this, SLOT(PlayNext()));
3532 //------------------------------------------------------------------------------
3534 void vvMainWindow::ShowLastImage()
3536 if (mSlicerManagers.size() > 1) {
3537 QTreeWidgetItem * item=DataTree->topLevelItem(DataTree->topLevelItemCount()-1);
3538 CurrentImageChanged(mSlicerManagers.back()->GetId()); //select new image
3539 item->setData(1,Qt::CheckStateRole,2); //show the new image in the first panel
3540 DisplayChanged(item,1);
3544 //------------------------------------------------------------------------------
3545 void vvMainWindow::UpdateRenderWindows()
3547 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
3548 mSlicerManagers[i]->GetSlicer(0)->UpdateLandmarks();
3549 mSlicerManagers[i]->GetSlicer(1)->UpdateLandmarks();
3550 mSlicerManagers[i]->GetSlicer(2)->UpdateLandmarks();
3551 mSlicerManagers[i]->GetSlicer(3)->UpdateLandmarks();
3553 if (NOViewWidget->GetRenderWindow()) NOViewWidget->GetRenderWindow()->Render();
3554 if (NEViewWidget->GetRenderWindow()) NEViewWidget->GetRenderWindow()->Render();
3555 if (SOViewWidget->GetRenderWindow()) SOViewWidget->GetRenderWindow()->Render();
3556 if (SEViewWidget->GetRenderWindow()) SEViewWidget->GetRenderWindow()->Render();
3558 //------------------------------------------------------------------------------
3560 //------------------------------------------------------------------------------
3561 void vvMainWindow::SegmentationOnCurrentImage()
3563 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
3565 vvSegmentationDialog segmentation;
3566 segmentation.SetImage(mSlicerManagers[index]->GetSlicer(0)->GetImage());
3567 segmentation.exec();
3569 //------------------------------------------------------------------------------
3571 void vvMainWindow::SurfaceViewerLaunch()
3573 vvSurfaceViewerDialog surfaceViewer;
3574 surfaceViewer.exec();
3576 //------------------------------------------------------------------------------
3579 //------------------------------------------------------------------------------
3580 int vvMainWindow::GetImageDuplicateFilenameNumber(std::string filename)
3583 for(unsigned int l=0; l<mSlicerManagers.size(); l++) {
3584 vvSlicerManager * v = mSlicerManagers[l];
3585 if (v->GetBaseFileName() ==
3586 vtksys::SystemTools::GetFilenameName(vtksys::SystemTools::GetFilenameWithoutLastExtension(filename))) {
3587 number = std::max(number, v->GetBaseFileNameNumber()+1);
3592 //------------------------------------------------------------------------------
3595 //------------------------------------------------------------------------------
3596 vvSlicerManager* vvMainWindow::AddImage(vvImage::Pointer image,std::string filename)
3598 // Change filename if another image exist with the same name
3599 int number = GetImageDuplicateFilenameNumber(filename);
3601 // Create new SliceManager
3602 vvSlicerManager* slicer_manager = new vvSlicerManager(4);
3603 slicer_manager->SetImage(image);//, IMAGE, number);
3604 // filename = filename+"_"+clitk::toString(number);
3605 slicer_manager->SetFilename(filename, number);
3606 mSlicerManagers.push_back(slicer_manager);
3608 //create an item in the tree with good settings
3609 QTreeWidgetItem *item = new QTreeWidgetItem();
3610 item->setData(0,Qt::UserRole,slicer_manager->GetFileName().c_str());//files[i].c_str());
3611 item->setData(1,Qt::UserRole,tr("image"));
3612 item->setData(COLUMN_IMAGE_NAME,Qt::DisplayRole,slicer_manager->GetFileName().c_str());//filename.c_str());
3613 qApp->processEvents();
3615 for (int j = 1; j <= 4; j++) item->setData(j,Qt::CheckStateRole,1);
3617 //Create the buttons for reload and close
3618 qApp->processEvents();
3619 QTreePushButton* cButton = new QTreePushButton;
3620 cButton->setItem(item);
3621 cButton->setColumn(COLUMN_CLOSE_IMAGE);
3622 cButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/exit.png")));
3623 connect(cButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
3624 this,SLOT(CloseImage(QTreeWidgetItem*, int)));
3626 QTreePushButton* rButton = new QTreePushButton;
3627 rButton->setItem(item);
3628 rButton->setColumn(COLUMN_RELOAD_IMAGE);
3629 rButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/rotateright.png")));
3630 rButton->setEnabled(0);
3631 connect(rButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
3632 this,SLOT(ReloadImage(QTreeWidgetItem*, int)));
3634 DataTree->addTopLevelItem(item);
3635 DataTree->setItemWidget(item, COLUMN_CLOSE_IMAGE, cButton);
3636 DataTree->setItemWidget(item, COLUMN_RELOAD_IMAGE, rButton);
3638 //set the id of the image
3639 QString id = QDir::current().absoluteFilePath(slicer_manager->GetFileName().c_str()) + QString::number(mSlicerManagers.size()-1);
3640 item->setData(COLUMN_IMAGE_NAME,Qt::UserRole,id.toStdString().c_str());
3641 mSlicerManagers.back()->SetId(id.toStdString());
3643 linkPanel->addImage(slicer_manager->GetFileName().c_str()// filename
3644 , id.toStdString());
3646 connect(mSlicerManagers.back(), SIGNAL(currentImageChanged(std::string)),
3647 this, SLOT(CurrentImageChanged(std::string)));
3648 connect(mSlicerManagers.back(), SIGNAL(currentPickedImageChanged(std::string)),
3649 this, SLOT(CurrentPickedImageChanged(std::string)));
3650 connect(mSlicerManagers.back(), SIGNAL(UpdatePosition(int, double, double, double, double, double, double, double)),
3651 this, SLOT(MousePositionChanged(int,double, double, double, double, double, double, double)));
3652 connect(mSlicerManagers.back(), SIGNAL(UpdateVector(int, double, double, double, double)),
3653 this, SLOT(VectorChanged(int,double,double,double, double)));
3654 connect(mSlicerManagers.back(), SIGNAL(UpdateOverlay(int, double, double)),
3655 this, SLOT(OverlayChanged(int,double,double)));
3656 connect(mSlicerManagers.back(), SIGNAL(UpdateFusion(int, double)),
3657 this, SLOT(FusionChanged(int,double)));
3658 //connect(mSlicerManagers.back(), SIGNAL(UpdateFusionSequence(int, bool, unsigned int)),
3659 // this, SLOT(FusionSequenceChanged(int, bool, unsigned int)));
3660 connect(mSlicerManagers.back(), SIGNAL(WindowLevelChanged()),
3661 this,SLOT(WindowLevelChanged()));
3662 connect(mSlicerManagers.back(), SIGNAL(UpdateSlice(int,int)),
3663 this,SLOT(UpdateSlice(int,int)));
3664 connect(mSlicerManagers.back(), SIGNAL(UpdateTSlice(int, int, int)),
3665 this,SLOT(UpdateTSlice(int, int, int)));
3666 connect(mSlicerManagers.back(), SIGNAL(UpdateTSlice(int, int, int)),
3667 this,SLOT(ImageInfoChanged()));
3668 connect(mSlicerManagers.back(), SIGNAL(UpdateSliceRange(int,int,int,int,int)),
3669 this,SLOT(UpdateSliceRange(int,int,int,int,int)));
3670 connect(mSlicerManagers.back(), SIGNAL(UpdateLinkManager(std::string,int,double,double,double,int)),
3671 this,SLOT(UpdateLinkManager(std::string,int,double,double,double,int)));
3672 connect(mSlicerManagers.back(), SIGNAL(UpdateLinkedNavigation(std::string,vvSlicerManager*,vvSlicer*)),
3673 this,SLOT(UpdateLinkedNavigation(std::string,vvSlicerManager*,vvSlicer*)));
3674 connect(mSlicerManagers.back(), SIGNAL(ChangeImageWithIndexOffset(vvSlicerManager*,int,int)),
3675 this,SLOT(ChangeImageWithIndexOffset(vvSlicerManager*,int,int)));
3676 connect(mSlicerManagers.back(), SIGNAL(LandmarkAdded()),landmarksPanel,SLOT(AddPoint()));
3680 qApp->processEvents();
3684 qApp->processEvents();
3688 return slicer_manager;
3690 //------------------------------------------------------------------------------
3693 //------------------------------------------------------------------------------
3694 void vvMainWindow::UpdateCurrentSlicer()
3697 if (DataTree->selectedItems().size() > 0) {
3698 index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
3700 mSlicerManagerCurrentIndex = index;
3702 //------------------------------------------------------------------------------