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"
29 #include "vvMainWindow.h"
30 #include "vvHelpDialog.h"
31 #include "vvRegisterForm.h"
32 #include "vvDocumentation.h"
33 #include "vvProgressDialog.h"
34 #include "vvQDicomSeriesSelector.h"
35 #include "vvSlicerManager.h"
36 #include "clitkImageCommon.h"
38 #include "vvInteractorStyleNavigator.h"
39 #include "vvImageWriter.h"
40 #include "vvSegmentationDialog.h"
41 #include "vvSurfaceViewerDialog.h"
42 #include "vvDeformationDialog.h"
43 #include "vvImageWarp.h"
45 #include "vvMidPosition.h"
47 #include "vvStructSelector.h"
48 #include "vvMeshReader.h"
49 #include "vvSaveState.h"
50 #include "vvReadState.h"
51 #include "clitkConfiguration.h"
52 #include "clitkMatrix.h"
54 # include "vvOSXHelper.h"
59 #include <itkImageFileReader.h>
60 #include <itkByteSwapper.h>
61 #include <itkCommand.h>
62 #include <itkNumericSeriesFileNames.h>
65 #include <vtkImageMapper3D.h>
66 #include <vtkInformation.h>
67 #include <vtkVersion.h>
68 #include <vtkImageData.h>
69 #include <vtkImageActor.h>
70 #include <vtkCornerAnnotation.h>
71 #include <vtkRenderWindow.h>
72 #include <vtkRenderWindowInteractor.h>
73 #include <vtkRenderer.h>
74 #include <vtkRendererCollection.h>
75 #include <vtkWindowToImageFilter.h>
76 #include <vtkBMPWriter.h>
77 #include <vtkTIFFWriter.h>
78 #include <vtkPNMWriter.h>
79 #include <vtkPNGWriter.h>
80 #include <vtkJPEGWriter.h>
81 #include <vtkGenericMovieWriter.h>
82 #ifdef CLITK_EXPERIMENTAL
83 # include <vvAnimatedGIFWriter.h>
85 #ifdef VTK_USE_VIDEO_FOR_WINDOWS
86 # include <vtkAVIWriter.h>
88 #ifdef VTK_USE_FFMPEG_ENCODER
89 # include <vtkFFMPEGWriter.h>
91 #ifdef VTK_USE_MPEG2_ENCODER
92 # include <vtkMPEG2Writer.h>
94 #include <vtkMatrix4x4.h>
95 #include <vtkTransform.h>
103 #define COLUMN_TREE 0
104 #define COLUMN_UL_VIEW 1
105 #define COLUMN_UR_VIEW 2
106 #define COLUMN_DL_VIEW 3
107 #define COLUMN_DR_VIEW 4
108 #define COLUMN_CLOSE_IMAGE 5
109 #define COLUMN_RELOAD_IMAGE 6
110 #define COLUMN_IMAGE_NAME 7
112 #ifdef CLITK_PRIVATE_FEATURES
113 #define EXTENSIONS "Images ( *.bmp *.dcm *.png *.jpeg *.jpg *.tif *.mhd *.mha *.hdr *.vox *.his *.xdr *.SCAN *.nii *.nrrd *.nhdr *.refscan *.nii.gz *.usf *.svl)"
115 #define EXTENSIONS "Images ( *.bmp *.dcm *.png *.jpeg *.jpg *.tif *.mhd *.mha *.hdr *.vox *.his *.xdr *.SCAN *.nii *.nrrd *.nhdr *.refscan *.nii.gz)"
120 0,Qt::UserRole full filename
121 1,Qt::CheckStateRole checkbutton UL View
122 1,Qt::UserRole overlay, fusion or vector
123 2,Qt::CheckStateRole checkbutton UR View
124 3,Qt::CheckStateRole checkbutton DL View
125 4,Qt::CheckStateRole checkbutton DR View
127 5,Qt::UserRole mSlicerManager id*/
129 //------------------------------------------------------------------------------
130 vvMainWindow::vvMainWindow():vvMainWindowBase()
132 setupUi(this); // this sets up the GUI
134 //Qt::WindowFlags flags = windowFlags();
135 //setWindowFlags(flags | Qt::WindowStaysOnTopHint);
138 mMenuTools = menuTools;
139 // mMenuSegmentation = menuSegmentation;
140 mContextMenu = &contextMenu;
141 mMenuExperimentalTools = menuExperimental;
144 mCurrentSelectedImageId = "";
145 mCurrentPickedImageId = "";
146 mCurrentPickedImageIndex = 0;
148 //Init the contextMenu
149 this->setContextMenuPolicy(Qt::CustomContextMenu);
150 contextActions.resize(0);
151 QAction* actionOpen_new_image = contextMenu.addAction(QIcon(QString::fromUtf8(":/common/icons/fileopen.png")),
152 tr("O&pen new Image"));
153 actionOpen_new_image->setShortcut(QKeySequence(tr("Ctrl+O")));
154 connect(actionOpen_new_image,SIGNAL(triggered()),this,SLOT(OpenImages()));
155 contextActions.push_back(actionOpen_new_image);
156 contextMenu.addSeparator();
158 QAction* actionClose_Image = contextMenu.addAction(QIcon(QString::fromUtf8(":/common/icons/exit.png")),
159 tr("Close Current Image"));
160 connect(actionClose_Image,SIGNAL(triggered()),this,SLOT(CloseImage()));
161 contextActions.push_back(actionClose_Image);
163 QAction* actionReload_image = contextMenu.addAction(QIcon(QString::fromUtf8(":/common/icons/rotateright.png")),
164 tr("Reload Current Image"));
165 connect(actionReload_image,SIGNAL(triggered()),this,SLOT(ReloadImage()));
166 contextActions.push_back(actionReload_image);
168 QAction* actionSave_image = contextMenu.addAction(QIcon(QString::fromUtf8(":/common/icons/filesave.png")),
169 tr("Save Current Image"));
170 connect(actionSave_image,SIGNAL(triggered()),this,SLOT(SaveAs()));
171 contextActions.push_back(actionSave_image);
173 QAction* actionSave_state = contextMenu.addAction(QIcon(QString::fromUtf8(":/common/icons/filesave.png")),
174 tr("Save Current State"));
175 connect(actionSave_state,SIGNAL(triggered()),this,SLOT(SaveCurrentState()));
176 contextActions.push_back(actionSave_state);
178 QAction* actionRead_state = contextMenu.addAction(QIcon(QString::fromUtf8(":/common/icons/filesave.png")),
179 tr("Read Saved State"));
180 connect(actionRead_state,SIGNAL(triggered()),this,SLOT(ReadSavedState()));
181 contextActions.push_back(actionRead_state);
183 contextMenu.addSeparator();
185 contextMenu.addAction(actionAdd_VF_to_current_Image);
186 contextActions.push_back(actionAdd_VF_to_current_Image);
188 //QAction* actionAdd_Overlay_to_current_Image = menuOverlay->addAction(QIcon(QString::fromUtf8(":/common/icons/GPSup.png")),
189 // tr("Add overlay image to current image"));
190 contextMenu.addAction(actionAdd_overlay_image_to_current_image);
191 contextActions.push_back(actionAdd_overlay_image_to_current_image);
193 contextMenu.addAction(actionAdd_fusion_image);
194 contextActions.push_back(actionAdd_fusion_image);
196 #ifdef CLITK_EXPERIMENTAL
197 contextMenu.addAction(actionAdd_USSequence_toCT);
198 contextActions.push_back(actionAdd_USSequence_toCT);
202 contextMenu.addSeparator();
203 QAction* actionResetMatrix = contextMenu.addAction(QIcon(QString::fromUtf8(":/common/icons/identity.png")),
204 tr("Reset transformation to identity"));
205 connect(actionResetMatrix, SIGNAL(triggered()), this,SLOT(ResetTransformationToIdentity()));
208 mSlicerManagers.resize(0);
218 header.append("Name");
220 DataTree->setHeaderLabels(header);
221 DataTree->resizeColumnToContents(COLUMN_TREE);
222 DataTree->resizeColumnToContents(COLUMN_UL_VIEW);
223 DataTree->resizeColumnToContents(COLUMN_UR_VIEW);
224 DataTree->resizeColumnToContents(COLUMN_DL_VIEW);
225 DataTree->resizeColumnToContents(COLUMN_DR_VIEW);
226 DataTree->resizeColumnToContents(COLUMN_CLOSE_IMAGE);
227 DataTree->resizeColumnToContents(COLUMN_RELOAD_IMAGE);
228 DataTree->resizeColumnToContents(COLUMN_IMAGE_NAME);
231 documentation = new vvDocumentation();
232 help_dialog = new vvHelpDialog();
233 dicomSeriesSelector = new vvDicomSeriesSelector();
235 inverseButton->setEnabled(0);
236 actionAdd_overlay_image_to_current_image->setEnabled(0);
237 actionSave_As->setEnabled(0);
238 actionAdd_VF_to_current_Image->setEnabled(0);
239 actionAdd_fusion_image->setEnabled(0);
240 actionAdd_USSequence_toCT->setEnabled(0);
243 verticalSliders.push_back(NOVerticalSlider);
244 verticalSliders.push_back(NEVerticalSlider);
245 verticalSliders.push_back(SOVerticalSlider);
246 verticalSliders.push_back(SEVerticalSlider);
248 for (int i =0; i < 4; i++)
249 verticalSliders[i]->hide();
251 horizontalSliders.push_back(NOHorizontalSlider);
252 horizontalSliders.push_back(NEHorizontalSlider);
253 horizontalSliders.push_back(SOHorizontalSlider);
254 horizontalSliders.push_back(SEHorizontalSlider);
256 for (int i =0; i < 4; i++)
257 horizontalSliders[i]->hide();
260 connect(NOVerticalSlider,SIGNAL(valueChanged(int)),this,SLOT(NOVerticalSliderChanged()));
261 connect(NEVerticalSlider,SIGNAL(valueChanged(int)),this,SLOT(NEVerticalSliderChanged()));
262 connect(SOVerticalSlider,SIGNAL(valueChanged(int)),this,SLOT(SOVerticalSliderChanged()));
263 connect(SEVerticalSlider,SIGNAL(valueChanged(int)),this,SLOT(SEVerticalSliderChanged()));
265 connect(NOHorizontalSlider,SIGNAL(valueChanged(int)),this,SLOT(NOHorizontalSliderMoved()));
266 connect(NEHorizontalSlider,SIGNAL(valueChanged(int)),this,SLOT(NEHorizontalSliderMoved()));
267 connect(SOHorizontalSlider,SIGNAL(valueChanged(int)),this,SLOT(SOHorizontalSliderMoved()));
268 connect(SEHorizontalSlider,SIGNAL(valueChanged(int)),this,SLOT(SEHorizontalSliderMoved()));
271 connect(actionCompute_mid_position_image,SIGNAL(triggered()),this,SLOT(ComputeMidPosition()));
272 connect(actionDeformable_Registration,SIGNAL(triggered()),this,SLOT(ComputeDeformableRegistration()));
273 connect(actionWarp_image_with_vector_field,SIGNAL(triggered()),this,SLOT(WarpImage()));
274 connect(actionLoad_images,SIGNAL(triggered()),this,SLOT(OpenImages()));
275 connect(actionOpen_Dicom,SIGNAL(triggered()),this,SLOT(OpenDicom()));
276 // connect(actionOpen_Dicom_Struct,SIGNAL(triggered()),this,SLOT(OpenDCStructContour()));
277 connect(actionOpen_VTK_contour,SIGNAL(triggered()),this,SLOT(OpenVTKContour()));
278 connect(actionOpen_Multiple_Images_As_One,SIGNAL(triggered()),this,SLOT(MergeImages()));
279 connect(actionSlice_Image_As_Multiple_Images,SIGNAL(triggered()),this,SLOT(SliceImages()));
280 connect(actionOpen_Image_With_Time,SIGNAL(triggered()),this,SLOT(OpenImageWithTime()));
281 connect(actionMerge_images_as_n_dim_t, SIGNAL(triggered()), this, SLOT(MergeImagesWithTime()));
282 connect(actionSave_As,SIGNAL(triggered()),this,SLOT(SaveAs()));
283 connect(actionSave_current_state,SIGNAL(triggered()),this,SLOT(SaveCurrentState()));
284 connect(actionRead_saved_state,SIGNAL(triggered()),this,SLOT(ReadSavedState()));
285 connect(actionExit,SIGNAL(triggered()),this,SLOT(close()));
286 connect(actionAdd_VF_to_current_Image,SIGNAL(triggered()),this,SLOT(OpenField()));
287 connect(actionAdd_fusion_image,SIGNAL(triggered()),this,SLOT(SelectFusionImage()));
288 connect(actionAdd_overlay_image_to_current_image,SIGNAL(triggered()), this,SLOT(SelectOverlayImage()));
289 connect(actionAdd_USSequence_toCT,SIGNAL(triggered()), this,SLOT(SelectFusionSequence()));
290 connect(actionNavigation_Help,SIGNAL(triggered()),this,SLOT(ShowHelpDialog()));
292 QShortcut *shortcutHelp = new QShortcut(QKeySequence(QKeySequence::HelpContents),this);
293 shortcutHelp->setContext(Qt::ApplicationShortcut);
294 QObject::connect(shortcutHelp, SIGNAL(activated()), this, SLOT(ShowHelpDialog()));
296 connect(actionDocumentation,SIGNAL(triggered()),this,SLOT(ShowDocumentation()));
297 connect(actionRegister_vv,SIGNAL(triggered()),this,SLOT(PopupRegisterForm()));
299 connect(overlayPanel, SIGNAL(FusionSequenceCorrespondancesButtonPressed()), this, SLOT(SelectFusionSequenceCorrespondances()));
302 ///////////////////////////////////////////////
303 connect(actionSegmentation,SIGNAL(triggered()),this,SLOT(SegmentationOnCurrentImage()));
304 connect(actionSurface_Viewer,SIGNAL(triggered()),this,SLOT(SurfaceViewerLaunch()));
305 ///////////////////////////////////////////////
307 actionNorth_East_Window->setEnabled(0);
308 actionNorth_West_Window->setEnabled(0);
309 actionSouth_East_Window->setEnabled(0);
310 actionSouth_West_Window->setEnabled(0);
312 connect(actionNorth_East_Window,SIGNAL(triggered()),this,SLOT(SaveNEScreenshot()));
313 connect(actionNorth_West_Window,SIGNAL(triggered()),this,SLOT(SaveNOScreenshot()));
314 connect(actionSouth_East_Window,SIGNAL(triggered()),this,SLOT(SaveSEScreenshot()));
315 connect(actionSouth_West_Window,SIGNAL(triggered()),this,SLOT(SaveSOScreenshot()));
316 connect(actionSave_all_slices,SIGNAL(triggered()),this,SLOT(SaveScreenshotAllSlices()));
318 connect(DataTree,SIGNAL(itemSelectionChanged()),this,SLOT(ImageInfoChanged()));
319 connect(DataTree,SIGNAL(itemClicked(QTreeWidgetItem*, int)),this,
320 SLOT(DisplayChanged(QTreeWidgetItem*, int)));
322 connect(viewButton,SIGNAL(clicked()),this, SLOT(ChangeViewMode()) );
323 connect(windowSpinBox,SIGNAL(editingFinished()),this,SLOT(WindowLevelEdited()));
324 connect(levelSpinBox,SIGNAL(editingFinished()),this,SLOT(WindowLevelEdited()));
325 connect(colorMapComboBox,SIGNAL(currentIndexChanged(int)),this,SLOT(UpdateColorMap()));
326 connect(presetComboBox,SIGNAL(currentIndexChanged(int)),this,SLOT(UpdateWindowLevel()));
327 connect(slicingPresetComboBox, SIGNAL(currentIndexChanged(int)),this,SLOT(UpdateSlicingPreset()));
328 connect(inverseButton,SIGNAL(clicked()),this,SLOT(SwitchWindowLevel()));
329 connect(applyWindowLevelToAllButton,SIGNAL(clicked()),this,SLOT(ApplyWindowLevelToAllImages()));
331 connect(this,SIGNAL(customContextMenuRequested(QPoint)),this,SLOT(ShowContextMenu(QPoint)));
333 connect(linkPanel,SIGNAL(addLink(QString,QString,bool)),this,SLOT(AddLink(QString,QString,bool)));
334 connect(linkPanel,SIGNAL(removeLink(QString,QString)),this,SLOT(RemoveLink(QString,QString)));
335 connect(overlayPanel,SIGNAL(VFPropertyUpdated(int,int,int,int,double,double,double)),this,SLOT(SetVFProperty(int,int,int,int,double,double,double)));
336 connect(overlayPanel,SIGNAL(OverlayPropertyUpdated(int,int,double,double)),
337 this,SLOT(SetOverlayProperty(int,int,double,double)));
338 connect(overlayPanel,SIGNAL(FusionPropertyUpdated(int,int,int,double,double, bool)),
339 this,SLOT(SetFusionProperty(int,int,int,double,double, bool)));
340 connect(landmarksPanel,SIGNAL(UpdateRenderWindows()),this,SLOT(UpdateRenderWindows()));
341 connect(landmarksPanel,SIGNAL(SelectedPointChanged()),this,SLOT(GoToLandmark()));
343 connect(overlayPanel,SIGNAL(FusionSequencePropertyUpdated(int, bool, unsigned int, bool)),
344 this,SLOT(SetFusionSequenceProperty(int, bool,unsigned int, bool)));
349 playButton->setEnabled(0);
350 frameRateLabel->setEnabled(0);
351 frameRateSpinBox->setEnabled(0);
352 connect(playButton, SIGNAL(clicked()),this,SLOT(PlayPause()));
353 connect(frameRateSpinBox, SIGNAL(valueChanged(int)),this,SLOT(ChangeFrameRate(int)));
355 goToCursorPushButton->setEnabled(0);
356 connect(goToCursorPushButton, SIGNAL(clicked()),this,SLOT(GoToCursor()));
358 NOViewWidget->hide();
359 NEViewWidget->hide();
360 SOViewWidget->hide();
361 SEViewWidget->hide();
364 disableGLHiDPI(NOViewWidget->winId());
365 disableGLHiDPI(NEViewWidget->winId());
366 disableGLHiDPI(SOViewWidget->winId());
367 disableGLHiDPI(SEViewWidget->winId());
370 //Recently opened files
371 std::list<std::string> recent_files = GetRecentlyOpenedImages();
372 recentlyOpenedFilesMenu=NULL;
373 if ( !recent_files.empty() ) {
374 createRecentlyOpenedFilesMenu();
375 updateRecentlyOpenedFilesMenu(recent_files);
378 // Adding all new tools (insertion in the menu)
379 vvToolManager::GetInstance()->InsertToolsInMenu(this);
380 vvToolManager::GetInstance()->EnableToolsInMenu(this, false);
382 if (!CLITK_EXPERIMENTAL)
383 menuExperimental->menuAction()->setVisible(false);
386 QTimer * timerMemory = new QTimer(this);
387 //timerMemory->setInterval(5);
388 connect(timerMemory, SIGNAL(timeout()), this, SLOT(UpdateMemoryUsage()));
389 timerMemory->start(2000);
392 //------------------------------------------------------------------------------
393 void vvMainWindow::show()
395 vvMainWindowBase::show();
396 PopupRegisterForm(true);
398 //------------------------------------------------------------------------------
399 void vvMainWindow::UpdateMemoryUsage()
401 // clitk::PrintMemory(true);
402 if (clitk::GetMemoryUsageInMb() == 0) infoPanel->setMemoryInMb("NA");
403 else infoPanel->setMemoryInMb(QString::number(clitk::GetMemoryUsageInMb())+" MiB");
405 //------------------------------------------------------------------------------
408 //------------------------------------------------------------------------------
409 void vvMainWindow::createRecentlyOpenedFilesMenu()
411 recentlyOpenedFilesMenu = new QMenu("Recently opened files...");
412 recentlyOpenedFilesMenu->setIcon(QIcon(QString::fromUtf8(":/common/icons/open.png")));
413 menuFile->insertMenu(actionOpen_Image_With_Time,recentlyOpenedFilesMenu);
414 menuFile->insertSeparator(actionOpen_Image_With_Time);
416 //------------------------------------------------------------------------------
419 //------------------------------------------------------------------------------
421 void vvMainWindow::updateRecentlyOpenedFilesMenu(const std::list<std::string> &recent_files)
423 if(recentlyOpenedFilesMenu==NULL) {
424 createRecentlyOpenedFilesMenu();
426 recentlyOpenedFilesMenu->clear();
428 for (std::list<std::string>::const_iterator i = recent_files.begin(); i!=recent_files.end(); i++) {
429 QAction* current=new QAction(QIcon(QString::fromUtf8(":/common/icons/open.png")), i->c_str(),this);
430 recentlyOpenedFilesMenu->addAction(current);
431 connect(current,SIGNAL(triggered()),this,SLOT(OpenRecentImage()));
434 //------------------------------------------------------------------------------
437 //------------------------------------------------------------------------------
438 void vvMainWindow::ComputeMidPosition()
441 int index=GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
442 int ref = QInputDialog::getInt(this,"Chose reference phase","Reference phase",0,0,\
443 mSlicerManagers[index]->GetImage()->GetVTKImages().size()-1,1,&ok);
446 midp.slicer_manager = mSlicerManagers[index];
447 midp.reference_image_index = ref;
448 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
451 QMessageBox::warning(this, "Error computing midposition image",midp.error_message.c_str());
453 QFileInfo info(midp.slicer_manager->GetFileName().c_str());
454 AddImage(midp.output,info.path().toStdString()+"/"+info.completeBaseName().toStdString()+"_midposition.mhd");
456 QApplication::restoreOverrideCursor();
459 //------------------------------------------------------------------------------
462 //------------------------------------------------------------------------------
463 void vvMainWindow::AddContour(int image_index, vvMesh::Pointer contour, bool propagation)
465 QTreeWidgetItem *item = new QTreeWidgetItem();
466 item->setData(0,Qt::UserRole,"filename.vtk");
467 item->setData(1,Qt::UserRole,tr("contour"));
469 brush.setColor(QColor(contour->r*255,contour->g*255,contour->b*255));
470 brush.setStyle(Qt::SolidPattern);
471 item->setData(COLUMN_IMAGE_NAME,Qt::BackgroundRole,brush);
472 // item->setData(COLUMN_IMAGE_NAME,Qt::DisplayRole,contour->structure_name.c_str());
474 for (int j = 1; j <= 4; j++)
475 item->setData(j,Qt::CheckStateRole,DataTree->topLevelItem(image_index)->data(j,Qt::CheckStateRole));
477 QTreePushButton* cButton = new QTreePushButton;
478 cButton->setItem(item);
479 cButton->setColumn(COLUMN_CLOSE_IMAGE);
480 cButton->setToolTip(tr("close image"));
481 cButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/exit.png")));
482 connect(cButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
483 this,SLOT(CloseImage(QTreeWidgetItem*, int)));
485 QTreePushButton* rButton = new QTreePushButton;
486 rButton->setItem(item);
487 rButton->setColumn(COLUMN_RELOAD_IMAGE);
488 rButton->setToolTip(tr("reload image"));
489 rButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/rotateright.png")));
490 rButton->setEnabled(false);
492 //connect(rButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
493 //this,SLOT(ReloadImage(QTreeWidgetItem*, int)));
495 DataTree->topLevelItem(image_index)->setExpanded(1);
496 DataTree->topLevelItem(image_index)->addChild(item);
497 DataTree->setItemWidget(item, COLUMN_CLOSE_IMAGE, cButton);
498 DataTree->setItemWidget(item, COLUMN_RELOAD_IMAGE, rButton);
499 QString id = DataTree->topLevelItem(image_index)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString();
500 item->setData(COLUMN_IMAGE_NAME,Qt::UserRole,id.toStdString().c_str());
503 mSlicerManagers[image_index]->AddContour(contour,propagation);
504 mSlicerManagers[image_index]->Render();
506 //------------------------------------------------------------------------------
509 //------------------------------------------------------------------------------
510 void vvMainWindow::OpenVTKContour()
512 if (mSlicerManagers.size() > 0) {
513 QString Extensions = "Images ( *.vtk *.obj)";
514 Extensions += ";;All Files (*)";
515 QString file = QFileDialog::getOpenFileName(this,tr("Open vtkPolyData"),mInputPathName,Extensions);
518 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
519 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
521 reader.SetImage(mSlicerManagers[index]->GetImage());
522 reader.SetModeToVTK();
523 reader.SetFilename(file.toStdString());
525 AddContour(index,reader.GetOutput()[0],false);
526 QApplication::restoreOverrideCursor();
529 //------------------------------------------------------------------------------
532 //------------------------------------------------------------------------------
533 void vvMainWindow::AddDCStructContour(int index, QString file)
536 reader.SetFilename(file.toStdString());
537 vvStructSelector selector;
538 selector.SetStructures(reader.GetROINames());
539 if (!mSlicerManagers[index]->GetVF().IsNull())
540 selector.EnablePropagationCheckBox();
541 if (selector.exec()) {
542 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
543 reader.SetSelectedItems(selector.getSelectedItems());
544 reader.SetImage(mSlicerManagers[index]->GetImage());
545 if (selector.PropagationEnabled())
546 reader.SetPropagationVF(mSlicerManagers[index]->GetVF());
548 std::vector<vvMesh::Pointer> contours=reader.GetOutput();
549 for (std::vector<vvMesh::Pointer>::iterator i=contours.begin();
550 i!=contours.end(); i++)
551 AddContour(index,*i,selector.PropagationEnabled());
552 QApplication::restoreOverrideCursor();
556 //------------------------------------------------------------------------------
557 void vvMainWindow::OpenDCStructContour()
559 if (mSlicerManagers.size() > 0) {
560 QString Extensions = "Dicom Files ( *.dcm RS*)";
561 Extensions += ";;All Files (*)";
562 QString file = QFileDialog::getOpenFileName(this,tr("Merge Images"),mInputPathName,Extensions);
565 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
566 AddDCStructContour(index, file);
569 //------------------------------------------------------------------------------
572 //------------------------------------------------------------------------------
573 void vvMainWindow::ComputeDeformableRegistration()
575 if (mSlicerManagers.size() > 0) {
576 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
577 vvDeformationDialog dialog(index,mSlicerManagers);
579 std::string base_name=itksys::SystemTools::GetFilenameWithoutExtension(mSlicerManagers[dialog.GetInputFileIndex()]->GetFileName());
580 AddField(dialog.GetOutput(),dialog.getFieldFile(),dialog.GetInputFileIndex());
581 WarpImage(dialog.GetSelectedSlicer(),dialog.GetReferenceFrameIndex());
583 std::cout << "Error or user cancellation while computing deformation field..." << std::endl;
584 } else QMessageBox::information(this, "Need to open image","You must open an image first.");
586 //------------------------------------------------------------------------------
589 //------------------------------------------------------------------------------
590 void vvMainWindow::WarpImage()
592 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
593 if (!mSlicerManagers[index]->GetVF().IsNull()) {
595 int ref = QInputDialog::getInt(this,"Chose reference phase","Reference phase",0,0,\
596 mSlicerManagers[index]->GetImage()->GetVTKImages().size()-1,1,&ok);
598 WarpImage(mSlicerManagers[index],ref);
601 QMessageBox::warning(this,tr("No vector field"),tr("Sorry, can't warp without a vector field"));
603 //------------------------------------------------------------------------------
606 //------------------------------------------------------------------------------
607 void vvMainWindow::WarpImage(vvSlicerManager* selected_slicer,int reference_phase)
609 if (!selected_slicer->GetVF().IsNull()) {
610 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
611 QFileInfo info(selected_slicer->GetFileName().c_str());
612 vvImageWarp warp(selected_slicer->GetImage(),selected_slicer->GetVF(),
613 reference_phase,this);
614 if (warp.ComputeWarpedImage()) {
615 AddImage(warp.GetWarpedImage(),info.path().toStdString()+"/"+info.completeBaseName().toStdString()+"_warped.mhd");
616 AddImage(warp.GetDiffImage() ,info.path().toStdString()+"/"+info.completeBaseName().toStdString()+"_diff.mhd");
617 AddImage(warp.GetJacobianImage() ,info.path().toStdString()+"/"+info.completeBaseName().toStdString()+"_jacobian.mhd");
618 QApplication::restoreOverrideCursor();
620 QApplication::restoreOverrideCursor();
621 QMessageBox::warning(this,tr("Different spacings"),tr("The vector field and image spacings must be the same in order to warp."));
624 QMessageBox::warning(this,tr("No vector field"),tr("Sorry, can't warp without a vector field."));
626 //------------------------------------------------------------------------------
629 //------------------------------------------------------------------------------
630 vvMainWindow::~vvMainWindow()
632 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
633 if (mSlicerManagers[i] != NULL)
634 delete mSlicerManagers[i];
636 delete documentation;
638 delete dicomSeriesSelector;
640 //------------------------------------------------------------------------------
642 //------------------------------------------------------------------------------
643 QTabWidget * vvMainWindow::GetTab()
647 //------------------------------------------------------------------------------
650 //------------------------------------------------------------------------------
651 void vvMainWindow::MergeImages()
653 QString Extensions = EXTENSIONS;
654 Extensions += ";;All Files (*)";
655 QStringList files = QFileDialog::getOpenFileNames(this,tr("Merge Images"),mInputPathName,Extensions);
658 mInputPathName = itksys::SystemTools::GetFilenamePath(files[0].toStdString()).c_str();
659 std::vector<std::string> vector;
661 unsigned int currentDim = 0;
662 std::vector<double> currentSpacing;
663 std::vector<int> currentSize;
664 std::vector<double> currentOrigin;
666 for (int i = 0; i < files.size(); i++) {
667 itk::ImageIOBase::Pointer reader = itk::ImageIOFactory::CreateImageIO(
668 files[i].toStdString().c_str(), itk::ImageIOFactory::ReadMode);
669 reader->SetFileName(files[i].toStdString().c_str());
670 reader->ReadImageInformation();
672 //NOViewWidget->hide();
673 //NEViewWidget->hide();
674 //SOViewWidget->hide();
675 //SEViewWidget->hide();
677 currentDim = reader->GetNumberOfDimensions();
679 for (unsigned int j = 0; j < currentDim; j++) {
682 currentSpacing.resize(currentDim);
683 currentSize.resize(currentDim);
684 currentOrigin.resize(currentDim);
686 currentOrigin[j] = reader->GetOrigin(j);
687 currentSpacing[j] = reader->GetSpacing(j);
688 currentSize[j] = reader->GetDimensions(j);
689 } else if (currentDim != reader->GetNumberOfDimensions()
690 || currentSpacing[j] != reader->GetSpacing(j)
691 || currentSize[j] != (int)reader->GetDimensions(j)
692 || currentOrigin[j] != reader->GetOrigin(j)) {
693 QString error = "Cannot read file (too different from others ";
694 error += files[i].toStdString().c_str();
695 QMessageBox::information(this,tr("Reading problem"),error);
701 vector.push_back(files[i].toStdString());
704 if (vector.size() > 0)
705 LoadImages(vector, vvImageReader::MERGED);
707 //------------------------------------------------------------------------------
709 //------------------------------------------------------------------------------
710 void vvMainWindow::SliceImages()
712 QString Extensions = EXTENSIONS;
713 Extensions += ";;All Files (*)";
715 QStringList files = QFileDialog::getOpenFileNames(this,tr("Slice Images"),mInputPathName,Extensions);
718 mInputPathName = itksys::SystemTools::GetFilenamePath(files[0].toStdString()).c_str();
719 std::vector<std::string> vector;
720 for (int i = 0; i < files.size(); i++)
721 vector.push_back(files[i].toStdString());
722 LoadImages(vector, vvImageReader::SLICED);
724 //------------------------------------------------------------------------------
726 //------------------------------------------------------------------------------
727 void vvMainWindow::MergeImagesWithTime()
729 QString Extensions = EXTENSIONS;
730 Extensions += ";;All Files (*)";
731 QStringList files = QFileDialog::getOpenFileNames(this,tr("Merge Images With Time"),mInputPathName,Extensions);
734 mInputPathName = itksys::SystemTools::GetFilenamePath(files[0].toStdString()).c_str();
735 std::vector<std::string> vector;
737 for (int i = 0; i < files.size(); i++)
738 vector.push_back(files[i].toStdString());
739 sort(vector.begin(),vector.end());
740 if (vector.size() > 1)
741 LoadImages(vector, vvImageReader::MERGEDWITHTIME);
743 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.");
745 //------------------------------------------------------------------------------
748 //------------------------------------------------------------------------------
749 void vvMainWindow::OpenDicom()
751 std::vector<std::string> files;
753 //std::cout << "dicomSeriesSelector " << std::endl;
754 if (dicomSeriesSelector->exec() == QDialog::Accepted) {
755 files = *(dicomSeriesSelector->GetFilenames());
756 LoadImages(files, vvImageReader::DICOM);
759 //------------------------------------------------------------------------------
761 //------------------------------------------------------------------------------
762 void vvMainWindow::OpenImages()
764 QString Extensions = EXTENSIONS;
765 Extensions += ";;All Files (*)";
767 QStringList files = QFileDialog::getOpenFileNames(this,tr("Load Images"),mInputPathName,Extensions);
770 mInputPathName = itksys::SystemTools::GetFilenamePath(files[0].toStdString()).c_str();
771 std::vector<std::string> vector;
772 for (int i = 0; i < files.size(); i++)
773 vector.push_back(files[i].toStdString());
774 LoadImages(vector, vvImageReader::IMAGE);
776 //------------------------------------------------------------------------------
777 void vvMainWindow::OpenRecentImage()
779 QAction * caller = qobject_cast<QAction*>(sender());
780 std::vector<std::string> images;
781 images.push_back(caller->text().toStdString());
782 mInputPathName = itksys::SystemTools::GetFilenamePath(images[0]).c_str();
783 LoadImages(images, vvImageReader::IMAGE);
785 //------------------------------------------------------------------------------
788 //------------------------------------------------------------------------------
789 void vvMainWindow::OpenImageWithTime()
791 QString Extensions = EXTENSIONS;
792 Extensions += ";;All Files (*)";
794 QStringList files = QFileDialog::getOpenFileNames(this,tr("Load Images With Time"),mInputPathName,Extensions);
797 mInputPathName = itksys::SystemTools::GetFilenamePath(files[0].toStdString()).c_str();
798 std::vector<std::string> vector;
799 for (int i = 0; i < files.size(); i++) {
800 vector.push_back(files[i].toStdString());
802 LoadImages(vector, vvImageReader::IMAGEWITHTIME);
804 //------------------------------------------------------------------------------
807 //------------------------------------------------------------------------------
808 void vvMainWindow::LoadImages(std::vector<std::string> files, vvImageReader::LoadedImageType filetype)
810 //Separate the way to open images and dicoms
812 if (filetype == vvImageReader::IMAGE || filetype == vvImageReader::IMAGEWITHTIME)
813 fileSize = files.size();
817 // For SLICED, we need the number of slices (ndim and #slices)
818 std::vector<unsigned int> nSlices;
819 nSlices.resize(files.size());
820 std::fill(nSlices.begin(), nSlices.end(), 1);
821 if (filetype == vvImageReader::SLICED) {
822 for (int i = 0; i < fileSize; i++) {
823 itk::ImageIOBase::Pointer header = clitk::readImageHeader(files[i]);
824 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
827 QString error = "Cannot open file \n";
828 error += files[i].c_str();
829 QMessageBox::information(this,tr("Reading problem"),error);
832 if (header->GetNumberOfDimensions() < 3) {
834 QString error = "Dimension problem. Cannot slice \n";
835 error += files[i].c_str();
836 QMessageBox::information(this,tr("Reading problem"),error);
839 nSlices[i] = header->GetDimensions( header->GetNumberOfDimensions()-1 );
843 //Only add to the list of recently opened files when a single file is opened,
844 //to avoid polluting the list of recently opened files
845 if (files.size() == 1) {
846 QFileInfo finfo=tr(files[0].c_str());
847 AddToRecentlyOpenedImages(finfo.absoluteFilePath().toStdString());
848 updateRecentlyOpenedFilesMenu(GetRecentlyOpenedImages());
850 //init the progress events
851 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
852 vvProgressDialog progress("Opening " + files[0],fileSize>1);
853 qApp->processEvents();
855 int numberofsuccesulreads=0;
856 //open images as 1 or multiples
857 for (int i = 0; i < fileSize; i++) {
858 progress.SetText("Opening " + files[i]);
859 progress.SetProgress(i,fileSize);
860 qApp->processEvents();
862 for (unsigned int j = 0; j < nSlices[i]; j++) {
863 //read the image and put it in mSlicerManagers
864 vvSlicerManager* imageManager = new vvSlicerManager(4);
865 qApp->processEvents();
867 bool SetImageSucceed=false;
869 // Change filename if an image with the same already exist
870 int number = GetImageDuplicateFilenameNumber(files[i] + std::string("_slice"));
872 if (filetype == vvImageReader::IMAGE || filetype == vvImageReader::IMAGEWITHTIME || filetype == vvImageReader::SLICED) {
873 SetImageSucceed = imageManager->SetImage(files[i],filetype, number, j);
875 SetImageSucceed = imageManager->SetImages(files,filetype, number);
877 if (!SetImageSucceed) {
878 QApplication::restoreOverrideCursor();
879 QString error = "Cannot open file \n";
880 error += imageManager->GetLastError().c_str();
881 QMessageBox::information(this,tr("Reading problem"),error);
885 mSlicerManagers.push_back(imageManager);
887 //create an item in the tree with good settings
888 QTreeWidgetItem *item = new QTreeWidgetItem();
889 item->setData(0,Qt::UserRole,files[i].c_str());
890 QFileInfo fileinfo(imageManager->GetFileName().c_str()); //Do not show the path
891 item->setData(COLUMN_IMAGE_NAME,Qt::DisplayRole,fileinfo.fileName());
892 item->setData(1,Qt::UserRole,tr("image"));
893 item->setToolTip(COLUMN_IMAGE_NAME, imageManager->GetListOfAbsoluteFilePathInOneString("image").c_str());
894 qApp->processEvents();
896 //Create the buttons for reload and close
897 qApp->processEvents();
898 QTreePushButton* cButton = new QTreePushButton;
899 cButton->setItem(item);
900 cButton->setColumn(COLUMN_CLOSE_IMAGE);
901 cButton->setToolTip(tr("close image"));
902 cButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/exit.png")));
903 connect(cButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
904 this,SLOT(CloseImage(QTreeWidgetItem*, int)));
906 QTreePushButton* rButton = new QTreePushButton;
907 rButton->setItem(item);
908 rButton->setColumn(COLUMN_RELOAD_IMAGE);
909 rButton->setToolTip(tr("reload image"));
910 rButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/rotateright.png")));
911 connect(rButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
912 this,SLOT(ReloadImage(QTreeWidgetItem*, int)));
914 DataTree->addTopLevelItem(item);
915 DataTree->setItemWidget(item, COLUMN_CLOSE_IMAGE, cButton);
916 DataTree->setItemWidget(item, COLUMN_RELOAD_IMAGE, rButton);
918 //set the id of the image
919 QString id = QDir::current().absoluteFilePath(files[i].c_str()) + QString::number(mSlicerManagers.size()-1);
920 item->setData(COLUMN_IMAGE_NAME,Qt::UserRole,id.toStdString().c_str());
921 mSlicerManagers.back()->SetId(id.toStdString());
923 linkPanel->addImage(imageManager->GetFileName(), id.toStdString());
925 connect(mSlicerManagers.back(), SIGNAL(currentImageChanged(std::string)),
926 this,SLOT(CurrentImageChanged(std::string)));
927 connect(mSlicerManagers.back(), SIGNAL(currentPickedImageChanged(std::string)),
928 this, SLOT(CurrentPickedImageChanged(std::string)));
929 connect(mSlicerManagers.back(), SIGNAL(UpdatePosition(int, double, double, double, double, double, double, double)),
930 this,SLOT(MousePositionChanged(int,double, double, double, double, double, double, double)));
931 connect(mSlicerManagers.back(), SIGNAL(UpdateVector(int, double, double, double, double)),
932 this, SLOT(VectorChanged(int,double,double,double, double)));
933 connect(mSlicerManagers.back(), SIGNAL(UpdateOverlay(int, double, double)),
934 this, SLOT(OverlayChanged(int,double,double)));
935 connect(mSlicerManagers.back(), SIGNAL(UpdateFusion(int, double)),
936 this, SLOT(FusionChanged(int,double)));
937 connect(mSlicerManagers.back(), SIGNAL(WindowLevelChanged()),
938 this,SLOT(WindowLevelChanged()));
939 connect(mSlicerManagers.back(), SIGNAL(UpdateSlice(int,int)),
940 this,SLOT(UpdateSlice(int,int)));
941 connect(mSlicerManagers.back(), SIGNAL(UpdateTSlice(int, int, int)),
942 this,SLOT(UpdateTSlice(int, int, int)));
943 connect(mSlicerManagers.back(), SIGNAL(UpdateTSlice(int, int, int)),
944 this,SLOT(ImageInfoChanged()));
945 connect(mSlicerManagers.back(), SIGNAL(UpdateSliceRange(int,int,int,int,int)),
946 this,SLOT(UpdateSliceRange(int,int,int,int,int)));
947 connect(mSlicerManagers.back(), SIGNAL(UpdateLinkManager(std::string,int,double,double,double,int)),
948 this,SLOT(UpdateLinkManager(std::string,int,double,double,double,int)));
949 connect(mSlicerManagers.back(), SIGNAL(UpdateLinkedNavigation(std::string,vvSlicerManager*,vvSlicer*)),
950 this,SLOT(UpdateLinkedNavigation(std::string,vvSlicerManager*,vvSlicer*)));
951 connect(mSlicerManagers.back(), SIGNAL(ChangeImageWithIndexOffset(vvSlicerManager*,int,int)),
952 this,SLOT(ChangeImageWithIndexOffset(vvSlicerManager*,int,int)));
953 connect(mSlicerManagers.back(),SIGNAL(LandmarkAdded()),landmarksPanel,SLOT(AddPoint()));
955 numberofsuccesulreads++;
960 if (numberofsuccesulreads) {
961 NOViewWidget->show();
962 NEViewWidget->show();
963 SOViewWidget->show();
964 SEViewWidget->show();
969 // Try to guess default WindowLevel
971 mSlicerManagers.back()->GetImage()->GetFirstVTKImageData()->GetScalarRange(range);
972 if ((range[0] == 0) && (range[1] == 1)) {
973 presetComboBox->setCurrentIndex(WL_BINARY);// binary
978 QApplication::restoreOverrideCursor();
980 //------------------------------------------------------------------------------
982 //------------------------------------------------------------------------------
983 void vvMainWindow::UpdateTree()
985 DataTree->resizeColumnToContents(COLUMN_TREE);
986 DataTree->resizeColumnToContents(COLUMN_UL_VIEW);
987 DataTree->resizeColumnToContents(COLUMN_UR_VIEW);
988 DataTree->resizeColumnToContents(COLUMN_DL_VIEW);
989 DataTree->resizeColumnToContents(COLUMN_DR_VIEW);
990 DataTree->resizeColumnToContents(COLUMN_IMAGE_NAME);
991 DataTree->resizeColumnToContents(COLUMN_CLOSE_IMAGE);
992 DataTree->resizeColumnToContents(COLUMN_RELOAD_IMAGE);
994 //------------------------------------------------------------------------------
996 //------------------------------------------------------------------------------
997 void vvMainWindow::CurrentImageChanged(std::string id)
999 if (id == mCurrentSelectedImageId) return; // Do nothing
1001 for (int i = 0; i < DataTree->topLevelItemCount(); i++) {
1002 if (DataTree->topLevelItem(i)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString().toStdString() == id) {
1005 DataTree->topLevelItem(i)->setSelected(0);
1007 for (int child = 0; child < DataTree->topLevelItem(i)->childCount(); child++)
1008 DataTree->topLevelItem(i)->child(child)->setSelected(0);
1011 DataTree->topLevelItem(selected)->setSelected(1);
1012 mCurrentSelectedImageId = id;
1014 landmarksPanel->SetCurrentLandmarks(mSlicerManagers[selected]->GetLandmarks(),
1015 mSlicerManagers[selected]->GetTSlice());
1016 landmarksPanel->SetCurrentPath(mInputPathName.toStdString());
1017 landmarksPanel->SetCurrentImage(mSlicerManagers[selected]->GetFileName().c_str());
1019 emit SelectedImageHasChanged(mSlicerManagers[selected]);
1021 //------------------------------------------------------------------------------
1023 //------------------------------------------------------------------------------
1024 void vvMainWindow::CurrentPickedImageChanged(std::string id)
1026 if (id == mCurrentPickedImageId) return; // Do nothing
1028 for (int i = 0; i < DataTree->topLevelItemCount(); i++) {
1029 if (DataTree->topLevelItem(i)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString().toStdString() == id) {
1032 DataTree->topLevelItem(i)->setSelected(0);
1034 for (int child = 0; child < DataTree->topLevelItem(i)->childCount(); child++)
1035 DataTree->topLevelItem(i)->child(child)->setSelected(0);
1038 DataTree->topLevelItem(selected)->setSelected(1);
1039 mCurrentPickedImageId = id;
1040 mCurrentPickedImageIndex = selected;
1042 //------------------------------------------------------------------------------
1044 //------------------------------------------------------------------------------
1045 void vvMainWindow::ImageInfoChanged()
1047 contextActions[6]->setEnabled(1);
1048 contextActions[5]->setEnabled(1);
1049 actionSave_As->setEnabled(1);
1050 actionAdd_VF_to_current_Image->setEnabled(1);
1051 actionAdd_fusion_image->setEnabled(1);
1052 actionAdd_overlay_image_to_current_image->setEnabled(1);
1053 actionAdd_USSequence_toCT->setEnabled(1);
1054 actionNorth_East_Window->setEnabled(1);
1055 actionNorth_West_Window->setEnabled(1);
1056 actionSouth_East_Window->setEnabled(1);
1057 actionSouth_West_Window->setEnabled(1);
1058 vvToolManager::GetInstance()->EnableToolsInMenu(this, true);
1059 inverseButton->setEnabled(1);
1061 goToCursorPushButton->setEnabled(1);
1063 if (DataTree->selectedItems().size()) {
1064 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1066 colorMapComboBox->setEnabled(1);
1067 for (int i = 0; i < DataTree->topLevelItem(index)->childCount(); i++) {
1068 if (DataTree->topLevelItem(index)->child(i)->data(1,Qt::UserRole).toString() == "overlay" ||
1069 DataTree->topLevelItem(index)->child(i)->data(1,Qt::UserRole).toString() == "fusion" ||
1070 DataTree->topLevelItem(index)->child(i)->data(1,Qt::UserRole).toString() == "fusionSequence") {
1071 colorMapComboBox->setEnabled(0);
1076 std::vector<double> origin;
1077 std::vector<double> inputSpacing;
1078 std::vector<int> inputSize;
1079 std::vector<double> sizeMM;
1080 vtkSmartPointer<vtkMatrix4x4> transformation;
1083 QString inputSizeInBytes;
1084 QString image = DataTree->selectedItems()[0]->data(COLUMN_IMAGE_NAME,Qt::DisplayRole).toString();
1086 int nframes = mSlicerManagers[index]->GetSlicer(0)->GetTMax();
1088 if (nframes > 1 || playMode == 1) {
1089 playButton->setEnabled(1);
1090 frameRateLabel->setEnabled(1);
1091 frameRateSpinBox->setEnabled(1);
1093 playButton->setEnabled(0);
1094 frameRateLabel->setEnabled(0);
1095 frameRateSpinBox->setEnabled(0);
1102 vvImage::Pointer imageSelected;
1103 if (DataTree->topLevelItem(index) == DataTree->selectedItems()[0]) {
1104 imageSelected = mSlicerManagers[index]->GetSlicer(0)->GetImage();
1105 tSlice = mSlicerManagers[index]->GetSlicer(0)->GetTSlice();
1106 } else if (DataTree->selectedItems()[0]->data(1,Qt::UserRole).toString() == "vector") {
1107 imageSelected = mSlicerManagers[index]->GetSlicer(0)->GetVF();
1108 tSlice = mSlicerManagers[index]->GetSlicer(0)->GetOverlayTSlice();
1109 } else if (DataTree->selectedItems()[0]->data(1,Qt::UserRole).toString() == "overlay") {
1110 imageSelected = mSlicerManagers[index]->GetSlicer(0)->GetOverlay();
1111 tSlice = mSlicerManagers[index]->GetSlicer(0)->GetOverlayTSlice();
1112 } else if (DataTree->selectedItems()[0]->data(1,Qt::UserRole).toString() == "fusion") {
1113 imageSelected = mSlicerManagers[index]->GetSlicer(0)->GetFusion();
1114 tSlice = mSlicerManagers[index]->GetSlicer(0)->GetFusionTSlice();
1116 else if (DataTree->selectedItems()[0]->data(1,Qt::UserRole).toString() == "fusionSequence") {
1117 imageSelected = mSlicerManagers[index]->GetSlicer(0)->GetFusion();
1118 tSlice = mSlicerManagers[index]->GetSlicer(0)->GetFusionTSlice();
1120 else if (DataTree->selectedItems()[0]->data(1,Qt::UserRole).toString() == "contour") {
1121 imageSelected = mSlicerManagers[index]->GetSlicer(0)->GetImage();
1122 tSlice = mSlicerManagers[index]->GetSlicer(0)->GetTSlice();
1125 imageSelected = mSlicerManagers[index]->GetSlicer(0)->GetImage();
1126 tSlice = mSlicerManagers[index]->GetSlicer(0)->GetTSlice();
1129 dimension = imageSelected->GetNumberOfDimensions();
1130 origin.resize(dimension);
1131 inputSpacing.resize(dimension);
1132 inputSize.resize(dimension);
1133 sizeMM.resize(dimension);
1134 pixelType = mSlicerManagers[index]->GetImage()->GetScalarTypeAsITKString().c_str();
1135 for (int i = 0; i < dimension; i++) {
1136 origin[i] = imageSelected->GetOrigin()[i];
1137 inputSpacing[i] = imageSelected->GetSpacing()[i];
1138 inputSize[i] = imageSelected->GetSize()[i];
1139 sizeMM[i] = inputSize[i]*inputSpacing[i];
1140 NPixel *= inputSize[i];
1142 inputSizeInBytes = GetSizeInBytes(imageSelected->GetActualMemorySize()*1000);
1144 QString dim = QString::number(dimension) + " (";
1145 dim += pixelType + ")";
1147 infoPanel->setFileName(image);
1148 std::string creationImageTimeValue("No creation time");
1149 itk::ExposeMetaData< std::string > (*imageSelected->GetFirstMetaDataDictionary(), "creationImageTime", creationImageTimeValue);
1150 infoPanel->setImageCreationTime(QString(creationImageTimeValue.c_str()));
1151 infoPanel->setDimension(dim);
1152 infoPanel->setSizePixel(GetVectorIntAsString(inputSize));
1153 infoPanel->setSizeMM(GetVectorDoubleAsString(sizeMM));
1154 infoPanel->setOrigin(GetVectorDoubleAsString(origin));
1155 infoPanel->setSpacing(GetVectorDoubleAsString(inputSpacing));
1156 infoPanel->setNPixel(QString::number(NPixel)+" ("+inputSizeInBytes+")");
1158 transformation = imageSelected->GetTransform()[tSlice]->GetMatrix();
1159 infoPanel->setTransformation(clitk::Get4x4MatrixDoubleAsString(transformation).c_str());
1161 landmarksPanel->SetCurrentLandmarks(mSlicerManagers[index]->GetLandmarks(),
1162 mSlicerManagers[index]->GetTSlice());
1163 landmarksPanel->SetCurrentPath(mInputPathName.toStdString());
1164 landmarksPanel->SetCurrentImage(mSlicerManagers[index]->GetFileName().c_str());
1166 overlayPanel->getCurrentImageName(mSlicerManagers[index]->GetFileName().c_str());
1167 for (int i = 0; i < 4; i++) {
1168 if (DataTree->selectedItems()[0]->data(i+1,Qt::CheckStateRole).toInt() > 0 || i == 3) {
1169 mSlicerManagers[index]->UpdateInfoOnCursorPosition(i);
1174 // infoPanel->setFileName(image);
1175 // infoPanel->setDimension(dim);
1176 // infoPanel->setSizePixel(GetVectorIntAsString(inputSize));
1177 // infoPanel->setSizeMM(GetVectorDoubleAsString(sizeMM));
1178 // infoPanel->setOrigin(GetVectorDoubleAsString(origin));
1179 // infoPanel->setSpacing(GetVectorDoubleAsString(inputSpacing));
1180 // infoPanel->setNPixel(QString::number(NPixel)+" ("+inputSizeInBytes+")");
1182 // landmarksPanel->SetCurrentLandmarks(mSlicerManagers[index]->GetLandmarks(),
1183 // mSlicerManagers[index]->GetTSlice());
1184 // landmarksPanel->SetCurrentPath(mInputPathName.toStdString());
1185 // landmarksPanel->SetCurrentImage(mSlicerManagers[index]->GetFileName().c_str());
1187 // overlayPanel->getCurrentImageName(mSlicerManagers[index]->GetFileName().c_str());
1188 // for (int i = 0; i < 4; i++) {
1189 // if (DataTree->selectedItems()[0]->data(i+1,Qt::CheckStateRole).toInt() > 0 || i == 3) {
1190 // mSlicerManagers[index]->UpdateInfoOnCursorPosition(i);
1194 WindowLevelChanged();
1196 slicingPresetComboBox->setCurrentIndex(mSlicerManagers[index]->GetSlicingPreset());
1198 if (mSlicerManagers[index]->GetSlicer(0)->GetVF()) {
1199 overlayPanel->getVFName(mSlicerManagers[index]->GetVFName().c_str());
1200 overlayPanel->getVFProperty(mSlicerManagers[index]->GetSlicer(0)->GetVFSubSampling(),
1201 mSlicerManagers[index]->GetSlicer(0)->GetVFScale(),
1202 mSlicerManagers[index]->GetSlicer(0)->GetVFLog());
1204 overlayPanel->getVFName(mSlicerManagers[index]->GetVFName().c_str());
1205 overlayPanel->getVFProperty(-1,-1,-1);
1207 if (mSlicerManagers[index]->GetSlicer(0)->GetOverlay()) {
1208 overlayPanel->getOverlayName(mSlicerManagers[index]->GetOverlayName().c_str());
1210 overlayPanel->getOverlayName(mSlicerManagers[index]->GetOverlayName().c_str());
1213 if (mSlicerManagers[index]->GetSlicer(0)->GetFusion()) {
1214 overlayPanel->getFusionName(mSlicerManagers[index]->GetFusionName().c_str());
1216 overlayPanel->getFusionName(mSlicerManagers[index]->GetFusionName().c_str());
1220 //------------------------------------------------------------------------------
1222 //------------------------------------------------------------------------------
1223 void vvMainWindow::ShowDocumentation()
1225 documentation->show();
1227 //------------------------------------------------------------------------------
1229 //------------------------------------------------------------------------------
1230 void vvMainWindow::PopupRegisterForm(bool checkCanPush)
1232 vvRegisterForm* registerForm = new vvRegisterForm(QUrl("http://www.creatis.insa-lyon.fr/~dsarrut/vvregister/write.php"), getVVSettingsPath(), getSettingsOptionFormat());
1234 registerForm->show();
1236 if(registerForm->canPush()) {
1237 registerForm->show();
1238 registerForm->acquitPushed();//too bad if there is not internet connection anymore.
1242 //------------------------------------------------------------------------------
1244 //------------------------------------------------------------------------------
1245 void vvMainWindow::ShowHelpDialog()
1247 help_dialog->show();
1249 //------------------------------------------------------------------------------
1251 //------------------------------------------------------------------------------
1252 void vvMainWindow::ChangeViewMode()
1254 typedef struct _SIZE{
1255 QSplitter* splitter;
1256 QList<int> size1, size2;
1259 SplitterSize sizes[4];
1260 sizes[0].splitter = OSplitter;
1261 sizes[0].size1.push_back(1);
1262 sizes[0].size1.push_back(0);
1263 sizes[0].size2.push_back(1);
1264 sizes[0].size2.push_back(0);
1265 sizes[0].cols[0] = 2;
1266 sizes[0].cols[1] = 3;
1267 sizes[0].cols[2] = 4;
1269 sizes[1].splitter = ESplitter;
1270 sizes[1].size1.push_back(0);
1271 sizes[1].size1.push_back(1);
1272 sizes[1].size2.push_back(1);
1273 sizes[1].size2.push_back(0);
1274 sizes[1].cols[0] = 1;
1275 sizes[1].cols[1] = 3;
1276 sizes[1].cols[2] = 4;
1278 sizes[2].splitter = OSplitter;
1279 sizes[2].size1.push_back(1);
1280 sizes[2].size1.push_back(0);
1281 sizes[2].size2.push_back(0);
1282 sizes[2].size2.push_back(1);
1283 sizes[2].cols[0] = 1;
1284 sizes[2].cols[1] = 2;
1285 sizes[2].cols[2] = 4;
1287 sizes[3].splitter = ESplitter;
1288 sizes[3].size1.push_back(0);
1289 sizes[3].size1.push_back(1);
1290 sizes[3].size2.push_back(0);
1291 sizes[3].size2.push_back(1);
1292 sizes[3].cols[0] = 1;
1293 sizes[3].cols[1] = 2;
1294 sizes[3].cols[2] = 3;
1296 int slicer = mSlicerManagers[mCurrentPickedImageIndex]->GetSelectedSlicer();
1297 if (viewMode == 1) {
1300 splitter_3->setSizes(sizes[slicer].size1);
1301 sizes[slicer].splitter->setSizes(sizes[slicer].size2);
1302 DataTree->setColumnHidden(sizes[slicer].cols[0],1);
1303 DataTree->setColumnHidden(sizes[slicer].cols[1],1);
1304 DataTree->setColumnHidden(sizes[slicer].cols[2],1);
1312 splitter_3->setSizes(size);
1313 sizes[slicer].splitter->setSizes(size);
1314 DataTree->setColumnHidden(sizes[slicer].cols[0],0);
1315 DataTree->setColumnHidden(sizes[slicer].cols[1],0);
1316 DataTree->setColumnHidden(sizes[slicer].cols[2],0);
1319 UpdateRenderWindows();
1321 ** I don't know why but for both resized QVTKWidget we also need to render
1322 ** the associated Slicer to redraw crosses.
1324 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
1325 // if (DataTree->topLevelItem(i)->data(COLUMN_UL_VIEW,Qt::CheckStateRole).toInt() > 1)
1326 mSlicerManagers[i]->GetSlicer(0)->Render();
1327 mSlicerManagers[i]->GetSlicer(1)->Render();
1328 // if (DataTree->topLevelItem(i)->data(COLUMN_DL_VIEW,Qt::CheckStateRole).toInt() > 1)
1329 mSlicerManagers[i]->GetSlicer(2)->Render();
1330 mSlicerManagers[i]->GetSlicer(3)->Render();
1333 //------------------------------------------------------------------------------
1335 //------------------------------------------------------------------------------
1336 QString vvMainWindow::GetSizeInBytes(unsigned long size)
1338 QString result = "";// QString::number(size);
1339 //result += " bytes (";
1340 if (size > 1000000000) {
1342 result += QString::number(size);
1343 result += "Gb";//)";
1344 } else if (size > 1000000) {
1346 result += QString::number(size);
1347 result += "Mb";//)";
1348 } else if (size > 1000) {
1350 result += QString::number(size);
1351 result += "kb";//)";
1355 //------------------------------------------------------------------------------
1357 //------------------------------------------------------------------------------
1358 QString vvMainWindow::GetVectorDoubleAsString(std::vector<double> vectorDouble)
1361 for (unsigned int i= 0; i < vectorDouble.size(); i++) {
1364 result += QString::number(vectorDouble[i]);
1368 //------------------------------------------------------------------------------
1370 //------------------------------------------------------------------------------
1371 QString vvMainWindow::GetVectorIntAsString(std::vector<int> vectorInt)
1374 for (unsigned int i= 0; i < vectorInt.size(); i++) {
1377 result += QString::number(vectorInt[i]);
1381 //------------------------------------------------------------------------------
1383 //------------------------------------------------------------------------------
1384 //this actually returns the SlicerManager index!
1385 int vvMainWindow::GetSlicerIndexFromItem(QTreeWidgetItem* item)
1387 QString id = item->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString();
1388 for (int i = 0; i < DataTree->topLevelItemCount(); i++) {
1389 if (DataTree->topLevelItem(i)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString() == id)
1394 //------------------------------------------------------------------------------
1396 //------------------------------------------------------------------------------
1397 QTreeWidgetItem* vvMainWindow::GetItemFromSlicerManager(vvSlicerManager* sm)
1399 QString id = sm->GetId().c_str();
1400 for (int i = 0; i < DataTree->topLevelItemCount(); i++) {
1401 if (DataTree->topLevelItem(i)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString() == id)
1402 return DataTree->topLevelItem(i);
1406 //------------------------------------------------------------------------------
1408 //------------------------------------------------------------------------------
1409 void vvMainWindow::DisplayChanged(QTreeWidgetItem *clickedItem, int column)
1411 if ( column >= COLUMN_CLOSE_IMAGE || column <= 0)
1414 // Get parent information (might be the same item)
1415 int slicerManagerIndex = GetSlicerIndexFromItem(clickedItem);
1416 QTreeWidgetItem* clickedParentItem = DataTree->topLevelItem(slicerManagerIndex);
1417 vvSlicer* clickedSlicer = mSlicerManagers[slicerManagerIndex]->GetSlicer(column-1);
1419 // Go over the complete item tree (only 2 levels, parents and children)
1420 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
1421 // Trick to avoid redoing twice the job for a key (sr)
1422 mSlicerManagers[i]->GetSlicer(column-1)->GetRenderWindow()->GetInteractor()->SetKeySym("Crap");
1424 QTreeWidgetItem* currentParentItem = DataTree->topLevelItem(i);
1425 if(currentParentItem != clickedParentItem) {
1426 // Not the branch of the clicked item, uncheck all
1429 currentParentItem->setData(column,Qt::CheckStateRole, 0);
1430 mSlicerManagers[i]->UpdateSlicer(column-1, false);
1433 for (int iChild = 0; iChild < currentParentItem->childCount(); iChild++) {
1434 currentParentItem->child(iChild)->setData(column,Qt::CheckStateRole, 0);
1438 // Branch of the clicked one: get check status from actor visibility in slicer
1439 // and toggle the clicked one
1442 bool vis = clickedSlicer->GetActorVisibility("image", 0);
1443 bool draw = clickedSlicer->GetRenderer()->GetDraw();
1445 // Update slicer (after getting visibility)
1446 mSlicerManagers[slicerManagerIndex]->UpdateSlicer(column-1, true);
1447 mSlicerManagers[slicerManagerIndex]->UpdateInfoOnCursorPosition(column-1);
1448 DisplaySliders(slicerManagerIndex, column-1);
1449 if(clickedParentItem == clickedItem) {
1451 vis = !draw || !vis;
1453 clickedSlicer->SetActorVisibility("image", 0, vis);
1454 clickedParentItem->setData(column, Qt::CheckStateRole, vis?2:0);
1457 std::map<std::string, int> actorTypeCounts;
1458 for (int iChild = 0; iChild < clickedParentItem->childCount(); iChild++) {
1459 QTreeWidgetItem* currentChildItem = clickedParentItem->child(iChild);
1460 std::string actorType = currentChildItem->data(1,Qt::UserRole).toString().toStdString();
1461 vis = clickedSlicer->GetActorVisibility(actorType, actorTypeCounts[actorType]);
1462 if(currentChildItem == clickedItem) {
1463 // Toggle or force visibility if it was not on this branch so far
1464 vis = !draw || !vis;
1465 clickedSlicer->SetActorVisibility(actorType, actorTypeCounts[actorType], vis);
1467 currentChildItem->setData(column, Qt::CheckStateRole, vis?2:0);
1468 actorTypeCounts[actorType]++;
1473 clickedSlicer->Render();
1475 //------------------------------------------------------------------------------
1477 void vvMainWindow::InitSlicers()
1479 if (mSlicerManagers.size()) {
1480 mSlicerManagers.back()->GenerateDefaultLookupTable();
1481 mSlicerManagers.back()->SetSlicerWindow(0,NOViewWidget->GetRenderWindow());
1482 mSlicerManagers.back()->SetSlicerWindow(1,NEViewWidget->GetRenderWindow());
1483 mSlicerManagers.back()->SetSlicerWindow(2,SOViewWidget->GetRenderWindow());
1484 mSlicerManagers.back()->SetSlicerWindow(3,SEViewWidget->GetRenderWindow());
1485 #if VTK_MAJOR_VERSION <= 5
1486 mSlicerManagers.back()->Render(); // SR: displayed #slice is wrong without this / TB: With VTK6 and multiple images, all slicers are updated, not only the first
1491 //------------------------------------------------------------------------------
1492 void vvMainWindow::InitDisplay()
1494 if (mSlicerManagers.size()) {
1495 //BE CAREFUL : this is absolutely necessary to set the interactor style
1496 //in order to have the same style instanciation for all SlicerManagers in
1498 for (int j = 0; j < 4; j++) {
1499 vvInteractorStyleNavigator* style = vvInteractorStyleNavigator::New();
1500 style->SetAutoAdjustCameraClippingRange(1);
1501 bool AlreadySelected = false;
1502 for (int i = 0; i < DataTree->topLevelItemCount(); i++) {
1503 mSlicerManagers[i]->SetInteractorStyleNavigator(j,style);
1504 //select the image only if previous are not selected
1505 if (DataTree->topLevelItem(i)->data(j+1,Qt::CheckStateRole).toInt() > 1) {
1506 mSlicerManagers[i]->UpdateSlicer(j,1);
1507 AlreadySelected = true;
1508 } else if (i == DataTree->topLevelItemCount()-1 && !AlreadySelected) {
1509 if (DataTree->selectedItems().size() == 0) {
1510 DataTree->topLevelItem(i)->setSelected(1);
1512 DataTree->topLevelItem(i)->setData(j+1,Qt::CheckStateRole,2);
1513 mSlicerManagers[i]->UpdateSlicer(j,1);
1514 DisplaySliders(i,j);
1516 DataTree->topLevelItem(i)->setData(j+1,Qt::CheckStateRole,0);
1517 mSlicerManagers[i]->UpdateSlicer(j,0);
1524 //------------------------------------------------------------------------------
1526 //------------------------------------------------------------------------------
1527 void vvMainWindow::DisplaySliders(int slicer, int window)
1529 if(!mSlicerManagers[slicer]->GetSlicer(window)->GetRenderer()->GetDraw())
1533 mSlicerManagers[slicer]->GetSlicer(window)->GetSliceRange(range);
1534 int position = mSlicerManagers[slicer]->GetSlicer(window)->GetSlice();
1536 verticalSliders[window]->show();
1538 verticalSliders[window]->hide();
1539 verticalSliders[window]->setRange(range[0],range[1]);
1540 verticalSliders[window]->setValue(position);
1544 tRange[1] = mSlicerManagers[slicer]->GetSlicer(window)->GetTMax();
1546 horizontalSliders[window]->show();
1548 horizontalSliders[window]->hide();
1549 horizontalSliders[window]->setRange(tRange[0],tRange[1]);
1550 int tPosition = mSlicerManagers[slicer]->GetSlicer(window)->GetMaxCurrentTSlice();
1551 horizontalSliders[window]->setValue(tPosition);
1553 //------------------------------------------------------------------------------
1555 //------------------------------------------------------------------------------
1556 void vvMainWindow::CloseImage(QTreeWidgetItem* item, int column)
1558 int index = GetSlicerIndexFromItem(item);
1560 if (DataTree->topLevelItem(index) != item) {
1561 QString warning = "Do you really want to close the overlay : ";
1562 warning += item->data(COLUMN_IMAGE_NAME,Qt::DisplayRole).toString();
1563 QMessageBox msgBox(QMessageBox::Warning, tr("Close Overlay"),
1565 msgBox.addButton(tr("Close"), QMessageBox::AcceptRole);
1566 msgBox.addButton(tr("Cancel"), QMessageBox::RejectRole);
1567 if (msgBox.exec() == QMessageBox::AcceptRole) {
1568 std::string overlay_type=item->data(1,Qt::UserRole).toString().toStdString();
1569 int overlay_index=0;
1570 for (int child = 0; child < DataTree->topLevelItem(index)->childCount(); child++) {
1571 if (DataTree->topLevelItem(index)->\
1572 child(child)->data(1,Qt::UserRole).toString().toStdString() == overlay_type)
1574 if (DataTree->topLevelItem(index)->child(child) == item) break;
1576 if (overlay_type=="fusionSequence") {
1577 //removing the overlay sequence in a fusion sequence visualization mode
1578 //reset the transforms
1579 overlayPanel->getFusionSequenceProperty(-1, false, 0, false);
1581 //unlink and untie the slicer managers
1582 RemoveLink(mSlicerManagers[index]->GetId().c_str(), mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->GetId().c_str());
1583 mSlicerManagers[index]->SetFusionSequenceInvolvmentCode(-1);
1584 mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->SetFusionSequenceInvolvmentCode(-1);
1585 for (unsigned i=0 ; i<4 ; i++) {
1586 mSlicerManagers[index]->GetSlicer(i)->SetFusionSequenceCode(-1);
1587 mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->GetSlicer(i)->SetFusionSequenceCode(-1);
1591 mSlicerManagers[index]->RemoveActor(overlay_type, overlay_index-1);
1592 mSlicerManagers[index]->SetColorMap(0);
1593 DataTree->topLevelItem(index)->takeChild(DataTree->topLevelItem(index)->indexOfChild(item));
1594 mSlicerManagers[index]->Render();
1596 } else if (DataTree->topLevelItemCount() <= 1) {
1597 QString warning = "Do you really want to close the image : ";
1598 warning += item->data(COLUMN_IMAGE_NAME,Qt::DisplayRole).toString();
1599 warning += "\nThis is the last image, you're about to close vv !!!";
1600 QMessageBox msgBox(QMessageBox::Warning, tr("Close Image"),
1602 msgBox.addButton(tr("Close vv"), QMessageBox::AcceptRole);
1603 msgBox.addButton(tr("Cancel"), QMessageBox::RejectRole);
1604 if (msgBox.exec() == QMessageBox::AcceptRole) {
1608 QString warning = "Do you really want to close the image : ";
1609 warning += item->data(COLUMN_IMAGE_NAME,Qt::DisplayRole).toString();
1610 QMessageBox msgBox(QMessageBox::Warning, tr("Close Image"),
1612 msgBox.addButton(tr("Close"), QMessageBox::AcceptRole);
1613 msgBox.addButton(tr("Cancel"), QMessageBox::RejectRole);
1614 if (msgBox.exec() == QMessageBox::AcceptRole) {
1616 // Tell tools that we close an image
1617 emit AnImageIsBeingClosed(mSlicerManagers[index]);
1619 std::vector<vvSlicerManager*>::iterator Manageriter = mSlicerManagers.begin();
1620 DataTree->takeTopLevelItem(index);
1621 for (int i = 0; i < index; i++) {
1624 //if the slicer manager was involved in a fusion sequence visualization...
1625 if ( mSlicerManagers[index]->IsInvolvedInFusionSequence() ) {
1626 //in both cases, close the overlay: find it... and close it
1627 //ideally, I should duplicate the code, and avoid calling CloseImage, since this pops up another interactive box
1628 QTreeWidgetItem* overlayItem;
1629 if (mSlicerManagers[index]->IsMainSequenceOfFusionSequence()) {
1630 for (unsigned i=0 ; i<item->childCount() ; i++) {
1631 overlayItem = item->child(i);
1632 this->CloseImage( overlayItem, 0 );
1636 QTreeWidgetItem* linkedItem = this->GetItemFromSlicerManager( mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()] );
1637 for (unsigned i=0 ; i<linkedItem->childCount() ; i++) {
1638 overlayItem = linkedItem->child(i);
1639 this->CloseImage( overlayItem, 0 );
1643 /* -- this is normally already done when closing the overlay.
1644 //reset the transforms
1645 overlayPanel->getFusionSequenceProperty(-1, false, 0, false);
1647 //unlink and untie the slicer managers
1648 RemoveLink(mSlicerManagers[index]->GetId().c_str(), mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->GetId().c_str());
1649 mSlicerManagers[index]->SetFusionSequenceInvolvmentCode(-1);
1650 mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->SetFusionSequenceInvolvmentCode(-1);
1651 for (unsigned i=0 ; i<4 ; i++) {
1652 mSlicerManagers[index]->GetSlicer(i)->SetFusionSequenceCode(-1);
1653 mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->GetSlicer(i)->SetFusionSequenceCode(-1);
1658 linkPanel->removeImage(index);
1659 mSlicerManagers[index]->RemoveActors();
1661 //remove the slicer manager
1662 delete mSlicerManagers[index];
1663 mSlicerManagers.erase(Manageriter);
1671 //------------------------------------------------------------------------------
1673 //------------------------------------------------------------------------------
1674 void vvMainWindow::ReloadImage(QTreeWidgetItem* item, int column)
1676 // int index = GetSlicerIndexFromItem(item);
1677 // QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
1678 // if (item->data(1,Qt::UserRole).toString() == "vector")
1679 // mSlicerManagers[index]->ReloadVF();
1681 // mSlicerManagers[index]->Reload();
1683 // QApplication::restoreOverrideCursor();
1684 int index = GetSlicerIndexFromItem(item);
1685 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
1686 QString role=item->data(1,Qt::UserRole).toString();
1687 if ( role == "vector") {
1688 mSlicerManagers[index]->ReloadVF();
1690 else if (role == "overlay") {
1691 mSlicerManagers[index]->ReloadOverlay();
1693 else if (role == "fusion") {
1694 mSlicerManagers[index]->ReloadFusion();
1696 else if (role == "fusionSequence") {
1697 //both versions of the secondary sequence must be updated.
1698 mSlicerManagers[index]->ReloadFusionSequence();
1699 mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->Reload();
1702 mSlicerManagers[index]->Reload();
1703 //if we update the secondary sequence, then the overlay of the main sequence should also be updated
1704 if (mSlicerManagers[index]->IsSecondarySequenceOfFusionSequence()) mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->ReloadFusionSequence();
1706 // Update view and info
1708 mSlicerManagers[index]->Render();
1709 QApplication::restoreOverrideCursor();
1711 //------------------------------------------------------------------------------
1713 //------------------------------------------------------------------------------
1714 void vvMainWindow::MousePositionChanged(int visibility,double x, double y, double z, double X, double Y, double Z , double value)
1716 infoPanel->setCurrentInfo(visibility,x,y,z,X,Y,Z,value);
1718 //------------------------------------------------------------------------------
1720 //------------------------------------------------------------------------------
1721 void vvMainWindow::VectorChanged(int visibility,double x, double y, double z, double value)
1723 overlayPanel->getCurrentVectorInfo(visibility,x,y,z,value);
1725 //------------------------------------------------------------------------------
1727 //------------------------------------------------------------------------------
1728 void vvMainWindow::OverlayChanged(int visibility, double valueOver, double valueRef)
1730 overlayPanel->getCurrentOverlayInfo(visibility,valueOver, valueRef);
1732 //------------------------------------------------------------------------------
1734 //------------------------------------------------------------------------------
1735 void vvMainWindow::FusionChanged(int visibility, double value)
1737 overlayPanel->getCurrentFusionInfo(visibility,value);
1739 //------------------------------------------------------------------------------
1741 //------------------------------------------------------------------------------
1742 //called when AddOverlayImage, AddFusionSequence
1743 //or when UpdateWindowLevel() is called ; when slicerManager emits WindowLevelChanged
1744 //when ImageInfoChanged() is called
1745 void vvMainWindow::WindowLevelChanged()
1748 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1749 if(index==-1) return;
1750 windowSpinBox->setValue(mSlicerManagers[index]->GetColorWindow());
1751 levelSpinBox->setValue(mSlicerManagers[index]->GetColorLevel());
1752 colorMapComboBox->setCurrentIndex(mSlicerManagers[index]->GetColorMap());
1753 presetComboBox->setCurrentIndex(mSlicerManagers[index]->GetPreset());
1756 if (mSlicerManagers[index]->GetSlicer(0)->GetOverlay())
1757 overlayPanel->getOverlayProperty(mSlicerManagers[index]->GetOverlayColor(),
1758 mSlicerManagers[index]->GetLinkOverlayWindowLevel(),
1759 mSlicerManagers[index]->GetOverlayColorWindow(),
1760 mSlicerManagers[index]->GetOverlayColorLevel());
1762 overlayPanel->getOverlayProperty(-1,0,0.,0.);
1764 // Fusion & SequenceFusion image
1765 if (mSlicerManagers[index]->GetSlicer(0)->GetFusion()) {
1766 overlayPanel->getFusionProperty(mSlicerManagers[index]->GetFusionOpacity(),
1767 mSlicerManagers[index]->GetFusionThresholdOpacity(),
1768 mSlicerManagers[index]->GetFusionColorMap(),
1769 mSlicerManagers[index]->GetFusionWindow(),
1770 mSlicerManagers[index]->GetFusionLevel());
1771 if (mSlicerManagers[index]->IsMainSequenceOfFusionSequence()) {
1772 overlayPanel->getFusionSequenceProperty(mSlicerManagers[index]->GetFusionSequenceFrameIndex(),
1773 mSlicerManagers[index]->GetFusionSequenceSpatialSyncFlag(),
1774 mSlicerManagers[index]->GetFusionSequenceNbFrames(),
1775 mSlicerManagers[index]->GetFusionSequenceTemporalSyncFlag());
1778 else if ( mSlicerManagers[index]->IsSecondarySequenceOfFusionSequence() ) {
1779 //if the image is involved in a fusion sequence, preserve the overlay panel!
1780 int ind = mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager();
1781 overlayPanel->getFusionProperty(mSlicerManagers[ind]->GetFusionOpacity(),
1782 mSlicerManagers[ind]->GetFusionThresholdOpacity(),
1783 mSlicerManagers[ind]->GetFusionColorMap(),
1784 mSlicerManagers[ind]->GetFusionWindow(),
1785 mSlicerManagers[ind]->GetFusionLevel());
1786 overlayPanel->getFusionSequenceProperty(mSlicerManagers[ind]->GetFusionSequenceFrameIndex(),
1787 mSlicerManagers[ind]->GetFusionSequenceSpatialSyncFlag(),
1788 mSlicerManagers[ind]->GetFusionSequenceNbFrames(),
1789 mSlicerManagers[ind]->GetFusionSequenceTemporalSyncFlag());
1793 overlayPanel->getFusionProperty(-1, -1, -1, -1, -1);
1794 overlayPanel->getFusionSequenceProperty(-1, false, 0, false);
1797 //------------------------------------------------------------------------------
1799 //------------------------------------------------------------------------------
1800 void vvMainWindow::WindowLevelEdited()
1802 presetComboBox->setCurrentIndex(WL_USER);
1803 UpdateWindowLevel();
1805 //------------------------------------------------------------------------------
1807 //------------------------------------------------------------------------------
1808 void vvMainWindow::SetWindowLevel(double w, double l)
1810 windowSpinBox->setValue(w);
1811 levelSpinBox->setValue(l);
1812 presetComboBox->setCurrentIndex(WL_USER);
1813 colorMapComboBox->setCurrentIndex(0);
1814 UpdateWindowLevel();
1816 //------------------------------------------------------------------------------
1818 //------------------------------------------------------------------------------
1819 void vvMainWindow::UpdateWindowLevel()
1821 if (DataTree->selectedItems().size()) {
1822 if (presetComboBox->currentIndex() == WL_VENTILATION) //For ventilation
1823 colorMapComboBox->setCurrentIndex(5);
1824 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1825 mSlicerManagers[index]->SetColorWindow(windowSpinBox->value());
1826 mSlicerManagers[index]->SetColorLevel(levelSpinBox->value());
1827 mSlicerManagers[index]->SetPreset(presetComboBox->currentIndex());
1828 mSlicerManagers[index]->Render();
1829 WindowLevelChanged();
1832 //------------------------------------------------------------------------------
1834 //------------------------------------------------------------------------------
1835 void vvMainWindow::UpdateSlicingPreset()
1837 if (DataTree->selectedItems().size()) {
1838 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1839 mSlicerManagers[index]->SetSlicingPreset(vvSlicerManager::SlicingPresetType(slicingPresetComboBox->currentIndex()));
1842 //------------------------------------------------------------------------------
1844 //------------------------------------------------------------------------------
1845 void vvMainWindow::UpdateColorMap()
1847 if (DataTree->selectedItems().size()) {
1848 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1849 mSlicerManagers[index]->SetColorMap(colorMapComboBox->currentIndex());
1850 mSlicerManagers[index]->Render();
1853 //------------------------------------------------------------------------------
1854 void vvMainWindow::SwitchWindowLevel()
1856 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1857 int window = mSlicerManagers[index]->GetColorWindow();
1858 presetComboBox->setCurrentIndex(WL_USER);
1859 windowSpinBox->setValue(-window);
1860 UpdateWindowLevel();
1862 //------------------------------------------------------------------------------
1864 //------------------------------------------------------------------------------
1865 void vvMainWindow::ApplyWindowLevelToAllImages()
1867 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1868 if(index==-1) return;
1869 double window = mSlicerManagers[index]->GetColorWindow();
1870 double level = mSlicerManagers[index]->GetColorLevel();
1872 double fusWindow = mSlicerManagers[index]->GetFusionWindow();
1873 double fusLevel = mSlicerManagers[index]->GetFusionLevel();
1875 double overWindow = mSlicerManagers[index]->GetOverlayColorWindow();
1876 double overLevel = mSlicerManagers[index]->GetOverlayColorLevel();
1878 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
1879 if (mSlicerManagers[i] == NULL)
1881 mSlicerManagers[i]->SetColorWindow(window);
1882 mSlicerManagers[i]->SetColorLevel(level);
1883 mSlicerManagers[i]->SetPreset(WL_USER);
1884 mSlicerManagers[i]->SetFusionWindow(fusWindow);
1885 mSlicerManagers[i]->SetFusionLevel(fusLevel);
1886 mSlicerManagers[i]->SetOverlayColorWindow(overWindow);
1887 mSlicerManagers[i]->SetOverlayColorLevel(overLevel);
1888 mSlicerManagers[i]->Render();
1891 //------------------------------------------------------------------------------
1893 //------------------------------------------------------------------------------
1894 void vvMainWindow::ApplyWindowToSetOfImages(double window, unsigned int indexMin, unsigned int indexMax)
1896 for (unsigned int i = indexMin; i <= indexMax && i < mSlicerManagers.size(); i++) {
1897 if (mSlicerManagers[i] == NULL)
1899 mSlicerManagers[i]->SetColorWindow(window);
1900 mSlicerManagers[i]->SetPreset(WL_USER);
1901 mSlicerManagers[i]->Render();
1904 //------------------------------------------------------------------------------
1906 //------------------------------------------------------------------------------
1907 void vvMainWindow::ApplyLevelToSetOfImages(double level, unsigned int indexMin, unsigned int indexMax)
1909 for (unsigned int i = indexMin; i <= indexMax && i < mSlicerManagers.size(); i++) {
1910 if (mSlicerManagers[i] == NULL)
1912 mSlicerManagers[i]->SetColorLevel(level);
1913 mSlicerManagers[i]->SetPreset(WL_USER);
1914 mSlicerManagers[i]->Render();
1917 //------------------------------------------------------------------------------
1919 //------------------------------------------------------------------------------
1920 void vvMainWindow::UpdateLinkManager(std::string id, int slicer, double x, double y, double z, int temps)
1922 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
1923 if (mSlicerManagers[i]->GetId() == id) {
1924 mSlicerManagers[i]->GetSlicer(slicer)->SetCurrentPosition(x,y,z,temps);
1925 mSlicerManagers[i]->UpdateViews(0,slicer);
1930 //------------------------------------------------------------------------------
1932 //------------------------------------------------------------------------------
1933 void vvMainWindow::UpdateLinkedNavigation(std::string id, vvSlicerManager * sm, vvSlicer* refSlicer)
1935 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
1936 if (id == mSlicerManagers[i]->GetId()) {
1937 mSlicerManagers[i]->UpdateLinkedNavigation(refSlicer);
1941 //------------------------------------------------------------------------------
1943 //------------------------------------------------------------------------------
1944 void vvMainWindow::ShowContextMenu(QPoint point)
1946 if (!DataTree->selectedItems().size()) {
1947 contextActions[1]->setEnabled(0);
1948 contextActions[2]->setEnabled(0);
1949 contextActions[3]->setEnabled(0);
1950 contextActions[4]->setEnabled(0);
1951 contextActions[5]->setEnabled(0);
1952 contextActions[6]->setEnabled(0);
1954 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1955 contextActions[1]->setEnabled(1);
1956 contextActions[2]->setEnabled(
1957 DataTree->itemWidget(DataTree->selectedItems()[0],
1958 COLUMN_RELOAD_IMAGE)->isEnabled());
1959 contextActions[3]->setEnabled(1);
1960 contextActions[5]->setEnabled(1);
1961 contextActions[6]->setEnabled(1);
1963 if (mSlicerManagers[index]->GetDimension() < 3)
1964 contextActions[4]->setEnabled(0);
1966 contextActions[4]->setEnabled(1);
1968 contextMenu.exec(QCursor::pos());
1970 //------------------------------------------------------------------------------
1972 //------------------------------------------------------------------------------
1973 void vvMainWindow::CloseImage()
1975 CloseImage(DataTree->selectedItems()[0],0);
1977 //------------------------------------------------------------------------------
1979 //------------------------------------------------------------------------------
1980 void vvMainWindow::ReloadImage()
1982 ReloadImage(DataTree->selectedItems()[0],0);
1984 //------------------------------------------------------------------------------
1986 //------------------------------------------------------------------------------
1987 void vvMainWindow::SelectOverlayImage()
1989 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1991 //check if one overlay image is added
1992 for (int child = 0; child < DataTree->topLevelItem(index)->childCount(); child++)
1993 if (DataTree->topLevelItem(index)->child(child)->data(1,Qt::UserRole).toString() == "overlay") {
1994 QString error = "Cannot add more than one compared image\n";
1995 error += "Please remove first ";
1996 error += DataTree->topLevelItem(index)->child(child)->data(COLUMN_IMAGE_NAME,Qt::DisplayRole).toString();
1997 QMessageBox::information(this,tr("Problem adding compared image !"),error);
2001 QString Extensions = EXTENSIONS;
2002 Extensions += ";;All Files (*)";
2003 QStringList files = QFileDialog::getOpenFileNames(this,tr("Load Overlay image"),mInputPathName,Extensions);
2004 if (files.isEmpty())
2007 std::vector<std::string> vecFileNames;
2008 for (int i = 0; i < files.size(); i++) {
2009 vecFileNames.push_back(files[i].toStdString());
2012 AddOverlayImage(index,vecFileNames,vvImageReader::IMAGE);
2014 //------------------------------------------------------------------------------
2016 //------------------------------------------------------------------------------
2017 void vvMainWindow::AddOverlayImage(int index, std::vector<std::string> fileNames, vvImageReader::LoadedImageType type)
2019 QString file(fileNames[0].c_str());
2020 if (QFile::exists(file))
2022 mInputPathName = itksys::SystemTools::GetFilenamePath(file.toStdString()).c_str();
2023 itk::ImageIOBase::Pointer reader = itk::ImageIOFactory::CreateImageIO(
2024 file.toStdString().c_str(), itk::ImageIOFactory::ReadMode);
2025 reader->SetFileName(fileNames[0].c_str());
2026 reader->ReadImageInformation();
2027 std::string component = reader->GetComponentTypeAsString(reader->GetComponentType());
2028 int dimension = reader->GetNumberOfDimensions();
2029 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
2030 vvProgressDialog progress("Opening " + file.toStdString());
2031 qApp->processEvents();
2033 std::string filename = itksys::SystemTools::GetFilenameWithoutExtension(file.toStdString()).c_str();
2034 if (mSlicerManagers[index]->SetOverlay(fileNames,dimension, component,type)) {
2035 //create an item in the tree with good settings
2036 QTreeWidgetItem *item = new QTreeWidgetItem();
2037 item->setData(0,Qt::UserRole,file.toStdString().c_str());
2038 item->setData(1,Qt::UserRole,tr("overlay"));
2039 QFileInfo fileinfo(file); //Do not show the path
2040 item->setData(COLUMN_IMAGE_NAME,Qt::DisplayRole,fileinfo.fileName());
2041 item->setToolTip(COLUMN_IMAGE_NAME, mSlicerManagers[index]->GetListOfAbsoluteFilePathInOneString("overlay").c_str());
2042 qApp->processEvents();
2043 #if VTK_MAJOR_VERSION > 5
2044 for ( unsigned int i = 0; i < mSlicerManagers[index]->GetNumberOfSlicers(); i++)
2045 mSlicerManagers[index]->GetSlicer(i)->ForceUpdateDisplayExtent();
2048 for (int j = 1; j <= 4; j++) {
2049 item->setData(j,Qt::CheckStateRole,DataTree->topLevelItem(index)->data(j,Qt::CheckStateRole));
2052 //Create the buttons for reload and close
2053 qApp->processEvents();
2054 QTreePushButton* cButton = new QTreePushButton;
2055 cButton->setItem(item);
2056 cButton->setColumn(COLUMN_CLOSE_IMAGE);
2057 cButton->setToolTip(tr("close image"));
2058 cButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/exit.png")));
2059 connect(cButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2060 this,SLOT(CloseImage(QTreeWidgetItem*, int)));
2062 QTreePushButton* rButton = new QTreePushButton;
2063 rButton->setItem(item);
2064 rButton->setColumn(COLUMN_RELOAD_IMAGE);
2065 rButton->setToolTip(tr("reload image"));
2066 rButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/rotateright.png")));
2067 connect(rButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2068 this,SLOT(ReloadImage(QTreeWidgetItem*, int)));
2070 DataTree->topLevelItem(index)->setExpanded(1);
2071 DataTree->topLevelItem(index)->addChild(item);
2072 DataTree->setItemWidget(item, COLUMN_CLOSE_IMAGE, cButton);
2073 DataTree->setItemWidget(item, COLUMN_RELOAD_IMAGE, rButton);
2075 //set the id of the image
2076 QString id = DataTree->topLevelItem(index)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString();
2077 item->setData(COLUMN_IMAGE_NAME,Qt::UserRole,id.toStdString().c_str());
2079 qApp->processEvents();
2081 QApplication::restoreOverrideCursor();
2083 // Update the display to update, e.g., the sliders
2084 for(int i=0; i<4; i++)
2085 DisplaySliders(index, i);
2087 QApplication::restoreOverrideCursor();
2088 QString error = "Cannot import the new image.\n";
2089 error += mSlicerManagers[index]->GetLastError().c_str();
2090 QMessageBox::information(this,tr("Problem reading image !"),error);
2092 WindowLevelChanged();
2095 QMessageBox::information(this,tr("Problem reading Overlay !"),"File doesn't exist!");
2097 //------------------------------------------------------------------------------
2100 //------------------------------------------------------------------------------
2101 void vvMainWindow::AddROI(int index, QString file)
2104 // Get slice manager
2108 vvImageReader * mReader = new vvImageReader;
2109 mReader->SetInputFilename(filename.toStdString());
2110 mReader->Update(IMAGE);
2111 if (mReader->GetLastError().size() != 0) {
2112 std::cerr << "Error while reading " << filename.toStdString() << std::endl;
2113 QString error = "Cannot open file \n";
2114 error += mReader->GetLastError().c_str();
2115 QMessageBox::information(this,tr("Reading problem"),error);
2119 vvImage::Pointer roi = mReader->GetOutput();
2121 // Create roi in new tool
2122 vvToolStructureSetManager::AddImage(mCurrentSlicerManager, roi);
2125 //------------------------------------------------------------------------------
2127 //------------------------------------------------------------------------------
2128 void vvMainWindow::SelectFusionImage()
2130 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2132 //check if one fusion image is added
2133 for (int child = 0; child < DataTree->topLevelItem(index)->childCount(); child++)
2134 if ( (DataTree->topLevelItem(index)->child(child)->data(1,Qt::UserRole).toString() == "fusion") ||
2135 (DataTree->topLevelItem(index)->child(child)->data(1,Qt::UserRole).toString() == "fusionSequence") ) {
2136 QString error = "Cannot add more than one fusion image\n";
2137 error += "Please remove first ";
2138 error += DataTree->topLevelItem(index)->child(child)->data(COLUMN_IMAGE_NAME,Qt::DisplayRole).toString();
2139 QMessageBox::information(this,tr("Problem adding fusion image !"),error);
2143 QString Extensions = EXTENSIONS;
2144 Extensions += ";;All Files (*)";
2145 QStringList files = QFileDialog::getOpenFileNames(this,tr("Load Fusion image"),mInputPathName,Extensions);
2146 if (files.isEmpty())
2149 std::vector<std::string> vecFileNames;
2150 for (int i = 0; i < files.size(); i++) {
2151 vecFileNames.push_back(files[i].toStdString());
2153 AddFusionImage(index,vecFileNames,vvImageReader::IMAGE);
2155 //------------------------------------------------------------------------------
2157 //------------------------------------------------------------------------------
2158 void vvMainWindow::ResetTransformationToIdentity()
2160 std::string actorType = DataTree->selectedItems()[0]->data(1,Qt::UserRole).toString().toStdString();
2161 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2162 mSlicerManagers[index]->ResetTransformationToIdentity(actorType);
2165 //------------------------------------------------------------------------------
2167 //------------------------------------------------------------------------------
2168 void vvMainWindow::AddFusionImage(int index, std::vector<std::string> fileNames, vvImageReader::LoadedImageType type)
2170 QString file(fileNames[0].c_str());
2171 if (QFile::exists(file))
2173 mInputPathName = itksys::SystemTools::GetFilenamePath(file.toStdString()).c_str();
2174 itk::ImageIOBase::Pointer reader = itk::ImageIOFactory::CreateImageIO(
2175 file.toStdString().c_str(), itk::ImageIOFactory::ReadMode);
2176 reader->SetFileName(fileNames[0].c_str());
2177 reader->ReadImageInformation();
2178 std::string component = reader->GetComponentTypeAsString(reader->GetComponentType());
2179 int dimension = reader->GetNumberOfDimensions();
2180 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
2181 vvProgressDialog progress("Opening fusion");
2182 qApp->processEvents();
2184 std::string filename = itksys::SystemTools::GetFilenameWithoutExtension(file.toStdString()).c_str();
2185 if (mSlicerManagers[index]->SetFusion(fileNames,dimension, component,type)) {
2186 //create an item in the tree with good settings
2187 QTreeWidgetItem *item = new QTreeWidgetItem();
2188 item->setData(0,Qt::UserRole,file.toStdString().c_str());
2189 item->setData(1,Qt::UserRole,tr("fusion"));
2190 QFileInfo fileinfo(file); //Do not show the path
2191 item->setData(COLUMN_IMAGE_NAME,Qt::DisplayRole,fileinfo.fileName());
2192 item->setToolTip(COLUMN_IMAGE_NAME, mSlicerManagers[index]->GetListOfAbsoluteFilePathInOneString("fusion").c_str());
2193 qApp->processEvents();
2194 #if VTK_MAJOR_VERSION > 5
2195 for ( unsigned int i = 0; i < mSlicerManagers[index]->GetNumberOfSlicers(); i++)
2196 mSlicerManagers[index]->GetSlicer(i)->ForceUpdateDisplayExtent();
2198 for (int j = 1; j <= 4; j++) {
2199 item->setData(j,Qt::CheckStateRole,DataTree->topLevelItem(index)->data(j,Qt::CheckStateRole));
2202 //Create the buttons for reload and close
2203 qApp->processEvents();
2204 QTreePushButton* cButton = new QTreePushButton;
2205 cButton->setItem(item);
2206 cButton->setColumn(COLUMN_CLOSE_IMAGE);
2207 cButton->setToolTip(tr("close image"));
2208 cButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/exit.png")));
2209 connect(cButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2210 this,SLOT(CloseImage(QTreeWidgetItem*, int)));
2212 QTreePushButton* rButton = new QTreePushButton;
2213 rButton->setItem(item);
2214 rButton->setColumn(COLUMN_RELOAD_IMAGE);
2215 rButton->setToolTip(tr("reload image"));
2216 rButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/rotateright.png")));
2217 connect(rButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2218 this,SLOT(ReloadImage(QTreeWidgetItem*, int)));
2220 DataTree->topLevelItem(index)->setExpanded(1);
2221 DataTree->topLevelItem(index)->addChild(item);
2222 DataTree->setItemWidget(item, COLUMN_CLOSE_IMAGE, cButton);
2223 DataTree->setItemWidget(item, COLUMN_RELOAD_IMAGE, rButton);
2225 //set the id of the image
2226 QString id = DataTree->topLevelItem(index)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString();
2227 item->setData(COLUMN_IMAGE_NAME,Qt::UserRole,id.toStdString().c_str());
2229 qApp->processEvents();
2231 QApplication::restoreOverrideCursor();
2233 // Update the display to update, e.g., the sliders
2234 for(int i=0; i<4; i++)
2235 DisplaySliders(index, i);
2237 QApplication::restoreOverrideCursor();
2238 QString error = "Cannot import the new image.\n";
2239 error += mSlicerManagers[index]->GetLastError().c_str();
2240 QMessageBox::information(this,tr("Problem reading image !"),error);
2242 WindowLevelChanged();
2245 QMessageBox::information(this,tr("Problem reading Fusion !"),"File doesn't exist!");
2247 //------------------------------------------------------------------------------
2248 //------------------------------------------------------------------------------
2249 void vvMainWindow::AddLandmarks(int index, std::vector<std::string> files)
2251 if (!landmarksPanel->LoadFromFile(files))
2252 QMessageBox::information(this,tr("Problem reading Landmarks !"),"File doesn't exist!");
2254 landmarksPanel->SetCurrentPath(mInputPathName.toStdString());
2255 landmarksPanel->SetCurrentImage(mSlicerManagers[index]->GetFileName().c_str());
2258 //------------------------------------------------------------------------------
2259 void vvMainWindow::OpenField()
2261 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2262 //check if a vector field has already been added
2263 for (int child = 0; child < DataTree->topLevelItem(index)->childCount(); child++)
2264 if (DataTree->topLevelItem(index)->child(child)->data(1,Qt::UserRole).toString() == "vector") {
2265 QString error = "Cannot add more than one vector field\n";
2266 error += "Please remove first ";
2267 error += DataTree->topLevelItem(index)->child(child)->data(COLUMN_IMAGE_NAME,Qt::DisplayRole).toString();
2268 QMessageBox::information(this,tr("Problem adding vector field!"),error);
2272 QString Extensions = "Images ( *.mhd *.mha *.vf *.nii *.nrrd *.nhdr)";
2273 // Extensions += ";;Images ( *.mha)";
2274 // Extensions += ";;VF Images ( *.vf)";
2275 // Extensions += ";;nii Images ( *.nii)";
2276 // Extensions += ";;nrrd Images ( *.nrrd)";
2277 // Extensions += ";;nhdr Images ( *.nhdr)";
2278 Extensions += ";;All Files (*)";
2279 QString file = QFileDialog::getOpenFileName(this,tr("Load deformation field"),mInputPathName,Extensions);
2280 if (!file.isEmpty())
2281 AddField(file,index);
2283 //------------------------------------------------------------------------------
2286 //------------------------------------------------------------------------------
2287 void vvMainWindow::AddFieldEntry(QString filename,int index,bool from_disk)
2289 //create an item in the tree with good settings
2290 QTreeWidgetItem *item = new QTreeWidgetItem();
2291 item->setData(0,Qt::UserRole,filename.toStdString().c_str());
2292 item->setData(1,Qt::UserRole,tr("vector"));
2293 QFileInfo fileinfo(filename); //Do not show the path
2294 item->setData(COLUMN_IMAGE_NAME,Qt::DisplayRole,fileinfo.fileName());
2295 item->setToolTip(COLUMN_IMAGE_NAME, mSlicerManagers[index]->GetListOfAbsoluteFilePathInOneString("vector").c_str());
2296 qApp->processEvents();
2298 for (int j = 1; j <= 4; j++) {
2299 item->setData(j,Qt::CheckStateRole,DataTree->topLevelItem(index)->data(j,Qt::CheckStateRole));
2302 //Create the buttons for reload and close
2303 qApp->processEvents();
2304 QTreePushButton* cButton = new QTreePushButton;
2305 cButton->setItem(item);
2306 cButton->setColumn(COLUMN_CLOSE_IMAGE);
2307 cButton->setToolTip(tr("close vector field"));
2308 cButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/exit.png")));
2309 connect(cButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2310 this,SLOT(CloseImage(QTreeWidgetItem*, int)));
2312 QTreePushButton* rButton = new QTreePushButton;
2313 rButton->setItem(item);
2314 rButton->setColumn(COLUMN_RELOAD_IMAGE);
2315 rButton->setToolTip(tr("reload vector field"));
2316 rButton->setEnabled(from_disk);
2317 rButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/rotateright.png")));
2318 connect(rButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2319 this,SLOT(ReloadImage(QTreeWidgetItem*, int)));
2321 DataTree->topLevelItem(index)->setExpanded(1);
2322 DataTree->topLevelItem(index)->addChild(item);
2323 DataTree->setItemWidget(item, COLUMN_RELOAD_IMAGE, rButton);
2324 DataTree->setItemWidget(item, COLUMN_CLOSE_IMAGE, cButton);
2326 //set the id of the image
2327 QString id = DataTree->topLevelItem(index)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString();
2328 item->setData(COLUMN_IMAGE_NAME,Qt::UserRole,id.toStdString().c_str());
2330 qApp->processEvents();
2332 QApplication::restoreOverrideCursor();
2334 //------------------------------------------------------------------------------
2337 //------------------------------------------------------------------------------
2338 void vvMainWindow::AddField(vvImage::Pointer vf,QString file,int index)
2340 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
2341 vvSlicerManager* imageManager = mSlicerManagers[index];
2342 if (imageManager->SetVF(vf,file.toStdString())) {
2343 AddFieldEntry(file,index,false);
2344 #if VTK_MAJOR_VERSION > 5
2345 for ( unsigned int i = 0; i < mSlicerManagers[index]->GetNumberOfSlicers(); i++)
2346 mSlicerManagers[index]->GetSlicer(i)->ForceUpdateDisplayExtent();
2349 QString error = "Cannot import the vector field for this image.\n";
2350 error += imageManager->GetLastError().c_str();
2351 QMessageBox::information(this,tr("Problem reading VF !"),error);
2353 QApplication::restoreOverrideCursor();
2355 //------------------------------------------------------------------------------
2358 //------------------------------------------------------------------------------
2359 void vvMainWindow::AddField(QString file,int index)
2361 if (QFile::exists(file)) {
2362 mInputPathName = itksys::SystemTools::GetFilenamePath(file.toStdString()).c_str();
2364 //init the progress events
2365 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
2366 vvProgressDialog progress("Opening " + file.toStdString());
2367 qApp->processEvents();
2369 //read the vector and put it in the current mSlicerManager
2370 vvSlicerManager* imageManager = mSlicerManagers[index];
2371 qApp->processEvents();
2373 std::string filename = itksys::SystemTools::GetFilenameWithoutExtension(file.toStdString()).c_str();
2374 if (imageManager->SetVF(file.toStdString())) {
2375 imageManager->Render();
2376 AddFieldEntry(file,index,true);
2378 QApplication::restoreOverrideCursor();
2379 QString error = "Cannot import the vector field for this image.\n";
2380 error += imageManager->GetLastError().c_str();
2381 QMessageBox::information(this,tr("Problem reading VF !"),error);
2384 QMessageBox::information(this,tr("Problem reading VF !"),"File doesn't exist!");
2387 //------------------------------------------------------------------------------
2390 //------------------------------------------------------------------------------
2391 void vvMainWindow::SetVFProperty(int subsampling, int scale, int log, int width, double r, double g, double b)
2393 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2394 if (mSlicerManagers[index]->GetSlicer(0)->GetVF()) {
2395 for (int i = 0; i < 4; i++) {
2396 mSlicerManagers[index]->GetSlicer(i)->SetVFSubSampling(subsampling);
2397 mSlicerManagers[index]->GetSlicer(i)->SetVFScale(scale);
2398 mSlicerManagers[index]->GetSlicer(i)->SetVFWidth(width);
2399 mSlicerManagers[index]->GetSlicer(i)->SetVFColor(r,g,b);
2401 mSlicerManagers[index]->GetSlicer(i)->SetVFLog(1);
2403 mSlicerManagers[index]->GetSlicer(i)->SetVFLog(0);
2407 //------------------------------------------------------------------------------
2410 //------------------------------------------------------------------------------
2411 void vvMainWindow::SetOverlayProperty(int color, int linked, double window, double level)
2413 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2414 if (mSlicerManagers[index]->GetSlicer(0)->GetOverlay()) {
2415 mSlicerManagers[index]->SetOverlayColor(color);
2416 mSlicerManagers[index]->SetColorMap(0);
2417 mSlicerManagers[index]->SetLinkOverlayWindowLevel(linked);
2418 mSlicerManagers[index]->SetOverlayColorWindow(window);
2419 mSlicerManagers[index]->SetOverlayColorLevel(level);
2420 mSlicerManagers[index]->Render();
2423 //------------------------------------------------------------------------------
2425 //------------------------------------------------------------------------------
2426 void vvMainWindow::SetFusionProperty(int opacity, int thresOpacity, int colormap,double window, double level, bool showLegend)
2428 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2429 if (mSlicerManagers[index]->GetSlicer(0)->GetFusion()) {
2430 mSlicerManagers[index]->SetFusionColorMap(colormap);
2431 mSlicerManagers[index]->SetFusionOpacity(opacity);
2432 mSlicerManagers[index]->SetFusionThresholdOpacity(thresOpacity);
2433 mSlicerManagers[index]->SetFusionWindow(window);
2434 mSlicerManagers[index]->SetFusionLevel(level);
2435 mSlicerManagers[index]->SetFusionShowLegend(showLegend);
2436 mSlicerManagers[index]->SetColorMap(0);
2437 mSlicerManagers[index]->Render();
2440 //------------------------------------------------------------------------------
2443 //------------------------------------------------------------------------------
2444 void vvMainWindow::SelectFusionSequence()
2446 //get the index of the slicer manager of the main sequence (CT)
2447 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2448 //check if one overlay image is already associated
2449 for (int child = 0; child < DataTree->topLevelItem(index)->childCount(); child++)
2450 if ( (DataTree->topLevelItem(index)->child(child)->data(1,Qt::UserRole).toString() == "fusion") ||
2451 (DataTree->topLevelItem(index)->child(child)->data(1,Qt::UserRole).toString() == "fusionSequence") ) {
2452 QString error = "Cannot add more than one compared image\n";
2453 error += "Please remove first ";
2454 error += DataTree->topLevelItem(index)->child(child)->data(COLUMN_IMAGE_NAME,Qt::DisplayRole).toString();
2455 QMessageBox::information(this,tr("Problem adding compared image !"),error);
2459 QString Extensions = EXTENSIONS;
2460 Extensions += ";;All Files (*)";
2461 QStringList files = QFileDialog::getOpenFileNames(this,tr("Load Overlay image sequence"),mInputPathName,Extensions);
2462 if (files.isEmpty())
2465 std::vector<std::string> vecFileNames;
2466 for (int i = 0; i < files.size(); i++) {
2467 vecFileNames.push_back(files[i].toStdString());
2470 //associate the secondary sequence (US) to the main one
2471 AddFusionSequence(index,vecFileNames,vvImageReader::MERGEDWITHTIME);
2473 //------------------------------------------------------------------------------
2476 //------------------------------------------------------------------------------
2477 void vvMainWindow::SelectFusionSequenceCorrespondances()
2479 //make sure the index is right?
2480 //in the end, I should attach the temporal data to the right sequence!
2481 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2482 //in case the other sequence got selected, make sure we select the primary sequence
2483 if ( (!mSlicerManagers[index]->GetSlicer(0)->GetFusion()) && mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()>=0 ) {
2484 index = mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager();
2487 //open a dialog box to find a file
2488 //QString Extensions = EXTENSIONS;
2489 QString Extensions = ";;All Files (*)";
2490 QString fileName = QFileDialog::getOpenFileName(this,tr("Load respiratory signal for fused sequence"),mInputPathName,Extensions);
2491 if (fileName.isNull())
2494 //read it as a vector of values
2495 vnl_vector<double> tmpVect;
2498 file.open(fileName.toStdString().c_str());
2499 tmpVect.read_ascii(file);
2502 //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
2503 bool signalOK = true;
2504 unsigned nbFrameMain = mSlicerManagers[index]->GetImage()->GetTransform().size();
2505 unsigned nbFrameSecondary = mSlicerManagers[index]->GetFusionSequenceNbFrames();
2506 std::cout<<"nbFrameMain = "<<nbFrameMain<<", nbFrameSecondary= "<<nbFrameSecondary<<", signal size: "<<tmpVect.size()<<std::endl;
2507 std::vector<unsigned> temporalCorrespondances;
2508 if ( tmpVect.size() == nbFrameMain + nbFrameSecondary ) {
2509 for (unsigned i=0 ; i<tmpVect.size() ; i++) {
2510 if (i<nbFrameMain) { //first part of the file: i -> index in secondary seq.
2511 if ( tmpVect(i)<nbFrameSecondary ) temporalCorrespondances.push_back(tmpVect(i));
2512 else { signalOK=false; break; } //pointing outside the secondary sequence...
2514 else { //first part of the file -> index in secondary seq.
2515 if ( tmpVect(i)<nbFrameMain ) temporalCorrespondances.push_back(tmpVect(i));
2516 else { signalOK=false; break; } //pointing outside the secondary sequence...
2520 else {signalOK=false;}
2521 if (!signalOK) {//else, send a message to signal the failure...
2522 QString error = "The provided temporal correspondances is invalid - check tooltip.\n";
2523 error += "Ignoring file: " + fileName;
2524 QMessageBox::information(this,tr("Problem adding temporal correspondances!"),error);
2528 //for convenience, associate this sequence to both the current slicer manager, and to the linked one
2529 mSlicerManagers[index]->SetFusionSequenceCorrespondances(temporalCorrespondances);
2530 mSlicerManagers[ mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager() ]->SetFusionSequenceCorrespondances(temporalCorrespondances);
2531 overlayPanel->enableFusionSequenceTemporalSync();
2535 //------------------------------------------------------------------------------
2538 //------------------------------------------------------------------------------
2539 //when this function is called index is the slicer manager index corresponding to the main sequence (CT)
2540 //the files behind fileNames points to the data for the secondary sequence
2541 void vvMainWindow::AddFusionSequence(int index, std::vector<std::string> fileNames, vvImageReader::LoadedImageType type)
2543 QString file(fileNames[0].c_str());
2544 if (QFile::exists(file))
2546 mInputPathName = itksys::SystemTools::GetFilenamePath(file.toStdString()).c_str();
2547 itk::ImageIOBase::Pointer reader = itk::ImageIOFactory::CreateImageIO(
2548 file.toStdString().c_str(), itk::ImageIOFactory::ReadMode);
2549 std::sort (fileNames.begin(), fileNames.end());//make sure the files are sorted.
2550 reader->SetFileName(fileNames[0].c_str());
2551 reader->ReadImageInformation();
2552 std::string component = reader->GetComponentTypeAsString(reader->GetComponentType());
2553 int dimension = reader->GetNumberOfDimensions();
2554 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
2555 vvProgressDialog progress("Opening " + file.toStdString());
2556 qApp->processEvents();
2558 std::string filename = itksys::SystemTools::GetFilenameWithoutExtension(file.toStdString()).c_str();
2560 if (mSlicerManagers[index]->SetFusionSequence(fileNames,dimension, component,type)) {
2561 //create an item in the tree with good settings
2562 QTreeWidgetItem *item = new QTreeWidgetItem();
2563 item->setData(0,Qt::UserRole,file.toStdString().c_str());
2564 item->setData(1,Qt::UserRole,tr("fusionSequence"));
2566 QFileInfo fileinfo(file); //Do not show the path
2567 item->setData(COLUMN_IMAGE_NAME,Qt::DisplayRole,fileinfo.fileName());
2568 item->setToolTip(COLUMN_IMAGE_NAME, mSlicerManagers[index]->GetListOfAbsoluteFilePathInOneString("fusionSequence").c_str());
2569 qApp->processEvents();
2570 #if VTK_MAJOR_VERSION > 5
2571 for ( unsigned int i = 0; i < mSlicerManagers[index]->GetNumberOfSlicers(); i++)
2572 mSlicerManagers[index]->GetSlicer(i)->ForceUpdateDisplayExtent();
2574 for (int j = 1; j <= 4; j++) {
2575 item->setData(j,Qt::CheckStateRole,DataTree->topLevelItem(index)->data(j,Qt::CheckStateRole));
2578 //Create the buttons for reload and close
2579 qApp->processEvents();
2580 QTreePushButton* cButton = new QTreePushButton;
2581 cButton->setItem(item);
2582 cButton->setColumn(COLUMN_CLOSE_IMAGE);
2583 cButton->setToolTip(tr("close image"));
2584 cButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/exit.png")));
2585 connect(cButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2586 this,SLOT(CloseImage(QTreeWidgetItem*, int)));
2588 QTreePushButton* rButton = new QTreePushButton;
2589 rButton->setItem(item);
2590 rButton->setColumn(COLUMN_RELOAD_IMAGE);
2591 rButton->setToolTip(tr("reload image"));
2592 rButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/rotateright.png")));
2593 connect(rButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2594 this,SLOT(ReloadImage(QTreeWidgetItem*, int)));
2596 DataTree->topLevelItem(index)->setExpanded(1);
2597 DataTree->topLevelItem(index)->addChild(item);
2598 DataTree->setItemWidget(item, COLUMN_CLOSE_IMAGE, cButton);
2599 DataTree->setItemWidget(item, COLUMN_RELOAD_IMAGE, rButton);
2601 //store the original transform matrix
2602 int indexParent = GetSlicerIndexFromItem( DataTree->topLevelItem(index) );
2603 mSlicerManagers[indexParent]->SetFusionSequenceMainTransformMatrix( mSlicerManagers[indexParent]->GetSlicer(0)->GetImage()->GetTransform()[0]->GetMatrix() );
2605 //set the id of the image
2606 QString id = DataTree->topLevelItem(index)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString();
2607 item->setData(COLUMN_IMAGE_NAME,Qt::UserRole,id.toStdString().c_str());
2609 qApp->processEvents();
2611 //ImageInfoChanged();
2613 QApplication::restoreOverrideCursor();
2614 // Update the display to update, e.g., the sliders
2615 for(int i=0; i<4; i++)
2616 DisplaySliders(index, i);
2619 //This loads the secondary sequence (US) as an independent sequence
2620 LoadImages(fileNames, type);
2621 //reset the transforms to identity
2622 //FIX -- and set the thickness of the US slices to a large value (necessary for visualization purposes...)
2623 double sp_x, sp_y, sp_z;
2624 mSlicerManagers[indexParent]->GetImage()->GetVTKImages()[0]->GetSpacing(sp_x, sp_y, sp_z);
2625 sp_z = std::max(sp_x, std::max(sp_y, sp_z)) + 0.5; //
2626 for (unsigned i=0 ; i<mSlicerManagers.back()->GetImage()->GetTransform().size() ; i++) {
2627 sp_x = mSlicerManagers.back()->GetImage()->GetVTKImages()[i]->GetSpacing()[0];
2628 sp_y = mSlicerManagers.back()->GetImage()->GetVTKImages()[i]->GetSpacing()[1];
2629 mSlicerManagers.back()->GetImage()->GetVTKImages()[i]->SetSpacing( sp_x, sp_y, sp_z);
2630 mSlicerManagers.back()->GetImage()->GetTransform()[i]->Identity();
2631 mSlicerManagers.back()->GetImage()->GetTransform()[i]->Update();
2634 //automatically link both images...
2635 AddLink(mSlicerManagers[indexParent]->GetId().c_str(), mSlicerManagers.back()->GetId().c_str(), false);
2637 //tie the main and secondary sequences by raising flags and informing each another of their respective SlicerManager indices
2638 mSlicerManagers[indexParent]->SetFusionSequenceIndexOfLinkedManager(mSlicerManagers.size()-1);
2639 mSlicerManagers[indexParent]->SetFusionSequenceInvolvmentCode(0); //main sequence
2640 mSlicerManagers.back()->SetFusionSequenceIndexOfLinkedManager(indexParent);
2641 mSlicerManagers.back()->SetFusionSequenceInvolvmentCode(1); //secondary sequence
2642 for (unsigned i=0 ; i<4 ; i++) {
2643 mSlicerManagers.back()->GetSlicer(i)->SetFusionSequenceCode(1); //flag the slicers of the secondary sequence
2647 QApplication::restoreOverrideCursor();
2648 QString error = "Cannot import the new image.\n";
2649 error += mSlicerManagers[index]->GetLastError().c_str();
2650 QMessageBox::information(this,tr("Problem reading image !"),error);
2652 WindowLevelChanged();
2653 ImageInfoChanged(); //this internally calls WindowLevelChanged...
2656 QMessageBox::information(this,tr("Problem reading fusion sequence !"),"File doesn't exist!");
2661 //------------------------------------------------------------------------------
2664 //------------------------------------------------------------------------------
2665 //fusionSequenceFrameIndex and fusionSequenceNbFrames are relative to the secondary sequence (US)
2666 void vvMainWindow::SetFusionSequenceProperty(int fusionSequenceFrameIndex, bool spatialSyncFlag, unsigned int fusionSequenceNbFrames, bool temporalSyncFlag)
2668 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2670 if (!mSlicerManagers[index]->IsInvolvedInFusionSequence()) return;
2672 //check if the focus moved to the linked sequence, and in this case, select the master sequence instead
2673 if (!mSlicerManagers[index]->IsMainSequenceOfFusionSequence()) {
2674 index = mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager();
2676 int secondaryIndex = mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager();
2677 if (secondaryIndex==-1) return; //this should never happen
2678 if ( (!mSlicerManagers[index]->IsMainSequenceOfFusionSequence()) ||
2679 (!mSlicerManagers[secondaryIndex]->IsSecondarySequenceOfFusionSequence()) )
2680 {return;} //this should never happen, raise an exception?
2682 if (mSlicerManagers[index]->GetSlicer(0)->GetFusion()) {
2684 //First, if the spatialSync button is unchecked, then reposition the parent sequence (CT) in its original coordinate frame
2685 if ( (!spatialSyncFlag) && (mSlicerManagers[index]->GetFusionSequenceSpatialSyncFlag()) ) {
2686 for ( unsigned i=0 ; i<mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform().size() ; i++ ) {
2687 mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform()[i]->SetMatrix( mSlicerManagers[index]->GetFusionSequenceMainTransformMatrix() );
2688 mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform()[i]->Update();
2691 for (int i=0; i<mSlicerManagers[index]->GetNumberOfSlicers(); i++) {
2692 mSlicerManagers[index]->GetSlicer(i)->ForceUpdateDisplayExtent();
2693 mSlicerManagers[index]->GetSlicer(i)->Render();
2697 //then, update the property values in the slicer manager
2698 mSlicerManagers[index]->SetFusionSequenceLength(fusionSequenceNbFrames);
2699 mSlicerManagers[index]->SetFusionSequenceSpatialSyncFlag(spatialSyncFlag);
2700 mSlicerManagers[index]->SetFusionSequenceTemporalSyncFlag(temporalSyncFlag);
2701 mSlicerManagers[index]->SetFusionSequenceFrameIndex(fusionSequenceFrameIndex);
2703 //select the right frame of the US sequence
2704 mSlicerManagers[index]->SetFusionSequenceTSlice(fusionSequenceFrameIndex); //here, I should only update the overlayed sequence
2705 mSlicerManagers[secondaryIndex]->SetTSlice(fusionSequenceFrameIndex, false); //this should update the secondary sequence (individual version)
2707 //update the horizontal sliders of the main window
2708 overlayPanel->updateFusionSequenceSliderValueFromWindow(fusionSequenceFrameIndex, false);
2710 if (spatialSyncFlag) { //reslice the CT
2712 if (temporalSyncFlag) { //do the temporal synchronisation
2713 int mainSequenceFrameIndex=0;
2714 //estimate the TSlice to set to the CT
2715 unsigned nbFramesMain = mSlicerManagers[index]->GetImage()->GetTransform().size();
2716 mainSequenceFrameIndex = mSlicerManagers[index]->GetFusionSequenceCorrespondances()[ nbFramesMain + fusionSequenceFrameIndex];
2718 mSlicerManagers[index]->SetTSlice(mainSequenceFrameIndex, false);
2719 //warning, there is a loopback, and modification of the TSlice in main sequence forces an update of the TSlice in secondary, etc...
2723 //Set the transform matrix of the parent sequence (typically CT / 4DCT)
2724 vtkSmartPointer<vtkMatrix4x4> tmpMat = vtkSmartPointer<vtkMatrix4x4>::New();
2725 vtkMatrix4x4::Invert( mSlicerManagers[index]->GetFusionSequenceInitialTransformMatrixAtFrame(fusionSequenceFrameIndex), tmpMat );
2726 for ( unsigned i=0 ; i<mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform().size() ; i++ ) {
2727 mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform()[i]->SetMatrix( mSlicerManagers[index]->GetFusionSequenceMainTransformMatrix() );
2728 mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform()[i]->PreMultiply();
2729 mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform()[i]->Concatenate( tmpMat );
2730 mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform()[i]->Update();
2733 for (int i=0; i<mSlicerManagers[index]->GetNumberOfSlicers(); i++) {
2734 mSlicerManagers[index]->GetSlicer(i)->ForceUpdateDisplayExtent();
2735 mSlicerManagers[index]->GetSlicer(i)->Render();
2742 //------------------------------------------------------------------------------
2745 //------------------------------------------------------------------------------
2746 void vvMainWindow::SaveAs()
2748 if (DataTree->selectedItems()[0]->data(1,Qt::UserRole).toString() == "vector") {
2749 QMessageBox::warning(this,tr("Unsupported type"),tr("Sorry, saving a vector field is unsupported for the moment"));
2753 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2754 int dimension = mSlicerManagers[index]->GetDimension();
2755 QStringList OutputListeFormat;
2756 OutputListeFormat.clear();
2757 if (dimension == 1) {
2758 OutputListeFormat.push_back(".mhd");
2759 OutputListeFormat.push_back(".mha");
2761 if (dimension == 2) {
2762 OutputListeFormat.push_back(".bmp");
2763 OutputListeFormat.push_back(".png");
2764 OutputListeFormat.push_back(".jpeg");
2765 OutputListeFormat.push_back(".tif");
2766 OutputListeFormat.push_back(".mhd");
2767 OutputListeFormat.push_back(".mha");
2768 OutputListeFormat.push_back(".hdr");
2769 OutputListeFormat.push_back(".vox");
2770 } else if (dimension == 3) {
2771 OutputListeFormat.push_back(".mhd");
2772 OutputListeFormat.push_back(".mha");
2773 OutputListeFormat.push_back(".nii");
2774 OutputListeFormat.push_back(".nrrd");
2775 OutputListeFormat.push_back(".nhdr");
2776 OutputListeFormat.push_back(".hdr");
2777 OutputListeFormat.push_back(".vox");
2778 } else if (dimension == 4) {
2779 OutputListeFormat.push_back(".mhd");
2780 OutputListeFormat.push_back(".mha");
2781 OutputListeFormat.push_back(".nii");
2782 OutputListeFormat.push_back(".nrrd");
2783 OutputListeFormat.push_back(".nhdr");
2785 QString Extensions = "AllFiles(*.*)";
2786 for (int i = 0; i < OutputListeFormat.count(); i++) {
2787 Extensions += ";;Images ( *";
2788 Extensions += OutputListeFormat[i];
2791 QString fileName = QFileDialog::getSaveFileName(this,
2793 mSlicerManagers[index]->GetFileName().c_str(),
2795 if (!fileName.isEmpty()) {
2796 std::string fileformat = itksys::SystemTools::GetFilenameLastExtension(fileName.toStdString());
2797 if (OutputListeFormat.contains(
2798 fileformat.c_str())) {
2799 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
2800 std::string action = "Saving";
2801 vvProgressDialog progress("Saving "+fileName.toStdString());
2802 qApp->processEvents();
2803 vvImageWriter::Pointer writer = vvImageWriter::New();
2804 writer->SetOutputFileName(fileName.toStdString());
2805 writer->SetInput(mSlicerManagers[index]->GetImage());
2807 // Check on transform and prompt user
2808 writer->SetSaveTransform(false);
2810 for(int i=0; i<4; i++)
2811 for(int j=0; j<4; j++) {
2812 // TODO SR and BP: check on the list of transforms and not the first only
2813 double elt = mSlicerManagers[index]->GetImage()->GetTransform()[0]->GetMatrix()->GetElement(i,j);
2820 QString warning = "The image has an associated linear transform. Do you want to save it along?";
2821 QMessageBox msgBox(QMessageBox::Warning, tr("Save transform"), warning, 0, this);
2822 msgBox.addButton(tr("Yes"), QMessageBox::AcceptRole);
2823 msgBox.addButton(tr("No"), QMessageBox::RejectRole);
2824 if (msgBox.exec() == QMessageBox::AcceptRole)
2825 writer->SetSaveTransform(true);
2829 QApplication::restoreOverrideCursor();
2830 if (writer->GetLastError().size()) {
2831 QString error = "Saving did not succeed\n";
2832 error += writer->GetLastError().c_str();
2833 QMessageBox::information(this,tr("Saving Problem"),error);
2837 QString error = fileformat.c_str();
2838 if (error.isEmpty())
2839 error += "no file format specified !";
2841 error += " format unknown !!!\n";
2842 QMessageBox::information(this,tr("Saving Problem"),error);
2847 //------------------------------------------------------------------------------
2849 //------------------------------------------------------------------------------
2850 void vvMainWindow::SaveCurrentState()
2852 QString Extensions = "XML Files(*.xml)";
2853 QString fileName = QFileDialog::getSaveFileName(this,
2854 tr("Save Current Window State"),
2858 SaveCurrentStateAs(fileName.toStdString());
2860 //------------------------------------------------------------------------------
2862 //------------------------------------------------------------------------------
2863 void vvMainWindow::SaveCurrentStateAs(const std::string& stateFile)
2865 vvSaveState save_state;
2866 save_state.Run(this, stateFile);
2869 //------------------------------------------------------------------------------
2870 void vvMainWindow::ReadSavedState()
2872 QString Extensions = "XML Files(*.xml)";
2873 QString fileName = QFileDialog::getOpenFileName(this,
2874 tr("Load Window State"),
2878 ReadSavedStateFile(fileName.toStdString());
2880 //------------------------------------------------------------------------------
2882 //------------------------------------------------------------------------------
2883 void vvMainWindow::ReadSavedStateFile(const std::string& stateFile)
2885 vvReadState read_state;
2886 read_state.Run(this, stateFile);
2888 //------------------------------------------------------------------------------
2890 //------------------------------------------------------------------------------
2891 void vvMainWindow::LinkAllImages()
2893 linkPanel->linkAll();
2896 //------------------------------------------------------------------------------
2897 void vvMainWindow::AddLink(QString image1,QString image2,bool fromPanel)
2900 // delegate to linkPanel if call came from elsewhere...
2901 linkPanel->addLinkFromIds(image1, image2);
2905 unsigned int sm1 = 0;
2906 unsigned int sm2 = 0;
2908 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
2909 if (image1.toStdString() == mSlicerManagers[i]->GetId()) {
2910 mSlicerManagers[i]->AddLink(image2.toStdString());
2913 if (image2.toStdString() == mSlicerManagers[i]->GetId()) {
2914 mSlicerManagers[i]->AddLink(image1.toStdString());
2919 if (linkPanel->isLinkAll()) {
2920 emit UpdateLinkedNavigation(mSlicerManagers[sm1]->GetId(), mSlicerManagers[mCurrentPickedImageIndex], mSlicerManagers[mCurrentPickedImageIndex]->GetSlicer(0));
2921 emit UpdateLinkedNavigation(mSlicerManagers[sm2]->GetId(), mSlicerManagers[mCurrentPickedImageIndex], mSlicerManagers[mCurrentPickedImageIndex]->GetSlicer(0));
2923 emit UpdateLinkedNavigation(mSlicerManagers[sm2]->GetId(), mSlicerManagers[sm1], mSlicerManagers[sm1]->GetSlicer(0));
2927 //------------------------------------------------------------------------------
2930 //------------------------------------------------------------------------------
2931 void vvMainWindow::RemoveLink(QString image1,QString image2)
2933 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
2934 if (image1.toStdString() == mSlicerManagers[i]->GetId()) {
2935 mSlicerManagers[i]->RemoveLink(image2.toStdString());
2937 if (image2.toStdString() == mSlicerManagers[i]->GetId()) {
2938 mSlicerManagers[i]->RemoveLink(image1.toStdString());
2942 //------------------------------------------------------------------------------
2944 //------------------------------------------------------------------------------
2945 void vvMainWindow::ChangeImageWithIndexOffset(vvSlicerManager *sm, int slicer, int offset)
2947 if(mSlicerManagers.size()==1)
2951 while(sm != mSlicerManagers[index])
2953 index = (index+offset+mSlicerManagers.size()) % mSlicerManagers.size();
2955 QTreeWidgetItem* item = GetItemFromSlicerManager(mSlicerManagers[index]);
2956 item->setData(slicer+1,Qt::CheckStateRole,2); //change checkbox
2957 CurrentImageChanged(mSlicerManagers[index]->GetId()); //select new image
2958 DisplayChanged(item,slicer+1);
2960 //------------------------------------------------------------------------------
2961 void vvMainWindow::HorizontalSliderMoved(int value,int column, int slicer_index)
2963 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
2964 if (DataTree->topLevelItem(i)->data(column,Qt::CheckStateRole).toInt() > 1) {
2965 //i is the SlicerManager that is in charge of this slicer.
2966 if (mSlicerManagers[i]->IsInvolvedInFusionSequence()) {
2967 //if the slicerManager is involved in a fusionSequence as the secondary sequence, then update the slider position in the overlay panel and everything accordingly
2968 if (mSlicerManagers[i]->IsSecondarySequenceOfFusionSequence()) {
2969 overlayPanel->updateFusionSequenceSliderValueFromWindow(value, true);
2971 else { //if this is the primary sequence that has been modified
2972 if (mSlicerManagers[i]->GetFusionSequenceTemporalSyncFlag()) {
2973 //WARNING: for some obscure reason, there are problems when accessing mSlicerManagers[mSlicerManagers[i]->GetFusionSequenceIndexOfLinkedManager()]->GetFusionSequenceFrameIndex();
2975 int estimatedValue=0;
2976 //estimate a corresponding time index for the secondary (US) sequence, and update it accordingly.
2977 estimatedValue = mSlicerManagers[i]->GetFusionSequenceCorrespondances()[ value ];
2978 //TODO: at the moment, there is a loop in TSlice modifications
2979 //modifying sequence 1 causes seq 2 to update, which in turns update seq1...
2980 //I disable control on seq1 at the moment.
2981 //overlayPanel->updateFusionSequenceSliderValueFromWindow(estimatedValue, true);
2986 for (int j = 0; j < 4; j++) {
2987 mSlicerManagers[i]->SetTSliceInSlicer(value,j);
2989 mSlicerManagers[i]->GetSlicer(slicer_index)->Render();
2994 //------------------------------------------------------------------------------
2997 //------------------------------------------------------------------------------
2998 void vvMainWindow::NOHorizontalSliderMoved()
3000 // if (mCurrentTime == NOHorizontalSlider->value()) return;
3001 HorizontalSliderMoved(NOHorizontalSlider->value(),COLUMN_UL_VIEW,0);
3002 // mCurrentTime = NOHorizontalSlider->value();
3004 //------------------------------------------------------------------------------
3007 //------------------------------------------------------------------------------
3008 void vvMainWindow::NEHorizontalSliderMoved()
3010 // if (mCurrentTime == NEHorizontalSlider->value()) return;
3011 HorizontalSliderMoved(NEHorizontalSlider->value(),COLUMN_UR_VIEW,1);
3012 // mCurrentTime = NEHorizontalSlider->value();
3014 //------------------------------------------------------------------------------
3017 //------------------------------------------------------------------------------
3018 void vvMainWindow::SOHorizontalSliderMoved()
3020 // if (mCurrentTime == SOHorizontalSlider->value()) return;
3021 HorizontalSliderMoved(SOHorizontalSlider->value(),COLUMN_DL_VIEW,2);
3022 // mCurrentTime = SOHorizontalSlider->value();
3024 //------------------------------------------------------------------------------
3027 //------------------------------------------------------------------------------
3028 void vvMainWindow::SEHorizontalSliderMoved()
3030 // if (mCurrentTime == SEHorizontalSlider->value()) return;
3031 HorizontalSliderMoved(SEHorizontalSlider->value(),COLUMN_DR_VIEW,3);
3032 // mCurrentTime = SEHorizontalSlider->value();
3034 //------------------------------------------------------------------------------
3036 //------------------------------------------------------------------------------
3037 void vvMainWindow::NOVerticalSliderChanged()
3039 static int value=-1;
3040 if (value == NOVerticalSlider->value()) return;
3041 else value = NOVerticalSlider->value();
3042 // int value = NOVerticalSlider->value();
3043 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
3044 if (DataTree->topLevelItem(i)->data(COLUMN_UL_VIEW,Qt::CheckStateRole).toInt() > 1) {
3045 if (mSlicerManagers[i]->GetSlicer(0)->GetSlice() != value) {
3046 mSlicerManagers[i]->GetSlicer(0)->SetSlice(value);
3047 mSlicerManagers[i]->VerticalSliderHasChanged(0, value);
3049 // If nor Update/Render -> slider not work
3050 // only render = ok navigation, but for contour Update needed but slower ?
3052 mSlicerManagers[i]->UpdateSlice(0); // <-- DS add this. Not too much update ? YES. but needed for ImageContour ...
3053 //mSlicerManagers[i]->GetSlicer(0)->Render(); // <-- DS add this, needed for contour, seems ok ? not too slow ?
3059 //------------------------------------------------------------------------------
3062 //------------------------------------------------------------------------------
3063 void vvMainWindow::NEVerticalSliderChanged()
3065 static int value=-1;
3066 if (value == NEVerticalSlider->value()) return;
3067 else value = NEVerticalSlider->value();
3068 // int value = NEVerticalSlider->value();
3069 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
3070 if (DataTree->topLevelItem(i)->data(COLUMN_UR_VIEW,Qt::CheckStateRole).toInt() > 1) {
3071 if (mSlicerManagers[i]->GetSlicer(1)->GetSlice() != value) {
3072 mSlicerManagers[i]->GetSlicer(1)->SetSlice(value);
3073 mSlicerManagers[i]->VerticalSliderHasChanged(1, value);
3074 mSlicerManagers[i]->UpdateSlice(1);
3075 //mSlicerManagers[i]->GetSlicer(1)->Render(); // <-- DS add this, needed for contour, seems ok ? not too slow ?
3081 //------------------------------------------------------------------------------
3084 //------------------------------------------------------------------------------
3085 void vvMainWindow::SOVerticalSliderChanged()
3087 static int value=-1;
3088 if (value == SOVerticalSlider->value()) return;
3089 else value = SOVerticalSlider->value();
3090 //int value = SOVerticalSlider->value();
3091 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
3092 if (DataTree->topLevelItem(i)->data(COLUMN_DL_VIEW,Qt::CheckStateRole).toInt() > 1) {
3093 if (mSlicerManagers[i]->GetSlicer(2)->GetSlice() != value) {
3094 mSlicerManagers[i]->GetSlicer(2)->SetSlice(value);
3095 mSlicerManagers[i]->VerticalSliderHasChanged(2, value);
3096 mSlicerManagers[i]->UpdateSlice(2);
3097 //mSlicerManagers[i]->GetSlicer(2)->Render(); // <-- DS add this, needed for contour, seems ok ? not too slow ?
3099 // else { DD("avoid SOVerticalSlider slicer update"); }
3104 //------------------------------------------------------------------------------
3107 //------------------------------------------------------------------------------
3108 void vvMainWindow::SEVerticalSliderChanged()
3110 static int value=-1;
3111 if (value == SEVerticalSlider->value()) return;
3112 else value = SEVerticalSlider->value();
3113 // int value = SEVerticalSlider->value();
3114 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
3115 if (DataTree->topLevelItem(i)->data(COLUMN_DR_VIEW,Qt::CheckStateRole).toInt() > 1) {
3116 if (mSlicerManagers[i]->GetSlicer(3)->GetSlice() != value) {
3117 mSlicerManagers[i]->GetSlicer(3)->SetSlice(value);
3118 mSlicerManagers[i]->VerticalSliderHasChanged(3, value);
3119 mSlicerManagers[i]->UpdateSlice(3);
3120 //mSlicerManagers[i]->GetSlicer(3)->Render(); // <-- DS add this, needed for contour, seems ok ? not too slow ?
3126 //------------------------------------------------------------------------------
3129 //------------------------------------------------------------------------------
3130 void vvMainWindow::UpdateSlice(int slicer, int slice)
3132 // DD("vvMainWindow::UpdateSlice");
3136 // if (slice != NOVerticalSlider->value())
3137 NOVerticalSlider->setValue(slice);
3140 NEVerticalSlider->setValue(slice);
3143 SOVerticalSlider->setValue(slice);
3146 SEVerticalSlider->setValue(slice);
3150 // DD("vvMainWindow:UpdateSlice END");
3152 //------------------------------------------------------------------------------
3155 //------------------------------------------------------------------------------
3156 void vvMainWindow::UpdateTSlice(int slicer, int slice, int code)
3158 //FusionSequence: the slider value should be updated for slicers which show the same sequence as requested
3159 bool doUpdate=false;
3160 if (code==-1) doUpdate=true;
3162 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
3163 if (DataTree->topLevelItem(i)->data(slicer+1,Qt::CheckStateRole).toInt() > 1) {
3164 //i is the active SlicerManager
3165 if (mSlicerManagers[i]->GetFusionSequenceInvolvmentCode()==code) doUpdate=true;
3170 if (!doUpdate) return;
3174 if (NOHorizontalSlider->value()==slice) return;
3175 NOHorizontalSlider->setValue(slice);
3178 if (NEHorizontalSlider->value()==slice) return;
3179 NEHorizontalSlider->setValue(slice);
3182 if (SOHorizontalSlider->value()==slice) return;
3183 SOHorizontalSlider->setValue(slice);
3186 if (SEHorizontalSlider->value()==slice) return;
3187 SEHorizontalSlider->setValue(slice);
3191 //------------------------------------------------------------------------------
3194 //------------------------------------------------------------------------------
3195 void vvMainWindow::UpdateSliceRange(int slicer, int min, int max, int tmin, int tmax)
3197 //int position = int((min+max)/2);
3198 int position = mSlicerManagers[mCurrentPickedImageIndex]->GetSlicer(slicer)->GetSlice();
3200 NOVerticalSlider->setRange(min,max);
3201 NOHorizontalSlider->setRange(tmin,tmax);
3202 NOVerticalSlider->setValue(position);
3203 } else if (slicer == 1) {
3204 NEVerticalSlider->setRange(min,max);
3205 NEHorizontalSlider->setRange(tmin,tmax);
3206 NEVerticalSlider->setValue(position);
3207 } else if (slicer == 2) {
3208 SOVerticalSlider->setRange(min,max);
3209 SOHorizontalSlider->setRange(tmin,tmax);
3210 SOVerticalSlider->setValue(position);
3211 } else if (slicer == 3) {
3212 SEVerticalSlider->setRange(min,max);
3213 SEHorizontalSlider->setRange(tmin,tmax);
3214 SEVerticalSlider->setValue(position);
3217 //------------------------------------------------------------------------------
3220 //------------------------------------------------------------------------------
3221 void vvMainWindow::SaveNOScreenshot()
3223 SaveScreenshot(NOViewWidget);
3225 //------------------------------------------------------------------------------
3228 //------------------------------------------------------------------------------
3229 void vvMainWindow::SaveNEScreenshot()
3231 SaveScreenshot(NEViewWidget);
3233 //------------------------------------------------------------------------------
3236 //------------------------------------------------------------------------------
3237 void vvMainWindow::SaveSOScreenshot()
3239 SaveScreenshot(SOViewWidget);
3241 //------------------------------------------------------------------------------
3244 //------------------------------------------------------------------------------
3245 void vvMainWindow::SaveSEScreenshot()
3247 SaveScreenshot(SEViewWidget);
3249 //------------------------------------------------------------------------------
3252 //------------------------------------------------------------------------------
3253 void vvMainWindow::SaveScreenshotAllSlices()
3255 QVTKWidget *widget = NOViewWidget;
3257 int index = 0;// GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
3258 vvSlicerManager * SM = mSlicerManagers[index];
3259 vvImage * image = SM->GetImage();
3260 vvSlicer * slicer = SM->GetSlicer(0);
3261 int orientation = slicer->GetOrientation();
3262 int nbSlices = image->GetSize()[orientation];
3263 vtkSmartPointer<vtkRenderWindow> renderWindow = widget->GetRenderWindow();
3265 // Select filename base
3266 QString filename = QFileDialog::getSaveFileName(this,
3267 tr("Save As (filename will be completed by slice number)"),
3268 itksys::SystemTools::GetFilenamePath(mSlicerManagers[index]->GetFileName()).c_str(),
3269 "Images( *.png);;Images( *.jpg)");
3272 for(int i=0; i<nbSlices; i++) {
3274 slicer->SetSlice(i); // -> change the slice of the current slicer
3275 SM->UpdateSlice(0); // --> this one emit UpdateSlice
3276 QCoreApplication::flush(); // -> needed to force display of contours
3279 vtkSmartPointer<vtkWindowToImageFilter> windowToImageFilter = vtkSmartPointer<vtkWindowToImageFilter>::New();
3280 windowToImageFilter->SetInput(renderWindow);
3281 windowToImageFilter->SetMagnification(1);
3282 windowToImageFilter->SetInputBufferTypeToRGBA(); //also record the alpha (transparency) channel
3283 windowToImageFilter->Update();
3285 vtkSmartPointer<vtkPNGWriter> writer = vtkSmartPointer<vtkPNGWriter>::New();
3286 std::string fn = itksys::SystemTools::GetFilenameWithoutLastExtension(filename.toStdString());
3287 std::string num = clitk::toString(i);
3288 if (i<10) num = "0"+num;
3289 if (i<100) num = "0"+num;
3290 if (i<1000) num = "0"+num;
3292 fn = itksys::SystemTools::GetFilenamePath(filename.toStdString()) + "/"+ fn
3293 + "_" + num + itksys::SystemTools::GetFilenameLastExtension(filename.toStdString());
3294 writer->SetFileName(fn.c_str());
3295 #if VTK_MAJOR_VERSION <= 5
3296 writer->SetInput(windowToImageFilter->GetOutput());
3298 writer->SetInputConnection(windowToImageFilter->GetOutputPort());
3303 //------------------------------------------------------------------------------
3306 //------------------------------------------------------------------------------
3307 void vvMainWindow::SaveScreenshot(QVTKWidget *widget)
3309 QString Extensions = "Images( *.png);;";
3310 Extensions += "Images( *.jpg);;";
3311 Extensions += "Images( *.bmp);;";
3312 Extensions += "Images( *.tif);;";
3313 Extensions += "Images( *.ppm)";
3314 #if defined(VTK_USE_FFMPEG_ENCODER) || defined(VTK_USE_VIDEO_FOR_WINDOWS)
3315 Extensions += ";;Video( *.avi)";
3317 #ifdef VTK_USE_MPEG2_ENCODER
3318 Extensions += ";;Video( *.mpg)";
3320 #ifdef CLITK_EXPERIMENTAL
3321 Extensions += ";;Video( *.gif)";
3324 int smIndex=GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
3325 QString fileName = QFileDialog::getSaveFileName(this,
3327 itksys::SystemTools::GetFilenamePath(mSlicerManagers[smIndex]->GetFileName()).c_str(),
3330 if (!fileName.isEmpty()) {
3331 vtkSmartPointer<vtkWindowToImageFilter> w2i = vtkSmartPointer<vtkWindowToImageFilter>::New();
3332 w2i->SetInput(widget->GetRenderWindow());
3334 vtkImageData *image = w2i->GetOutput();
3336 std::string ext(itksys::SystemTools::GetFilenameLastExtension(fileName.toStdString()));
3339 vtkImageWriter *imgwriter = NULL;
3341 imgwriter = vtkBMPWriter::New();
3342 else if (ext==".tif")
3343 imgwriter = vtkTIFFWriter::New();
3344 else if (ext==".ppm")
3345 imgwriter = vtkPNMWriter::New();
3346 else if (ext==".png")
3347 imgwriter = vtkPNGWriter::New();
3348 else if (ext==".jpg")
3349 imgwriter = vtkJPEGWriter::New();
3351 // Snapshot image if not null
3352 if(imgwriter!=NULL) {
3353 #if VTK_MAJOR_VERSION <= 5
3354 imgwriter->SetInput(image);
3356 imgwriter->SetInputConnection(w2i->GetOutputPort());
3358 imgwriter->SetFileName(fileName.toStdString().c_str());
3364 vtkGenericMovieWriter *vidwriter = NULL;
3365 #if CLITK_EXPERIMENTAL == 1
3367 vvAnimatedGIFWriter *gif = vvAnimatedGIFWriter::New();
3372 int fps = QInputDialog::getInt(this, tr("Number of frames per second"),
3373 tr("FPS:"), 5, 0, 1000, 1, &ok);
3378 int loops = QInputDialog::getInt(this, tr("Loops"),
3379 tr("Number of loops (0 means infinite):"), 0, 0, 1000000000, 1, &ok);
3381 gif->SetLoops(loops);
3384 QString msg = "Would you like to activate dithering?";
3385 QMessageBox msgBox(QMessageBox::Question, tr("Dithering"),msg, 0, this);
3386 msgBox.addButton(tr("Yes"), QMessageBox::AcceptRole);
3387 msgBox.addButton(tr("No"), QMessageBox::RejectRole);
3388 gif->SetDither(msgBox.exec() == QMessageBox::AcceptRole);
3391 #ifdef VTK_USE_VIDEO_FOR_WINDOWS
3393 vtkAVIWriter *mpg = vtkAVIWriter::New();
3397 int fps = QInputDialog::getInteger(this, tr("Number of frames per second"),
3398 tr("FPS:"), 5, 0, 1024, 1, &ok);
3404 #ifdef VTK_USE_FFMPEG_ENCODER
3406 vtkFFMPEGWriter *mpg = vtkFFMPEGWriter::New();
3410 int fps = QInputDialog::getInteger(this, tr("Number of frames per second"),
3411 tr("FPS:"), 5, 0, 1024, 1, &ok);
3415 mpg->SetBitRateTolerance(int(ceil(12.0*1024*1024/fps)));
3418 #ifdef VTK_USE_MPEG2_ENCODER
3420 vtkMPEG2Writer *mpg = vtkMPEG2Writer::New();
3425 // Take video if not null
3426 if(vidwriter!=NULL){
3427 #if VTK_MAJOR_VERSION <= 5
3428 vidwriter->SetInput(image);
3430 vidwriter->SetInputConnection(w2i->GetOutputPort());
3432 vidwriter->SetFileName(fileName.toStdString().c_str());
3434 int nSlice = mSlicerManagers[smIndex]->GetSlicer(0)->GetTMax();
3435 for(int i=0; i<=nSlice; i++) {
3436 mSlicerManagers[smIndex]->SetNextTSlice(0);
3437 vtkSmartPointer<vtkWindowToImageFilter> w2i = vtkSmartPointer<vtkWindowToImageFilter>::New();
3438 w2i->SetInput(widget->GetRenderWindow());
3440 #if VTK_MAJOR_VERSION <= 5
3441 vidwriter->SetInput(w2i->GetOutput());
3443 vidwriter->SetInputConnection(w2i->GetOutputPort());
3448 vidwriter->Delete();
3452 QMessageBox::information(this,tr("Problem saving screenshot !"),tr("Cannot save image.\nPlease set a file extension !!!"));
3455 //------------------------------------------------------------------------------
3458 //------------------------------------------------------------------------------
3459 void vvMainWindow::GoToCursor()
3461 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
3462 for (int column = 1; column < 5; column++) {
3463 if (DataTree->selectedItems()[0]->data(column,Qt::CheckStateRole).toInt() > 1) {
3464 double* cursorPos = mSlicerManagers[index]->GetSlicer(column-1)->GetCursorPosition();
3465 mSlicerManagers[index]->GetSlicer(column-1)->SetCurrentPosition(
3466 cursorPos[0],cursorPos[1],cursorPos[2],cursorPos[3]);
3467 mSlicerManagers[index]->UpdateViews(1,column-1);
3468 mSlicerManagers[index]->UpdateLinked(column-1);
3473 //------------------------------------------------------------------------------
3475 //------------------------------------------------------------------------------
3476 void vvMainWindow::GoToLandmark()
3478 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
3479 for (int column = 1; column < 5; column++) {
3480 if (DataTree->selectedItems()[0]->data(column,Qt::CheckStateRole).toInt() > 1) {
3481 double* cursorPos = landmarksPanel->GetSelectedPoint();
3482 mSlicerManagers[index]->GetSlicer(column-1)->SetCurrentPosition(
3483 cursorPos[0],cursorPos[1],cursorPos[2],cursorPos[3]);
3484 mSlicerManagers[index]->UpdateViews(1,column-1);
3485 mSlicerManagers[index]->UpdateLinked(column-1);
3490 //------------------------------------------------------------------------------
3492 //------------------------------------------------------------------------------
3493 void vvMainWindow::PlayPause()
3497 playButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/player_play.png")));
3501 int image_number=DataTree->topLevelItemCount();
3503 for (int i=0; i<image_number; i++)
3504 if (mSlicerManagers[i]->GetSlicer(0)->GetTMax() > 0) {
3510 playButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/player_pause.png")));
3511 QTimer::singleShot(1000/mFrameRate, this, SLOT(PlayNext()));
3515 //------------------------------------------------------------------------------
3517 //------------------------------------------------------------------------------
3518 void vvMainWindow::PlayNext()
3520 if (playMode && !this->isHidden()) {
3521 int image_number=DataTree->topLevelItemCount();
3522 ///Only play one slicer per SM, and only if the SM is being displayed
3523 for (int i=0; i<image_number; i++)
3524 for (int j=0; j<4; j++)
3525 if (mSlicerManagers[i]->GetSlicer(0)->GetTMax() > 0 &&
3526 DataTree->topLevelItem(i)->data(j+1,Qt::CheckStateRole).toInt() > 0) {
3527 mSlicerManagers[i]->SetNextTSlice(j);
3530 QTimer::singleShot(1000/mFrameRate, this, SLOT(PlayNext()));
3533 //------------------------------------------------------------------------------
3535 void vvMainWindow::ShowLastImage()
3537 if (mSlicerManagers.size() > 1) {
3538 QTreeWidgetItem * item=DataTree->topLevelItem(DataTree->topLevelItemCount()-1);
3539 CurrentImageChanged(mSlicerManagers.back()->GetId()); //select new image
3540 item->setData(1,Qt::CheckStateRole,2); //show the new image in the first panel
3541 //mSlicerManagers[GetSlicerIndexFromItem(item)]->GetSlicer(0)->SetActorVisibility("image", 0, 1); //Set the Last Image visibles
3542 DisplayChanged(item,1);
3546 //------------------------------------------------------------------------------
3547 void vvMainWindow::UpdateRenderWindows()
3549 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
3550 for (unsigned int j = 0; j < 4; ++j) {
3551 mSlicerManagers[i]->GetSlicer(j)->RemoveLandmarks();
3552 mSlicerManagers[i]->GetSlicer(j)->DisplayLandmarks();
3555 if (NOViewWidget->GetRenderWindow()) NOViewWidget->GetRenderWindow()->Render();
3556 if (NEViewWidget->GetRenderWindow()) NEViewWidget->GetRenderWindow()->Render();
3557 if (SOViewWidget->GetRenderWindow()) SOViewWidget->GetRenderWindow()->Render();
3558 if (SEViewWidget->GetRenderWindow()) SEViewWidget->GetRenderWindow()->Render();
3560 //------------------------------------------------------------------------------
3562 //------------------------------------------------------------------------------
3563 void vvMainWindow::SegmentationOnCurrentImage()
3565 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
3567 vvSegmentationDialog segmentation;
3568 segmentation.SetImage(mSlicerManagers[index]->GetSlicer(0)->GetImage());
3569 segmentation.exec();
3571 //------------------------------------------------------------------------------
3573 void vvMainWindow::SurfaceViewerLaunch()
3575 vvSurfaceViewerDialog surfaceViewer;
3576 surfaceViewer.exec();
3578 //------------------------------------------------------------------------------
3581 //------------------------------------------------------------------------------
3582 int vvMainWindow::GetImageDuplicateFilenameNumber(std::string filename)
3585 for(unsigned int l=0; l<mSlicerManagers.size(); l++) {
3586 vvSlicerManager * v = mSlicerManagers[l];
3587 if (v->GetBaseFileName() ==
3588 vtksys::SystemTools::GetFilenameName(vtksys::SystemTools::GetFilenameWithoutLastExtension(filename))) {
3589 number = std::max(number, v->GetBaseFileNameNumber()+1);
3594 //------------------------------------------------------------------------------
3597 //------------------------------------------------------------------------------
3598 vvSlicerManager* vvMainWindow::AddImage(vvImage::Pointer image,std::string filename)
3600 // Change filename if another image exist with the same name
3601 int number = GetImageDuplicateFilenameNumber(filename);
3603 // Create new SliceManager
3604 vvSlicerManager* slicer_manager = new vvSlicerManager(4);
3605 slicer_manager->SetImage(image);//, IMAGE, number);
3606 // filename = filename+"_"+clitk::toString(number);
3607 slicer_manager->SetFilename(filename, number);
3608 mSlicerManagers.push_back(slicer_manager);
3610 //create an item in the tree with good settings
3611 QTreeWidgetItem *item = new QTreeWidgetItem();
3612 item->setData(0,Qt::UserRole,slicer_manager->GetFileName().c_str());//files[i].c_str());
3613 item->setData(1,Qt::UserRole,tr("image"));
3614 item->setData(COLUMN_IMAGE_NAME,Qt::DisplayRole,slicer_manager->GetFileName().c_str());//filename.c_str());
3615 qApp->processEvents();
3617 for (int j = 1; j <= 4; j++) item->setData(j,Qt::CheckStateRole,1);
3619 //Create the buttons for reload and close
3620 qApp->processEvents();
3621 QTreePushButton* cButton = new QTreePushButton;
3622 cButton->setItem(item);
3623 cButton->setColumn(COLUMN_CLOSE_IMAGE);
3624 cButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/exit.png")));
3625 connect(cButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
3626 this,SLOT(CloseImage(QTreeWidgetItem*, int)));
3628 QTreePushButton* rButton = new QTreePushButton;
3629 rButton->setItem(item);
3630 rButton->setColumn(COLUMN_RELOAD_IMAGE);
3631 rButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/rotateright.png")));
3632 rButton->setEnabled(0);
3633 connect(rButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
3634 this,SLOT(ReloadImage(QTreeWidgetItem*, int)));
3636 DataTree->addTopLevelItem(item);
3637 DataTree->setItemWidget(item, COLUMN_CLOSE_IMAGE, cButton);
3638 DataTree->setItemWidget(item, COLUMN_RELOAD_IMAGE, rButton);
3640 //set the id of the image
3641 QString id = QDir::current().absoluteFilePath(slicer_manager->GetFileName().c_str()) + QString::number(mSlicerManagers.size()-1);
3642 item->setData(COLUMN_IMAGE_NAME,Qt::UserRole,id.toStdString().c_str());
3643 mSlicerManagers.back()->SetId(id.toStdString());
3645 linkPanel->addImage(slicer_manager->GetFileName().c_str()// filename
3646 , id.toStdString());
3648 connect(mSlicerManagers.back(), SIGNAL(currentImageChanged(std::string)),
3649 this, SLOT(CurrentImageChanged(std::string)));
3650 connect(mSlicerManagers.back(), SIGNAL(currentPickedImageChanged(std::string)),
3651 this, SLOT(CurrentPickedImageChanged(std::string)));
3652 connect(mSlicerManagers.back(), SIGNAL(UpdatePosition(int, double, double, double, double, double, double, double)),
3653 this, SLOT(MousePositionChanged(int,double, double, double, double, double, double, double)));
3654 connect(mSlicerManagers.back(), SIGNAL(UpdateVector(int, double, double, double, double)),
3655 this, SLOT(VectorChanged(int,double,double,double, double)));
3656 connect(mSlicerManagers.back(), SIGNAL(UpdateOverlay(int, double, double)),
3657 this, SLOT(OverlayChanged(int,double,double)));
3658 connect(mSlicerManagers.back(), SIGNAL(UpdateFusion(int, double)),
3659 this, SLOT(FusionChanged(int,double)));
3660 //connect(mSlicerManagers.back(), SIGNAL(UpdateFusionSequence(int, bool, unsigned int)),
3661 // this, SLOT(FusionSequenceChanged(int, bool, unsigned int)));
3662 connect(mSlicerManagers.back(), SIGNAL(WindowLevelChanged()),
3663 this,SLOT(WindowLevelChanged()));
3664 connect(mSlicerManagers.back(), SIGNAL(UpdateSlice(int,int)),
3665 this,SLOT(UpdateSlice(int,int)));
3666 connect(mSlicerManagers.back(), SIGNAL(UpdateTSlice(int, int, int)),
3667 this,SLOT(UpdateTSlice(int, int, int)));
3668 connect(mSlicerManagers.back(), SIGNAL(UpdateTSlice(int, int, int)),
3669 this,SLOT(ImageInfoChanged()));
3670 connect(mSlicerManagers.back(), SIGNAL(UpdateSliceRange(int,int,int,int,int)),
3671 this,SLOT(UpdateSliceRange(int,int,int,int,int)));
3672 connect(mSlicerManagers.back(), SIGNAL(UpdateLinkManager(std::string,int,double,double,double,int)),
3673 this,SLOT(UpdateLinkManager(std::string,int,double,double,double,int)));
3674 connect(mSlicerManagers.back(), SIGNAL(UpdateLinkedNavigation(std::string,vvSlicerManager*,vvSlicer*)),
3675 this,SLOT(UpdateLinkedNavigation(std::string,vvSlicerManager*,vvSlicer*)));
3676 connect(mSlicerManagers.back(), SIGNAL(ChangeImageWithIndexOffset(vvSlicerManager*,int,int)),
3677 this,SLOT(ChangeImageWithIndexOffset(vvSlicerManager*,int,int)));
3678 connect(mSlicerManagers.back(), SIGNAL(LandmarkAdded()),landmarksPanel,SLOT(AddPoint()));
3684 qApp->processEvents();
3687 qApp->processEvents();
3690 return slicer_manager;
3692 //------------------------------------------------------------------------------
3695 //------------------------------------------------------------------------------
3696 void vvMainWindow::UpdateCurrentSlicer()
3699 if (DataTree->selectedItems().size() > 0) {
3700 index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
3702 mSlicerManagerCurrentIndex = index;
3704 //------------------------------------------------------------------------------