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"
56 #include <itkImageFileReader.h>
57 #include <itkByteSwapper.h>
58 #include <itkCommand.h>
59 #include <itkNumericSeriesFileNames.h>
62 #include <vtkImageMapper3D.h>
63 #include <vtkInformation.h>
64 #include <vtkVersion.h>
65 #include <vtkImageData.h>
66 #include <vtkImageActor.h>
67 #include <vtkCornerAnnotation.h>
68 #include <vtkRenderWindow.h>
69 #include <vtkRenderWindowInteractor.h>
70 #include <vtkRenderer.h>
71 #include <vtkRendererCollection.h>
72 #include <vtkWindowToImageFilter.h>
73 #include <vtkBMPWriter.h>
74 #include <vtkTIFFWriter.h>
75 #include <vtkPNMWriter.h>
76 #include <vtkPNGWriter.h>
77 #include <vtkJPEGWriter.h>
78 #include <vtkGenericMovieWriter.h>
79 #ifdef CLITK_EXPERIMENTAL
80 # include <vvAnimatedGIFWriter.h>
82 #ifdef VTK_USE_VIDEO_FOR_WINDOWS
83 # include <vtkAVIWriter.h>
85 #ifdef VTK_USE_FFMPEG_ENCODER
86 # include <vtkFFMPEGWriter.h>
88 #ifdef VTK_USE_MPEG2_ENCODER
89 # include <vtkMPEG2Writer.h>
91 #include <vtkMatrix4x4.h>
92 #include <vtkTransform.h>
100 #define COLUMN_TREE 0
101 #define COLUMN_UL_VIEW 1
102 #define COLUMN_UR_VIEW 2
103 #define COLUMN_DL_VIEW 3
104 #define COLUMN_DR_VIEW 4
105 #define COLUMN_CLOSE_IMAGE 5
106 #define COLUMN_RELOAD_IMAGE 6
107 #define COLUMN_IMAGE_NAME 7
109 #ifdef CLITK_PRIVATE_FEATURES
110 #define EXTENSIONS "Images ( *.bmp *.dcm *.png *.jpeg *.jpg *.tif *.mhd *.mha *.hdr *.vox *.his *.xdr *.SCAN *.nii *.nrrd *.nhdr *.refscan *.nii.gz *.usf *.svl)"
112 #define EXTENSIONS "Images ( *.bmp *.dcm *.png *.jpeg *.jpg *.tif *.mhd *.mha *.hdr *.vox *.his *.xdr *.SCAN *.nii *.nrrd *.nhdr *.refscan *.nii.gz)"
117 0,Qt::UserRole full filename
118 1,Qt::CheckStateRole checkbutton UL View
119 1,Qt::UserRole overlay, fusion or vector
120 2,Qt::CheckStateRole checkbutton UR View
121 3,Qt::CheckStateRole checkbutton DL View
122 4,Qt::CheckStateRole checkbutton DR View
124 5,Qt::UserRole mSlicerManager id*/
126 //------------------------------------------------------------------------------
127 vvMainWindow::vvMainWindow():vvMainWindowBase()
129 setupUi(this); // this sets up the GUI
131 //Qt::WindowFlags flags = windowFlags();
132 //setWindowFlags(flags | Qt::WindowStaysOnTopHint);
135 mMenuTools = menuTools;
136 // mMenuSegmentation = menuSegmentation;
137 mContextMenu = &contextMenu;
138 mMenuExperimentalTools = menuExperimental;
141 mCurrentSelectedImageId = "";
142 mCurrentPickedImageId = "";
143 mCurrentPickedImageIndex = 0;
145 //Init the contextMenu
146 this->setContextMenuPolicy(Qt::CustomContextMenu);
147 contextActions.resize(0);
148 QAction* actionOpen_new_image = contextMenu.addAction(QIcon(QString::fromUtf8(":/common/icons/fileopen.png")),
149 tr("O&pen new Image"));
150 actionOpen_new_image->setShortcut(QKeySequence(tr("Ctrl+O")));
151 connect(actionOpen_new_image,SIGNAL(triggered()),this,SLOT(OpenImages()));
152 contextActions.push_back(actionOpen_new_image);
153 contextMenu.addSeparator();
155 QAction* actionClose_Image = contextMenu.addAction(QIcon(QString::fromUtf8(":/common/icons/exit.png")),
156 tr("Close Current Image"));
157 connect(actionClose_Image,SIGNAL(triggered()),this,SLOT(CloseImage()));
158 contextActions.push_back(actionClose_Image);
160 QAction* actionReload_image = contextMenu.addAction(QIcon(QString::fromUtf8(":/common/icons/rotateright.png")),
161 tr("Reload Current Image"));
162 connect(actionReload_image,SIGNAL(triggered()),this,SLOT(ReloadImage()));
163 contextActions.push_back(actionReload_image);
165 QAction* actionSave_image = contextMenu.addAction(QIcon(QString::fromUtf8(":/common/icons/filesave.png")),
166 tr("Save Current Image"));
167 connect(actionSave_image,SIGNAL(triggered()),this,SLOT(SaveAs()));
168 contextActions.push_back(actionSave_image);
170 QAction* actionSave_state = contextMenu.addAction(QIcon(QString::fromUtf8(":/common/icons/filesave.png")),
171 tr("Save Current State"));
172 connect(actionSave_state,SIGNAL(triggered()),this,SLOT(SaveCurrentState()));
173 contextActions.push_back(actionSave_state);
175 QAction* actionRead_state = contextMenu.addAction(QIcon(QString::fromUtf8(":/common/icons/filesave.png")),
176 tr("Read Saved State"));
177 connect(actionRead_state,SIGNAL(triggered()),this,SLOT(ReadSavedState()));
178 contextActions.push_back(actionRead_state);
180 contextMenu.addSeparator();
182 contextMenu.addAction(actionAdd_VF_to_current_Image);
183 contextActions.push_back(actionAdd_VF_to_current_Image);
185 //QAction* actionAdd_Overlay_to_current_Image = menuOverlay->addAction(QIcon(QString::fromUtf8(":/common/icons/GPSup.png")),
186 // tr("Add overlay image to current image"));
187 contextMenu.addAction(actionAdd_overlay_image_to_current_image);
188 contextActions.push_back(actionAdd_overlay_image_to_current_image);
190 contextMenu.addAction(actionAdd_fusion_image);
191 contextActions.push_back(actionAdd_fusion_image);
193 #ifdef CLITK_EXPERIMENTAL
194 contextMenu.addAction(actionAdd_USSequence_toCT);
195 contextActions.push_back(actionAdd_USSequence_toCT);
199 contextMenu.addSeparator();
200 QAction* actionResetMatrix = contextMenu.addAction(QIcon(QString::fromUtf8(":/common/icons/identity.png")),
201 tr("Reset transformation to identity"));
202 connect(actionResetMatrix, SIGNAL(triggered()), this,SLOT(ResetTransformationToIdentity()));
206 QMenu * m = new QMenu(menubar);
208 // m->setObjectName(QString::fromUtf8("TOTOTO"));
209 contextMenu.addMenu(m);
210 QAction * a = m->addAction(QIcon(QString::fromUtf8(":/common/icons/GPSup.png")),
212 QAction * b = m->addAction(QIcon(QString::fromUtf8(":/common/icons/GPSup.png")),
216 connect(a,SIGNAL(triggered()),this,SLOT(AddFusionImage()));
220 mSlicerManagers.resize(0);
230 header.append("Name");
232 DataTree->setHeaderLabels(header);
233 DataTree->resizeColumnToContents(COLUMN_TREE);
234 DataTree->resizeColumnToContents(COLUMN_UL_VIEW);
235 DataTree->resizeColumnToContents(COLUMN_UR_VIEW);
236 DataTree->resizeColumnToContents(COLUMN_DL_VIEW);
237 DataTree->resizeColumnToContents(COLUMN_DR_VIEW);
238 DataTree->resizeColumnToContents(COLUMN_CLOSE_IMAGE);
239 DataTree->resizeColumnToContents(COLUMN_RELOAD_IMAGE);
240 DataTree->resizeColumnToContents(COLUMN_IMAGE_NAME);
243 documentation = new vvDocumentation();
244 help_dialog = new vvHelpDialog();
245 dicomSeriesSelector = new vvDicomSeriesSelector();
247 inverseButton->setEnabled(0);
248 actionAdd_overlay_image_to_current_image->setEnabled(0);
249 actionSave_As->setEnabled(0);
250 actionAdd_VF_to_current_Image->setEnabled(0);
251 actionAdd_fusion_image->setEnabled(0);
252 actionAdd_USSequence_toCT->setEnabled(0);
255 verticalSliders.push_back(NOVerticalSlider);
256 verticalSliders.push_back(NEVerticalSlider);
257 verticalSliders.push_back(SOVerticalSlider);
258 verticalSliders.push_back(SEVerticalSlider);
260 for (int i =0; i < 4; i++)
261 verticalSliders[i]->hide();
263 horizontalSliders.push_back(NOHorizontalSlider);
264 horizontalSliders.push_back(NEHorizontalSlider);
265 horizontalSliders.push_back(SOHorizontalSlider);
266 horizontalSliders.push_back(SEHorizontalSlider);
268 for (int i =0; i < 4; i++)
269 horizontalSliders[i]->hide();
272 connect(NOVerticalSlider,SIGNAL(valueChanged(int)),this,SLOT(NOVerticalSliderChanged()));
273 connect(NEVerticalSlider,SIGNAL(valueChanged(int)),this,SLOT(NEVerticalSliderChanged()));
274 connect(SOVerticalSlider,SIGNAL(valueChanged(int)),this,SLOT(SOVerticalSliderChanged()));
275 connect(SEVerticalSlider,SIGNAL(valueChanged(int)),this,SLOT(SEVerticalSliderChanged()));
277 connect(NOHorizontalSlider,SIGNAL(valueChanged(int)),this,SLOT(NOHorizontalSliderMoved()));
278 connect(NEHorizontalSlider,SIGNAL(valueChanged(int)),this,SLOT(NEHorizontalSliderMoved()));
279 connect(SOHorizontalSlider,SIGNAL(valueChanged(int)),this,SLOT(SOHorizontalSliderMoved()));
280 connect(SEHorizontalSlider,SIGNAL(valueChanged(int)),this,SLOT(SEHorizontalSliderMoved()));
283 connect(actionCompute_mid_position_image,SIGNAL(triggered()),this,SLOT(ComputeMidPosition()));
284 connect(actionDeformable_Registration,SIGNAL(triggered()),this,SLOT(ComputeDeformableRegistration()));
285 connect(actionWarp_image_with_vector_field,SIGNAL(triggered()),this,SLOT(WarpImage()));
286 connect(actionLoad_images,SIGNAL(triggered()),this,SLOT(OpenImages()));
287 connect(actionOpen_Dicom,SIGNAL(triggered()),this,SLOT(OpenDicom()));
288 // connect(actionOpen_Dicom_Struct,SIGNAL(triggered()),this,SLOT(OpenDCStructContour()));
289 connect(actionOpen_VTK_contour,SIGNAL(triggered()),this,SLOT(OpenVTKContour()));
290 connect(actionOpen_Multiple_Images_As_One,SIGNAL(triggered()),this,SLOT(MergeImages()));
291 connect(actionSlice_Image_As_Multiple_Images,SIGNAL(triggered()),this,SLOT(SliceImages()));
292 connect(actionOpen_Image_With_Time,SIGNAL(triggered()),this,SLOT(OpenImageWithTime()));
293 connect(actionMerge_images_as_n_dim_t, SIGNAL(triggered()), this, SLOT(MergeImagesWithTime()));
294 connect(actionSave_As,SIGNAL(triggered()),this,SLOT(SaveAs()));
295 connect(actionSave_current_state,SIGNAL(triggered()),this,SLOT(SaveCurrentState()));
296 connect(actionRead_saved_state,SIGNAL(triggered()),this,SLOT(ReadSavedState()));
297 connect(actionExit,SIGNAL(triggered()),this,SLOT(close()));
298 connect(actionAdd_VF_to_current_Image,SIGNAL(triggered()),this,SLOT(OpenField()));
299 connect(actionAdd_fusion_image,SIGNAL(triggered()),this,SLOT(SelectFusionImage()));
300 connect(actionAdd_overlay_image_to_current_image,SIGNAL(triggered()), this,SLOT(SelectOverlayImage()));
301 connect(actionAdd_USSequence_toCT,SIGNAL(triggered()), this,SLOT(SelectFusionSequence()));
302 connect(actionNavigation_Help,SIGNAL(triggered()),this,SLOT(ShowHelpDialog()));
304 QShortcut *shortcutHelp = new QShortcut(QKeySequence(QKeySequence::HelpContents),this);
305 shortcutHelp->setContext(Qt::ApplicationShortcut);
306 QObject::connect(shortcutHelp, SIGNAL(activated()), this, SLOT(ShowHelpDialog()));
308 connect(actionDocumentation,SIGNAL(triggered()),this,SLOT(ShowDocumentation()));
309 connect(actionRegister_vv,SIGNAL(triggered()),this,SLOT(PopupRegisterForm()));
311 connect(overlayPanel, SIGNAL(FusionSequenceCorrespondancesButtonPressed()), this, SLOT(SelectFusionSequenceCorrespondances()));
314 ///////////////////////////////////////////////
315 connect(actionSegmentation,SIGNAL(triggered()),this,SLOT(SegmentationOnCurrentImage()));
316 connect(actionSurface_Viewer,SIGNAL(triggered()),this,SLOT(SurfaceViewerLaunch()));
317 ///////////////////////////////////////////////
319 actionNorth_East_Window->setEnabled(0);
320 actionNorth_West_Window->setEnabled(0);
321 actionSouth_East_Window->setEnabled(0);
322 actionSouth_West_Window->setEnabled(0);
324 connect(actionNorth_East_Window,SIGNAL(triggered()),this,SLOT(SaveNEScreenshot()));
325 connect(actionNorth_West_Window,SIGNAL(triggered()),this,SLOT(SaveNOScreenshot()));
326 connect(actionSouth_East_Window,SIGNAL(triggered()),this,SLOT(SaveSEScreenshot()));
327 connect(actionSouth_West_Window,SIGNAL(triggered()),this,SLOT(SaveSOScreenshot()));
328 connect(actionSave_all_slices,SIGNAL(triggered()),this,SLOT(SaveScreenshotAllSlices()));
330 connect(DataTree,SIGNAL(itemSelectionChanged()),this,SLOT(ImageInfoChanged()));
331 connect(DataTree,SIGNAL(itemClicked(QTreeWidgetItem*, int)),this,
332 SLOT(DisplayChanged(QTreeWidgetItem*, int)));
334 connect(viewButton,SIGNAL(clicked()),this, SLOT(ChangeViewMode()) );
335 connect(windowSpinBox,SIGNAL(editingFinished()),this,SLOT(WindowLevelEdited()));
336 connect(levelSpinBox,SIGNAL(editingFinished()),this,SLOT(WindowLevelEdited()));
337 connect(colorMapComboBox,SIGNAL(currentIndexChanged(int)),this,SLOT(UpdateColorMap()));
338 connect(presetComboBox,SIGNAL(currentIndexChanged(int)),this,SLOT(UpdateWindowLevel()));
339 connect(slicingPresetComboBox, SIGNAL(currentIndexChanged(int)),this,SLOT(UpdateSlicingPreset()));
340 connect(inverseButton,SIGNAL(clicked()),this,SLOT(SwitchWindowLevel()));
341 connect(applyWindowLevelToAllButton,SIGNAL(clicked()),this,SLOT(ApplyWindowLevelToAllImages()));
343 connect(this,SIGNAL(customContextMenuRequested(QPoint)),this,SLOT(ShowContextMenu(QPoint)));
345 connect(linkPanel,SIGNAL(addLink(QString,QString,bool)),this,SLOT(AddLink(QString,QString,bool)));
346 connect(linkPanel,SIGNAL(removeLink(QString,QString)),this,SLOT(RemoveLink(QString,QString)));
347 connect(overlayPanel,SIGNAL(VFPropertyUpdated(int,int,int,int,double,double,double)),this,SLOT(SetVFProperty(int,int,int,int,double,double,double)));
348 connect(overlayPanel,SIGNAL(OverlayPropertyUpdated(int,int,double,double)),
349 this,SLOT(SetOverlayProperty(int,int,double,double)));
350 connect(overlayPanel,SIGNAL(FusionPropertyUpdated(int,int,int,double,double, bool)),
351 this,SLOT(SetFusionProperty(int,int,int,double,double, bool)));
352 connect(landmarksPanel,SIGNAL(UpdateRenderWindows()),this,SLOT(UpdateRenderWindows()));
353 connect(landmarksPanel,SIGNAL(SelectedPointChanged()),this,SLOT(GoToLandmark()));
355 connect(overlayPanel,SIGNAL(FusionSequencePropertyUpdated(int, bool, unsigned int, bool)),
356 this,SLOT(SetFusionSequenceProperty(int, bool,unsigned int, bool)));
361 playButton->setEnabled(0);
362 frameRateLabel->setEnabled(0);
363 frameRateSpinBox->setEnabled(0);
364 connect(playButton, SIGNAL(clicked()),this,SLOT(PlayPause()));
365 connect(frameRateSpinBox, SIGNAL(valueChanged(int)),this,SLOT(ChangeFrameRate(int)));
367 goToCursorPushButton->setEnabled(0);
368 connect(goToCursorPushButton, SIGNAL(clicked()),this,SLOT(GoToCursor()));
370 NOViewWidget->hide();
371 NEViewWidget->hide();
372 SOViewWidget->hide();
373 SEViewWidget->hide();
375 //Recently opened files
376 std::list<std::string> recent_files = GetRecentlyOpenedImages();
377 recentlyOpenedFilesMenu=NULL;
378 if ( !recent_files.empty() ) {
379 createRecentlyOpenedFilesMenu();
380 updateRecentlyOpenedFilesMenu(recent_files);
383 // Adding all new tools (insertion in the menu)
384 vvToolManager::GetInstance()->InsertToolsInMenu(this);
385 vvToolManager::GetInstance()->EnableToolsInMenu(this, false);
387 if (!CLITK_EXPERIMENTAL)
388 menuExperimental->menuAction()->setVisible(false);
391 QTimer * timerMemory = new QTimer(this);
392 //timerMemory->setInterval(5);
393 connect(timerMemory, SIGNAL(timeout()), this, SLOT(UpdateMemoryUsage()));
394 timerMemory->start(2000);
397 //------------------------------------------------------------------------------
398 void vvMainWindow::show()
400 vvMainWindowBase::show();
401 PopupRegisterForm(true);
403 //------------------------------------------------------------------------------
404 void vvMainWindow::UpdateMemoryUsage()
406 // clitk::PrintMemory(true);
407 if (clitk::GetMemoryUsageInMb() == 0) infoPanel->setMemoryInMb("NA");
408 else infoPanel->setMemoryInMb(QString::number(clitk::GetMemoryUsageInMb())+" MiB");
410 //------------------------------------------------------------------------------
413 //------------------------------------------------------------------------------
414 void vvMainWindow::createRecentlyOpenedFilesMenu()
416 recentlyOpenedFilesMenu = new QMenu("Recently opened files...");
417 recentlyOpenedFilesMenu->setIcon(QIcon(QString::fromUtf8(":/common/icons/open.png")));
418 menuFile->insertMenu(actionOpen_Image_With_Time,recentlyOpenedFilesMenu);
419 menuFile->insertSeparator(actionOpen_Image_With_Time);
421 //------------------------------------------------------------------------------
424 //------------------------------------------------------------------------------
426 void vvMainWindow::updateRecentlyOpenedFilesMenu(const std::list<std::string> &recent_files)
428 if(recentlyOpenedFilesMenu==NULL) {
429 createRecentlyOpenedFilesMenu();
431 recentlyOpenedFilesMenu->clear();
433 for (std::list<std::string>::const_iterator i = recent_files.begin(); i!=recent_files.end(); i++) {
434 QAction* current=new QAction(QIcon(QString::fromUtf8(":/common/icons/open.png")), i->c_str(),this);
435 recentlyOpenedFilesMenu->addAction(current);
436 connect(current,SIGNAL(triggered()),this,SLOT(OpenRecentImage()));
439 //------------------------------------------------------------------------------
442 //------------------------------------------------------------------------------
443 void vvMainWindow::ComputeMidPosition()
446 int index=GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
447 int ref = QInputDialog::getInt(this,"Chose reference phase","Reference phase",0,0,\
448 mSlicerManagers[index]->GetImage()->GetVTKImages().size()-1,1,&ok);
451 midp.slicer_manager = mSlicerManagers[index];
452 midp.reference_image_index = ref;
453 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
456 QMessageBox::warning(this, "Error computing midposition image",midp.error_message.c_str());
458 QFileInfo info(midp.slicer_manager->GetFileName().c_str());
459 AddImage(midp.output,info.path().toStdString()+"/"+info.completeBaseName().toStdString()+"_midposition.mhd");
461 QApplication::restoreOverrideCursor();
464 //------------------------------------------------------------------------------
467 //------------------------------------------------------------------------------
468 void vvMainWindow::AddContour(int image_index, vvMesh::Pointer contour, bool propagation)
470 QTreeWidgetItem *item = new QTreeWidgetItem();
471 item->setData(0,Qt::UserRole,"filename.vtk");
472 item->setData(1,Qt::UserRole,tr("contour"));
474 brush.setColor(QColor(contour->r*255,contour->g*255,contour->b*255));
475 brush.setStyle(Qt::SolidPattern);
476 item->setData(COLUMN_IMAGE_NAME,Qt::BackgroundRole,brush);
477 // item->setData(COLUMN_IMAGE_NAME,Qt::DisplayRole,contour->structure_name.c_str());
479 for (int j = 1; j <= 4; j++)
480 item->setData(j,Qt::CheckStateRole,DataTree->topLevelItem(image_index)->data(j,Qt::CheckStateRole));
482 QTreePushButton* cButton = new QTreePushButton;
483 cButton->setItem(item);
484 cButton->setColumn(COLUMN_CLOSE_IMAGE);
485 cButton->setToolTip(tr("close image"));
486 cButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/exit.png")));
487 connect(cButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
488 this,SLOT(CloseImage(QTreeWidgetItem*, int)));
490 QTreePushButton* rButton = new QTreePushButton;
491 rButton->setItem(item);
492 rButton->setColumn(COLUMN_RELOAD_IMAGE);
493 rButton->setToolTip(tr("reload image"));
494 rButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/rotateright.png")));
495 rButton->setEnabled(false);
497 //connect(rButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
498 //this,SLOT(ReloadImage(QTreeWidgetItem*, int)));
500 DataTree->topLevelItem(image_index)->setExpanded(1);
501 DataTree->topLevelItem(image_index)->addChild(item);
502 DataTree->setItemWidget(item, COLUMN_CLOSE_IMAGE, cButton);
503 DataTree->setItemWidget(item, COLUMN_RELOAD_IMAGE, rButton);
504 QString id = DataTree->topLevelItem(image_index)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString();
505 item->setData(COLUMN_IMAGE_NAME,Qt::UserRole,id.toStdString().c_str());
508 mSlicerManagers[image_index]->AddContour(contour,propagation);
509 mSlicerManagers[image_index]->Render();
511 //------------------------------------------------------------------------------
514 //------------------------------------------------------------------------------
515 void vvMainWindow::OpenVTKContour()
517 if (mSlicerManagers.size() > 0) {
518 QString Extensions = "Images ( *.vtk *.obj)";
519 Extensions += ";;All Files (*)";
520 QString file = QFileDialog::getOpenFileName(this,tr("Open vtkPolyData"),mInputPathName,Extensions);
523 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
524 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
526 reader.SetImage(mSlicerManagers[index]->GetImage());
527 reader.SetModeToVTK();
528 reader.SetFilename(file.toStdString());
530 AddContour(index,reader.GetOutput()[0],false);
531 QApplication::restoreOverrideCursor();
534 //------------------------------------------------------------------------------
537 //------------------------------------------------------------------------------
538 void vvMainWindow::AddDCStructContour(int index, QString file)
541 reader.SetFilename(file.toStdString());
542 vvStructSelector selector;
543 selector.SetStructures(reader.GetROINames());
544 if (!mSlicerManagers[index]->GetVF().IsNull())
545 selector.EnablePropagationCheckBox();
546 if (selector.exec()) {
547 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
548 reader.SetSelectedItems(selector.getSelectedItems());
549 reader.SetImage(mSlicerManagers[index]->GetImage());
550 if (selector.PropagationEnabled())
551 reader.SetPropagationVF(mSlicerManagers[index]->GetVF());
553 std::vector<vvMesh::Pointer> contours=reader.GetOutput();
554 for (std::vector<vvMesh::Pointer>::iterator i=contours.begin();
555 i!=contours.end(); i++)
556 AddContour(index,*i,selector.PropagationEnabled());
557 QApplication::restoreOverrideCursor();
561 //------------------------------------------------------------------------------
562 void vvMainWindow::OpenDCStructContour()
564 if (mSlicerManagers.size() > 0) {
565 QString Extensions = "Dicom Files ( *.dcm RS*)";
566 Extensions += ";;All Files (*)";
567 QString file = QFileDialog::getOpenFileName(this,tr("Merge Images"),mInputPathName,Extensions);
570 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
571 AddDCStructContour(index, file);
574 //------------------------------------------------------------------------------
577 //------------------------------------------------------------------------------
578 void vvMainWindow::ComputeDeformableRegistration()
580 if (mSlicerManagers.size() > 0) {
581 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
582 vvDeformationDialog dialog(index,mSlicerManagers);
584 std::string base_name=itksys::SystemTools::GetFilenameWithoutExtension(mSlicerManagers[dialog.GetInputFileIndex()]->GetFileName());
585 AddField(dialog.GetOutput(),dialog.getFieldFile(),dialog.GetInputFileIndex());
586 WarpImage(dialog.GetSelectedSlicer(),dialog.GetReferenceFrameIndex());
588 std::cout << "Error or user cancellation while computing deformation field..." << std::endl;
589 } else QMessageBox::information(this, "Need to open image","You must open an image first.");
591 //------------------------------------------------------------------------------
594 //------------------------------------------------------------------------------
595 void vvMainWindow::WarpImage()
597 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
598 if (!mSlicerManagers[index]->GetVF().IsNull()) {
600 int ref = QInputDialog::getInt(this,"Chose reference phase","Reference phase",0,0,\
601 mSlicerManagers[index]->GetImage()->GetVTKImages().size()-1,1,&ok);
603 WarpImage(mSlicerManagers[index],ref);
606 QMessageBox::warning(this,tr("No vector field"),tr("Sorry, can't warp without a vector field"));
608 //------------------------------------------------------------------------------
611 //------------------------------------------------------------------------------
612 void vvMainWindow::WarpImage(vvSlicerManager* selected_slicer,int reference_phase)
614 if (!selected_slicer->GetVF().IsNull()) {
615 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
616 QFileInfo info(selected_slicer->GetFileName().c_str());
617 vvImageWarp warp(selected_slicer->GetImage(),selected_slicer->GetVF(),
618 reference_phase,this);
619 if (warp.ComputeWarpedImage()) {
620 AddImage(warp.GetWarpedImage(),info.path().toStdString()+"/"+info.completeBaseName().toStdString()+"_warped.mhd");
621 AddImage(warp.GetDiffImage() ,info.path().toStdString()+"/"+info.completeBaseName().toStdString()+"_diff.mhd");
622 AddImage(warp.GetJacobianImage() ,info.path().toStdString()+"/"+info.completeBaseName().toStdString()+"_jacobian.mhd");
623 QApplication::restoreOverrideCursor();
625 QApplication::restoreOverrideCursor();
626 QMessageBox::warning(this,tr("Different spacings"),tr("The vector field and image spacings must be the same in order to warp."));
629 QMessageBox::warning(this,tr("No vector field"),tr("Sorry, can't warp without a vector field."));
631 //------------------------------------------------------------------------------
634 //------------------------------------------------------------------------------
635 vvMainWindow::~vvMainWindow()
637 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
638 if (mSlicerManagers[i] != NULL)
639 delete mSlicerManagers[i];
641 delete documentation;
643 delete dicomSeriesSelector;
645 //------------------------------------------------------------------------------
647 //------------------------------------------------------------------------------
648 QTabWidget * vvMainWindow::GetTab()
652 //------------------------------------------------------------------------------
655 //------------------------------------------------------------------------------
656 void vvMainWindow::MergeImages()
658 QString Extensions = EXTENSIONS;
659 Extensions += ";;All Files (*)";
660 QStringList files = QFileDialog::getOpenFileNames(this,tr("Merge Images"),mInputPathName,Extensions);
663 mInputPathName = itksys::SystemTools::GetFilenamePath(files[0].toStdString()).c_str();
664 std::vector<std::string> vector;
666 unsigned int currentDim = 0;
667 std::vector<double> currentSpacing;
668 std::vector<int> currentSize;
669 std::vector<double> currentOrigin;
671 for (int i = 0; i < files.size(); i++) {
672 itk::ImageIOBase::Pointer reader = itk::ImageIOFactory::CreateImageIO(
673 files[i].toStdString().c_str(), itk::ImageIOFactory::ReadMode);
674 reader->SetFileName(files[i].toStdString().c_str());
675 reader->ReadImageInformation();
677 //NOViewWidget->hide();
678 //NEViewWidget->hide();
679 //SOViewWidget->hide();
680 //SEViewWidget->hide();
682 currentDim = reader->GetNumberOfDimensions();
684 for (unsigned int j = 0; j < currentDim; j++) {
687 currentSpacing.resize(currentDim);
688 currentSize.resize(currentDim);
689 currentOrigin.resize(currentDim);
691 currentOrigin[j] = reader->GetOrigin(j);
692 currentSpacing[j] = reader->GetSpacing(j);
693 currentSize[j] = reader->GetDimensions(j);
694 } else if (currentDim != reader->GetNumberOfDimensions()
695 || currentSpacing[j] != reader->GetSpacing(j)
696 || currentSize[j] != (int)reader->GetDimensions(j)
697 || currentOrigin[j] != reader->GetOrigin(j)) {
698 QString error = "Cannot read file (too different from others ";
699 error += files[i].toStdString().c_str();
700 QMessageBox::information(this,tr("Reading problem"),error);
706 vector.push_back(files[i].toStdString());
709 if (vector.size() > 0)
710 LoadImages(vector, vvImageReader::MERGED);
712 //------------------------------------------------------------------------------
714 //------------------------------------------------------------------------------
715 void vvMainWindow::SliceImages()
717 QString Extensions = EXTENSIONS;
718 Extensions += ";;All Files (*)";
720 QStringList files = QFileDialog::getOpenFileNames(this,tr("Slice Images"),mInputPathName,Extensions);
723 mInputPathName = itksys::SystemTools::GetFilenamePath(files[0].toStdString()).c_str();
724 std::vector<std::string> vector;
725 for (int i = 0; i < files.size(); i++)
726 vector.push_back(files[i].toStdString());
727 LoadImages(vector, vvImageReader::SLICED);
729 //------------------------------------------------------------------------------
731 //------------------------------------------------------------------------------
732 void vvMainWindow::MergeImagesWithTime()
734 QString Extensions = EXTENSIONS;
735 Extensions += ";;All Files (*)";
736 QStringList files = QFileDialog::getOpenFileNames(this,tr("Merge Images With Time"),mInputPathName,Extensions);
739 mInputPathName = itksys::SystemTools::GetFilenamePath(files[0].toStdString()).c_str();
740 std::vector<std::string> vector;
742 for (int i = 0; i < files.size(); i++)
743 vector.push_back(files[i].toStdString());
744 sort(vector.begin(),vector.end());
745 if (vector.size() > 1)
746 LoadImages(vector, vvImageReader::MERGEDWITHTIME);
748 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.");
750 //------------------------------------------------------------------------------
753 //------------------------------------------------------------------------------
754 void vvMainWindow::OpenDicom()
756 std::vector<std::string> files;
758 //std::cout << "dicomSeriesSelector " << std::endl;
759 if (dicomSeriesSelector->exec() == QDialog::Accepted) {
760 files = *(dicomSeriesSelector->GetFilenames());
761 LoadImages(files, vvImageReader::DICOM);
764 //------------------------------------------------------------------------------
766 //------------------------------------------------------------------------------
767 void vvMainWindow::OpenImages()
769 QString Extensions = EXTENSIONS;
770 Extensions += ";;All Files (*)";
772 QStringList files = QFileDialog::getOpenFileNames(this,tr("Load Images"),mInputPathName,Extensions);
775 mInputPathName = itksys::SystemTools::GetFilenamePath(files[0].toStdString()).c_str();
776 std::vector<std::string> vector;
777 for (int i = 0; i < files.size(); i++)
778 vector.push_back(files[i].toStdString());
779 LoadImages(vector, vvImageReader::IMAGE);
781 //------------------------------------------------------------------------------
782 void vvMainWindow::OpenRecentImage()
784 QAction * caller = qobject_cast<QAction*>(sender());
785 std::vector<std::string> images;
786 images.push_back(caller->text().toStdString());
787 mInputPathName = itksys::SystemTools::GetFilenamePath(images[0]).c_str();
788 LoadImages(images, vvImageReader::IMAGE);
790 //------------------------------------------------------------------------------
793 //------------------------------------------------------------------------------
794 void vvMainWindow::OpenImageWithTime()
796 QString Extensions = EXTENSIONS;
797 Extensions += ";;All Files (*)";
799 QStringList files = QFileDialog::getOpenFileNames(this,tr("Load Images With Time"),mInputPathName,Extensions);
802 mInputPathName = itksys::SystemTools::GetFilenamePath(files[0].toStdString()).c_str();
803 std::vector<std::string> vector;
804 for (int i = 0; i < files.size(); i++) {
805 vector.push_back(files[i].toStdString());
807 LoadImages(vector, vvImageReader::IMAGEWITHTIME);
809 //------------------------------------------------------------------------------
812 //------------------------------------------------------------------------------
813 void vvMainWindow::LoadImages(std::vector<std::string> files, vvImageReader::LoadedImageType filetype)
815 //Separate the way to open images and dicoms
817 if (filetype == vvImageReader::IMAGE || filetype == vvImageReader::IMAGEWITHTIME)
818 fileSize = files.size();
822 // For SLICED, we need the number of slices (ndim and #slices)
823 std::vector<unsigned int> nSlices;
824 nSlices.resize(files.size());
825 std::fill(nSlices.begin(), nSlices.end(), 1);
826 if (filetype == vvImageReader::SLICED) {
827 for (int i = 0; i < fileSize; i++) {
828 itk::ImageIOBase::Pointer header = clitk::readImageHeader(files[i]);
829 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
832 QString error = "Cannot open file \n";
833 error += files[i].c_str();
834 QMessageBox::information(this,tr("Reading problem"),error);
837 if (header->GetNumberOfDimensions() < 3) {
839 QString error = "Dimension problem. Cannot slice \n";
840 error += files[i].c_str();
841 QMessageBox::information(this,tr("Reading problem"),error);
844 nSlices[i] = header->GetDimensions( header->GetNumberOfDimensions()-1 );
848 //Only add to the list of recently opened files when a single file is opened,
849 //to avoid polluting the list of recently opened files
850 if (files.size() == 1) {
851 QFileInfo finfo=tr(files[0].c_str());
852 AddToRecentlyOpenedImages(finfo.absoluteFilePath().toStdString());
853 updateRecentlyOpenedFilesMenu(GetRecentlyOpenedImages());
855 //init the progress events
856 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
857 vvProgressDialog progress("Opening " + files[0],fileSize>1);
858 qApp->processEvents();
860 int numberofsuccesulreads=0;
861 //open images as 1 or multiples
862 for (int i = 0; i < fileSize; i++) {
863 progress.SetText("Opening " + files[i]);
864 progress.SetProgress(i,fileSize);
865 qApp->processEvents();
867 for (unsigned int j = 0; j < nSlices[i]; j++) {
868 //read the image and put it in mSlicerManagers
869 vvSlicerManager* imageManager = new vvSlicerManager(4);
870 qApp->processEvents();
872 bool SetImageSucceed=false;
874 // Change filename if an image with the same already exist
875 int number = GetImageDuplicateFilenameNumber(files[i] + std::string("_slice"));
877 if (filetype == vvImageReader::IMAGE || filetype == vvImageReader::IMAGEWITHTIME || filetype == vvImageReader::SLICED) {
878 SetImageSucceed = imageManager->SetImage(files[i],filetype, number, j);
880 SetImageSucceed = imageManager->SetImages(files,filetype, number);
882 if (!SetImageSucceed) {
883 QApplication::restoreOverrideCursor();
884 QString error = "Cannot open file \n";
885 error += imageManager->GetLastError().c_str();
886 QMessageBox::information(this,tr("Reading problem"),error);
890 mSlicerManagers.push_back(imageManager);
892 //create an item in the tree with good settings
893 QTreeWidgetItem *item = new QTreeWidgetItem();
894 item->setData(0,Qt::UserRole,files[i].c_str());
895 QFileInfo fileinfo(imageManager->GetFileName().c_str()); //Do not show the path
896 item->setData(COLUMN_IMAGE_NAME,Qt::DisplayRole,fileinfo.fileName());
897 item->setData(1,Qt::UserRole,tr("image"));
898 item->setToolTip(COLUMN_IMAGE_NAME, imageManager->GetListOfAbsoluteFilePathInOneString("image").c_str());
899 qApp->processEvents();
901 //Create the buttons for reload and close
902 qApp->processEvents();
903 QTreePushButton* cButton = new QTreePushButton;
904 cButton->setItem(item);
905 cButton->setColumn(COLUMN_CLOSE_IMAGE);
906 cButton->setToolTip(tr("close image"));
907 cButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/exit.png")));
908 connect(cButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
909 this,SLOT(CloseImage(QTreeWidgetItem*, int)));
911 QTreePushButton* rButton = new QTreePushButton;
912 rButton->setItem(item);
913 rButton->setColumn(COLUMN_RELOAD_IMAGE);
914 rButton->setToolTip(tr("reload image"));
915 rButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/rotateright.png")));
916 connect(rButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
917 this,SLOT(ReloadImage(QTreeWidgetItem*, int)));
919 DataTree->addTopLevelItem(item);
920 DataTree->setItemWidget(item, COLUMN_CLOSE_IMAGE, cButton);
921 DataTree->setItemWidget(item, COLUMN_RELOAD_IMAGE, rButton);
923 //set the id of the image
924 QString id = QDir::current().absoluteFilePath(files[i].c_str()) + QString::number(mSlicerManagers.size()-1);
925 item->setData(COLUMN_IMAGE_NAME,Qt::UserRole,id.toStdString().c_str());
926 mSlicerManagers.back()->SetId(id.toStdString());
928 linkPanel->addImage(imageManager->GetFileName(), id.toStdString());
930 connect(mSlicerManagers.back(), SIGNAL(currentImageChanged(std::string)),
931 this,SLOT(CurrentImageChanged(std::string)));
932 connect(mSlicerManagers.back(), SIGNAL(currentPickedImageChanged(std::string)),
933 this, SLOT(CurrentPickedImageChanged(std::string)));
934 connect(mSlicerManagers.back(), SIGNAL(UpdatePosition(int, double, double, double, double, double, double, double)),
935 this,SLOT(MousePositionChanged(int,double, double, double, double, double, double, double)));
936 connect(mSlicerManagers.back(), SIGNAL(UpdateVector(int, double, double, double, double)),
937 this, SLOT(VectorChanged(int,double,double,double, double)));
938 connect(mSlicerManagers.back(), SIGNAL(UpdateOverlay(int, double, double)),
939 this, SLOT(OverlayChanged(int,double,double)));
940 connect(mSlicerManagers.back(), SIGNAL(UpdateFusion(int, double)),
941 this, SLOT(FusionChanged(int,double)));
942 connect(mSlicerManagers.back(), SIGNAL(WindowLevelChanged()),
943 this,SLOT(WindowLevelChanged()));
944 connect(mSlicerManagers.back(), SIGNAL(UpdateSlice(int,int)),
945 this,SLOT(UpdateSlice(int,int)));
946 connect(mSlicerManagers.back(), SIGNAL(UpdateTSlice(int, int, int)),
947 this,SLOT(UpdateTSlice(int, int, int)));
948 connect(mSlicerManagers.back(), SIGNAL(UpdateTSlice(int, int, int)),
949 this,SLOT(ImageInfoChanged()));
950 connect(mSlicerManagers.back(), SIGNAL(UpdateSliceRange(int,int,int,int,int)),
951 this,SLOT(UpdateSliceRange(int,int,int,int,int)));
952 connect(mSlicerManagers.back(), SIGNAL(UpdateLinkManager(std::string,int,double,double,double,int)),
953 this,SLOT(UpdateLinkManager(std::string,int,double,double,double,int)));
954 connect(mSlicerManagers.back(), SIGNAL(UpdateLinkedNavigation(std::string,vvSlicerManager*,vvSlicer*)),
955 this,SLOT(UpdateLinkedNavigation(std::string,vvSlicerManager*,vvSlicer*)));
956 connect(mSlicerManagers.back(), SIGNAL(ChangeImageWithIndexOffset(vvSlicerManager*,int,int)),
957 this,SLOT(ChangeImageWithIndexOffset(vvSlicerManager*,int,int)));
958 connect(mSlicerManagers.back(),SIGNAL(LandmarkAdded()),landmarksPanel,SLOT(AddPoint()));
960 numberofsuccesulreads++;
965 if (numberofsuccesulreads) {
966 NOViewWidget->show();
967 NEViewWidget->show();
968 SOViewWidget->show();
969 SEViewWidget->show();
974 // Try to guess default WindowLevel
976 mSlicerManagers.back()->GetImage()->GetFirstVTKImageData()->GetScalarRange(range);
977 if ((range[0] == 0) && (range[1] == 1)) {
978 presetComboBox->setCurrentIndex(WL_BINARY);// binary
983 QApplication::restoreOverrideCursor();
985 //------------------------------------------------------------------------------
987 //------------------------------------------------------------------------------
988 void vvMainWindow::UpdateTree()
990 DataTree->resizeColumnToContents(COLUMN_TREE);
991 DataTree->resizeColumnToContents(COLUMN_UL_VIEW);
992 DataTree->resizeColumnToContents(COLUMN_UR_VIEW);
993 DataTree->resizeColumnToContents(COLUMN_DL_VIEW);
994 DataTree->resizeColumnToContents(COLUMN_DR_VIEW);
995 DataTree->resizeColumnToContents(COLUMN_IMAGE_NAME);
996 DataTree->resizeColumnToContents(COLUMN_CLOSE_IMAGE);
997 DataTree->resizeColumnToContents(COLUMN_RELOAD_IMAGE);
999 //------------------------------------------------------------------------------
1001 //------------------------------------------------------------------------------
1002 void vvMainWindow::CurrentImageChanged(std::string id)
1004 if (id == mCurrentSelectedImageId) return; // Do nothing
1006 for (int i = 0; i < DataTree->topLevelItemCount(); i++) {
1007 if (DataTree->topLevelItem(i)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString().toStdString() == id) {
1010 DataTree->topLevelItem(i)->setSelected(0);
1012 for (int child = 0; child < DataTree->topLevelItem(i)->childCount(); child++)
1013 DataTree->topLevelItem(i)->child(child)->setSelected(0);
1016 DataTree->topLevelItem(selected)->setSelected(1);
1017 mCurrentSelectedImageId = id;
1019 landmarksPanel->SetCurrentLandmarks(mSlicerManagers[selected]->GetLandmarks(),
1020 mSlicerManagers[selected]->GetTSlice());
1021 landmarksPanel->SetCurrentPath(mInputPathName.toStdString());
1022 landmarksPanel->SetCurrentImage(mSlicerManagers[selected]->GetFileName().c_str());
1024 emit SelectedImageHasChanged(mSlicerManagers[selected]);
1026 //------------------------------------------------------------------------------
1028 //------------------------------------------------------------------------------
1029 void vvMainWindow::CurrentPickedImageChanged(std::string id)
1031 if (id == mCurrentPickedImageId) return; // Do nothing
1033 for (int i = 0; i < DataTree->topLevelItemCount(); i++) {
1034 if (DataTree->topLevelItem(i)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString().toStdString() == id) {
1037 DataTree->topLevelItem(i)->setSelected(0);
1039 for (int child = 0; child < DataTree->topLevelItem(i)->childCount(); child++)
1040 DataTree->topLevelItem(i)->child(child)->setSelected(0);
1043 DataTree->topLevelItem(selected)->setSelected(1);
1044 mCurrentPickedImageId = id;
1045 mCurrentPickedImageIndex = selected;
1047 //------------------------------------------------------------------------------
1049 //------------------------------------------------------------------------------
1050 void vvMainWindow::ImageInfoChanged()
1052 contextActions[6]->setEnabled(1);
1053 contextActions[5]->setEnabled(1);
1054 actionSave_As->setEnabled(1);
1055 actionAdd_VF_to_current_Image->setEnabled(1);
1056 actionAdd_fusion_image->setEnabled(1);
1057 actionAdd_overlay_image_to_current_image->setEnabled(1);
1058 actionAdd_USSequence_toCT->setEnabled(1);
1059 actionNorth_East_Window->setEnabled(1);
1060 actionNorth_West_Window->setEnabled(1);
1061 actionSouth_East_Window->setEnabled(1);
1062 actionSouth_West_Window->setEnabled(1);
1063 vvToolManager::GetInstance()->EnableToolsInMenu(this, true);
1064 inverseButton->setEnabled(1);
1066 goToCursorPushButton->setEnabled(1);
1068 if (DataTree->selectedItems().size()) {
1069 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1071 colorMapComboBox->setEnabled(1);
1072 for (int i = 0; i < DataTree->topLevelItem(index)->childCount(); i++) {
1073 if (DataTree->topLevelItem(index)->child(i)->data(1,Qt::UserRole).toString() == "overlay" ||
1074 DataTree->topLevelItem(index)->child(i)->data(1,Qt::UserRole).toString() == "fusion" ||
1075 DataTree->topLevelItem(index)->child(i)->data(1,Qt::UserRole).toString() == "fusionSequence") {
1076 colorMapComboBox->setEnabled(0);
1081 std::vector<double> origin;
1082 std::vector<double> inputSpacing;
1083 std::vector<int> inputSize;
1084 std::vector<double> sizeMM;
1085 vtkSmartPointer<vtkMatrix4x4> transformation;
1088 QString inputSizeInBytes;
1089 QString image = DataTree->selectedItems()[0]->data(COLUMN_IMAGE_NAME,Qt::DisplayRole).toString();
1091 int nframes = mSlicerManagers[index]->GetSlicer(0)->GetTMax();
1093 if (nframes > 1 || playMode == 1) {
1094 playButton->setEnabled(1);
1095 frameRateLabel->setEnabled(1);
1096 frameRateSpinBox->setEnabled(1);
1098 playButton->setEnabled(0);
1099 frameRateLabel->setEnabled(0);
1100 frameRateSpinBox->setEnabled(0);
1107 vvImage::Pointer imageSelected;
1108 if (DataTree->topLevelItem(index) == DataTree->selectedItems()[0]) {
1109 imageSelected = mSlicerManagers[index]->GetSlicer(0)->GetImage();
1110 tSlice = mSlicerManagers[index]->GetSlicer(0)->GetTSlice();
1111 } else if (DataTree->selectedItems()[0]->data(1,Qt::UserRole).toString() == "vector") {
1112 imageSelected = mSlicerManagers[index]->GetSlicer(0)->GetVF();
1113 tSlice = mSlicerManagers[index]->GetSlicer(0)->GetOverlayTSlice();
1114 } else if (DataTree->selectedItems()[0]->data(1,Qt::UserRole).toString() == "overlay") {
1115 imageSelected = mSlicerManagers[index]->GetSlicer(0)->GetOverlay();
1116 tSlice = mSlicerManagers[index]->GetSlicer(0)->GetOverlayTSlice();
1117 } else if (DataTree->selectedItems()[0]->data(1,Qt::UserRole).toString() == "fusion") {
1118 imageSelected = mSlicerManagers[index]->GetSlicer(0)->GetFusion();
1119 tSlice = mSlicerManagers[index]->GetSlicer(0)->GetFusionTSlice();
1121 else if (DataTree->selectedItems()[0]->data(1,Qt::UserRole).toString() == "fusionSequence") {
1122 imageSelected = mSlicerManagers[index]->GetSlicer(0)->GetFusion();
1123 tSlice = mSlicerManagers[index]->GetSlicer(0)->GetFusionTSlice();
1125 else if (DataTree->selectedItems()[0]->data(1,Qt::UserRole).toString() == "contour") {
1126 imageSelected = mSlicerManagers[index]->GetSlicer(0)->GetImage();
1127 tSlice = mSlicerManagers[index]->GetSlicer(0)->GetTSlice();
1130 imageSelected = mSlicerManagers[index]->GetSlicer(0)->GetImage();
1131 tSlice = mSlicerManagers[index]->GetSlicer(0)->GetTSlice();
1134 dimension = imageSelected->GetNumberOfDimensions();
1135 origin.resize(dimension);
1136 inputSpacing.resize(dimension);
1137 inputSize.resize(dimension);
1138 sizeMM.resize(dimension);
1139 pixelType = mSlicerManagers[index]->GetImage()->GetScalarTypeAsITKString().c_str();
1140 for (int i = 0; i < dimension; i++) {
1141 origin[i] = imageSelected->GetOrigin()[i];
1142 inputSpacing[i] = imageSelected->GetSpacing()[i];
1143 inputSize[i] = imageSelected->GetSize()[i];
1144 sizeMM[i] = inputSize[i]*inputSpacing[i];
1145 NPixel *= inputSize[i];
1147 inputSizeInBytes = GetSizeInBytes(imageSelected->GetActualMemorySize()*1000);
1149 QString dim = QString::number(dimension) + " (";
1150 dim += pixelType + ")";
1152 infoPanel->setFileName(image);
1153 std::string creationImageTimeValue("No creation time");
1154 itk::ExposeMetaData< std::string > (*imageSelected->GetFirstMetaDataDictionary(), "creationImageTime", creationImageTimeValue);
1155 infoPanel->setImageCreationTime(QString(creationImageTimeValue.c_str()));
1156 infoPanel->setDimension(dim);
1157 infoPanel->setSizePixel(GetVectorIntAsString(inputSize));
1158 infoPanel->setSizeMM(GetVectorDoubleAsString(sizeMM));
1159 infoPanel->setOrigin(GetVectorDoubleAsString(origin));
1160 infoPanel->setSpacing(GetVectorDoubleAsString(inputSpacing));
1161 infoPanel->setNPixel(QString::number(NPixel)+" ("+inputSizeInBytes+")");
1163 transformation = imageSelected->GetTransform()[tSlice]->GetMatrix();
1164 infoPanel->setTransformation(clitk::Get4x4MatrixDoubleAsString(transformation).c_str());
1166 landmarksPanel->SetCurrentLandmarks(mSlicerManagers[index]->GetLandmarks(),
1167 mSlicerManagers[index]->GetTSlice());
1168 landmarksPanel->SetCurrentPath(mInputPathName.toStdString());
1169 landmarksPanel->SetCurrentImage(mSlicerManagers[index]->GetFileName().c_str());
1171 overlayPanel->getCurrentImageName(mSlicerManagers[index]->GetFileName().c_str());
1172 for (int i = 0; i < 4; i++) {
1173 if (DataTree->selectedItems()[0]->data(i+1,Qt::CheckStateRole).toInt() > 0 || i == 3) {
1174 mSlicerManagers[index]->UpdateInfoOnCursorPosition(i);
1179 // infoPanel->setFileName(image);
1180 // infoPanel->setDimension(dim);
1181 // infoPanel->setSizePixel(GetVectorIntAsString(inputSize));
1182 // infoPanel->setSizeMM(GetVectorDoubleAsString(sizeMM));
1183 // infoPanel->setOrigin(GetVectorDoubleAsString(origin));
1184 // infoPanel->setSpacing(GetVectorDoubleAsString(inputSpacing));
1185 // infoPanel->setNPixel(QString::number(NPixel)+" ("+inputSizeInBytes+")");
1187 // landmarksPanel->SetCurrentLandmarks(mSlicerManagers[index]->GetLandmarks(),
1188 // mSlicerManagers[index]->GetTSlice());
1189 // landmarksPanel->SetCurrentPath(mInputPathName.toStdString());
1190 // landmarksPanel->SetCurrentImage(mSlicerManagers[index]->GetFileName().c_str());
1192 // overlayPanel->getCurrentImageName(mSlicerManagers[index]->GetFileName().c_str());
1193 // for (int i = 0; i < 4; i++) {
1194 // if (DataTree->selectedItems()[0]->data(i+1,Qt::CheckStateRole).toInt() > 0 || i == 3) {
1195 // mSlicerManagers[index]->UpdateInfoOnCursorPosition(i);
1199 WindowLevelChanged();
1201 slicingPresetComboBox->setCurrentIndex(mSlicerManagers[index]->GetSlicingPreset());
1203 if (mSlicerManagers[index]->GetSlicer(0)->GetVF()) {
1204 overlayPanel->getVFName(mSlicerManagers[index]->GetVFName().c_str());
1205 overlayPanel->getVFProperty(mSlicerManagers[index]->GetSlicer(0)->GetVFSubSampling(),
1206 mSlicerManagers[index]->GetSlicer(0)->GetVFScale(),
1207 mSlicerManagers[index]->GetSlicer(0)->GetVFLog());
1209 overlayPanel->getVFName(mSlicerManagers[index]->GetVFName().c_str());
1210 overlayPanel->getVFProperty(-1,-1,-1);
1212 if (mSlicerManagers[index]->GetSlicer(0)->GetOverlay()) {
1213 overlayPanel->getOverlayName(mSlicerManagers[index]->GetOverlayName().c_str());
1215 overlayPanel->getOverlayName(mSlicerManagers[index]->GetOverlayName().c_str());
1218 if (mSlicerManagers[index]->GetSlicer(0)->GetFusion()) {
1219 overlayPanel->getFusionName(mSlicerManagers[index]->GetFusionName().c_str());
1221 overlayPanel->getFusionName(mSlicerManagers[index]->GetFusionName().c_str());
1225 //------------------------------------------------------------------------------
1227 //------------------------------------------------------------------------------
1228 void vvMainWindow::ShowDocumentation()
1230 documentation->show();
1232 //------------------------------------------------------------------------------
1234 //------------------------------------------------------------------------------
1235 void vvMainWindow::PopupRegisterForm(bool checkCanPush)
1237 vvRegisterForm* registerForm = new vvRegisterForm(QUrl("http://www.creatis.insa-lyon.fr/~dsarrut/vvregister/write.php"), getVVSettingsPath(), getSettingsOptionFormat());
1239 registerForm->show();
1241 if(registerForm->canPush()) {
1242 registerForm->show();
1243 registerForm->acquitPushed();//too bad if there is not internet connection anymore.
1247 //------------------------------------------------------------------------------
1249 //------------------------------------------------------------------------------
1250 void vvMainWindow::ShowHelpDialog()
1252 help_dialog->show();
1254 //------------------------------------------------------------------------------
1256 //------------------------------------------------------------------------------
1257 void vvMainWindow::ChangeViewMode()
1259 typedef struct _SIZE{
1260 QSplitter* splitter;
1261 QList<int> size1, size2;
1264 SplitterSize sizes[4];
1265 sizes[0].splitter = OSplitter;
1266 sizes[0].size1.push_back(1);
1267 sizes[0].size1.push_back(0);
1268 sizes[0].size2.push_back(1);
1269 sizes[0].size2.push_back(0);
1270 sizes[0].cols[0] = 2;
1271 sizes[0].cols[1] = 3;
1272 sizes[0].cols[2] = 4;
1274 sizes[1].splitter = ESplitter;
1275 sizes[1].size1.push_back(0);
1276 sizes[1].size1.push_back(1);
1277 sizes[1].size2.push_back(1);
1278 sizes[1].size2.push_back(0);
1279 sizes[1].cols[0] = 1;
1280 sizes[1].cols[1] = 3;
1281 sizes[1].cols[2] = 4;
1283 sizes[2].splitter = OSplitter;
1284 sizes[2].size1.push_back(1);
1285 sizes[2].size1.push_back(0);
1286 sizes[2].size2.push_back(0);
1287 sizes[2].size2.push_back(1);
1288 sizes[2].cols[0] = 1;
1289 sizes[2].cols[1] = 2;
1290 sizes[2].cols[2] = 4;
1292 sizes[3].splitter = ESplitter;
1293 sizes[3].size1.push_back(0);
1294 sizes[3].size1.push_back(1);
1295 sizes[3].size2.push_back(0);
1296 sizes[3].size2.push_back(1);
1297 sizes[3].cols[0] = 1;
1298 sizes[3].cols[1] = 2;
1299 sizes[3].cols[2] = 3;
1301 int slicer = mSlicerManagers[mCurrentPickedImageIndex]->GetSelectedSlicer();
1302 if (viewMode == 1) {
1305 splitter_3->setSizes(sizes[slicer].size1);
1306 sizes[slicer].splitter->setSizes(sizes[slicer].size2);
1307 DataTree->setColumnHidden(sizes[slicer].cols[0],1);
1308 DataTree->setColumnHidden(sizes[slicer].cols[1],1);
1309 DataTree->setColumnHidden(sizes[slicer].cols[2],1);
1317 splitter_3->setSizes(size);
1318 sizes[slicer].splitter->setSizes(size);
1319 DataTree->setColumnHidden(sizes[slicer].cols[0],0);
1320 DataTree->setColumnHidden(sizes[slicer].cols[1],0);
1321 DataTree->setColumnHidden(sizes[slicer].cols[2],0);
1324 UpdateRenderWindows();
1326 ** I don't know why but for both resized QVTKWidget we also need to render
1327 ** the associated Slicer to redraw crosses.
1329 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
1330 // if (DataTree->topLevelItem(i)->data(COLUMN_UL_VIEW,Qt::CheckStateRole).toInt() > 1)
1331 mSlicerManagers[i]->GetSlicer(0)->Render();
1332 mSlicerManagers[i]->GetSlicer(1)->Render();
1333 // if (DataTree->topLevelItem(i)->data(COLUMN_DL_VIEW,Qt::CheckStateRole).toInt() > 1)
1334 mSlicerManagers[i]->GetSlicer(2)->Render();
1335 mSlicerManagers[i]->GetSlicer(3)->Render();
1338 //------------------------------------------------------------------------------
1340 //------------------------------------------------------------------------------
1341 QString vvMainWindow::GetSizeInBytes(unsigned long size)
1343 QString result = "";// QString::number(size);
1344 //result += " bytes (";
1345 if (size > 1000000000) {
1347 result += QString::number(size);
1348 result += "Gb";//)";
1349 } else if (size > 1000000) {
1351 result += QString::number(size);
1352 result += "Mb";//)";
1353 } else if (size > 1000) {
1355 result += QString::number(size);
1356 result += "kb";//)";
1360 //------------------------------------------------------------------------------
1362 //------------------------------------------------------------------------------
1363 QString vvMainWindow::GetVectorDoubleAsString(std::vector<double> vectorDouble)
1366 for (unsigned int i= 0; i < vectorDouble.size(); i++) {
1369 result += QString::number(vectorDouble[i]);
1373 //------------------------------------------------------------------------------
1375 //------------------------------------------------------------------------------
1376 QString vvMainWindow::GetVectorIntAsString(std::vector<int> vectorInt)
1379 for (unsigned int i= 0; i < vectorInt.size(); i++) {
1382 result += QString::number(vectorInt[i]);
1386 //------------------------------------------------------------------------------
1388 //------------------------------------------------------------------------------
1389 //this actually returns the SlicerManager index!
1390 int vvMainWindow::GetSlicerIndexFromItem(QTreeWidgetItem* item)
1392 QString id = item->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString();
1393 for (int i = 0; i < DataTree->topLevelItemCount(); i++) {
1394 if (DataTree->topLevelItem(i)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString() == id)
1399 //------------------------------------------------------------------------------
1401 //------------------------------------------------------------------------------
1402 QTreeWidgetItem* vvMainWindow::GetItemFromSlicerManager(vvSlicerManager* sm)
1404 QString id = sm->GetId().c_str();
1405 for (int i = 0; i < DataTree->topLevelItemCount(); i++) {
1406 if (DataTree->topLevelItem(i)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString() == id)
1407 return DataTree->topLevelItem(i);
1411 //------------------------------------------------------------------------------
1413 //------------------------------------------------------------------------------
1414 void vvMainWindow::DisplayChanged(QTreeWidgetItem *clickedItem, int column)
1416 if ( column >= COLUMN_CLOSE_IMAGE || column <= 0)
1419 // Get parent information (might be the same item)
1420 int slicerManagerIndex = GetSlicerIndexFromItem(clickedItem);
1421 QTreeWidgetItem* clickedParentItem = DataTree->topLevelItem(slicerManagerIndex);
1422 vvSlicer* clickedSlicer = mSlicerManagers[slicerManagerIndex]->GetSlicer(column-1);
1424 // Go over the complete item tree (only 2 levels, parents and children)
1425 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
1426 // Trick to avoid redoing twice the job for a key (sr)
1427 mSlicerManagers[i]->GetSlicer(column-1)->GetRenderWindow()->GetInteractor()->SetKeySym("Crap");
1429 QTreeWidgetItem* currentParentItem = DataTree->topLevelItem(i);
1430 if(currentParentItem != clickedParentItem) {
1431 // Not the branch of the clicked item, uncheck all
1434 currentParentItem->setData(column,Qt::CheckStateRole, 0);
1435 mSlicerManagers[i]->UpdateSlicer(column-1, false);
1438 for (int iChild = 0; iChild < currentParentItem->childCount(); iChild++) {
1439 currentParentItem->child(iChild)->setData(column,Qt::CheckStateRole, 0);
1443 // Branch of the clicked one: get check status from actor visibility in slicer
1444 // and toggle the clicked one
1447 bool vis = clickedSlicer->GetActorVisibility("image", 0);
1448 bool draw = clickedSlicer->GetRenderer()->GetDraw();
1450 // Update slicer (after getting visibility)
1451 mSlicerManagers[slicerManagerIndex]->UpdateSlicer(column-1, true);
1452 mSlicerManagers[slicerManagerIndex]->UpdateInfoOnCursorPosition(column-1);
1453 DisplaySliders(slicerManagerIndex, column-1);
1454 if(clickedParentItem == clickedItem) {
1456 vis = !draw || !vis;
1458 clickedSlicer->SetActorVisibility("image", 0, vis);
1459 clickedParentItem->setData(column, Qt::CheckStateRole, vis?2:0);
1462 std::map<std::string, int> actorTypeCounts;
1463 for (int iChild = 0; iChild < clickedParentItem->childCount(); iChild++) {
1464 QTreeWidgetItem* currentChildItem = clickedParentItem->child(iChild);
1465 std::string actorType = currentChildItem->data(1,Qt::UserRole).toString().toStdString();
1466 vis = clickedSlicer->GetActorVisibility(actorType, actorTypeCounts[actorType]);
1467 if(currentChildItem == clickedItem) {
1468 // Toggle or force visibility if it was not on this branch so far
1469 vis = !draw || !vis;
1470 clickedSlicer->SetActorVisibility(actorType, actorTypeCounts[actorType], vis);
1472 currentChildItem->setData(column, Qt::CheckStateRole, vis?2:0);
1473 actorTypeCounts[actorType]++;
1478 clickedSlicer->Render();
1480 //------------------------------------------------------------------------------
1482 void vvMainWindow::InitSlicers()
1484 if (mSlicerManagers.size()) {
1485 mSlicerManagers.back()->GenerateDefaultLookupTable();
1486 mSlicerManagers.back()->SetSlicerWindow(0,NOViewWidget->GetRenderWindow());
1487 mSlicerManagers.back()->SetSlicerWindow(1,NEViewWidget->GetRenderWindow());
1488 mSlicerManagers.back()->SetSlicerWindow(2,SOViewWidget->GetRenderWindow());
1489 mSlicerManagers.back()->SetSlicerWindow(3,SEViewWidget->GetRenderWindow());
1490 #if VTK_MAJOR_VERSION <= 5
1491 mSlicerManagers.back()->Render(); // SR: displayed #slice is wrong without this / TB: With VTK6 and multiple images, all slicers are updated, not only the first
1496 //------------------------------------------------------------------------------
1497 void vvMainWindow::InitDisplay()
1499 if (mSlicerManagers.size()) {
1500 //BE CAREFUL : this is absolutely necessary to set the interactor style
1501 //in order to have the same style instanciation for all SlicerManagers in
1503 for (int j = 0; j < 4; j++) {
1504 vvInteractorStyleNavigator* style = vvInteractorStyleNavigator::New();
1505 style->SetAutoAdjustCameraClippingRange(1);
1506 bool AlreadySelected = false;
1507 for (int i = 0; i < DataTree->topLevelItemCount(); i++) {
1508 mSlicerManagers[i]->SetInteractorStyleNavigator(j,style);
1509 //select the image only if previous are not selected
1510 if (DataTree->topLevelItem(i)->data(j+1,Qt::CheckStateRole).toInt() > 1) {
1511 mSlicerManagers[i]->UpdateSlicer(j,1);
1512 AlreadySelected = true;
1513 } else if (i == DataTree->topLevelItemCount()-1 && !AlreadySelected) {
1514 if (DataTree->selectedItems().size() == 0) {
1515 DataTree->topLevelItem(i)->setSelected(1);
1517 DataTree->topLevelItem(i)->setData(j+1,Qt::CheckStateRole,2);
1518 mSlicerManagers[i]->UpdateSlicer(j,1);
1519 DisplaySliders(i,j);
1521 DataTree->topLevelItem(i)->setData(j+1,Qt::CheckStateRole,0);
1522 mSlicerManagers[i]->UpdateSlicer(j,0);
1529 //------------------------------------------------------------------------------
1531 //------------------------------------------------------------------------------
1532 void vvMainWindow::DisplaySliders(int slicer, int window)
1534 if(!mSlicerManagers[slicer]->GetSlicer(window)->GetRenderer()->GetDraw())
1538 mSlicerManagers[slicer]->GetSlicer(window)->GetSliceRange(range);
1539 int position = mSlicerManagers[slicer]->GetSlicer(window)->GetSlice();
1541 verticalSliders[window]->show();
1543 verticalSliders[window]->hide();
1544 verticalSliders[window]->setRange(range[0],range[1]);
1545 verticalSliders[window]->setValue(position);
1549 tRange[1] = mSlicerManagers[slicer]->GetSlicer(window)->GetTMax();
1551 horizontalSliders[window]->show();
1553 horizontalSliders[window]->hide();
1554 horizontalSliders[window]->setRange(tRange[0],tRange[1]);
1555 int tPosition = mSlicerManagers[slicer]->GetSlicer(window)->GetMaxCurrentTSlice();
1556 horizontalSliders[window]->setValue(tPosition);
1558 //------------------------------------------------------------------------------
1560 //------------------------------------------------------------------------------
1561 void vvMainWindow::CloseImage(QTreeWidgetItem* item, int column)
1563 int index = GetSlicerIndexFromItem(item);
1565 if (DataTree->topLevelItem(index) != item) {
1566 QString warning = "Do you really want to close the overlay : ";
1567 warning += item->data(COLUMN_IMAGE_NAME,Qt::DisplayRole).toString();
1568 QMessageBox msgBox(QMessageBox::Warning, tr("Close Overlay"),
1570 msgBox.addButton(tr("Close"), QMessageBox::AcceptRole);
1571 msgBox.addButton(tr("Cancel"), QMessageBox::RejectRole);
1572 if (msgBox.exec() == QMessageBox::AcceptRole) {
1573 std::string overlay_type=item->data(1,Qt::UserRole).toString().toStdString();
1574 int overlay_index=0;
1575 for (int child = 0; child < DataTree->topLevelItem(index)->childCount(); child++) {
1576 if (DataTree->topLevelItem(index)->\
1577 child(child)->data(1,Qt::UserRole).toString().toStdString() == overlay_type)
1579 if (DataTree->topLevelItem(index)->child(child) == item) break;
1581 if (overlay_type=="fusionSequence") {
1582 //removing the overlay sequence in a fusion sequence visualization mode
1583 //reset the transforms
1584 overlayPanel->getFusionSequenceProperty(-1, false, 0, false);
1586 //unlink and untie the slicer managers
1587 RemoveLink(mSlicerManagers[index]->GetId().c_str(), mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->GetId().c_str());
1588 mSlicerManagers[index]->SetFusionSequenceInvolvmentCode(-1);
1589 mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->SetFusionSequenceInvolvmentCode(-1);
1590 for (unsigned i=0 ; i<4 ; i++) {
1591 mSlicerManagers[index]->GetSlicer(i)->SetFusionSequenceCode(-1);
1592 mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->GetSlicer(i)->SetFusionSequenceCode(-1);
1596 mSlicerManagers[index]->RemoveActor(overlay_type, overlay_index-1);
1597 mSlicerManagers[index]->SetColorMap(0);
1598 DataTree->topLevelItem(index)->takeChild(DataTree->topLevelItem(index)->indexOfChild(item));
1599 mSlicerManagers[index]->Render();
1601 } else if (DataTree->topLevelItemCount() <= 1) {
1602 QString warning = "Do you really want to close the image : ";
1603 warning += item->data(COLUMN_IMAGE_NAME,Qt::DisplayRole).toString();
1604 warning += "\nThis is the last image, you're about to close vv !!!";
1605 QMessageBox msgBox(QMessageBox::Warning, tr("Close Image"),
1607 msgBox.addButton(tr("Close vv"), QMessageBox::AcceptRole);
1608 msgBox.addButton(tr("Cancel"), QMessageBox::RejectRole);
1609 if (msgBox.exec() == QMessageBox::AcceptRole) {
1613 QString warning = "Do you really want to close the image : ";
1614 warning += item->data(COLUMN_IMAGE_NAME,Qt::DisplayRole).toString();
1615 QMessageBox msgBox(QMessageBox::Warning, tr("Close Image"),
1617 msgBox.addButton(tr("Close"), QMessageBox::AcceptRole);
1618 msgBox.addButton(tr("Cancel"), QMessageBox::RejectRole);
1619 if (msgBox.exec() == QMessageBox::AcceptRole) {
1621 // Tell tools that we close an image
1622 emit AnImageIsBeingClosed(mSlicerManagers[index]);
1624 std::vector<vvSlicerManager*>::iterator Manageriter = mSlicerManagers.begin();
1625 DataTree->takeTopLevelItem(index);
1626 for (int i = 0; i < index; i++) {
1629 //if the slicer manager was involved in a fusion sequence visualization...
1630 if ( mSlicerManagers[index]->IsInvolvedInFusionSequence() ) {
1631 //in both cases, close the overlay: find it... and close it
1632 //ideally, I should duplicate the code, and avoid calling CloseImage, since this pops up another interactive box
1633 QTreeWidgetItem* overlayItem;
1634 if (mSlicerManagers[index]->IsMainSequenceOfFusionSequence()) {
1635 for (unsigned i=0 ; i<item->childCount() ; i++) {
1636 overlayItem = item->child(i);
1637 this->CloseImage( overlayItem, 0 );
1641 QTreeWidgetItem* linkedItem = this->GetItemFromSlicerManager( mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()] );
1642 for (unsigned i=0 ; i<linkedItem->childCount() ; i++) {
1643 overlayItem = linkedItem->child(i);
1644 this->CloseImage( overlayItem, 0 );
1648 /* -- this is normally already done when closing the overlay.
1649 //reset the transforms
1650 overlayPanel->getFusionSequenceProperty(-1, false, 0, false);
1652 //unlink and untie the slicer managers
1653 RemoveLink(mSlicerManagers[index]->GetId().c_str(), mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->GetId().c_str());
1654 mSlicerManagers[index]->SetFusionSequenceInvolvmentCode(-1);
1655 mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->SetFusionSequenceInvolvmentCode(-1);
1656 for (unsigned i=0 ; i<4 ; i++) {
1657 mSlicerManagers[index]->GetSlicer(i)->SetFusionSequenceCode(-1);
1658 mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->GetSlicer(i)->SetFusionSequenceCode(-1);
1663 linkPanel->removeImage(index);
1664 mSlicerManagers[index]->RemoveActors();
1666 //remove the slicer manager
1667 delete mSlicerManagers[index];
1668 mSlicerManagers.erase(Manageriter);
1676 //------------------------------------------------------------------------------
1678 //------------------------------------------------------------------------------
1679 void vvMainWindow::ReloadImage(QTreeWidgetItem* item, int column)
1681 // int index = GetSlicerIndexFromItem(item);
1682 // QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
1683 // if (item->data(1,Qt::UserRole).toString() == "vector")
1684 // mSlicerManagers[index]->ReloadVF();
1686 // mSlicerManagers[index]->Reload();
1688 // QApplication::restoreOverrideCursor();
1689 int index = GetSlicerIndexFromItem(item);
1690 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
1691 QString role=item->data(1,Qt::UserRole).toString();
1692 if ( role == "vector") {
1693 mSlicerManagers[index]->ReloadVF();
1695 else if (role == "overlay") {
1696 mSlicerManagers[index]->ReloadOverlay();
1698 else if (role == "fusion") {
1699 mSlicerManagers[index]->ReloadFusion();
1701 else if (role == "fusionSequence") {
1702 //both versions of the secondary sequence must be updated.
1703 mSlicerManagers[index]->ReloadFusionSequence();
1704 mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->Reload();
1707 mSlicerManagers[index]->Reload();
1708 //if we update the secondary sequence, then the overlay of the main sequence should also be updated
1709 if (mSlicerManagers[index]->IsSecondarySequenceOfFusionSequence()) mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->ReloadFusionSequence();
1711 // Update view and info
1713 mSlicerManagers[index]->Render();
1714 QApplication::restoreOverrideCursor();
1716 //------------------------------------------------------------------------------
1718 //------------------------------------------------------------------------------
1719 void vvMainWindow::MousePositionChanged(int visibility,double x, double y, double z, double X, double Y, double Z , double value)
1721 infoPanel->setCurrentInfo(visibility,x,y,z,X,Y,Z,value);
1723 //------------------------------------------------------------------------------
1725 //------------------------------------------------------------------------------
1726 void vvMainWindow::VectorChanged(int visibility,double x, double y, double z, double value)
1728 overlayPanel->getCurrentVectorInfo(visibility,x,y,z,value);
1730 //------------------------------------------------------------------------------
1732 //------------------------------------------------------------------------------
1733 void vvMainWindow::OverlayChanged(int visibility, double valueOver, double valueRef)
1735 overlayPanel->getCurrentOverlayInfo(visibility,valueOver, valueRef);
1737 //------------------------------------------------------------------------------
1739 //------------------------------------------------------------------------------
1740 void vvMainWindow::FusionChanged(int visibility, double value)
1742 overlayPanel->getCurrentFusionInfo(visibility,value);
1744 //------------------------------------------------------------------------------
1746 //------------------------------------------------------------------------------
1747 //called when AddOverlayImage, AddFusionSequence
1748 //or when UpdateWindowLevel() is called ; when slicerManager emits WindowLevelChanged
1749 //when ImageInfoChanged() is called
1750 void vvMainWindow::WindowLevelChanged()
1753 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1754 if(index==-1) return;
1755 windowSpinBox->setValue(mSlicerManagers[index]->GetColorWindow());
1756 levelSpinBox->setValue(mSlicerManagers[index]->GetColorLevel());
1757 colorMapComboBox->setCurrentIndex(mSlicerManagers[index]->GetColorMap());
1758 presetComboBox->setCurrentIndex(mSlicerManagers[index]->GetPreset());
1761 if (mSlicerManagers[index]->GetSlicer(0)->GetOverlay())
1762 overlayPanel->getOverlayProperty(mSlicerManagers[index]->GetOverlayColor(),
1763 mSlicerManagers[index]->GetLinkOverlayWindowLevel(),
1764 mSlicerManagers[index]->GetOverlayColorWindow(),
1765 mSlicerManagers[index]->GetOverlayColorLevel());
1767 overlayPanel->getOverlayProperty(-1,0,0.,0.);
1769 // Fusion & SequenceFusion image
1770 if (mSlicerManagers[index]->GetSlicer(0)->GetFusion()) {
1771 overlayPanel->getFusionProperty(mSlicerManagers[index]->GetFusionOpacity(),
1772 mSlicerManagers[index]->GetFusionThresholdOpacity(),
1773 mSlicerManagers[index]->GetFusionColorMap(),
1774 mSlicerManagers[index]->GetFusionWindow(),
1775 mSlicerManagers[index]->GetFusionLevel());
1776 if (mSlicerManagers[index]->IsMainSequenceOfFusionSequence()) {
1777 overlayPanel->getFusionSequenceProperty(mSlicerManagers[index]->GetFusionSequenceFrameIndex(),
1778 mSlicerManagers[index]->GetFusionSequenceSpatialSyncFlag(),
1779 mSlicerManagers[index]->GetFusionSequenceNbFrames(),
1780 mSlicerManagers[index]->GetFusionSequenceTemporalSyncFlag());
1783 else if ( mSlicerManagers[index]->IsSecondarySequenceOfFusionSequence() ) {
1784 //if the image is involved in a fusion sequence, preserve the overlay panel!
1785 int ind = mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager();
1786 overlayPanel->getFusionProperty(mSlicerManagers[ind]->GetFusionOpacity(),
1787 mSlicerManagers[ind]->GetFusionThresholdOpacity(),
1788 mSlicerManagers[ind]->GetFusionColorMap(),
1789 mSlicerManagers[ind]->GetFusionWindow(),
1790 mSlicerManagers[ind]->GetFusionLevel());
1791 overlayPanel->getFusionSequenceProperty(mSlicerManagers[ind]->GetFusionSequenceFrameIndex(),
1792 mSlicerManagers[ind]->GetFusionSequenceSpatialSyncFlag(),
1793 mSlicerManagers[ind]->GetFusionSequenceNbFrames(),
1794 mSlicerManagers[ind]->GetFusionSequenceTemporalSyncFlag());
1798 overlayPanel->getFusionProperty(-1, -1, -1, -1, -1);
1799 overlayPanel->getFusionSequenceProperty(-1, false, 0, false);
1802 //------------------------------------------------------------------------------
1804 //------------------------------------------------------------------------------
1805 void vvMainWindow::WindowLevelEdited()
1807 presetComboBox->setCurrentIndex(WL_USER);
1808 UpdateWindowLevel();
1810 //------------------------------------------------------------------------------
1812 //------------------------------------------------------------------------------
1813 void vvMainWindow::SetWindowLevel(double w, double l)
1815 windowSpinBox->setValue(w);
1816 levelSpinBox->setValue(l);
1817 presetComboBox->setCurrentIndex(WL_USER);
1818 colorMapComboBox->setCurrentIndex(0);
1819 UpdateWindowLevel();
1821 //------------------------------------------------------------------------------
1823 //------------------------------------------------------------------------------
1824 void vvMainWindow::UpdateWindowLevel()
1826 if (DataTree->selectedItems().size()) {
1827 if (presetComboBox->currentIndex() == WL_VENTILATION) //For ventilation
1828 colorMapComboBox->setCurrentIndex(5);
1829 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1830 mSlicerManagers[index]->SetColorWindow(windowSpinBox->value());
1831 mSlicerManagers[index]->SetColorLevel(levelSpinBox->value());
1832 mSlicerManagers[index]->SetPreset(presetComboBox->currentIndex());
1833 mSlicerManagers[index]->Render();
1834 WindowLevelChanged();
1837 //------------------------------------------------------------------------------
1839 //------------------------------------------------------------------------------
1840 void vvMainWindow::UpdateSlicingPreset()
1842 if (DataTree->selectedItems().size()) {
1843 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1844 mSlicerManagers[index]->SetSlicingPreset(vvSlicerManager::SlicingPresetType(slicingPresetComboBox->currentIndex()));
1847 //------------------------------------------------------------------------------
1849 //------------------------------------------------------------------------------
1850 void vvMainWindow::UpdateColorMap()
1852 if (DataTree->selectedItems().size()) {
1853 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1854 mSlicerManagers[index]->SetColorMap(colorMapComboBox->currentIndex());
1855 mSlicerManagers[index]->Render();
1858 //------------------------------------------------------------------------------
1859 void vvMainWindow::SwitchWindowLevel()
1861 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1862 int window = mSlicerManagers[index]->GetColorWindow();
1863 presetComboBox->setCurrentIndex(WL_USER);
1864 windowSpinBox->setValue(-window);
1865 UpdateWindowLevel();
1867 //------------------------------------------------------------------------------
1869 //------------------------------------------------------------------------------
1870 void vvMainWindow::ApplyWindowLevelToAllImages()
1872 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1873 if(index==-1) return;
1874 double window = mSlicerManagers[index]->GetColorWindow();
1875 double level = mSlicerManagers[index]->GetColorLevel();
1877 double fusWindow = mSlicerManagers[index]->GetFusionWindow();
1878 double fusLevel = mSlicerManagers[index]->GetFusionLevel();
1880 double overWindow = mSlicerManagers[index]->GetOverlayColorWindow();
1881 double overLevel = mSlicerManagers[index]->GetOverlayColorLevel();
1883 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
1884 if (mSlicerManagers[i] == NULL)
1886 mSlicerManagers[i]->SetColorWindow(window);
1887 mSlicerManagers[i]->SetColorLevel(level);
1888 mSlicerManagers[i]->SetPreset(WL_USER);
1889 mSlicerManagers[i]->SetFusionWindow(fusWindow);
1890 mSlicerManagers[i]->SetFusionLevel(fusLevel);
1891 mSlicerManagers[i]->SetOverlayColorWindow(overWindow);
1892 mSlicerManagers[i]->SetOverlayColorLevel(overLevel);
1893 mSlicerManagers[i]->Render();
1896 //------------------------------------------------------------------------------
1898 //------------------------------------------------------------------------------
1899 void vvMainWindow::ApplyWindowToSetOfImages(double window, unsigned int indexMin, unsigned int indexMax)
1901 for (unsigned int i = indexMin; i <= indexMax && i < mSlicerManagers.size(); i++) {
1902 if (mSlicerManagers[i] == NULL)
1904 mSlicerManagers[i]->SetColorWindow(window);
1905 mSlicerManagers[i]->SetPreset(WL_USER);
1906 mSlicerManagers[i]->Render();
1909 //------------------------------------------------------------------------------
1911 //------------------------------------------------------------------------------
1912 void vvMainWindow::ApplyLevelToSetOfImages(double level, unsigned int indexMin, unsigned int indexMax)
1914 for (unsigned int i = indexMin; i <= indexMax && i < mSlicerManagers.size(); i++) {
1915 if (mSlicerManagers[i] == NULL)
1917 mSlicerManagers[i]->SetColorLevel(level);
1918 mSlicerManagers[i]->SetPreset(WL_USER);
1919 mSlicerManagers[i]->Render();
1922 //------------------------------------------------------------------------------
1924 //------------------------------------------------------------------------------
1925 void vvMainWindow::UpdateLinkManager(std::string id, int slicer, double x, double y, double z, int temps)
1927 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
1928 if (mSlicerManagers[i]->GetId() == id) {
1929 mSlicerManagers[i]->GetSlicer(slicer)->SetCurrentPosition(x,y,z,temps);
1930 mSlicerManagers[i]->UpdateViews(0,slicer);
1935 //------------------------------------------------------------------------------
1937 //------------------------------------------------------------------------------
1938 void vvMainWindow::UpdateLinkedNavigation(std::string id, vvSlicerManager * sm, vvSlicer* refSlicer)
1940 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
1941 if (id == mSlicerManagers[i]->GetId()) {
1942 mSlicerManagers[i]->UpdateLinkedNavigation(refSlicer);
1946 //------------------------------------------------------------------------------
1948 //------------------------------------------------------------------------------
1949 void vvMainWindow::ShowContextMenu(QPoint point)
1951 if (!DataTree->selectedItems().size()) {
1952 contextActions[1]->setEnabled(0);
1953 contextActions[2]->setEnabled(0);
1954 contextActions[3]->setEnabled(0);
1955 contextActions[4]->setEnabled(0);
1956 contextActions[5]->setEnabled(0);
1957 contextActions[6]->setEnabled(0);
1959 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1960 contextActions[1]->setEnabled(1);
1961 contextActions[2]->setEnabled(
1962 DataTree->itemWidget(DataTree->selectedItems()[0],
1963 COLUMN_RELOAD_IMAGE)->isEnabled());
1964 contextActions[3]->setEnabled(1);
1965 contextActions[5]->setEnabled(1);
1966 contextActions[6]->setEnabled(1);
1968 if (mSlicerManagers[index]->GetDimension() < 3)
1969 contextActions[4]->setEnabled(0);
1971 contextActions[4]->setEnabled(1);
1973 contextMenu.exec(QCursor::pos());
1975 //------------------------------------------------------------------------------
1977 //------------------------------------------------------------------------------
1978 void vvMainWindow::CloseImage()
1980 CloseImage(DataTree->selectedItems()[0],0);
1982 //------------------------------------------------------------------------------
1984 //------------------------------------------------------------------------------
1985 void vvMainWindow::ReloadImage()
1987 ReloadImage(DataTree->selectedItems()[0],0);
1989 //------------------------------------------------------------------------------
1991 //------------------------------------------------------------------------------
1992 void vvMainWindow::SelectOverlayImage()
1994 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1996 //check if one overlay image is added
1997 for (int child = 0; child < DataTree->topLevelItem(index)->childCount(); child++)
1998 if (DataTree->topLevelItem(index)->child(child)->data(1,Qt::UserRole).toString() == "overlay") {
1999 QString error = "Cannot add more than one compared image\n";
2000 error += "Please remove first ";
2001 error += DataTree->topLevelItem(index)->child(child)->data(COLUMN_IMAGE_NAME,Qt::DisplayRole).toString();
2002 QMessageBox::information(this,tr("Problem adding compared image !"),error);
2006 QString Extensions = EXTENSIONS;
2007 Extensions += ";;All Files (*)";
2008 QStringList files = QFileDialog::getOpenFileNames(this,tr("Load Overlay image"),mInputPathName,Extensions);
2009 if (files.isEmpty())
2012 std::vector<std::string> vecFileNames;
2013 for (int i = 0; i < files.size(); i++) {
2014 vecFileNames.push_back(files[i].toStdString());
2017 AddOverlayImage(index,vecFileNames,vvImageReader::IMAGE);
2019 //------------------------------------------------------------------------------
2021 //------------------------------------------------------------------------------
2022 void vvMainWindow::AddOverlayImage(int index, std::vector<std::string> fileNames, vvImageReader::LoadedImageType type)
2024 QString file(fileNames[0].c_str());
2025 if (QFile::exists(file))
2027 mInputPathName = itksys::SystemTools::GetFilenamePath(file.toStdString()).c_str();
2028 itk::ImageIOBase::Pointer reader = itk::ImageIOFactory::CreateImageIO(
2029 file.toStdString().c_str(), itk::ImageIOFactory::ReadMode);
2030 reader->SetFileName(fileNames[0].c_str());
2031 reader->ReadImageInformation();
2032 std::string component = reader->GetComponentTypeAsString(reader->GetComponentType());
2033 int dimension = reader->GetNumberOfDimensions();
2034 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
2035 vvProgressDialog progress("Opening " + file.toStdString());
2036 qApp->processEvents();
2038 std::string filename = itksys::SystemTools::GetFilenameWithoutExtension(file.toStdString()).c_str();
2039 if (mSlicerManagers[index]->SetOverlay(fileNames,dimension, component,type)) {
2040 //create an item in the tree with good settings
2041 QTreeWidgetItem *item = new QTreeWidgetItem();
2042 item->setData(0,Qt::UserRole,file.toStdString().c_str());
2043 item->setData(1,Qt::UserRole,tr("overlay"));
2044 QFileInfo fileinfo(file); //Do not show the path
2045 item->setData(COLUMN_IMAGE_NAME,Qt::DisplayRole,fileinfo.fileName());
2046 item->setToolTip(COLUMN_IMAGE_NAME, mSlicerManagers[index]->GetListOfAbsoluteFilePathInOneString("overlay").c_str());
2047 qApp->processEvents();
2048 #if VTK_MAJOR_VERSION > 5
2049 for ( unsigned int i = 0; i < mSlicerManagers[index]->GetNumberOfSlicers(); i++)
2050 mSlicerManagers[index]->GetSlicer(i)->ForceUpdateDisplayExtent();
2053 for (int j = 1; j <= 4; j++) {
2054 item->setData(j,Qt::CheckStateRole,DataTree->topLevelItem(index)->data(j,Qt::CheckStateRole));
2057 //Create the buttons for reload and close
2058 qApp->processEvents();
2059 QTreePushButton* cButton = new QTreePushButton;
2060 cButton->setItem(item);
2061 cButton->setColumn(COLUMN_CLOSE_IMAGE);
2062 cButton->setToolTip(tr("close image"));
2063 cButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/exit.png")));
2064 connect(cButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2065 this,SLOT(CloseImage(QTreeWidgetItem*, int)));
2067 QTreePushButton* rButton = new QTreePushButton;
2068 rButton->setItem(item);
2069 rButton->setColumn(COLUMN_RELOAD_IMAGE);
2070 rButton->setToolTip(tr("reload image"));
2071 rButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/rotateright.png")));
2072 connect(rButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2073 this,SLOT(ReloadImage(QTreeWidgetItem*, int)));
2075 DataTree->topLevelItem(index)->setExpanded(1);
2076 DataTree->topLevelItem(index)->addChild(item);
2077 DataTree->setItemWidget(item, COLUMN_CLOSE_IMAGE, cButton);
2078 DataTree->setItemWidget(item, COLUMN_RELOAD_IMAGE, rButton);
2080 //set the id of the image
2081 QString id = DataTree->topLevelItem(index)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString();
2082 item->setData(COLUMN_IMAGE_NAME,Qt::UserRole,id.toStdString().c_str());
2084 qApp->processEvents();
2086 QApplication::restoreOverrideCursor();
2088 // Update the display to update, e.g., the sliders
2089 for(int i=0; i<4; i++)
2090 DisplaySliders(index, i);
2092 QApplication::restoreOverrideCursor();
2093 QString error = "Cannot import the new image.\n";
2094 error += mSlicerManagers[index]->GetLastError().c_str();
2095 QMessageBox::information(this,tr("Problem reading image !"),error);
2097 WindowLevelChanged();
2100 QMessageBox::information(this,tr("Problem reading Overlay !"),"File doesn't exist!");
2102 //------------------------------------------------------------------------------
2105 //------------------------------------------------------------------------------
2106 void vvMainWindow::AddROI(int index, QString file)
2109 // Get slice manager
2113 vvImageReader * mReader = new vvImageReader;
2114 mReader->SetInputFilename(filename.toStdString());
2115 mReader->Update(IMAGE);
2116 if (mReader->GetLastError().size() != 0) {
2117 std::cerr << "Error while reading " << filename.toStdString() << std::endl;
2118 QString error = "Cannot open file \n";
2119 error += mReader->GetLastError().c_str();
2120 QMessageBox::information(this,tr("Reading problem"),error);
2124 vvImage::Pointer roi = mReader->GetOutput();
2126 // Create roi in new tool
2127 vvToolStructureSetManager::AddImage(mCurrentSlicerManager, roi);
2130 //------------------------------------------------------------------------------
2132 //------------------------------------------------------------------------------
2133 void vvMainWindow::SelectFusionImage()
2135 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2137 //check if one fusion image is added
2138 for (int child = 0; child < DataTree->topLevelItem(index)->childCount(); child++)
2139 if ( (DataTree->topLevelItem(index)->child(child)->data(1,Qt::UserRole).toString() == "fusion") ||
2140 (DataTree->topLevelItem(index)->child(child)->data(1,Qt::UserRole).toString() == "fusionSequence") ) {
2141 QString error = "Cannot add more than one fusion image\n";
2142 error += "Please remove first ";
2143 error += DataTree->topLevelItem(index)->child(child)->data(COLUMN_IMAGE_NAME,Qt::DisplayRole).toString();
2144 QMessageBox::information(this,tr("Problem adding fusion image !"),error);
2148 QString Extensions = EXTENSIONS;
2149 Extensions += ";;All Files (*)";
2150 QStringList files = QFileDialog::getOpenFileNames(this,tr("Load Fusion image"),mInputPathName,Extensions);
2151 if (files.isEmpty())
2154 std::vector<std::string> vecFileNames;
2155 for (int i = 0; i < files.size(); i++) {
2156 vecFileNames.push_back(files[i].toStdString());
2158 AddFusionImage(index,vecFileNames,vvImageReader::IMAGE);
2160 //------------------------------------------------------------------------------
2162 //------------------------------------------------------------------------------
2163 void vvMainWindow::ResetTransformationToIdentity()
2165 std::string actorType = DataTree->selectedItems()[0]->data(1,Qt::UserRole).toString().toStdString();
2166 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2167 mSlicerManagers[index]->ResetTransformationToIdentity(actorType);
2170 //------------------------------------------------------------------------------
2172 //------------------------------------------------------------------------------
2173 void vvMainWindow::AddFusionImage(int index, std::vector<std::string> fileNames, vvImageReader::LoadedImageType type)
2175 QString file(fileNames[0].c_str());
2176 if (QFile::exists(file))
2178 mInputPathName = itksys::SystemTools::GetFilenamePath(file.toStdString()).c_str();
2179 itk::ImageIOBase::Pointer reader = itk::ImageIOFactory::CreateImageIO(
2180 file.toStdString().c_str(), itk::ImageIOFactory::ReadMode);
2181 reader->SetFileName(fileNames[0].c_str());
2182 reader->ReadImageInformation();
2183 std::string component = reader->GetComponentTypeAsString(reader->GetComponentType());
2184 int dimension = reader->GetNumberOfDimensions();
2185 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
2186 vvProgressDialog progress("Opening fusion");
2187 qApp->processEvents();
2189 std::string filename = itksys::SystemTools::GetFilenameWithoutExtension(file.toStdString()).c_str();
2190 if (mSlicerManagers[index]->SetFusion(fileNames,dimension, component,type)) {
2191 //create an item in the tree with good settings
2192 QTreeWidgetItem *item = new QTreeWidgetItem();
2193 item->setData(0,Qt::UserRole,file.toStdString().c_str());
2194 item->setData(1,Qt::UserRole,tr("fusion"));
2195 QFileInfo fileinfo(file); //Do not show the path
2196 item->setData(COLUMN_IMAGE_NAME,Qt::DisplayRole,fileinfo.fileName());
2197 item->setToolTip(COLUMN_IMAGE_NAME, mSlicerManagers[index]->GetListOfAbsoluteFilePathInOneString("fusion").c_str());
2198 qApp->processEvents();
2199 #if VTK_MAJOR_VERSION > 5
2200 for ( unsigned int i = 0; i < mSlicerManagers[index]->GetNumberOfSlicers(); i++)
2201 mSlicerManagers[index]->GetSlicer(i)->ForceUpdateDisplayExtent();
2203 for (int j = 1; j <= 4; j++) {
2204 item->setData(j,Qt::CheckStateRole,DataTree->topLevelItem(index)->data(j,Qt::CheckStateRole));
2207 //Create the buttons for reload and close
2208 qApp->processEvents();
2209 QTreePushButton* cButton = new QTreePushButton;
2210 cButton->setItem(item);
2211 cButton->setColumn(COLUMN_CLOSE_IMAGE);
2212 cButton->setToolTip(tr("close image"));
2213 cButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/exit.png")));
2214 connect(cButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2215 this,SLOT(CloseImage(QTreeWidgetItem*, int)));
2217 QTreePushButton* rButton = new QTreePushButton;
2218 rButton->setItem(item);
2219 rButton->setColumn(COLUMN_RELOAD_IMAGE);
2220 rButton->setToolTip(tr("reload image"));
2221 rButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/rotateright.png")));
2222 connect(rButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2223 this,SLOT(ReloadImage(QTreeWidgetItem*, int)));
2225 DataTree->topLevelItem(index)->setExpanded(1);
2226 DataTree->topLevelItem(index)->addChild(item);
2227 DataTree->setItemWidget(item, COLUMN_CLOSE_IMAGE, cButton);
2228 DataTree->setItemWidget(item, COLUMN_RELOAD_IMAGE, rButton);
2230 //set the id of the image
2231 QString id = DataTree->topLevelItem(index)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString();
2232 item->setData(COLUMN_IMAGE_NAME,Qt::UserRole,id.toStdString().c_str());
2234 qApp->processEvents();
2236 QApplication::restoreOverrideCursor();
2238 // Update the display to update, e.g., the sliders
2239 for(int i=0; i<4; i++)
2240 DisplaySliders(index, i);
2242 QApplication::restoreOverrideCursor();
2243 QString error = "Cannot import the new image.\n";
2244 error += mSlicerManagers[index]->GetLastError().c_str();
2245 QMessageBox::information(this,tr("Problem reading image !"),error);
2247 WindowLevelChanged();
2250 QMessageBox::information(this,tr("Problem reading Fusion !"),"File doesn't exist!");
2252 //------------------------------------------------------------------------------
2253 //------------------------------------------------------------------------------
2254 void vvMainWindow::AddLandmarks(int index, std::vector<std::string> files)
2256 if (!landmarksPanel->LoadFromFile(files))
2257 QMessageBox::information(this,tr("Problem reading Landmarks !"),"File doesn't exist!");
2259 landmarksPanel->SetCurrentPath(mInputPathName.toStdString());
2260 landmarksPanel->SetCurrentImage(mSlicerManagers[index]->GetFileName().c_str());
2263 //------------------------------------------------------------------------------
2264 void vvMainWindow::OpenField()
2266 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2267 //check if a vector field has already been added
2268 for (int child = 0; child < DataTree->topLevelItem(index)->childCount(); child++)
2269 if (DataTree->topLevelItem(index)->child(child)->data(1,Qt::UserRole).toString() == "vector") {
2270 QString error = "Cannot add more than one vector field\n";
2271 error += "Please remove first ";
2272 error += DataTree->topLevelItem(index)->child(child)->data(COLUMN_IMAGE_NAME,Qt::DisplayRole).toString();
2273 QMessageBox::information(this,tr("Problem adding vector field!"),error);
2277 QString Extensions = "Images ( *.mhd *.mha *.vf *.nii *.nrrd *.nhdr)";
2278 // Extensions += ";;Images ( *.mha)";
2279 // Extensions += ";;VF Images ( *.vf)";
2280 // Extensions += ";;nii Images ( *.nii)";
2281 // Extensions += ";;nrrd Images ( *.nrrd)";
2282 // Extensions += ";;nhdr Images ( *.nhdr)";
2283 Extensions += ";;All Files (*)";
2284 QString file = QFileDialog::getOpenFileName(this,tr("Load deformation field"),mInputPathName,Extensions);
2285 if (!file.isEmpty())
2286 AddField(file,index);
2288 //------------------------------------------------------------------------------
2291 //------------------------------------------------------------------------------
2292 void vvMainWindow::AddFieldEntry(QString filename,int index,bool from_disk)
2294 //create an item in the tree with good settings
2295 QTreeWidgetItem *item = new QTreeWidgetItem();
2296 item->setData(0,Qt::UserRole,filename.toStdString().c_str());
2297 item->setData(1,Qt::UserRole,tr("vector"));
2298 QFileInfo fileinfo(filename); //Do not show the path
2299 item->setData(COLUMN_IMAGE_NAME,Qt::DisplayRole,fileinfo.fileName());
2300 item->setToolTip(COLUMN_IMAGE_NAME, mSlicerManagers[index]->GetListOfAbsoluteFilePathInOneString("vector").c_str());
2301 qApp->processEvents();
2303 for (int j = 1; j <= 4; j++) {
2304 item->setData(j,Qt::CheckStateRole,DataTree->topLevelItem(index)->data(j,Qt::CheckStateRole));
2307 //Create the buttons for reload and close
2308 qApp->processEvents();
2309 QTreePushButton* cButton = new QTreePushButton;
2310 cButton->setItem(item);
2311 cButton->setColumn(COLUMN_CLOSE_IMAGE);
2312 cButton->setToolTip(tr("close vector field"));
2313 cButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/exit.png")));
2314 connect(cButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2315 this,SLOT(CloseImage(QTreeWidgetItem*, int)));
2317 QTreePushButton* rButton = new QTreePushButton;
2318 rButton->setItem(item);
2319 rButton->setColumn(COLUMN_RELOAD_IMAGE);
2320 rButton->setToolTip(tr("reload vector field"));
2321 rButton->setEnabled(from_disk);
2322 rButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/rotateright.png")));
2323 connect(rButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2324 this,SLOT(ReloadImage(QTreeWidgetItem*, int)));
2326 DataTree->topLevelItem(index)->setExpanded(1);
2327 DataTree->topLevelItem(index)->addChild(item);
2328 DataTree->setItemWidget(item, COLUMN_RELOAD_IMAGE, rButton);
2329 DataTree->setItemWidget(item, COLUMN_CLOSE_IMAGE, cButton);
2331 //set the id of the image
2332 QString id = DataTree->topLevelItem(index)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString();
2333 item->setData(COLUMN_IMAGE_NAME,Qt::UserRole,id.toStdString().c_str());
2335 qApp->processEvents();
2337 QApplication::restoreOverrideCursor();
2339 //------------------------------------------------------------------------------
2342 //------------------------------------------------------------------------------
2343 void vvMainWindow::AddField(vvImage::Pointer vf,QString file,int index)
2345 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
2346 vvSlicerManager* imageManager = mSlicerManagers[index];
2347 if (imageManager->SetVF(vf,file.toStdString())) {
2348 AddFieldEntry(file,index,false);
2349 #if VTK_MAJOR_VERSION > 5
2350 for ( unsigned int i = 0; i < mSlicerManagers[index]->GetNumberOfSlicers(); i++)
2351 mSlicerManagers[index]->GetSlicer(i)->ForceUpdateDisplayExtent();
2354 QString error = "Cannot import the vector field for this image.\n";
2355 error += imageManager->GetLastError().c_str();
2356 QMessageBox::information(this,tr("Problem reading VF !"),error);
2358 QApplication::restoreOverrideCursor();
2360 //------------------------------------------------------------------------------
2363 //------------------------------------------------------------------------------
2364 void vvMainWindow::AddField(QString file,int index)
2366 if (QFile::exists(file)) {
2367 mInputPathName = itksys::SystemTools::GetFilenamePath(file.toStdString()).c_str();
2369 //init the progress events
2370 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
2371 vvProgressDialog progress("Opening " + file.toStdString());
2372 qApp->processEvents();
2374 //read the vector and put it in the current mSlicerManager
2375 vvSlicerManager* imageManager = mSlicerManagers[index];
2376 qApp->processEvents();
2378 std::string filename = itksys::SystemTools::GetFilenameWithoutExtension(file.toStdString()).c_str();
2379 if (imageManager->SetVF(file.toStdString())) {
2380 imageManager->Render();
2381 AddFieldEntry(file,index,true);
2383 QApplication::restoreOverrideCursor();
2384 QString error = "Cannot import the vector field for this image.\n";
2385 error += imageManager->GetLastError().c_str();
2386 QMessageBox::information(this,tr("Problem reading VF !"),error);
2389 QMessageBox::information(this,tr("Problem reading VF !"),"File doesn't exist!");
2392 //------------------------------------------------------------------------------
2395 //------------------------------------------------------------------------------
2396 void vvMainWindow::SetVFProperty(int subsampling, int scale, int log, int width, double r, double g, double b)
2398 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2399 if (mSlicerManagers[index]->GetSlicer(0)->GetVF()) {
2400 for (int i = 0; i < 4; i++) {
2401 mSlicerManagers[index]->GetSlicer(i)->SetVFSubSampling(subsampling);
2402 mSlicerManagers[index]->GetSlicer(i)->SetVFScale(scale);
2403 mSlicerManagers[index]->GetSlicer(i)->SetVFWidth(width);
2404 mSlicerManagers[index]->GetSlicer(i)->SetVFColor(r,g,b);
2406 mSlicerManagers[index]->GetSlicer(i)->SetVFLog(1);
2408 mSlicerManagers[index]->GetSlicer(i)->SetVFLog(0);
2412 //------------------------------------------------------------------------------
2415 //------------------------------------------------------------------------------
2416 void vvMainWindow::SetOverlayProperty(int color, int linked, double window, double level)
2418 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2419 if (mSlicerManagers[index]->GetSlicer(0)->GetOverlay()) {
2420 mSlicerManagers[index]->SetOverlayColor(color);
2421 mSlicerManagers[index]->SetColorMap(0);
2422 mSlicerManagers[index]->SetLinkOverlayWindowLevel(linked);
2423 mSlicerManagers[index]->SetOverlayColorWindow(window);
2424 mSlicerManagers[index]->SetOverlayColorLevel(level);
2425 mSlicerManagers[index]->Render();
2428 //------------------------------------------------------------------------------
2430 //------------------------------------------------------------------------------
2431 void vvMainWindow::SetFusionProperty(int opacity, int thresOpacity, int colormap,double window, double level, bool showLegend)
2433 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2434 if (mSlicerManagers[index]->GetSlicer(0)->GetFusion()) {
2435 mSlicerManagers[index]->SetFusionColorMap(colormap);
2436 mSlicerManagers[index]->SetFusionOpacity(opacity);
2437 mSlicerManagers[index]->SetFusionThresholdOpacity(thresOpacity);
2438 mSlicerManagers[index]->SetFusionWindow(window);
2439 mSlicerManagers[index]->SetFusionLevel(level);
2440 mSlicerManagers[index]->SetFusionShowLegend(showLegend);
2441 mSlicerManagers[index]->SetColorMap(0);
2442 mSlicerManagers[index]->Render();
2445 //------------------------------------------------------------------------------
2448 //------------------------------------------------------------------------------
2449 void vvMainWindow::SelectFusionSequence()
2451 //get the index of the slicer manager of the main sequence (CT)
2452 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2453 //check if one overlay image is already associated
2454 for (int child = 0; child < DataTree->topLevelItem(index)->childCount(); child++)
2455 if ( (DataTree->topLevelItem(index)->child(child)->data(1,Qt::UserRole).toString() == "fusion") ||
2456 (DataTree->topLevelItem(index)->child(child)->data(1,Qt::UserRole).toString() == "fusionSequence") ) {
2457 QString error = "Cannot add more than one compared image\n";
2458 error += "Please remove first ";
2459 error += DataTree->topLevelItem(index)->child(child)->data(COLUMN_IMAGE_NAME,Qt::DisplayRole).toString();
2460 QMessageBox::information(this,tr("Problem adding compared image !"),error);
2464 QString Extensions = EXTENSIONS;
2465 Extensions += ";;All Files (*)";
2466 QStringList files = QFileDialog::getOpenFileNames(this,tr("Load Overlay image sequence"),mInputPathName,Extensions);
2467 if (files.isEmpty())
2470 std::vector<std::string> vecFileNames;
2471 for (int i = 0; i < files.size(); i++) {
2472 vecFileNames.push_back(files[i].toStdString());
2475 //associate the secondary sequence (US) to the main one
2476 AddFusionSequence(index,vecFileNames,vvImageReader::MERGEDWITHTIME);
2478 //------------------------------------------------------------------------------
2481 //------------------------------------------------------------------------------
2482 void vvMainWindow::SelectFusionSequenceCorrespondances()
2484 //make sure the index is right?
2485 //in the end, I should attach the temporal data to the right sequence!
2486 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2487 //in case the other sequence got selected, make sure we select the primary sequence
2488 if ( (!mSlicerManagers[index]->GetSlicer(0)->GetFusion()) && mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()>=0 ) {
2489 index = mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager();
2492 //open a dialog box to find a file
2493 //QString Extensions = EXTENSIONS;
2494 QString Extensions = ";;All Files (*)";
2495 QString fileName = QFileDialog::getOpenFileName(this,tr("Load respiratory signal for fused sequence"),mInputPathName,Extensions);
2496 if (fileName.isNull())
2499 //read it as a vector of values
2500 vnl_vector<double> tmpVect;
2503 file.open(fileName.toStdString().c_str());
2504 tmpVect.read_ascii(file);
2507 //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
2508 bool signalOK = true;
2509 unsigned nbFrameMain = mSlicerManagers[index]->GetImage()->GetTransform().size();
2510 unsigned nbFrameSecondary = mSlicerManagers[index]->GetFusionSequenceNbFrames();
2511 std::cout<<"nbFrameMain = "<<nbFrameMain<<", nbFrameSecondary= "<<nbFrameSecondary<<", signal size: "<<tmpVect.size()<<std::endl;
2512 std::vector<unsigned> temporalCorrespondances;
2513 if ( tmpVect.size() == nbFrameMain + nbFrameSecondary ) {
2514 for (unsigned i=0 ; i<tmpVect.size() ; i++) {
2515 if (i<nbFrameMain) { //first part of the file: i -> index in secondary seq.
2516 if ( tmpVect(i)<nbFrameSecondary ) temporalCorrespondances.push_back(tmpVect(i));
2517 else { signalOK=false; break; } //pointing outside the secondary sequence...
2519 else { //first part of the file -> index in secondary seq.
2520 if ( tmpVect(i)<nbFrameMain ) temporalCorrespondances.push_back(tmpVect(i));
2521 else { signalOK=false; break; } //pointing outside the secondary sequence...
2525 else {signalOK=false;}
2526 if (!signalOK) {//else, send a message to signal the failure...
2527 QString error = "The provided temporal correspondances is invalid - check tooltip.\n";
2528 error += "Ignoring file: " + fileName;
2529 QMessageBox::information(this,tr("Problem adding temporal correspondances!"),error);
2533 //for convenience, associate this sequence to both the current slicer manager, and to the linked one
2534 mSlicerManagers[index]->SetFusionSequenceCorrespondances(temporalCorrespondances);
2535 mSlicerManagers[ mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager() ]->SetFusionSequenceCorrespondances(temporalCorrespondances);
2536 overlayPanel->enableFusionSequenceTemporalSync();
2540 //------------------------------------------------------------------------------
2543 //------------------------------------------------------------------------------
2544 //when this function is called index is the slicer manager index corresponding to the main sequence (CT)
2545 //the files behind fileNames points to the data for the secondary sequence
2546 void vvMainWindow::AddFusionSequence(int index, std::vector<std::string> fileNames, vvImageReader::LoadedImageType type)
2548 QString file(fileNames[0].c_str());
2549 if (QFile::exists(file))
2551 mInputPathName = itksys::SystemTools::GetFilenamePath(file.toStdString()).c_str();
2552 itk::ImageIOBase::Pointer reader = itk::ImageIOFactory::CreateImageIO(
2553 file.toStdString().c_str(), itk::ImageIOFactory::ReadMode);
2554 std::sort (fileNames.begin(), fileNames.end());//make sure the files are sorted.
2555 reader->SetFileName(fileNames[0].c_str());
2556 reader->ReadImageInformation();
2557 std::string component = reader->GetComponentTypeAsString(reader->GetComponentType());
2558 int dimension = reader->GetNumberOfDimensions();
2559 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
2560 vvProgressDialog progress("Opening " + file.toStdString());
2561 qApp->processEvents();
2563 std::string filename = itksys::SystemTools::GetFilenameWithoutExtension(file.toStdString()).c_str();
2565 if (mSlicerManagers[index]->SetFusionSequence(fileNames,dimension, component,type)) {
2566 //create an item in the tree with good settings
2567 QTreeWidgetItem *item = new QTreeWidgetItem();
2568 item->setData(0,Qt::UserRole,file.toStdString().c_str());
2569 item->setData(1,Qt::UserRole,tr("fusionSequence"));
2571 QFileInfo fileinfo(file); //Do not show the path
2572 item->setData(COLUMN_IMAGE_NAME,Qt::DisplayRole,fileinfo.fileName());
2573 item->setToolTip(COLUMN_IMAGE_NAME, mSlicerManagers[index]->GetListOfAbsoluteFilePathInOneString("fusionSequence").c_str());
2574 qApp->processEvents();
2575 #if VTK_MAJOR_VERSION > 5
2576 for ( unsigned int i = 0; i < mSlicerManagers[index]->GetNumberOfSlicers(); i++)
2577 mSlicerManagers[index]->GetSlicer(i)->ForceUpdateDisplayExtent();
2579 for (int j = 1; j <= 4; j++) {
2580 item->setData(j,Qt::CheckStateRole,DataTree->topLevelItem(index)->data(j,Qt::CheckStateRole));
2583 //Create the buttons for reload and close
2584 qApp->processEvents();
2585 QTreePushButton* cButton = new QTreePushButton;
2586 cButton->setItem(item);
2587 cButton->setColumn(COLUMN_CLOSE_IMAGE);
2588 cButton->setToolTip(tr("close image"));
2589 cButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/exit.png")));
2590 connect(cButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2591 this,SLOT(CloseImage(QTreeWidgetItem*, int)));
2593 QTreePushButton* rButton = new QTreePushButton;
2594 rButton->setItem(item);
2595 rButton->setColumn(COLUMN_RELOAD_IMAGE);
2596 rButton->setToolTip(tr("reload image"));
2597 rButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/rotateright.png")));
2598 connect(rButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2599 this,SLOT(ReloadImage(QTreeWidgetItem*, int)));
2601 DataTree->topLevelItem(index)->setExpanded(1);
2602 DataTree->topLevelItem(index)->addChild(item);
2603 DataTree->setItemWidget(item, COLUMN_CLOSE_IMAGE, cButton);
2604 DataTree->setItemWidget(item, COLUMN_RELOAD_IMAGE, rButton);
2606 //store the original transform matrix
2607 int indexParent = GetSlicerIndexFromItem( DataTree->topLevelItem(index) );
2608 mSlicerManagers[indexParent]->SetFusionSequenceMainTransformMatrix( mSlicerManagers[indexParent]->GetSlicer(0)->GetImage()->GetTransform()[0]->GetMatrix() );
2610 //set the id of the image
2611 QString id = DataTree->topLevelItem(index)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString();
2612 item->setData(COLUMN_IMAGE_NAME,Qt::UserRole,id.toStdString().c_str());
2614 qApp->processEvents();
2616 //ImageInfoChanged();
2618 QApplication::restoreOverrideCursor();
2619 // Update the display to update, e.g., the sliders
2620 for(int i=0; i<4; i++)
2621 DisplaySliders(index, i);
2624 //This loads the secondary sequence (US) as an independent sequence
2625 LoadImages(fileNames, type);
2626 //reset the transforms to identity
2627 //FIX -- and set the thickness of the US slices to a large value (necessary for visualization purposes...)
2628 double sp_x, sp_y, sp_z;
2629 mSlicerManagers[indexParent]->GetImage()->GetVTKImages()[0]->GetSpacing(sp_x, sp_y, sp_z);
2630 sp_z = std::max(sp_x, std::max(sp_y, sp_z)) + 0.5; //
2631 for (unsigned i=0 ; i<mSlicerManagers.back()->GetImage()->GetTransform().size() ; i++) {
2632 sp_x = mSlicerManagers.back()->GetImage()->GetVTKImages()[i]->GetSpacing()[0];
2633 sp_y = mSlicerManagers.back()->GetImage()->GetVTKImages()[i]->GetSpacing()[1];
2634 mSlicerManagers.back()->GetImage()->GetVTKImages()[i]->SetSpacing( sp_x, sp_y, sp_z);
2635 mSlicerManagers.back()->GetImage()->GetTransform()[i]->Identity();
2636 mSlicerManagers.back()->GetImage()->GetTransform()[i]->Update();
2639 //automatically link both images...
2640 AddLink(mSlicerManagers[indexParent]->GetId().c_str(), mSlicerManagers.back()->GetId().c_str(), false);
2642 //tie the main and secondary sequences by raising flags and informing each another of their respective SlicerManager indices
2643 mSlicerManagers[indexParent]->SetFusionSequenceIndexOfLinkedManager(mSlicerManagers.size()-1);
2644 mSlicerManagers[indexParent]->SetFusionSequenceInvolvmentCode(0); //main sequence
2645 mSlicerManagers.back()->SetFusionSequenceIndexOfLinkedManager(indexParent);
2646 mSlicerManagers.back()->SetFusionSequenceInvolvmentCode(1); //secondary sequence
2647 for (unsigned i=0 ; i<4 ; i++) {
2648 mSlicerManagers.back()->GetSlicer(i)->SetFusionSequenceCode(1); //flag the slicers of the secondary sequence
2652 QApplication::restoreOverrideCursor();
2653 QString error = "Cannot import the new image.\n";
2654 error += mSlicerManagers[index]->GetLastError().c_str();
2655 QMessageBox::information(this,tr("Problem reading image !"),error);
2657 WindowLevelChanged();
2658 ImageInfoChanged(); //this internally calls WindowLevelChanged...
2661 QMessageBox::information(this,tr("Problem reading fusion sequence !"),"File doesn't exist!");
2666 //------------------------------------------------------------------------------
2669 //------------------------------------------------------------------------------
2670 //fusionSequenceFrameIndex and fusionSequenceNbFrames are relative to the secondary sequence (US)
2671 void vvMainWindow::SetFusionSequenceProperty(int fusionSequenceFrameIndex, bool spatialSyncFlag, unsigned int fusionSequenceNbFrames, bool temporalSyncFlag)
2673 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2675 if (!mSlicerManagers[index]->IsInvolvedInFusionSequence()) return;
2677 //check if the focus moved to the linked sequence, and in this case, select the master sequence instead
2678 if (!mSlicerManagers[index]->IsMainSequenceOfFusionSequence()) {
2679 index = mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager();
2681 int secondaryIndex = mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager();
2682 if (secondaryIndex==-1) return; //this should never happen
2683 if ( (!mSlicerManagers[index]->IsMainSequenceOfFusionSequence()) ||
2684 (!mSlicerManagers[secondaryIndex]->IsSecondarySequenceOfFusionSequence()) )
2685 {return;} //this should never happen, raise an exception?
2687 if (mSlicerManagers[index]->GetSlicer(0)->GetFusion()) {
2689 //First, if the spatialSync button is unchecked, then reposition the parent sequence (CT) in its original coordinate frame
2690 if ( (!spatialSyncFlag) && (mSlicerManagers[index]->GetFusionSequenceSpatialSyncFlag()) ) {
2691 for ( unsigned i=0 ; i<mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform().size() ; i++ ) {
2692 mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform()[i]->SetMatrix( mSlicerManagers[index]->GetFusionSequenceMainTransformMatrix() );
2693 mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform()[i]->Update();
2696 for (int i=0; i<mSlicerManagers[index]->GetNumberOfSlicers(); i++) {
2697 mSlicerManagers[index]->GetSlicer(i)->ForceUpdateDisplayExtent();
2698 mSlicerManagers[index]->GetSlicer(i)->Render();
2702 //then, update the property values in the slicer manager
2703 mSlicerManagers[index]->SetFusionSequenceLength(fusionSequenceNbFrames);
2704 mSlicerManagers[index]->SetFusionSequenceSpatialSyncFlag(spatialSyncFlag);
2705 mSlicerManagers[index]->SetFusionSequenceTemporalSyncFlag(temporalSyncFlag);
2706 mSlicerManagers[index]->SetFusionSequenceFrameIndex(fusionSequenceFrameIndex);
2708 //select the right frame of the US sequence
2709 mSlicerManagers[index]->SetFusionSequenceTSlice(fusionSequenceFrameIndex); //here, I should only update the overlayed sequence
2710 mSlicerManagers[secondaryIndex]->SetTSlice(fusionSequenceFrameIndex, false); //this should update the secondary sequence (individual version)
2712 //update the horizontal sliders of the main window
2713 overlayPanel->updateFusionSequenceSliderValueFromWindow(fusionSequenceFrameIndex, false);
2715 if (spatialSyncFlag) { //reslice the CT
2717 if (temporalSyncFlag) { //do the temporal synchronisation
2718 int mainSequenceFrameIndex=0;
2719 //estimate the TSlice to set to the CT
2720 unsigned nbFramesMain = mSlicerManagers[index]->GetImage()->GetTransform().size();
2721 mainSequenceFrameIndex = mSlicerManagers[index]->GetFusionSequenceCorrespondances()[ nbFramesMain + fusionSequenceFrameIndex];
2723 mSlicerManagers[index]->SetTSlice(mainSequenceFrameIndex, false);
2724 //warning, there is a loopback, and modification of the TSlice in main sequence forces an update of the TSlice in secondary, etc...
2728 //Set the transform matrix of the parent sequence (typically CT / 4DCT)
2729 vtkSmartPointer<vtkMatrix4x4> tmpMat = vtkSmartPointer<vtkMatrix4x4>::New();
2730 vtkMatrix4x4::Invert( mSlicerManagers[index]->GetFusionSequenceInitialTransformMatrixAtFrame(fusionSequenceFrameIndex), tmpMat );
2731 for ( unsigned i=0 ; i<mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform().size() ; i++ ) {
2732 mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform()[i]->SetMatrix( mSlicerManagers[index]->GetFusionSequenceMainTransformMatrix() );
2733 mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform()[i]->PreMultiply();
2734 mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform()[i]->Concatenate( tmpMat );
2735 mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform()[i]->Update();
2738 for (int i=0; i<mSlicerManagers[index]->GetNumberOfSlicers(); i++) {
2739 mSlicerManagers[index]->GetSlicer(i)->ForceUpdateDisplayExtent();
2740 mSlicerManagers[index]->GetSlicer(i)->Render();
2747 //------------------------------------------------------------------------------
2750 //------------------------------------------------------------------------------
2751 void vvMainWindow::SaveAs()
2753 if (DataTree->selectedItems()[0]->data(1,Qt::UserRole).toString() == "vector") {
2754 QMessageBox::warning(this,tr("Unsupported type"),tr("Sorry, saving a vector field is unsupported for the moment"));
2758 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2759 int dimension = mSlicerManagers[index]->GetDimension();
2760 QStringList OutputListeFormat;
2761 OutputListeFormat.clear();
2762 if (dimension == 1) {
2763 OutputListeFormat.push_back(".mhd");
2764 OutputListeFormat.push_back(".mha");
2766 if (dimension == 2) {
2767 OutputListeFormat.push_back(".bmp");
2768 OutputListeFormat.push_back(".png");
2769 OutputListeFormat.push_back(".jpeg");
2770 OutputListeFormat.push_back(".tif");
2771 OutputListeFormat.push_back(".mhd");
2772 OutputListeFormat.push_back(".mha");
2773 OutputListeFormat.push_back(".hdr");
2774 OutputListeFormat.push_back(".vox");
2775 } else if (dimension == 3) {
2776 OutputListeFormat.push_back(".mhd");
2777 OutputListeFormat.push_back(".mha");
2778 OutputListeFormat.push_back(".nii");
2779 OutputListeFormat.push_back(".nrrd");
2780 OutputListeFormat.push_back(".nhdr");
2781 OutputListeFormat.push_back(".hdr");
2782 OutputListeFormat.push_back(".vox");
2783 } else if (dimension == 4) {
2784 OutputListeFormat.push_back(".mhd");
2785 OutputListeFormat.push_back(".mha");
2786 OutputListeFormat.push_back(".nii");
2787 OutputListeFormat.push_back(".nrrd");
2788 OutputListeFormat.push_back(".nhdr");
2790 QString Extensions = "AllFiles(*.*)";
2791 for (int i = 0; i < OutputListeFormat.count(); i++) {
2792 Extensions += ";;Images ( *";
2793 Extensions += OutputListeFormat[i];
2796 QString fileName = QFileDialog::getSaveFileName(this,
2798 mSlicerManagers[index]->GetFileName().c_str(),
2800 if (!fileName.isEmpty()) {
2801 std::string fileformat = itksys::SystemTools::GetFilenameLastExtension(fileName.toStdString());
2802 if (OutputListeFormat.contains(
2803 fileformat.c_str())) {
2804 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
2805 std::string action = "Saving";
2806 vvProgressDialog progress("Saving "+fileName.toStdString());
2807 qApp->processEvents();
2808 vvImageWriter::Pointer writer = vvImageWriter::New();
2809 writer->SetOutputFileName(fileName.toStdString());
2810 writer->SetInput(mSlicerManagers[index]->GetImage());
2812 // Check on transform and prompt user
2813 writer->SetSaveTransform(false);
2815 for(int i=0; i<4; i++)
2816 for(int j=0; j<4; j++) {
2817 // TODO SR and BP: check on the list of transforms and not the first only
2818 double elt = mSlicerManagers[index]->GetImage()->GetTransform()[0]->GetMatrix()->GetElement(i,j);
2825 QString warning = "The image has an associated linear transform. Do you want to save it along?";
2826 QMessageBox msgBox(QMessageBox::Warning, tr("Save transform"), warning, 0, this);
2827 msgBox.addButton(tr("Yes"), QMessageBox::AcceptRole);
2828 msgBox.addButton(tr("No"), QMessageBox::RejectRole);
2829 if (msgBox.exec() == QMessageBox::AcceptRole)
2830 writer->SetSaveTransform(true);
2834 QApplication::restoreOverrideCursor();
2835 if (writer->GetLastError().size()) {
2836 QString error = "Saving did not succeed\n";
2837 error += writer->GetLastError().c_str();
2838 QMessageBox::information(this,tr("Saving Problem"),error);
2842 QString error = fileformat.c_str();
2843 if (error.isEmpty())
2844 error += "no file format specified !";
2846 error += " format unknown !!!\n";
2847 QMessageBox::information(this,tr("Saving Problem"),error);
2852 //------------------------------------------------------------------------------
2854 //------------------------------------------------------------------------------
2855 void vvMainWindow::SaveCurrentState()
2857 QString Extensions = "XML Files(*.xml)";
2858 QString fileName = QFileDialog::getSaveFileName(this,
2859 tr("Save Current Window State"),
2863 SaveCurrentStateAs(fileName.toStdString());
2865 //------------------------------------------------------------------------------
2867 //------------------------------------------------------------------------------
2868 void vvMainWindow::SaveCurrentStateAs(const std::string& stateFile)
2870 vvSaveState save_state;
2871 save_state.Run(this, stateFile);
2874 //------------------------------------------------------------------------------
2875 void vvMainWindow::ReadSavedState()
2877 QString Extensions = "XML Files(*.xml)";
2878 QString fileName = QFileDialog::getOpenFileName(this,
2879 tr("Load Window State"),
2883 ReadSavedStateFile(fileName.toStdString());
2885 //------------------------------------------------------------------------------
2887 //------------------------------------------------------------------------------
2888 void vvMainWindow::ReadSavedStateFile(const std::string& stateFile)
2890 vvReadState read_state;
2891 read_state.Run(this, stateFile);
2893 //------------------------------------------------------------------------------
2895 //------------------------------------------------------------------------------
2896 void vvMainWindow::LinkAllImages()
2898 linkPanel->linkAll();
2901 //------------------------------------------------------------------------------
2902 void vvMainWindow::AddLink(QString image1,QString image2,bool fromPanel)
2905 // delegate to linkPanel if call came from elsewhere...
2906 linkPanel->addLinkFromIds(image1, image2);
2910 unsigned int sm1 = 0;
2911 unsigned int sm2 = 0;
2913 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
2914 if (image1.toStdString() == mSlicerManagers[i]->GetId()) {
2915 mSlicerManagers[i]->AddLink(image2.toStdString());
2918 if (image2.toStdString() == mSlicerManagers[i]->GetId()) {
2919 mSlicerManagers[i]->AddLink(image1.toStdString());
2924 if (linkPanel->isLinkAll()) {
2925 emit UpdateLinkedNavigation(mSlicerManagers[sm1]->GetId(), mSlicerManagers[mCurrentPickedImageIndex], mSlicerManagers[mCurrentPickedImageIndex]->GetSlicer(0));
2926 emit UpdateLinkedNavigation(mSlicerManagers[sm2]->GetId(), mSlicerManagers[mCurrentPickedImageIndex], mSlicerManagers[mCurrentPickedImageIndex]->GetSlicer(0));
2928 emit UpdateLinkedNavigation(mSlicerManagers[sm2]->GetId(), mSlicerManagers[sm1], mSlicerManagers[sm1]->GetSlicer(0));
2932 //------------------------------------------------------------------------------
2935 //------------------------------------------------------------------------------
2936 void vvMainWindow::RemoveLink(QString image1,QString image2)
2938 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
2939 if (image1.toStdString() == mSlicerManagers[i]->GetId()) {
2940 mSlicerManagers[i]->RemoveLink(image2.toStdString());
2942 if (image2.toStdString() == mSlicerManagers[i]->GetId()) {
2943 mSlicerManagers[i]->RemoveLink(image1.toStdString());
2947 //------------------------------------------------------------------------------
2949 //------------------------------------------------------------------------------
2950 void vvMainWindow::ChangeImageWithIndexOffset(vvSlicerManager *sm, int slicer, int offset)
2952 if(mSlicerManagers.size()==1)
2956 while(sm != mSlicerManagers[index])
2958 index = (index+offset+mSlicerManagers.size()) % mSlicerManagers.size();
2960 QTreeWidgetItem* item = GetItemFromSlicerManager(mSlicerManagers[index]);
2961 item->setData(slicer+1,Qt::CheckStateRole,2); //change checkbox
2962 CurrentImageChanged(mSlicerManagers[index]->GetId()); //select new image
2963 DisplayChanged(item,slicer+1);
2965 //------------------------------------------------------------------------------
2966 void vvMainWindow::HorizontalSliderMoved(int value,int column, int slicer_index)
2968 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
2969 if (DataTree->topLevelItem(i)->data(column,Qt::CheckStateRole).toInt() > 1) {
2970 //i is the SlicerManager that is in charge of this slicer.
2971 if (mSlicerManagers[i]->IsInvolvedInFusionSequence()) {
2972 //if the slicerManager is involved in a fusionSequence as the secondary sequence, then update the slider position in the overlay panel and everything accordingly
2973 if (mSlicerManagers[i]->IsSecondarySequenceOfFusionSequence()) {
2974 overlayPanel->updateFusionSequenceSliderValueFromWindow(value, true);
2976 else { //if this is the primary sequence that has been modified
2977 if (mSlicerManagers[i]->GetFusionSequenceTemporalSyncFlag()) {
2978 //WARNING: for some obscure reason, there are problems when accessing mSlicerManagers[mSlicerManagers[i]->GetFusionSequenceIndexOfLinkedManager()]->GetFusionSequenceFrameIndex();
2980 int estimatedValue=0;
2981 //estimate a corresponding time index for the secondary (US) sequence, and update it accordingly.
2982 estimatedValue = mSlicerManagers[i]->GetFusionSequenceCorrespondances()[ value ];
2983 //TODO: at the moment, there is a loop in TSlice modifications
2984 //modifying sequence 1 causes seq 2 to update, which in turns update seq1...
2985 //I disable control on seq1 at the moment.
2986 //overlayPanel->updateFusionSequenceSliderValueFromWindow(estimatedValue, true);
2991 for (int j = 0; j < 4; j++) {
2992 mSlicerManagers[i]->SetTSliceInSlicer(value,j);
2994 mSlicerManagers[i]->GetSlicer(slicer_index)->Render();
2999 //------------------------------------------------------------------------------
3002 //------------------------------------------------------------------------------
3003 void vvMainWindow::NOHorizontalSliderMoved()
3005 // if (mCurrentTime == NOHorizontalSlider->value()) return;
3006 HorizontalSliderMoved(NOHorizontalSlider->value(),COLUMN_UL_VIEW,0);
3007 // mCurrentTime = NOHorizontalSlider->value();
3009 //------------------------------------------------------------------------------
3012 //------------------------------------------------------------------------------
3013 void vvMainWindow::NEHorizontalSliderMoved()
3015 // if (mCurrentTime == NEHorizontalSlider->value()) return;
3016 HorizontalSliderMoved(NEHorizontalSlider->value(),COLUMN_UR_VIEW,1);
3017 // mCurrentTime = NEHorizontalSlider->value();
3019 //------------------------------------------------------------------------------
3022 //------------------------------------------------------------------------------
3023 void vvMainWindow::SOHorizontalSliderMoved()
3025 // if (mCurrentTime == SOHorizontalSlider->value()) return;
3026 HorizontalSliderMoved(SOHorizontalSlider->value(),COLUMN_DL_VIEW,2);
3027 // mCurrentTime = SOHorizontalSlider->value();
3029 //------------------------------------------------------------------------------
3032 //------------------------------------------------------------------------------
3033 void vvMainWindow::SEHorizontalSliderMoved()
3035 // if (mCurrentTime == SEHorizontalSlider->value()) return;
3036 HorizontalSliderMoved(SEHorizontalSlider->value(),COLUMN_DR_VIEW,3);
3037 // mCurrentTime = SEHorizontalSlider->value();
3039 //------------------------------------------------------------------------------
3041 //------------------------------------------------------------------------------
3042 void vvMainWindow::NOVerticalSliderChanged()
3044 static int value=-1;
3045 if (value == NOVerticalSlider->value()) return;
3046 else value = NOVerticalSlider->value();
3047 // int value = NOVerticalSlider->value();
3048 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
3049 if (DataTree->topLevelItem(i)->data(COLUMN_UL_VIEW,Qt::CheckStateRole).toInt() > 1) {
3050 if (mSlicerManagers[i]->GetSlicer(0)->GetSlice() != value) {
3051 mSlicerManagers[i]->GetSlicer(0)->SetSlice(value);
3052 mSlicerManagers[i]->VerticalSliderHasChanged(0, value);
3054 // If nor Update/Render -> slider not work
3055 // only render = ok navigation, but for contour Update needed but slower ?
3057 mSlicerManagers[i]->UpdateSlice(0); // <-- DS add this. Not too much update ? YES. but needed for ImageContour ...
3058 //mSlicerManagers[i]->GetSlicer(0)->Render(); // <-- DS add this, needed for contour, seems ok ? not too slow ?
3064 //------------------------------------------------------------------------------
3067 //------------------------------------------------------------------------------
3068 void vvMainWindow::NEVerticalSliderChanged()
3070 static int value=-1;
3071 if (value == NEVerticalSlider->value()) return;
3072 else value = NEVerticalSlider->value();
3073 // int value = NEVerticalSlider->value();
3074 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
3075 if (DataTree->topLevelItem(i)->data(COLUMN_UR_VIEW,Qt::CheckStateRole).toInt() > 1) {
3076 if (mSlicerManagers[i]->GetSlicer(1)->GetSlice() != value) {
3077 mSlicerManagers[i]->GetSlicer(1)->SetSlice(value);
3078 mSlicerManagers[i]->VerticalSliderHasChanged(1, value);
3079 mSlicerManagers[i]->UpdateSlice(1);
3080 //mSlicerManagers[i]->GetSlicer(1)->Render(); // <-- DS add this, needed for contour, seems ok ? not too slow ?
3086 //------------------------------------------------------------------------------
3089 //------------------------------------------------------------------------------
3090 void vvMainWindow::SOVerticalSliderChanged()
3092 static int value=-1;
3093 if (value == SOVerticalSlider->value()) return;
3094 else value = SOVerticalSlider->value();
3095 //int value = SOVerticalSlider->value();
3096 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
3097 if (DataTree->topLevelItem(i)->data(COLUMN_DL_VIEW,Qt::CheckStateRole).toInt() > 1) {
3098 if (mSlicerManagers[i]->GetSlicer(2)->GetSlice() != value) {
3099 mSlicerManagers[i]->GetSlicer(2)->SetSlice(value);
3100 mSlicerManagers[i]->VerticalSliderHasChanged(2, value);
3101 mSlicerManagers[i]->UpdateSlice(2);
3102 //mSlicerManagers[i]->GetSlicer(2)->Render(); // <-- DS add this, needed for contour, seems ok ? not too slow ?
3104 // else { DD("avoid SOVerticalSlider slicer update"); }
3109 //------------------------------------------------------------------------------
3112 //------------------------------------------------------------------------------
3113 void vvMainWindow::SEVerticalSliderChanged()
3115 static int value=-1;
3116 if (value == SEVerticalSlider->value()) return;
3117 else value = SEVerticalSlider->value();
3118 // int value = SEVerticalSlider->value();
3119 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
3120 if (DataTree->topLevelItem(i)->data(COLUMN_DR_VIEW,Qt::CheckStateRole).toInt() > 1) {
3121 if (mSlicerManagers[i]->GetSlicer(3)->GetSlice() != value) {
3122 mSlicerManagers[i]->GetSlicer(3)->SetSlice(value);
3123 mSlicerManagers[i]->VerticalSliderHasChanged(3, value);
3124 mSlicerManagers[i]->UpdateSlice(3);
3125 //mSlicerManagers[i]->GetSlicer(3)->Render(); // <-- DS add this, needed for contour, seems ok ? not too slow ?
3131 //------------------------------------------------------------------------------
3134 //------------------------------------------------------------------------------
3135 void vvMainWindow::UpdateSlice(int slicer, int slice)
3137 // DD("vvMainWindow::UpdateSlice");
3141 // if (slice != NOVerticalSlider->value())
3142 NOVerticalSlider->setValue(slice);
3145 NEVerticalSlider->setValue(slice);
3148 SOVerticalSlider->setValue(slice);
3151 SEVerticalSlider->setValue(slice);
3155 // DD("vvMainWindow:UpdateSlice END");
3157 //------------------------------------------------------------------------------
3160 //------------------------------------------------------------------------------
3161 void vvMainWindow::UpdateTSlice(int slicer, int slice, int code)
3163 //FusionSequence: the slider value should be updated for slicers which show the same sequence as requested
3164 bool doUpdate=false;
3165 if (code==-1) doUpdate=true;
3167 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
3168 if (DataTree->topLevelItem(i)->data(slicer+1,Qt::CheckStateRole).toInt() > 1) {
3169 //i is the active SlicerManager
3170 if (mSlicerManagers[i]->GetFusionSequenceInvolvmentCode()==code) doUpdate=true;
3175 if (!doUpdate) return;
3179 if (NOHorizontalSlider->value()==slice) return;
3180 NOHorizontalSlider->setValue(slice);
3183 if (NEHorizontalSlider->value()==slice) return;
3184 NEHorizontalSlider->setValue(slice);
3187 if (SOHorizontalSlider->value()==slice) return;
3188 SOHorizontalSlider->setValue(slice);
3191 if (SEHorizontalSlider->value()==slice) return;
3192 SEHorizontalSlider->setValue(slice);
3196 //------------------------------------------------------------------------------
3199 //------------------------------------------------------------------------------
3200 void vvMainWindow::UpdateSliceRange(int slicer, int min, int max, int tmin, int tmax)
3202 //int position = int((min+max)/2);
3203 int position = mSlicerManagers[mCurrentPickedImageIndex]->GetSlicer(slicer)->GetSlice();
3205 NOVerticalSlider->setRange(min,max);
3206 NOHorizontalSlider->setRange(tmin,tmax);
3207 NOVerticalSlider->setValue(position);
3208 } else if (slicer == 1) {
3209 NEVerticalSlider->setRange(min,max);
3210 NEHorizontalSlider->setRange(tmin,tmax);
3211 NEVerticalSlider->setValue(position);
3212 } else if (slicer == 2) {
3213 SOVerticalSlider->setRange(min,max);
3214 SOHorizontalSlider->setRange(tmin,tmax);
3215 SOVerticalSlider->setValue(position);
3216 } else if (slicer == 3) {
3217 SEVerticalSlider->setRange(min,max);
3218 SEHorizontalSlider->setRange(tmin,tmax);
3219 SEVerticalSlider->setValue(position);
3222 //------------------------------------------------------------------------------
3225 //------------------------------------------------------------------------------
3226 void vvMainWindow::SaveNOScreenshot()
3228 SaveScreenshot(NOViewWidget);
3230 //------------------------------------------------------------------------------
3233 //------------------------------------------------------------------------------
3234 void vvMainWindow::SaveNEScreenshot()
3236 SaveScreenshot(NEViewWidget);
3238 //------------------------------------------------------------------------------
3241 //------------------------------------------------------------------------------
3242 void vvMainWindow::SaveSOScreenshot()
3244 SaveScreenshot(SOViewWidget);
3246 //------------------------------------------------------------------------------
3249 //------------------------------------------------------------------------------
3250 void vvMainWindow::SaveSEScreenshot()
3252 SaveScreenshot(SEViewWidget);
3254 //------------------------------------------------------------------------------
3257 //------------------------------------------------------------------------------
3258 void vvMainWindow::SaveScreenshotAllSlices()
3260 QVTKWidget *widget = NOViewWidget;
3262 int index = 0;// GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
3263 vvSlicerManager * SM = mSlicerManagers[index];
3264 vvImage * image = SM->GetImage();
3265 vvSlicer * slicer = SM->GetSlicer(0);
3266 int orientation = slicer->GetOrientation();
3267 int nbSlices = image->GetSize()[orientation];
3268 vtkSmartPointer<vtkRenderWindow> renderWindow = widget->GetRenderWindow();
3270 // Select filename base
3271 QString filename = QFileDialog::getSaveFileName(this,
3272 tr("Save As (filename will be completed by slice number)"),
3273 itksys::SystemTools::GetFilenamePath(mSlicerManagers[index]->GetFileName()).c_str(),
3274 "Images( *.png);;Images( *.jpg)");
3277 for(int i=0; i<nbSlices; i++) {
3279 slicer->SetSlice(i); // -> change the slice of the current slicer
3280 SM->UpdateSlice(0); // --> this one emit UpdateSlice
3281 QCoreApplication::flush(); // -> needed to force display of contours
3284 vtkSmartPointer<vtkWindowToImageFilter> windowToImageFilter = vtkSmartPointer<vtkWindowToImageFilter>::New();
3285 windowToImageFilter->SetInput(renderWindow);
3286 windowToImageFilter->SetMagnification(1);
3287 windowToImageFilter->SetInputBufferTypeToRGBA(); //also record the alpha (transparency) channel
3288 windowToImageFilter->Update();
3290 vtkSmartPointer<vtkPNGWriter> writer = vtkSmartPointer<vtkPNGWriter>::New();
3291 std::string fn = itksys::SystemTools::GetFilenameWithoutLastExtension(filename.toStdString());
3292 std::string num = clitk::toString(i);
3293 if (i<10) num = "0"+num;
3294 if (i<100) num = "0"+num;
3295 if (i<1000) num = "0"+num;
3297 fn = itksys::SystemTools::GetFilenamePath(filename.toStdString()) + "/"+ fn
3298 + "_" + num + itksys::SystemTools::GetFilenameLastExtension(filename.toStdString());
3299 writer->SetFileName(fn.c_str());
3300 #if VTK_MAJOR_VERSION <= 5
3301 writer->SetInput(windowToImageFilter->GetOutput());
3303 writer->SetInputConnection(windowToImageFilter->GetOutputPort());
3308 //------------------------------------------------------------------------------
3311 //------------------------------------------------------------------------------
3312 void vvMainWindow::SaveScreenshot(QVTKWidget *widget)
3314 QString Extensions = "Images( *.png);;";
3315 Extensions += "Images( *.jpg);;";
3316 Extensions += "Images( *.bmp);;";
3317 Extensions += "Images( *.tif);;";
3318 Extensions += "Images( *.ppm)";
3319 #if defined(VTK_USE_FFMPEG_ENCODER) || defined(VTK_USE_VIDEO_FOR_WINDOWS)
3320 Extensions += ";;Video( *.avi)";
3322 #ifdef VTK_USE_MPEG2_ENCODER
3323 Extensions += ";;Video( *.mpg)";
3325 #ifdef CLITK_EXPERIMENTAL
3326 Extensions += ";;Video( *.gif)";
3329 int smIndex=GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
3330 QString fileName = QFileDialog::getSaveFileName(this,
3332 itksys::SystemTools::GetFilenamePath(mSlicerManagers[smIndex]->GetFileName()).c_str(),
3335 if (!fileName.isEmpty()) {
3336 vtkSmartPointer<vtkWindowToImageFilter> w2i = vtkSmartPointer<vtkWindowToImageFilter>::New();
3337 w2i->SetInput(widget->GetRenderWindow());
3339 vtkImageData *image = w2i->GetOutput();
3341 std::string ext(itksys::SystemTools::GetFilenameLastExtension(fileName.toStdString()));
3344 vtkImageWriter *imgwriter = NULL;
3346 imgwriter = vtkBMPWriter::New();
3347 else if (ext==".tif")
3348 imgwriter = vtkTIFFWriter::New();
3349 else if (ext==".ppm")
3350 imgwriter = vtkPNMWriter::New();
3351 else if (ext==".png")
3352 imgwriter = vtkPNGWriter::New();
3353 else if (ext==".jpg")
3354 imgwriter = vtkJPEGWriter::New();
3356 // Snapshot image if not null
3357 if(imgwriter!=NULL) {
3358 #if VTK_MAJOR_VERSION <= 5
3359 imgwriter->SetInput(image);
3361 imgwriter->SetInputConnection(w2i->GetOutputPort());
3363 imgwriter->SetFileName(fileName.toStdString().c_str());
3369 vtkGenericMovieWriter *vidwriter = NULL;
3370 #if CLITK_EXPERIMENTAL == 1
3372 vvAnimatedGIFWriter *gif = vvAnimatedGIFWriter::New();
3377 int fps = QInputDialog::getInt(this, tr("Number of frames per second"),
3378 tr("FPS:"), 5, 0, 1000, 1, &ok);
3383 int loops = QInputDialog::getInt(this, tr("Loops"),
3384 tr("Number of loops (0 means infinite):"), 0, 0, 1000000000, 1, &ok);
3386 gif->SetLoops(loops);
3389 QString msg = "Would you like to activate dithering?";
3390 QMessageBox msgBox(QMessageBox::Question, tr("Dithering"),msg, 0, this);
3391 msgBox.addButton(tr("Yes"), QMessageBox::AcceptRole);
3392 msgBox.addButton(tr("No"), QMessageBox::RejectRole);
3393 gif->SetDither(msgBox.exec() == QMessageBox::AcceptRole);
3396 #ifdef VTK_USE_VIDEO_FOR_WINDOWS
3398 vtkAVIWriter *mpg = vtkAVIWriter::New();
3402 int fps = QInputDialog::getInteger(this, tr("Number of frames per second"),
3403 tr("FPS:"), 5, 0, 1024, 1, &ok);
3409 #ifdef VTK_USE_FFMPEG_ENCODER
3411 vtkFFMPEGWriter *mpg = vtkFFMPEGWriter::New();
3415 int fps = QInputDialog::getInteger(this, tr("Number of frames per second"),
3416 tr("FPS:"), 5, 0, 1024, 1, &ok);
3420 mpg->SetBitRateTolerance(int(ceil(12.0*1024*1024/fps)));
3423 #ifdef VTK_USE_MPEG2_ENCODER
3425 vtkMPEG2Writer *mpg = vtkMPEG2Writer::New();
3430 // Take video if not null
3431 if(vidwriter!=NULL){
3432 #if VTK_MAJOR_VERSION <= 5
3433 vidwriter->SetInput(image);
3435 vidwriter->SetInputConnection(w2i->GetOutputPort());
3437 vidwriter->SetFileName(fileName.toStdString().c_str());
3439 int nSlice = mSlicerManagers[smIndex]->GetSlicer(0)->GetTMax();
3440 for(int i=0; i<=nSlice; i++) {
3441 mSlicerManagers[smIndex]->SetNextTSlice(0);
3442 vtkSmartPointer<vtkWindowToImageFilter> w2i = vtkSmartPointer<vtkWindowToImageFilter>::New();
3443 w2i->SetInput(widget->GetRenderWindow());
3445 #if VTK_MAJOR_VERSION <= 5
3446 vidwriter->SetInput(w2i->GetOutput());
3448 vidwriter->SetInputConnection(w2i->GetOutputPort());
3453 vidwriter->Delete();
3457 QMessageBox::information(this,tr("Problem saving screenshot !"),tr("Cannot save image.\nPlease set a file extension !!!"));
3460 //------------------------------------------------------------------------------
3463 //------------------------------------------------------------------------------
3464 void vvMainWindow::GoToCursor()
3466 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
3467 for (int column = 1; column < 5; column++) {
3468 if (DataTree->selectedItems()[0]->data(column,Qt::CheckStateRole).toInt() > 1) {
3469 double* cursorPos = mSlicerManagers[index]->GetSlicer(column-1)->GetCursorPosition();
3470 mSlicerManagers[index]->GetSlicer(column-1)->SetCurrentPosition(
3471 cursorPos[0],cursorPos[1],cursorPos[2],cursorPos[3]);
3472 mSlicerManagers[index]->UpdateViews(1,column-1);
3473 mSlicerManagers[index]->UpdateLinked(column-1);
3478 //------------------------------------------------------------------------------
3480 //------------------------------------------------------------------------------
3481 void vvMainWindow::GoToLandmark()
3483 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
3484 for (int column = 1; column < 5; column++) {
3485 if (DataTree->selectedItems()[0]->data(column,Qt::CheckStateRole).toInt() > 1) {
3486 double* cursorPos = landmarksPanel->GetSelectedPoint();
3487 mSlicerManagers[index]->GetSlicer(column-1)->SetCurrentPosition(
3488 cursorPos[0],cursorPos[1],cursorPos[2],cursorPos[3]);
3489 mSlicerManagers[index]->UpdateViews(1,column-1);
3490 mSlicerManagers[index]->UpdateLinked(column-1);
3495 //------------------------------------------------------------------------------
3497 //------------------------------------------------------------------------------
3498 void vvMainWindow::PlayPause()
3502 playButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/player_play.png")));
3506 int image_number=DataTree->topLevelItemCount();
3508 for (int i=0; i<image_number; i++)
3509 if (mSlicerManagers[i]->GetSlicer(0)->GetTMax() > 0) {
3515 playButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/player_pause.png")));
3516 QTimer::singleShot(1000/mFrameRate, this, SLOT(PlayNext()));
3520 //------------------------------------------------------------------------------
3522 //------------------------------------------------------------------------------
3523 void vvMainWindow::PlayNext()
3525 if (playMode && !this->isHidden()) {
3526 int image_number=DataTree->topLevelItemCount();
3527 ///Only play one slicer per SM, and only if the SM is being displayed
3528 for (int i=0; i<image_number; i++)
3529 for (int j=0; j<4; j++)
3530 if (mSlicerManagers[i]->GetSlicer(0)->GetTMax() > 0 &&
3531 DataTree->topLevelItem(i)->data(j+1,Qt::CheckStateRole).toInt() > 0) {
3532 mSlicerManagers[i]->SetNextTSlice(j);
3535 QTimer::singleShot(1000/mFrameRate, this, SLOT(PlayNext()));
3538 //------------------------------------------------------------------------------
3540 void vvMainWindow::ShowLastImage()
3542 if (mSlicerManagers.size() > 1) {
3543 QTreeWidgetItem * item=DataTree->topLevelItem(DataTree->topLevelItemCount()-1);
3544 CurrentImageChanged(mSlicerManagers.back()->GetId()); //select new image
3545 item->setData(1,Qt::CheckStateRole,2); //show the new image in the first panel
3546 //mSlicerManagers[GetSlicerIndexFromItem(item)]->GetSlicer(0)->SetActorVisibility("image", 0, 1); //Set the Last Image visibles
3547 DisplayChanged(item,1);
3551 //------------------------------------------------------------------------------
3552 void vvMainWindow::UpdateRenderWindows()
3554 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
3555 mSlicerManagers[i]->GetSlicer(0)->UpdateLandmarks();
3556 mSlicerManagers[i]->GetSlicer(1)->UpdateLandmarks();
3557 mSlicerManagers[i]->GetSlicer(2)->UpdateLandmarks();
3558 mSlicerManagers[i]->GetSlicer(3)->UpdateLandmarks();
3560 if (NOViewWidget->GetRenderWindow()) NOViewWidget->GetRenderWindow()->Render();
3561 if (NEViewWidget->GetRenderWindow()) NEViewWidget->GetRenderWindow()->Render();
3562 if (SOViewWidget->GetRenderWindow()) SOViewWidget->GetRenderWindow()->Render();
3563 if (SEViewWidget->GetRenderWindow()) SEViewWidget->GetRenderWindow()->Render();
3565 //------------------------------------------------------------------------------
3567 //------------------------------------------------------------------------------
3568 void vvMainWindow::SegmentationOnCurrentImage()
3570 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
3572 vvSegmentationDialog segmentation;
3573 segmentation.SetImage(mSlicerManagers[index]->GetSlicer(0)->GetImage());
3574 segmentation.exec();
3576 //------------------------------------------------------------------------------
3578 void vvMainWindow::SurfaceViewerLaunch()
3580 vvSurfaceViewerDialog surfaceViewer;
3581 surfaceViewer.exec();
3583 //------------------------------------------------------------------------------
3586 //------------------------------------------------------------------------------
3587 int vvMainWindow::GetImageDuplicateFilenameNumber(std::string filename)
3590 for(unsigned int l=0; l<mSlicerManagers.size(); l++) {
3591 vvSlicerManager * v = mSlicerManagers[l];
3592 if (v->GetBaseFileName() ==
3593 vtksys::SystemTools::GetFilenameName(vtksys::SystemTools::GetFilenameWithoutLastExtension(filename))) {
3594 number = std::max(number, v->GetBaseFileNameNumber()+1);
3599 //------------------------------------------------------------------------------
3602 //------------------------------------------------------------------------------
3603 vvSlicerManager* vvMainWindow::AddImage(vvImage::Pointer image,std::string filename)
3605 // Change filename if another image exist with the same name
3606 int number = GetImageDuplicateFilenameNumber(filename);
3608 // Create new SliceManager
3609 vvSlicerManager* slicer_manager = new vvSlicerManager(4);
3610 slicer_manager->SetImage(image);//, IMAGE, number);
3611 // filename = filename+"_"+clitk::toString(number);
3612 slicer_manager->SetFilename(filename, number);
3613 mSlicerManagers.push_back(slicer_manager);
3615 //create an item in the tree with good settings
3616 QTreeWidgetItem *item = new QTreeWidgetItem();
3617 item->setData(0,Qt::UserRole,slicer_manager->GetFileName().c_str());//files[i].c_str());
3618 item->setData(1,Qt::UserRole,tr("image"));
3619 item->setData(COLUMN_IMAGE_NAME,Qt::DisplayRole,slicer_manager->GetFileName().c_str());//filename.c_str());
3620 qApp->processEvents();
3622 for (int j = 1; j <= 4; j++) item->setData(j,Qt::CheckStateRole,1);
3624 //Create the buttons for reload and close
3625 qApp->processEvents();
3626 QTreePushButton* cButton = new QTreePushButton;
3627 cButton->setItem(item);
3628 cButton->setColumn(COLUMN_CLOSE_IMAGE);
3629 cButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/exit.png")));
3630 connect(cButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
3631 this,SLOT(CloseImage(QTreeWidgetItem*, int)));
3633 QTreePushButton* rButton = new QTreePushButton;
3634 rButton->setItem(item);
3635 rButton->setColumn(COLUMN_RELOAD_IMAGE);
3636 rButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/rotateright.png")));
3637 rButton->setEnabled(0);
3638 connect(rButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
3639 this,SLOT(ReloadImage(QTreeWidgetItem*, int)));
3641 DataTree->addTopLevelItem(item);
3642 DataTree->setItemWidget(item, COLUMN_CLOSE_IMAGE, cButton);
3643 DataTree->setItemWidget(item, COLUMN_RELOAD_IMAGE, rButton);
3645 //set the id of the image
3646 QString id = QDir::current().absoluteFilePath(slicer_manager->GetFileName().c_str()) + QString::number(mSlicerManagers.size()-1);
3647 item->setData(COLUMN_IMAGE_NAME,Qt::UserRole,id.toStdString().c_str());
3648 mSlicerManagers.back()->SetId(id.toStdString());
3650 linkPanel->addImage(slicer_manager->GetFileName().c_str()// filename
3651 , id.toStdString());
3653 connect(mSlicerManagers.back(), SIGNAL(currentImageChanged(std::string)),
3654 this, SLOT(CurrentImageChanged(std::string)));
3655 connect(mSlicerManagers.back(), SIGNAL(currentPickedImageChanged(std::string)),
3656 this, SLOT(CurrentPickedImageChanged(std::string)));
3657 connect(mSlicerManagers.back(), SIGNAL(UpdatePosition(int, double, double, double, double, double, double, double)),
3658 this, SLOT(MousePositionChanged(int,double, double, double, double, double, double, double)));
3659 connect(mSlicerManagers.back(), SIGNAL(UpdateVector(int, double, double, double, double)),
3660 this, SLOT(VectorChanged(int,double,double,double, double)));
3661 connect(mSlicerManagers.back(), SIGNAL(UpdateOverlay(int, double, double)),
3662 this, SLOT(OverlayChanged(int,double,double)));
3663 connect(mSlicerManagers.back(), SIGNAL(UpdateFusion(int, double)),
3664 this, SLOT(FusionChanged(int,double)));
3665 //connect(mSlicerManagers.back(), SIGNAL(UpdateFusionSequence(int, bool, unsigned int)),
3666 // this, SLOT(FusionSequenceChanged(int, bool, unsigned int)));
3667 connect(mSlicerManagers.back(), SIGNAL(WindowLevelChanged()),
3668 this,SLOT(WindowLevelChanged()));
3669 connect(mSlicerManagers.back(), SIGNAL(UpdateSlice(int,int)),
3670 this,SLOT(UpdateSlice(int,int)));
3671 connect(mSlicerManagers.back(), SIGNAL(UpdateTSlice(int, int, int)),
3672 this,SLOT(UpdateTSlice(int, int, int)));
3673 connect(mSlicerManagers.back(), SIGNAL(UpdateTSlice(int, int, int)),
3674 this,SLOT(ImageInfoChanged()));
3675 connect(mSlicerManagers.back(), SIGNAL(UpdateSliceRange(int,int,int,int,int)),
3676 this,SLOT(UpdateSliceRange(int,int,int,int,int)));
3677 connect(mSlicerManagers.back(), SIGNAL(UpdateLinkManager(std::string,int,double,double,double,int)),
3678 this,SLOT(UpdateLinkManager(std::string,int,double,double,double,int)));
3679 connect(mSlicerManagers.back(), SIGNAL(UpdateLinkedNavigation(std::string,vvSlicerManager*,vvSlicer*)),
3680 this,SLOT(UpdateLinkedNavigation(std::string,vvSlicerManager*,vvSlicer*)));
3681 connect(mSlicerManagers.back(), SIGNAL(ChangeImageWithIndexOffset(vvSlicerManager*,int,int)),
3682 this,SLOT(ChangeImageWithIndexOffset(vvSlicerManager*,int,int)));
3683 connect(mSlicerManagers.back(), SIGNAL(LandmarkAdded()),landmarksPanel,SLOT(AddPoint()));
3689 qApp->processEvents();
3692 qApp->processEvents();
3695 return slicer_manager;
3697 //------------------------------------------------------------------------------
3700 //------------------------------------------------------------------------------
3701 void vvMainWindow::UpdateCurrentSlicer()
3704 if (DataTree->selectedItems().size() > 0) {
3705 index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
3707 mSlicerManagerCurrentIndex = index;
3709 //------------------------------------------------------------------------------