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 #if CLITK_USE_PACS_CONNECTION
52 #include "vvQPacsConnection.h"
54 #include "clitkConfiguration.h"
55 #include "clitkMatrix.h"
57 # include "vvOSXHelper.h"
62 #include <itkImageFileReader.h>
63 #include <itkByteSwapper.h>
64 #include <itkCommand.h>
65 #include <itkNumericSeriesFileNames.h>
68 #include <vtkImageMapper3D.h>
69 #include <vtkInformation.h>
70 #include <vtkVersion.h>
71 #include <vtkImageData.h>
72 #include <vtkImageActor.h>
73 #include <vtkCornerAnnotation.h>
74 #include <vtkRenderWindow.h>
75 #include <vtkRenderWindowInteractor.h>
76 #include <vtkRenderer.h>
77 #include <vtkRendererCollection.h>
78 #include <vtkWindowToImageFilter.h>
79 #include <vtkBMPWriter.h>
80 #include <vtkTIFFWriter.h>
81 #include <vtkPNMWriter.h>
82 #include <vtkPNGWriter.h>
83 #include <vtkJPEGWriter.h>
84 #include <vtkGenericMovieWriter.h>
85 #include <vvAnimatedGIFWriter.h>
86 #ifdef VTK_USE_VIDEO_FOR_WINDOWS
87 # include <vtkAVIWriter.h>
89 #ifdef VTK_USE_FFMPEG_ENCODER
90 # include <vtkFFMPEGWriter.h>
92 #ifdef VTK_USE_MPEG2_ENCODER
93 # include <vtkMPEG2Writer.h>
95 #include <vtkMatrix4x4.h>
96 #include <vtkTransform.h>
104 #define COLUMN_TREE 0
105 #define COLUMN_UL_VIEW 1
106 #define COLUMN_UR_VIEW 2
107 #define COLUMN_DL_VIEW 3
108 #define COLUMN_DR_VIEW 4
109 #define COLUMN_CLOSE_IMAGE 5
110 #define COLUMN_RELOAD_IMAGE 6
111 #define COLUMN_IMAGE_NAME 7
113 #ifdef CLITK_PRIVATE_FEATURES
114 #define EXTENSIONS "Images ( *.bmp *.dcm *.png *.jpeg *.jpg *.tif *.mhd *.mha *.hdr *.vox *.his *.xdr *.SCAN *.nii *.nrrd *.nhdr *.refscan *.nii.gz *.usf *.svl)"
116 #define EXTENSIONS "Images ( *.bmp *.dcm *.png *.jpeg *.jpg *.tif *.mhd *.mha *.hdr *.vox *.his *.xdr *.SCAN *.nii *.nrrd *.nhdr *.refscan *.nii.gz)"
121 0,Qt::UserRole full filename
122 1,Qt::CheckStateRole checkbutton UL View
123 1,Qt::UserRole overlay, fusion or vector
124 2,Qt::CheckStateRole checkbutton UR View
125 3,Qt::CheckStateRole checkbutton DL View
126 4,Qt::CheckStateRole checkbutton DR View
128 5,Qt::UserRole mSlicerManager id*/
130 //------------------------------------------------------------------------------
131 vvMainWindow::vvMainWindow():vvMainWindowBase()
133 setupUi(this); // this sets up the GUI
137 //Qt::WindowFlags flags = windowFlags();
138 //setWindowFlags(flags | Qt::WindowStaysOnTopHint);
141 mMenuTools = menuTools;
142 // mMenuSegmentation = menuSegmentation;
143 mContextMenu = &contextMenu;
144 mMenuExperimentalTools = menuExperimental;
147 mCurrentSelectedImageId = "";
148 mCurrentPickedImageId = "";
149 mCurrentPickedImageIndex = 0;
151 //Init the contextMenu
152 this->setContextMenuPolicy(Qt::CustomContextMenu);
153 contextActions.resize(0);
154 QAction* actionOpen_new_image = contextMenu.addAction(QIcon(QString::fromUtf8(":/common/icons/fileopen.png")),
155 tr("O&pen new Image"));
156 connect(actionOpen_new_image,SIGNAL(triggered()),this,SLOT(OpenImages()));
157 contextActions.push_back(actionOpen_new_image);
158 contextMenu.addSeparator();
160 QAction* actionClose_Image = contextMenu.addAction(QIcon(QString::fromUtf8(":/common/icons/exit.png")),
161 tr("Close Current Image"));
162 connect(actionClose_Image,SIGNAL(triggered()),this,SLOT(CloseImage()));
163 contextActions.push_back(actionClose_Image);
165 QAction* actionReload_image = contextMenu.addAction(QIcon(QString::fromUtf8(":/common/icons/rotateright.png")),
166 tr("Reload Current Image"));
167 connect(actionReload_image,SIGNAL(triggered()),this,SLOT(ReloadImage()));
168 contextActions.push_back(actionReload_image);
170 QAction* actionSave_image = contextMenu.addAction(QIcon(QString::fromUtf8(":/common/icons/filesave.png")),
171 tr("Save Current Image"));
172 connect(actionSave_image,SIGNAL(triggered()),this,SLOT(SaveAs()));
173 contextActions.push_back(actionSave_image);
175 QAction* actionSave_state = contextMenu.addAction(QIcon(QString::fromUtf8(":/common/icons/filesave.png")),
176 tr("Save Current State"));
177 connect(actionSave_state,SIGNAL(triggered()),this,SLOT(SaveCurrentState()));
178 contextActions.push_back(actionSave_state);
180 QAction* actionRead_state = contextMenu.addAction(QIcon(QString::fromUtf8(":/common/icons/filesave.png")),
181 tr("Read Saved State"));
182 connect(actionRead_state,SIGNAL(triggered()),this,SLOT(ReadSavedState()));
183 contextActions.push_back(actionRead_state);
185 contextMenu.addSeparator();
187 contextMenu.addAction(actionAdd_VF_to_current_Image);
188 contextActions.push_back(actionAdd_VF_to_current_Image);
190 //QAction* actionAdd_Overlay_to_current_Image = menuOverlay->addAction(QIcon(QString::fromUtf8(":/common/icons/GPSup.png")),
191 // tr("Add overlay image to current image"));
192 contextMenu.addAction(actionAdd_overlay_image_to_current_image);
193 contextActions.push_back(actionAdd_overlay_image_to_current_image);
195 contextMenu.addAction(actionAdd_fusion_image);
196 contextActions.push_back(actionAdd_fusion_image);
198 #ifdef CLITK_EXPERIMENTAL
199 contextMenu.addAction(actionAdd_USSequence_toCT);
200 contextActions.push_back(actionAdd_USSequence_toCT);
204 contextMenu.addSeparator();
205 QAction* actionResetMatrix = contextMenu.addAction(QIcon(QString::fromUtf8(":/common/icons/identity.png")),
206 tr("Reset transformation to identity"));
207 connect(actionResetMatrix, SIGNAL(triggered()), this,SLOT(ResetTransformationToIdentity()));
210 mSlicerManagers.resize(0);
220 header.append("Name");
222 DataTree->setHeaderLabels(header);
223 DataTree->resizeColumnToContents(COLUMN_TREE);
224 DataTree->resizeColumnToContents(COLUMN_UL_VIEW);
225 DataTree->resizeColumnToContents(COLUMN_UR_VIEW);
226 DataTree->resizeColumnToContents(COLUMN_DL_VIEW);
227 DataTree->resizeColumnToContents(COLUMN_DR_VIEW);
228 DataTree->resizeColumnToContents(COLUMN_CLOSE_IMAGE);
229 DataTree->resizeColumnToContents(COLUMN_RELOAD_IMAGE);
230 DataTree->resizeColumnToContents(COLUMN_IMAGE_NAME);
233 documentation = new vvDocumentation();
234 help_dialog = new vvHelpDialog();
235 dicomSeriesSelector = new vvDicomSeriesSelector();
236 #if CLITK_USE_PACS_CONNECTION
237 PacsConnection = new vvQPacsConnection();
240 inverseButton->setEnabled(0);
241 actionAdd_overlay_image_to_current_image->setEnabled(0);
242 actionSave_As->setEnabled(0);
243 actionAdd_VF_to_current_Image->setEnabled(0);
244 actionAdd_fusion_image->setEnabled(0);
245 actionAdd_USSequence_toCT->setEnabled(0);
248 verticalSliders.push_back(NOVerticalSlider);
249 verticalSliders.push_back(NEVerticalSlider);
250 verticalSliders.push_back(SOVerticalSlider);
251 verticalSliders.push_back(SEVerticalSlider);
253 for (int i =0; i < 4; i++)
254 verticalSliders[i]->hide();
256 horizontalSliders.push_back(NOHorizontalSlider);
257 horizontalSliders.push_back(NEHorizontalSlider);
258 horizontalSliders.push_back(SOHorizontalSlider);
259 horizontalSliders.push_back(SEHorizontalSlider);
261 for (int i =0; i < 4; i++)
262 horizontalSliders[i]->hide();
265 connect(NOVerticalSlider,SIGNAL(valueChanged(int)),this,SLOT(NOVerticalSliderChanged()));
266 connect(NEVerticalSlider,SIGNAL(valueChanged(int)),this,SLOT(NEVerticalSliderChanged()));
267 connect(SOVerticalSlider,SIGNAL(valueChanged(int)),this,SLOT(SOVerticalSliderChanged()));
268 connect(SEVerticalSlider,SIGNAL(valueChanged(int)),this,SLOT(SEVerticalSliderChanged()));
270 connect(NOHorizontalSlider,SIGNAL(valueChanged(int)),this,SLOT(NOHorizontalSliderMoved()));
271 connect(NEHorizontalSlider,SIGNAL(valueChanged(int)),this,SLOT(NEHorizontalSliderMoved()));
272 connect(SOHorizontalSlider,SIGNAL(valueChanged(int)),this,SLOT(SOHorizontalSliderMoved()));
273 connect(SEHorizontalSlider,SIGNAL(valueChanged(int)),this,SLOT(SEHorizontalSliderMoved()));
276 connect(actionCompute_mid_position_image,SIGNAL(triggered()),this,SLOT(ComputeMidPosition()));
277 connect(actionDeformable_Registration,SIGNAL(triggered()),this,SLOT(ComputeDeformableRegistration()));
278 connect(actionWarp_image_with_vector_field,SIGNAL(triggered()),this,SLOT(WarpImage()));
279 connect(actionLoad_images,SIGNAL(triggered()),this,SLOT(OpenImages()));
280 connect(actionOpen_Dicom,SIGNAL(triggered()),this,SLOT(OpenDicom()));
281 #if CLITK_USE_PACS_CONNECTION
282 connect(actionConnect_Pacs,SIGNAL(triggered()),this,SLOT(ConnectPacs()));
284 // connect(actionOpen_Dicom_Struct,SIGNAL(triggered()),this,SLOT(OpenDCStructContour()));
285 connect(actionOpen_VTK_contour,SIGNAL(triggered()),this,SLOT(OpenVTKContour()));
286 connect(actionOpen_Multiple_Images_As_One,SIGNAL(triggered()),this,SLOT(MergeImages()));
287 connect(actionSlice_Image_As_Multiple_Images,SIGNAL(triggered()),this,SLOT(SliceImages()));
288 connect(actionOpen_Image_With_Time,SIGNAL(triggered()),this,SLOT(OpenImageWithTime()));
289 connect(actionMerge_images_as_n_dim_t, SIGNAL(triggered()), this, SLOT(MergeImagesWithTime()));
290 connect(actionSave_As,SIGNAL(triggered()),this,SLOT(SaveAs()));
291 connect(actionSave_current_state,SIGNAL(triggered()),this,SLOT(SaveCurrentState()));
292 connect(actionRead_saved_state,SIGNAL(triggered()),this,SLOT(ReadSavedState()));
293 connect(actionExit,SIGNAL(triggered()),this,SLOT(close()));
294 connect(actionAdd_VF_to_current_Image,SIGNAL(triggered()),this,SLOT(OpenField()));
295 connect(actionAdd_fusion_image,SIGNAL(triggered()),this,SLOT(SelectFusionImage()));
296 connect(actionAdd_overlay_image_to_current_image,SIGNAL(triggered()), this,SLOT(SelectOverlayImage()));
297 connect(actionAdd_USSequence_toCT,SIGNAL(triggered()), this,SLOT(SelectFusionSequence()));
298 connect(actionNavigation_Help,SIGNAL(triggered()),this,SLOT(ShowHelpDialog()));
300 QShortcut *shortcutHelp = new QShortcut(QKeySequence(QKeySequence::HelpContents),this);
301 shortcutHelp->setContext(Qt::ApplicationShortcut);
302 QObject::connect(shortcutHelp, SIGNAL(activated()), this, SLOT(ShowHelpDialog()));
304 connect(actionDocumentation,SIGNAL(triggered()),this,SLOT(ShowDocumentation()));
305 connect(actionRegister_vv,SIGNAL(triggered()),this,SLOT(PopupRegisterForm()));
307 connect(overlayPanel, SIGNAL(FusionSequenceCorrespondancesButtonPressed()), this, SLOT(SelectFusionSequenceCorrespondances()));
310 ///////////////////////////////////////////////
311 connect(actionSegmentation,SIGNAL(triggered()),this,SLOT(SegmentationOnCurrentImage()));
312 connect(actionSurface_Viewer,SIGNAL(triggered()),this,SLOT(SurfaceViewerLaunch()));
313 ///////////////////////////////////////////////
315 actionNorth_East_Window->setEnabled(0);
316 actionNorth_West_Window->setEnabled(0);
317 actionSouth_East_Window->setEnabled(0);
318 actionSouth_West_Window->setEnabled(0);
320 connect(actionNorth_East_Window,SIGNAL(triggered()),this,SLOT(SaveNEScreenshot()));
321 connect(actionNorth_West_Window,SIGNAL(triggered()),this,SLOT(SaveNOScreenshot()));
322 connect(actionSouth_East_Window,SIGNAL(triggered()),this,SLOT(SaveSEScreenshot()));
323 connect(actionSouth_West_Window,SIGNAL(triggered()),this,SLOT(SaveSOScreenshot()));
324 connect(actionSave_all_slices,SIGNAL(triggered()),this,SLOT(SaveScreenshotAllSlices()));
326 connect(DataTree,SIGNAL(itemSelectionChanged()),this,SLOT(ImageInfoChanged()));
327 connect(DataTree,SIGNAL(itemClicked(QTreeWidgetItem*, int)),this,
328 SLOT(DisplayChanged(QTreeWidgetItem*, int)));
330 connect(viewButton,SIGNAL(clicked()),this, SLOT(ChangeViewMode()) );
331 connect(windowSpinBox,SIGNAL(editingFinished()),this,SLOT(WindowLevelEdited()));
332 connect(levelSpinBox,SIGNAL(editingFinished()),this,SLOT(WindowLevelEdited()));
333 connect(colorMapComboBox,SIGNAL(currentIndexChanged(int)),this,SLOT(UpdateColorMap()));
334 connect(presetComboBox,SIGNAL(currentIndexChanged(int)),this,SLOT(UpdateWindowLevel()));
335 connect(slicingPresetComboBox, SIGNAL(currentIndexChanged(int)),this,SLOT(UpdateSlicingPreset()));
336 connect(inverseButton,SIGNAL(clicked()),this,SLOT(SwitchWindowLevel()));
337 connect(applyWindowLevelToAllButton,SIGNAL(clicked()),this,SLOT(ApplyWindowLevelToAllImages()));
339 connect(this,SIGNAL(customContextMenuRequested(QPoint)),this,SLOT(ShowContextMenu(QPoint)));
341 connect(linkPanel,SIGNAL(addLink(QString,QString,bool)),this,SLOT(AddLink(QString,QString,bool)));
342 connect(linkPanel,SIGNAL(removeLink(QString,QString)),this,SLOT(RemoveLink(QString,QString)));
343 connect(overlayPanel,SIGNAL(VFPropertyUpdated(int,int,int,int,double,double,double)),this,SLOT(SetVFProperty(int,int,int,int,double,double,double)));
344 connect(overlayPanel,SIGNAL(OverlayPropertyUpdated(int,int,double,double)),
345 this,SLOT(SetOverlayProperty(int,int,double,double)));
346 connect(overlayPanel,SIGNAL(FusionPropertyUpdated(int,int,int,double,double, bool)),
347 this,SLOT(SetFusionProperty(int,int,int,double,double, bool)));
348 connect(landmarksPanel,SIGNAL(UpdateRenderWindows()),this,SLOT(UpdateRenderWindows()));
349 connect(landmarksPanel,SIGNAL(SelectedPointChanged()),this,SLOT(GoToLandmark()));
351 connect(overlayPanel,SIGNAL(FusionSequencePropertyUpdated(int, bool, unsigned int, bool)),
352 this,SLOT(SetFusionSequenceProperty(int, bool,unsigned int, bool)));
357 playButton->setEnabled(0);
358 frameRateLabel->setEnabled(0);
359 frameRateSpinBox->setEnabled(0);
360 connect(playButton, SIGNAL(clicked()),this,SLOT(PlayPause()));
361 connect(frameRateSpinBox, SIGNAL(valueChanged(int)),this,SLOT(ChangeFrameRate(int)));
363 goToCursorPushButton->setEnabled(0);
364 connect(goToCursorPushButton, SIGNAL(clicked()),this,SLOT(GoToCursor()));
366 NOViewWidget->hide();
367 NEViewWidget->hide();
368 SOViewWidget->hide();
369 SEViewWidget->hide();
372 disableGLHiDPI(NOViewWidget->winId());
373 disableGLHiDPI(NEViewWidget->winId());
374 disableGLHiDPI(SOViewWidget->winId());
375 disableGLHiDPI(SEViewWidget->winId());
378 //Recently opened files
379 std::list<std::string> recent_files = GetRecentlyOpenedImages();
380 recentlyOpenedFilesMenu=NULL;
381 if ( !recent_files.empty() ) {
382 createRecentlyOpenedFilesMenu();
383 updateRecentlyOpenedFilesMenu(recent_files);
386 // Adding all new tools (insertion in the menu)
387 vvToolManager::GetInstance()->InsertToolsInMenu(this);
388 vvToolManager::GetInstance()->EnableToolsInMenu(this, false);
390 //#ifndef CLITK_EXPERIMENTAL
391 //#define CLITK_EXPERIMENTAL 0
393 #ifdef CLITK_EXPERIMENTAL
394 if (!CLITK_EXPERIMENTAL)
395 menuExperimental->menuAction()->setVisible(false);
398 #if !CLITK_USE_PACS_CONNECTION
399 actionConnect_Pacs->setVisible(false);
402 QTimer * timerMemory = new QTimer(this);
403 //timerMemory->setInterval(5);
404 connect(timerMemory, SIGNAL(timeout()), this, SLOT(UpdateMemoryUsage()));
405 timerMemory->start(2000);
408 //------------------------------------------------------------------------------
409 void vvMainWindow::show()
411 vvMainWindowBase::show();
412 PopupRegisterForm(true);
414 //------------------------------------------------------------------------------
415 void vvMainWindow::UpdateMemoryUsage()
417 // clitk::PrintMemory(true);
418 if (clitk::GetMemoryUsageInMb() == 0) infoPanel->setMemoryInMb("NA");
419 else infoPanel->setMemoryInMb(QString::number(clitk::GetMemoryUsageInMb())+" MB");
421 //------------------------------------------------------------------------------
424 //------------------------------------------------------------------------------
425 void vvMainWindow::createRecentlyOpenedFilesMenu()
427 recentlyOpenedFilesMenu = new QMenu("Recently opened files...");
428 recentlyOpenedFilesMenu->setIcon(QIcon(QString::fromUtf8(":/common/icons/open.png")));
429 menuFile->insertMenu(actionOpen_Image_With_Time,recentlyOpenedFilesMenu);
430 menuFile->insertSeparator(actionOpen_Image_With_Time);
432 //------------------------------------------------------------------------------
435 //------------------------------------------------------------------------------
437 void vvMainWindow::updateRecentlyOpenedFilesMenu(const std::list<std::string> &recent_files)
439 if(recentlyOpenedFilesMenu==NULL) {
440 createRecentlyOpenedFilesMenu();
442 recentlyOpenedFilesMenu->clear();
444 for (std::list<std::string>::const_iterator i = recent_files.begin(); i!=recent_files.end(); i++) {
445 QAction* current=new QAction(QIcon(QString::fromUtf8(":/common/icons/open.png")), i->c_str(),this);
446 recentlyOpenedFilesMenu->addAction(current);
447 connect(current,SIGNAL(triggered()),this,SLOT(OpenRecentImage()));
450 //------------------------------------------------------------------------------
453 //------------------------------------------------------------------------------
454 void vvMainWindow::ComputeMidPosition()
457 int index=GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
458 int ref = QInputDialog::getInt(this,"Chose reference phase","Reference phase",0,0,\
459 mSlicerManagers[index]->GetImage()->GetVTKImages().size()-1,1,&ok);
462 midp.slicer_manager = mSlicerManagers[index];
463 midp.reference_image_index = ref;
464 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
467 QMessageBox::warning(this, "Error computing midposition image",midp.error_message.c_str());
469 QFileInfo info(midp.slicer_manager->GetFileName().c_str());
470 AddImage(midp.output,info.path().toStdString()+"/"+info.completeBaseName().toStdString()+"_midposition.mhd");
472 QApplication::restoreOverrideCursor();
475 //------------------------------------------------------------------------------
478 //------------------------------------------------------------------------------
479 void vvMainWindow::AddContour(int image_index, vvMesh::Pointer contour, bool propagation)
481 QTreeWidgetItem *item = new QTreeWidgetItem();
482 item->setData(0,Qt::UserRole,"filename.vtk");
483 item->setData(1,Qt::UserRole,tr("contour"));
485 brush.setColor(QColor(contour->r*255,contour->g*255,contour->b*255));
486 brush.setStyle(Qt::SolidPattern);
487 item->setData(COLUMN_IMAGE_NAME,Qt::BackgroundRole,brush);
488 item->setData(COLUMN_IMAGE_NAME,Qt::DisplayRole,contour->structure_name.c_str());
490 for (int j = 1; j <= 4; j++)
491 item->setData(j,Qt::CheckStateRole,DataTree->topLevelItem(image_index)->data(j,Qt::CheckStateRole));
493 QTreePushButton* cButton = new QTreePushButton;
494 cButton->setItem(item);
495 cButton->setColumn(COLUMN_CLOSE_IMAGE);
496 cButton->setToolTip(tr("close image"));
497 cButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/exit.png")));
498 connect(cButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
499 this,SLOT(CloseImage(QTreeWidgetItem*, int)));
501 QTreePushButton* rButton = new QTreePushButton;
502 rButton->setItem(item);
503 rButton->setColumn(COLUMN_RELOAD_IMAGE);
504 rButton->setToolTip(tr("reload image"));
505 rButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/rotateright.png")));
506 rButton->setEnabled(false);
508 //connect(rButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
509 //this,SLOT(ReloadImage(QTreeWidgetItem*, int)));
511 DataTree->topLevelItem(image_index)->setExpanded(1);
512 DataTree->topLevelItem(image_index)->addChild(item);
513 DataTree->setItemWidget(item, COLUMN_CLOSE_IMAGE, cButton);
514 DataTree->setItemWidget(item, COLUMN_RELOAD_IMAGE, rButton);
515 QString id = DataTree->topLevelItem(image_index)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString();
516 item->setData(COLUMN_IMAGE_NAME,Qt::UserRole,id.toStdString().c_str());
519 mSlicerManagers[image_index]->AddContour(contour,propagation);
520 mSlicerManagers[image_index]->Render();
522 //------------------------------------------------------------------------------
525 //------------------------------------------------------------------------------
526 void vvMainWindow::OpenVTKContour()
528 if (mSlicerManagers.size() > 0) {
529 QString Extensions = "Images ( *.vtk *.obj)";
530 Extensions += ";;All Files (*)";
531 QString file = QFileDialog::getOpenFileName(this,tr("Open vtkPolyData"),mInputPathName,Extensions);
534 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
535 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
537 reader.SetImage(mSlicerManagers[index]->GetImage());
538 reader.SetModeToVTK();
539 reader.SetFilename(file.toStdString());
541 AddContour(index,reader.GetOutput()[0],false);
542 QApplication::restoreOverrideCursor();
545 //------------------------------------------------------------------------------
548 //------------------------------------------------------------------------------
549 void vvMainWindow::AddDCStructContour(int index, QString file)
552 reader.SetFilename(file.toStdString());
553 vvStructSelector selector;
554 selector.SetStructures(reader.GetROINames());
555 if (!mSlicerManagers[index]->GetVF().IsNull())
556 selector.EnablePropagationCheckBox();
557 if (selector.exec()) {
558 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
559 reader.SetSelectedItems(selector.getSelectedItems());
560 reader.SetImage(mSlicerManagers[index]->GetImage());
561 if (selector.PropagationEnabled())
562 reader.SetPropagationVF(mSlicerManagers[index]->GetVF());
564 std::vector<vvMesh::Pointer> contours=reader.GetOutput();
565 for (std::vector<vvMesh::Pointer>::iterator i=contours.begin();
566 i!=contours.end(); i++)
567 AddContour(index,*i,selector.PropagationEnabled());
568 QApplication::restoreOverrideCursor();
572 //------------------------------------------------------------------------------
573 void vvMainWindow::OpenDCStructContour()
575 if (mSlicerManagers.size() > 0) {
576 QString Extensions = "Dicom Files ( *.dcm RS*)";
577 Extensions += ";;All Files (*)";
578 QString file = QFileDialog::getOpenFileName(this,tr("Merge Images"),mInputPathName,Extensions);
581 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
582 AddDCStructContour(index, file);
585 //------------------------------------------------------------------------------
588 //------------------------------------------------------------------------------
589 void vvMainWindow::ComputeDeformableRegistration()
591 if (mSlicerManagers.size() > 0) {
592 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
593 vvDeformationDialog dialog(index,mSlicerManagers);
595 std::string base_name=itksys::SystemTools::GetFilenameWithoutExtension(mSlicerManagers[dialog.GetInputFileIndex()]->GetFileName());
596 AddField(dialog.GetOutput(),dialog.getFieldFile(),dialog.GetInputFileIndex());
597 WarpImage(dialog.GetSelectedSlicer(),dialog.GetReferenceFrameIndex());
599 std::cout << "Error or user cancellation while computing deformation field..." << std::endl;
600 } else QMessageBox::information(this, "Need to open image","You must open an image first.");
602 //------------------------------------------------------------------------------
605 //------------------------------------------------------------------------------
606 void vvMainWindow::WarpImage()
608 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
609 if (!mSlicerManagers[index]->GetVF().IsNull()) {
611 int ref = QInputDialog::getInt(this,"Chose reference phase","Reference phase",0,0,\
612 mSlicerManagers[index]->GetImage()->GetVTKImages().size()-1,1,&ok);
614 WarpImage(mSlicerManagers[index],ref);
617 QMessageBox::warning(this,tr("No vector field"),tr("Sorry, can't warp without a vector field"));
619 //------------------------------------------------------------------------------
622 //------------------------------------------------------------------------------
623 void vvMainWindow::WarpImage(vvSlicerManager* selected_slicer,int reference_phase)
625 if (!selected_slicer->GetVF().IsNull()) {
626 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
627 QFileInfo info(selected_slicer->GetFileName().c_str());
628 vvImageWarp warp(selected_slicer->GetImage(),selected_slicer->GetVF(),
629 reference_phase,this);
630 if (warp.ComputeWarpedImage()) {
631 AddImage(warp.GetWarpedImage(),info.path().toStdString()+"/"+info.completeBaseName().toStdString()+"_warped.mhd");
632 AddImage(warp.GetDiffImage() ,info.path().toStdString()+"/"+info.completeBaseName().toStdString()+"_diff.mhd");
633 AddImage(warp.GetJacobianImage() ,info.path().toStdString()+"/"+info.completeBaseName().toStdString()+"_jacobian.mhd");
634 QApplication::restoreOverrideCursor();
636 QApplication::restoreOverrideCursor();
637 QMessageBox::warning(this,tr("Different spacings"),tr("The vector field and image spacings must be the same in order to warp."));
640 QMessageBox::warning(this,tr("No vector field"),tr("Sorry, can't warp without a vector field."));
642 //------------------------------------------------------------------------------
645 //------------------------------------------------------------------------------
646 vvMainWindow::~vvMainWindow()
648 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
649 if (mSlicerManagers[i] != NULL)
650 delete mSlicerManagers[i];
652 delete documentation;
654 delete dicomSeriesSelector;
656 //------------------------------------------------------------------------------
658 //------------------------------------------------------------------------------
659 QTabWidget * vvMainWindow::GetTab()
663 //------------------------------------------------------------------------------
666 //------------------------------------------------------------------------------
667 void vvMainWindow::MergeImages()
669 QString Extensions = EXTENSIONS;
670 Extensions += ";;All Files (*)";
671 QStringList files = QFileDialog::getOpenFileNames(this,tr("Merge Images"),mInputPathName,Extensions);
674 mInputPathName = itksys::SystemTools::GetFilenamePath(files[0].toStdString()).c_str();
675 std::vector<std::string> vector;
677 unsigned int currentDim = 0;
678 std::vector<double> currentSpacing;
679 std::vector<int> currentSize;
680 std::vector<double> currentOrigin;
682 for (int i = 0; i < files.size(); i++) {
683 itk::ImageIOBase::Pointer reader = itk::ImageIOFactory::CreateImageIO(
684 files[i].toStdString().c_str(), itk::ImageIOFactory::ReadMode);
685 reader->SetFileName(files[i].toStdString().c_str());
686 reader->ReadImageInformation();
688 //NOViewWidget->hide();
689 //NEViewWidget->hide();
690 //SOViewWidget->hide();
691 //SEViewWidget->hide();
693 currentDim = reader->GetNumberOfDimensions();
695 for (unsigned int j = 0; j < currentDim; j++) {
698 currentSpacing.resize(currentDim);
699 currentSize.resize(currentDim);
700 currentOrigin.resize(currentDim);
702 currentOrigin[j] = reader->GetOrigin(j);
703 currentSpacing[j] = reader->GetSpacing(j);
704 currentSize[j] = reader->GetDimensions(j);
705 } else if (currentDim != reader->GetNumberOfDimensions()
706 || currentSpacing[j] != reader->GetSpacing(j)
707 || currentSize[j] != (int)reader->GetDimensions(j)
708 || currentOrigin[j] != reader->GetOrigin(j)) {
709 QString error = "Cannot read file (too different from others ";
710 error += files[i].toStdString().c_str();
711 QMessageBox::information(this,tr("Reading problem"),error);
717 vector.push_back(files[i].toStdString());
720 if (vector.size() > 0)
721 LoadImages(vector, vvImageReader::MERGED);
723 //------------------------------------------------------------------------------
725 //------------------------------------------------------------------------------
726 void vvMainWindow::SliceImages()
728 QString Extensions = EXTENSIONS;
729 Extensions += ";;All Files (*)";
731 QStringList files = QFileDialog::getOpenFileNames(this,tr("Slice Images"),mInputPathName,Extensions);
734 mInputPathName = itksys::SystemTools::GetFilenamePath(files[0].toStdString()).c_str();
735 std::vector<std::string> vector;
736 for (int i = 0; i < files.size(); i++)
737 vector.push_back(files[i].toStdString());
738 LoadImages(vector, vvImageReader::SLICED);
740 //------------------------------------------------------------------------------
742 //------------------------------------------------------------------------------
743 void vvMainWindow::MergeImagesWithTime()
745 QString Extensions = EXTENSIONS;
746 Extensions += ";;All Files (*)";
747 QStringList files = QFileDialog::getOpenFileNames(this,tr("Merge Images With Time"),mInputPathName,Extensions);
750 mInputPathName = itksys::SystemTools::GetFilenamePath(files[0].toStdString()).c_str();
751 std::vector<std::string> vector;
753 for (int i = 0; i < files.size(); i++)
754 vector.push_back(files[i].toStdString());
755 sort(vector.begin(),vector.end());
756 if (vector.size() > 1)
757 LoadImages(vector, vvImageReader::MERGEDWITHTIME);
759 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.");
761 //------------------------------------------------------------------------------
764 //------------------------------------------------------------------------------
765 void vvMainWindow::OpenDicom()
767 std::vector<std::string> files;
769 //std::cout << "dicomSeriesSelector " << std::endl;
770 if (dicomSeriesSelector->exec() == QDialog::Accepted) {
771 files = *(dicomSeriesSelector->GetFilenames());
772 LoadImages(files, vvImageReader::DICOM);
775 #if CLITK_USE_PACS_CONNECTION
776 void vvMainWindow::ConnectPacs()
778 std::vector<std::string> files;
780 //std::cout << "dicomSeriesSelector " << std::endl;
781 if (PacsConnection->exec() == QDialog::Accepted) {
782 for (int i = 0; i < PacsConnection->getSeriesCount(); i++)
784 files = PacsConnection->getFileNames(i);
785 LoadImages(files, vvImageReader::DICOM);
787 PacsConnection->clearMove();
792 //------------------------------------------------------------------------------
794 //------------------------------------------------------------------------------
795 void vvMainWindow::OpenImages()
797 QString Extensions = EXTENSIONS;
798 Extensions += ";;All Files (*)";
800 QStringList files = QFileDialog::getOpenFileNames(this,tr("Load Images"),mInputPathName,Extensions);
803 mInputPathName = itksys::SystemTools::GetFilenamePath(files[0].toStdString()).c_str();
804 std::vector<std::string> vector;
805 for (int i = 0; i < files.size(); i++)
806 vector.push_back(files[i].toStdString());
807 LoadImages(vector, vvImageReader::IMAGE);
809 //------------------------------------------------------------------------------
810 void vvMainWindow::OpenRecentImage()
812 QAction * caller = qobject_cast<QAction*>(sender());
813 std::vector<std::string> images;
814 images.push_back(caller->text().toStdString());
815 mInputPathName = itksys::SystemTools::GetFilenamePath(images[0]).c_str();
816 LoadImages(images, vvImageReader::IMAGE);
818 //------------------------------------------------------------------------------
821 //------------------------------------------------------------------------------
822 void vvMainWindow::OpenImageWithTime()
824 QString Extensions = EXTENSIONS;
825 Extensions += ";;All Files (*)";
827 QStringList files = QFileDialog::getOpenFileNames(this,tr("Load Images With Time"),mInputPathName,Extensions);
830 mInputPathName = itksys::SystemTools::GetFilenamePath(files[0].toStdString()).c_str();
831 std::vector<std::string> vector;
832 for (int i = 0; i < files.size(); i++) {
833 vector.push_back(files[i].toStdString());
835 LoadImages(vector, vvImageReader::IMAGEWITHTIME);
837 //------------------------------------------------------------------------------
840 //------------------------------------------------------------------------------
841 void vvMainWindow::LoadImages(std::vector<std::string> files, vvImageReader::LoadedImageType filetype)
843 //Separate the way to open images and dicoms
845 if (filetype == vvImageReader::IMAGE || filetype == vvImageReader::IMAGEWITHTIME)
846 fileSize = files.size();
850 // For SLICED, we need the number of slices (ndim and #slices)
851 std::vector<unsigned int> nSlices;
852 nSlices.resize(files.size());
853 std::fill(nSlices.begin(), nSlices.end(), 1);
854 if (filetype == vvImageReader::SLICED) {
855 for (int i = 0; i < fileSize; i++) {
856 itk::ImageIOBase::Pointer header = clitk::readImageHeader(files[i]);
857 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
860 QString error = "Cannot open file \n";
861 error += files[i].c_str();
862 QMessageBox::information(this,tr("Reading problem"),error);
865 if (header->GetNumberOfDimensions() < 3) {
867 QString error = "Dimension problem. Cannot slice \n";
868 error += files[i].c_str();
869 QMessageBox::information(this,tr("Reading problem"),error);
872 nSlices[i] = header->GetDimensions( header->GetNumberOfDimensions()-1 );
876 //Only add to the list of recently opened files when a single file is opened,
877 //to avoid polluting the list of recently opened files
878 if (files.size() == 1) {
879 QFileInfo finfo=tr(files[0].c_str());
880 AddToRecentlyOpenedImages(finfo.absoluteFilePath().toStdString());
881 updateRecentlyOpenedFilesMenu(GetRecentlyOpenedImages());
883 //init the progress events
884 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
885 vvProgressDialog progress("Opening " + files[0],fileSize>1);
886 qApp->processEvents();
888 int numberofsuccesulreads=0;
889 //open images as 1 or multiples
890 for (int i = 0; i < fileSize; i++) {
891 progress.SetText("Opening " + files[i]);
892 progress.SetProgress(i,fileSize);
893 qApp->processEvents();
895 for (unsigned int j = 0; j < nSlices[i]; j++) {
896 //read the image and put it in mSlicerManagers
897 vvSlicerManager* imageManager = new vvSlicerManager(4);
898 qApp->processEvents();
900 bool SetImageSucceed=false;
902 // Change filename if an image with the same already exist
903 int number = GetImageDuplicateFilenameNumber(files[i] + std::string("_slice"));
905 if (filetype == vvImageReader::IMAGE || filetype == vvImageReader::IMAGEWITHTIME || filetype == vvImageReader::SLICED)
906 SetImageSucceed = imageManager->SetImage(files[i],filetype, number, j);
907 else if (filetype == vvImageReader::DICOM)
908 SetImageSucceed = imageManager->SetImages(files,filetype, number, dicomSeriesSelector->IsPatientCoordianteSystemChecked());
910 SetImageSucceed = imageManager->SetImages(files,filetype, number);
912 if (!SetImageSucceed) {
913 QApplication::restoreOverrideCursor();
914 QString error = "Cannot open file \n";
915 error += imageManager->GetLastError().c_str();
916 QMessageBox::information(this,tr("Reading problem"),error);
920 mSlicerManagers.push_back(imageManager);
922 //create an item in the tree with good settings
923 QTreeWidgetItem *item = new QTreeWidgetItem();
924 item->setData(0,Qt::UserRole,files[i].c_str());
925 QFileInfo fileinfo(imageManager->GetFileName().c_str()); //Do not show the path
926 item->setData(COLUMN_IMAGE_NAME,Qt::DisplayRole,fileinfo.fileName());
927 item->setData(1,Qt::UserRole,tr("image"));
928 item->setToolTip(COLUMN_IMAGE_NAME, imageManager->GetListOfAbsoluteFilePathInOneString("image").c_str());
929 qApp->processEvents();
931 //Create the buttons for reload and close
932 qApp->processEvents();
933 QTreePushButton* cButton = new QTreePushButton;
934 cButton->setItem(item);
935 cButton->setColumn(COLUMN_CLOSE_IMAGE);
936 cButton->setToolTip(tr("close image"));
937 cButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/exit.png")));
938 connect(cButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
939 this,SLOT(CloseImage(QTreeWidgetItem*, int)));
941 QTreePushButton* rButton = new QTreePushButton;
942 rButton->setItem(item);
943 rButton->setColumn(COLUMN_RELOAD_IMAGE);
944 rButton->setToolTip(tr("reload image"));
945 rButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/rotateright.png")));
946 connect(rButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
947 this,SLOT(ReloadImage(QTreeWidgetItem*, int)));
949 DataTree->addTopLevelItem(item);
950 DataTree->setItemWidget(item, COLUMN_CLOSE_IMAGE, cButton);
951 DataTree->setItemWidget(item, COLUMN_RELOAD_IMAGE, rButton);
953 //set the id of the image
954 QString id = QDir::current().absoluteFilePath(files[i].c_str()) + QString::number(mSlicerManagers.size()-1);
955 item->setData(COLUMN_IMAGE_NAME,Qt::UserRole,id.toStdString().c_str());
956 mSlicerManagers.back()->SetId(id.toStdString());
958 linkPanel->addImage(imageManager->GetFileName(), id.toStdString());
960 connect(mSlicerManagers.back(), SIGNAL(currentImageChanged(std::string)),
961 this,SLOT(CurrentImageChanged(std::string)));
962 connect(mSlicerManagers.back(), SIGNAL(currentPickedImageChanged(std::string)),
963 this, SLOT(CurrentPickedImageChanged(std::string)));
964 connect(mSlicerManagers.back(), SIGNAL(UpdatePosition(int, double, double, double, double, double, double, double)),
965 this,SLOT(MousePositionChanged(int,double, double, double, double, double, double, double)));
966 connect(mSlicerManagers.back(), SIGNAL(UpdateVector(int, double, double, double, double)),
967 this, SLOT(VectorChanged(int,double,double,double, double)));
968 connect(mSlicerManagers.back(), SIGNAL(UpdateOverlay(int, double, double)),
969 this, SLOT(OverlayChanged(int,double,double)));
970 connect(mSlicerManagers.back(), SIGNAL(UpdateFusion(int, double)),
971 this, SLOT(FusionChanged(int,double)));
972 connect(mSlicerManagers.back(), SIGNAL(WindowLevelChanged()),
973 this,SLOT(WindowLevelChanged()));
974 connect(mSlicerManagers.back(), SIGNAL(UpdateSlice(int,int)),
975 this,SLOT(UpdateSlice(int,int)));
976 connect(mSlicerManagers.back(), SIGNAL(UpdateTSlice(int, int, int)),
977 this,SLOT(UpdateTSlice(int, int, int)));
978 connect(mSlicerManagers.back(), SIGNAL(UpdateTSlice(int, int, int)),
979 this,SLOT(ImageInfoChanged()));
980 connect(mSlicerManagers.back(), SIGNAL(UpdateSliceRange(int,int,int,int,int)),
981 this,SLOT(UpdateSliceRange(int,int,int,int,int)));
982 connect(mSlicerManagers.back(), SIGNAL(UpdateLinkManager(std::string,int,double,double,double,int)),
983 this,SLOT(UpdateLinkManager(std::string,int,double,double,double,int)));
984 connect(mSlicerManagers.back(), SIGNAL(UpdateLinkedNavigation(std::string,vvSlicerManager*,vvSlicer*)),
985 this,SLOT(UpdateLinkedNavigation(std::string,vvSlicerManager*,vvSlicer*)));
986 connect(mSlicerManagers.back(), SIGNAL(ChangeImageWithIndexOffset(vvSlicerManager*,int,int)),
987 this,SLOT(ChangeImageWithIndexOffset(vvSlicerManager*,int,int)));
988 connect(mSlicerManagers.back(),SIGNAL(LandmarkAdded()),landmarksPanel,SLOT(AddPoint()));
989 connect(landmarksPanel,SIGNAL(UpdateLandmarkTransform()), mSlicerManagers.back(), SLOT(UpdateLandmark()));
991 numberofsuccesulreads++;
996 if (numberofsuccesulreads) {
997 NOViewWidget->show();
998 NEViewWidget->show();
999 SOViewWidget->show();
1000 SEViewWidget->show();
1005 // Try to guess default WindowLevel
1007 mSlicerManagers.back()->GetImage()->GetFirstVTKImageData()->GetScalarRange(range);
1008 if ((range[0] == 0) && (range[1] == 1)) {
1009 presetComboBox->setCurrentIndex(WL_BINARY);// binary
1014 QApplication::restoreOverrideCursor();
1016 //------------------------------------------------------------------------------
1018 //------------------------------------------------------------------------------
1019 void vvMainWindow::UpdateTree()
1021 DataTree->resizeColumnToContents(COLUMN_TREE);
1022 DataTree->resizeColumnToContents(COLUMN_UL_VIEW);
1023 DataTree->resizeColumnToContents(COLUMN_UR_VIEW);
1024 DataTree->resizeColumnToContents(COLUMN_DL_VIEW);
1025 DataTree->resizeColumnToContents(COLUMN_DR_VIEW);
1026 DataTree->resizeColumnToContents(COLUMN_IMAGE_NAME);
1027 DataTree->resizeColumnToContents(COLUMN_CLOSE_IMAGE);
1028 DataTree->resizeColumnToContents(COLUMN_RELOAD_IMAGE);
1030 //------------------------------------------------------------------------------
1032 //------------------------------------------------------------------------------
1033 void vvMainWindow::CurrentImageChanged(std::string id)
1035 if (id == mCurrentSelectedImageId) return; // Do nothing
1037 for (int i = 0; i < DataTree->topLevelItemCount(); i++) {
1038 if (DataTree->topLevelItem(i)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString().toStdString() == id) {
1041 DataTree->topLevelItem(i)->setSelected(0);
1043 for (int child = 0; child < DataTree->topLevelItem(i)->childCount(); child++)
1044 DataTree->topLevelItem(i)->child(child)->setSelected(0);
1047 DataTree->topLevelItem(selected)->setSelected(1);
1048 mCurrentSelectedImageId = id;
1050 landmarksPanel->SetCurrentLandmarks(mSlicerManagers[selected]->GetLandmarks(),
1051 mSlicerManagers[selected]->GetTSlice());
1052 landmarksPanel->SetCurrentPath(mInputPathName.toStdString());
1053 landmarksPanel->SetCurrentImage(mSlicerManagers[selected]->GetFileName().c_str());
1055 emit SelectedImageHasChanged(mSlicerManagers[selected]);
1057 //------------------------------------------------------------------------------
1059 //------------------------------------------------------------------------------
1060 void vvMainWindow::CurrentPickedImageChanged(std::string id)
1062 if (id == mCurrentPickedImageId) return; // Do nothing
1064 for (int i = 0; i < DataTree->topLevelItemCount(); i++) {
1065 if (DataTree->topLevelItem(i)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString().toStdString() == id) {
1068 DataTree->topLevelItem(i)->setSelected(0);
1070 for (int child = 0; child < DataTree->topLevelItem(i)->childCount(); child++)
1071 DataTree->topLevelItem(i)->child(child)->setSelected(0);
1074 DataTree->topLevelItem(selected)->setSelected(1);
1075 mCurrentPickedImageId = id;
1076 mCurrentPickedImageIndex = selected;
1078 //------------------------------------------------------------------------------
1080 //------------------------------------------------------------------------------
1081 void vvMainWindow::ImageInfoChanged()
1083 contextActions[6]->setEnabled(1);
1084 contextActions[5]->setEnabled(1);
1085 actionSave_As->setEnabled(1);
1086 actionAdd_VF_to_current_Image->setEnabled(1);
1087 actionAdd_fusion_image->setEnabled(1);
1088 actionAdd_overlay_image_to_current_image->setEnabled(1);
1089 actionAdd_USSequence_toCT->setEnabled(1);
1090 actionNorth_East_Window->setEnabled(1);
1091 actionNorth_West_Window->setEnabled(1);
1092 actionSouth_East_Window->setEnabled(1);
1093 actionSouth_West_Window->setEnabled(1);
1094 vvToolManager::GetInstance()->EnableToolsInMenu(this, true);
1095 inverseButton->setEnabled(1);
1097 goToCursorPushButton->setEnabled(1);
1099 if (DataTree->selectedItems().size()) {
1100 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1102 colorMapComboBox->setEnabled(1);
1103 for (int i = 0; i < DataTree->topLevelItem(index)->childCount(); i++) {
1104 if (DataTree->topLevelItem(index)->child(i)->data(1,Qt::UserRole).toString() == "overlay" ||
1105 DataTree->topLevelItem(index)->child(i)->data(1,Qt::UserRole).toString() == "fusion" ||
1106 DataTree->topLevelItem(index)->child(i)->data(1,Qt::UserRole).toString() == "fusionSequence") {
1107 colorMapComboBox->setEnabled(0);
1112 std::vector<double> origin;
1113 std::vector<double> inputSpacing;
1114 std::vector<int> inputSize;
1115 std::vector<double> sizeMM;
1116 vtkSmartPointer<vtkMatrix4x4> transformation;
1119 QString inputSizeInBytes;
1120 QString image = DataTree->selectedItems()[0]->data(COLUMN_IMAGE_NAME,Qt::DisplayRole).toString();
1122 int nframes = mSlicerManagers[index]->GetSlicer(0)->GetTMax();
1124 if (nframes > 1 || playMode == 1) {
1125 playButton->setEnabled(1);
1126 frameRateLabel->setEnabled(1);
1127 frameRateSpinBox->setEnabled(1);
1129 playButton->setEnabled(0);
1130 frameRateLabel->setEnabled(0);
1131 frameRateSpinBox->setEnabled(0);
1138 vvImage::Pointer imageSelected;
1139 if (DataTree->topLevelItem(index) == DataTree->selectedItems()[0]) {
1140 imageSelected = mSlicerManagers[index]->GetSlicer(0)->GetImage();
1141 tSlice = mSlicerManagers[index]->GetSlicer(0)->GetTSlice();
1142 } else if (DataTree->selectedItems()[0]->data(1,Qt::UserRole).toString() == "vector") {
1143 imageSelected = mSlicerManagers[index]->GetSlicer(0)->GetVF();
1144 tSlice = mSlicerManagers[index]->GetSlicer(0)->GetOverlayTSlice();
1145 } else if (DataTree->selectedItems()[0]->data(1,Qt::UserRole).toString() == "overlay") {
1146 imageSelected = mSlicerManagers[index]->GetSlicer(0)->GetOverlay();
1147 tSlice = mSlicerManagers[index]->GetSlicer(0)->GetOverlayTSlice();
1148 } else if (DataTree->selectedItems()[0]->data(1,Qt::UserRole).toString() == "fusion") {
1149 imageSelected = mSlicerManagers[index]->GetSlicer(0)->GetFusion();
1150 tSlice = mSlicerManagers[index]->GetSlicer(0)->GetFusionTSlice();
1152 else if (DataTree->selectedItems()[0]->data(1,Qt::UserRole).toString() == "fusionSequence") {
1153 imageSelected = mSlicerManagers[index]->GetSlicer(0)->GetFusion();
1154 tSlice = mSlicerManagers[index]->GetSlicer(0)->GetFusionTSlice();
1156 else if (DataTree->selectedItems()[0]->data(1,Qt::UserRole).toString() == "contour") {
1157 imageSelected = mSlicerManagers[index]->GetSlicer(0)->GetImage();
1158 tSlice = mSlicerManagers[index]->GetSlicer(0)->GetTSlice();
1161 imageSelected = mSlicerManagers[index]->GetSlicer(0)->GetImage();
1162 tSlice = mSlicerManagers[index]->GetSlicer(0)->GetTSlice();
1165 dimension = imageSelected->GetNumberOfDimensions();
1166 origin.resize(dimension);
1167 inputSpacing.resize(dimension);
1168 inputSize.resize(dimension);
1169 sizeMM.resize(dimension);
1170 pixelType = mSlicerManagers[index]->GetImage()->GetScalarTypeAsITKString().c_str();
1171 for (int i = 0; i < dimension; i++) {
1172 origin[i] = imageSelected->GetOrigin()[i];
1173 inputSpacing[i] = imageSelected->GetSpacing()[i];
1174 inputSize[i] = imageSelected->GetSize()[i];
1175 sizeMM[i] = inputSize[i]*inputSpacing[i];
1176 NPixel *= inputSize[i];
1178 inputSizeInBytes = GetSizeInBytes(imageSelected->GetActualMemorySize());
1180 QString dim = QString::number(dimension) + " (";
1181 dim += pixelType + ")";
1183 infoPanel->setFileName(image);
1184 std::string creationImageTimeValue("No creation time");
1185 itk::ExposeMetaData< std::string > (*imageSelected->GetFirstMetaDataDictionary(), "creationImageTime", creationImageTimeValue);
1186 infoPanel->setImageCreationTime(QString(creationImageTimeValue.c_str()));
1187 infoPanel->setDimension(dim);
1188 infoPanel->setSizePixel(GetVectorIntAsString(inputSize));
1189 infoPanel->setSizeMM(GetVectorDoubleAsString(sizeMM));
1190 infoPanel->setOrigin(GetVectorDoubleAsString(origin));
1191 infoPanel->setSpacing(GetVectorDoubleAsString(inputSpacing));
1192 infoPanel->setNPixel(QString::number(NPixel)+" ("+inputSizeInBytes+")");
1194 transformation = imageSelected->GetTransform()[tSlice]->GetMatrix();
1195 infoPanel->setTransformation(clitk::Get4x4MatrixDoubleAsString(transformation).c_str());
1197 landmarksPanel->SetCurrentLandmarks(mSlicerManagers[index]->GetLandmarks(),
1198 mSlicerManagers[index]->GetTSlice());
1199 landmarksPanel->SetCurrentPath(mInputPathName.toStdString());
1200 landmarksPanel->SetCurrentImage(mSlicerManagers[index]->GetFileName().c_str());
1202 overlayPanel->getCurrentImageName(mSlicerManagers[index]->GetFileName().c_str());
1203 for (int i = 0; i < 4; i++) {
1204 if (DataTree->selectedItems()[0]->data(i+1,Qt::CheckStateRole).toInt() > 0 || i == 3) {
1205 mSlicerManagers[index]->UpdateInfoOnCursorPosition(i);
1210 // infoPanel->setFileName(image);
1211 // infoPanel->setDimension(dim);
1212 // infoPanel->setSizePixel(GetVectorIntAsString(inputSize));
1213 // infoPanel->setSizeMM(GetVectorDoubleAsString(sizeMM));
1214 // infoPanel->setOrigin(GetVectorDoubleAsString(origin));
1215 // infoPanel->setSpacing(GetVectorDoubleAsString(inputSpacing));
1216 // infoPanel->setNPixel(QString::number(NPixel)+" ("+inputSizeInBytes+")");
1218 // landmarksPanel->SetCurrentLandmarks(mSlicerManagers[index]->GetLandmarks(),
1219 // mSlicerManagers[index]->GetTSlice());
1220 // landmarksPanel->SetCurrentPath(mInputPathName.toStdString());
1221 // landmarksPanel->SetCurrentImage(mSlicerManagers[index]->GetFileName().c_str());
1223 // overlayPanel->getCurrentImageName(mSlicerManagers[index]->GetFileName().c_str());
1224 // for (int i = 0; i < 4; i++) {
1225 // if (DataTree->selectedItems()[0]->data(i+1,Qt::CheckStateRole).toInt() > 0 || i == 3) {
1226 // mSlicerManagers[index]->UpdateInfoOnCursorPosition(i);
1230 WindowLevelChanged();
1232 slicingPresetComboBox->setCurrentIndex(mSlicerManagers[index]->GetSlicingPreset());
1234 if (mSlicerManagers[index]->GetSlicer(0)->GetVF()) {
1235 overlayPanel->getVFName(mSlicerManagers[index]->GetVFName().c_str());
1236 overlayPanel->getVFProperty(mSlicerManagers[index]->GetSlicer(0)->GetVFSubSampling(),
1237 mSlicerManagers[index]->GetSlicer(0)->GetVFScale(),
1238 mSlicerManagers[index]->GetSlicer(0)->GetVFLog());
1240 overlayPanel->getVFName(mSlicerManagers[index]->GetVFName().c_str());
1241 overlayPanel->getVFProperty(-1,-1,-1);
1243 if (mSlicerManagers[index]->GetSlicer(0)->GetOverlay()) {
1244 overlayPanel->getOverlayName(mSlicerManagers[index]->GetOverlayName().c_str());
1246 overlayPanel->getOverlayName(mSlicerManagers[index]->GetOverlayName().c_str());
1249 if (mSlicerManagers[index]->GetSlicer(0)->GetFusion()) {
1250 overlayPanel->getFusionName(mSlicerManagers[index]->GetFusionName().c_str());
1252 overlayPanel->getFusionName(mSlicerManagers[index]->GetFusionName().c_str());
1256 //------------------------------------------------------------------------------
1258 //------------------------------------------------------------------------------
1259 void vvMainWindow::ShowDocumentation()
1261 documentation->show();
1263 //------------------------------------------------------------------------------
1265 //------------------------------------------------------------------------------
1266 void vvMainWindow::PopupRegisterForm(bool checkCanPush)
1268 vvRegisterForm* registerForm = new vvRegisterForm(QUrl("http://www.creatis.insa-lyon.fr/~dsarrut/vvregister/write.php"), getVVSettingsPath(), getSettingsOptionFormat());
1270 registerForm->show();
1272 if(registerForm->canPush()) {
1273 registerForm->show();
1274 registerForm->acquitPushed();//too bad if there is not internet connection anymore.
1278 //------------------------------------------------------------------------------
1280 //------------------------------------------------------------------------------
1281 void vvMainWindow::ShowHelpDialog()
1283 help_dialog->show();
1285 //------------------------------------------------------------------------------
1287 //------------------------------------------------------------------------------
1288 void vvMainWindow::ChangeViewMode()
1290 typedef struct _SIZE{
1291 QSplitter* splitter;
1292 QList<int> size1, size2;
1295 SplitterSize sizes[4];
1296 sizes[0].splitter = OSplitter;
1297 sizes[0].size1.push_back(1);
1298 sizes[0].size1.push_back(0);
1299 sizes[0].size2.push_back(1);
1300 sizes[0].size2.push_back(0);
1301 sizes[0].cols[0] = 2;
1302 sizes[0].cols[1] = 3;
1303 sizes[0].cols[2] = 4;
1305 sizes[1].splitter = ESplitter;
1306 sizes[1].size1.push_back(0);
1307 sizes[1].size1.push_back(1);
1308 sizes[1].size2.push_back(1);
1309 sizes[1].size2.push_back(0);
1310 sizes[1].cols[0] = 1;
1311 sizes[1].cols[1] = 3;
1312 sizes[1].cols[2] = 4;
1314 sizes[2].splitter = OSplitter;
1315 sizes[2].size1.push_back(1);
1316 sizes[2].size1.push_back(0);
1317 sizes[2].size2.push_back(0);
1318 sizes[2].size2.push_back(1);
1319 sizes[2].cols[0] = 1;
1320 sizes[2].cols[1] = 2;
1321 sizes[2].cols[2] = 4;
1323 sizes[3].splitter = ESplitter;
1324 sizes[3].size1.push_back(0);
1325 sizes[3].size1.push_back(1);
1326 sizes[3].size2.push_back(0);
1327 sizes[3].size2.push_back(1);
1328 sizes[3].cols[0] = 1;
1329 sizes[3].cols[1] = 2;
1330 sizes[3].cols[2] = 3;
1332 int slicer = mSlicerManagers[mCurrentPickedImageIndex]->GetSelectedSlicer();
1333 if (viewMode == 1) {
1336 splitter_3->setSizes(sizes[slicer].size1);
1337 sizes[slicer].splitter->setSizes(sizes[slicer].size2);
1338 DataTree->setColumnHidden(sizes[slicer].cols[0],1);
1339 DataTree->setColumnHidden(sizes[slicer].cols[1],1);
1340 DataTree->setColumnHidden(sizes[slicer].cols[2],1);
1348 splitter_3->setSizes(size);
1349 sizes[slicer].splitter->setSizes(size);
1350 DataTree->setColumnHidden(sizes[slicer].cols[0],0);
1351 DataTree->setColumnHidden(sizes[slicer].cols[1],0);
1352 DataTree->setColumnHidden(sizes[slicer].cols[2],0);
1355 UpdateRenderWindows();
1357 ** I don't know why but for both resized QVTKWidget we also need to render
1358 ** the associated Slicer to redraw crosses.
1360 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
1361 // if (DataTree->topLevelItem(i)->data(COLUMN_UL_VIEW,Qt::CheckStateRole).toInt() > 1)
1362 mSlicerManagers[i]->GetSlicer(0)->Render();
1363 mSlicerManagers[i]->GetSlicer(1)->Render();
1364 // if (DataTree->topLevelItem(i)->data(COLUMN_DL_VIEW,Qt::CheckStateRole).toInt() > 1)
1365 mSlicerManagers[i]->GetSlicer(2)->Render();
1366 mSlicerManagers[i]->GetSlicer(3)->Render();
1369 //------------------------------------------------------------------------------
1371 //------------------------------------------------------------------------------
1372 QString vvMainWindow::GetSizeInBytes(unsigned long size)
1374 QString result = "";// QString::number(size);
1375 //result += " bytes (";
1376 if (size > 1000000000) {
1378 result += QString::number(size);
1379 result += "GB";//)";
1380 } else if (size > 1000000) {
1382 result += QString::number(size);
1383 result += "MB";//)";
1384 } else if (size > 1000) {
1386 result += QString::number(size);
1387 result += "kB";//)";
1391 //------------------------------------------------------------------------------
1393 //------------------------------------------------------------------------------
1394 QString vvMainWindow::GetVectorDoubleAsString(std::vector<double> vectorDouble)
1397 for (unsigned int i= 0; i < vectorDouble.size(); i++) {
1400 result += QString::number(vectorDouble[i]);
1404 //------------------------------------------------------------------------------
1406 //------------------------------------------------------------------------------
1407 QString vvMainWindow::GetVectorIntAsString(std::vector<int> vectorInt)
1410 for (unsigned int i= 0; i < vectorInt.size(); i++) {
1413 result += QString::number(vectorInt[i]);
1417 //------------------------------------------------------------------------------
1419 //------------------------------------------------------------------------------
1420 //this actually returns the SlicerManager index!
1421 int vvMainWindow::GetSlicerIndexFromItem(QTreeWidgetItem* item)
1423 QString id = item->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString();
1424 for (int i = 0; i < DataTree->topLevelItemCount(); i++) {
1425 if (DataTree->topLevelItem(i)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString() == id)
1430 //------------------------------------------------------------------------------
1432 //------------------------------------------------------------------------------
1433 QTreeWidgetItem* vvMainWindow::GetItemFromSlicerManager(vvSlicerManager* sm)
1435 QString id = sm->GetId().c_str();
1436 for (int i = 0; i < DataTree->topLevelItemCount(); i++) {
1437 if (DataTree->topLevelItem(i)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString() == id)
1438 return DataTree->topLevelItem(i);
1442 //------------------------------------------------------------------------------
1444 //------------------------------------------------------------------------------
1445 void vvMainWindow::DisplayChanged(QTreeWidgetItem *clickedItem, int column)
1447 if ( column >= COLUMN_CLOSE_IMAGE || column <= 0)
1450 // Get parent information (might be the same item)
1451 int slicerManagerIndex = GetSlicerIndexFromItem(clickedItem);
1452 QTreeWidgetItem* clickedParentItem = DataTree->topLevelItem(slicerManagerIndex);
1453 vvSlicer* clickedSlicer = mSlicerManagers[slicerManagerIndex]->GetSlicer(column-1);
1455 // Go over the complete item tree (only 2 levels, parents and children)
1456 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
1457 // Trick to avoid redoing twice the job for a key (sr)
1458 mSlicerManagers[i]->GetSlicer(column-1)->GetRenderWindow()->GetInteractor()->SetKeySym("Crap");
1460 QTreeWidgetItem* currentParentItem = DataTree->topLevelItem(i);
1461 if(currentParentItem != clickedParentItem) {
1462 // Not the branch of the clicked item, uncheck all
1465 currentParentItem->setData(column,Qt::CheckStateRole, 0);
1466 mSlicerManagers[i]->UpdateSlicer(column-1, false);
1469 for (int iChild = 0; iChild < currentParentItem->childCount(); iChild++) {
1470 currentParentItem->child(iChild)->setData(column,Qt::CheckStateRole, 0);
1474 // Branch of the clicked one: get check status from actor visibility in slicer
1475 // and toggle the clicked one
1478 bool vis = clickedSlicer->GetActorVisibility("image", 0);
1479 bool draw = clickedSlicer->GetRenderer()->GetDraw();
1481 // Update slicer (after getting visibility)
1482 mSlicerManagers[slicerManagerIndex]->UpdateSlicer(column-1, true);
1483 mSlicerManagers[slicerManagerIndex]->UpdateInfoOnCursorPosition(column-1);
1484 DisplaySliders(slicerManagerIndex, column-1);
1485 if(clickedParentItem == clickedItem) {
1487 vis = !draw || !vis;
1489 clickedSlicer->SetActorVisibility("image", 0, vis);
1490 clickedParentItem->setData(column, Qt::CheckStateRole, vis?2:0);
1493 std::map<std::string, int> actorTypeCounts;
1494 for (int iChild = 0; iChild < clickedParentItem->childCount(); iChild++) {
1495 QTreeWidgetItem* currentChildItem = clickedParentItem->child(iChild);
1496 std::string actorType = currentChildItem->data(1,Qt::UserRole).toString().toStdString();
1497 vis = clickedSlicer->GetActorVisibility(actorType, actorTypeCounts[actorType]);
1498 if(currentChildItem == clickedItem) {
1499 // Toggle or force visibility if it was not on this branch so far
1500 vis = !draw || !vis;
1501 clickedSlicer->SetActorVisibility(actorType, actorTypeCounts[actorType], vis);
1503 currentChildItem->setData(column, Qt::CheckStateRole, vis?2:0);
1504 actorTypeCounts[actorType]++;
1509 clickedSlicer->Render();
1511 //------------------------------------------------------------------------------
1513 void vvMainWindow::InitSlicers()
1515 if (mSlicerManagers.size()) {
1516 mSlicerManagers.back()->GenerateDefaultLookupTable();
1517 mSlicerManagers.back()->SetSlicerWindow(0,NOViewWidget->GetRenderWindow());
1518 mSlicerManagers.back()->SetSlicerWindow(1,NEViewWidget->GetRenderWindow());
1519 mSlicerManagers.back()->SetSlicerWindow(2,SOViewWidget->GetRenderWindow());
1520 mSlicerManagers.back()->SetSlicerWindow(3,SEViewWidget->GetRenderWindow());
1521 #if VTK_MAJOR_VERSION <= 5
1522 mSlicerManagers.back()->Render(); // SR: displayed #slice is wrong without this / TB: With VTK6 and multiple images, all slicers are updated, not only the first
1527 //------------------------------------------------------------------------------
1528 void vvMainWindow::InitDisplay()
1530 if (mSlicerManagers.size()) {
1531 //BE CAREFUL : this is absolutely necessary to set the interactor style
1532 //in order to have the same style instanciation for all SlicerManagers in
1534 for (int j = 0; j < 4; j++) {
1535 vvInteractorStyleNavigator* style = vvInteractorStyleNavigator::New();
1536 style->SetAutoAdjustCameraClippingRange(1);
1537 bool AlreadySelected = false;
1538 for (int i = 0; i < DataTree->topLevelItemCount(); i++) {
1539 mSlicerManagers[i]->SetInteractorStyleNavigator(j,style);
1540 //select the image only if previous are not selected
1541 if (DataTree->topLevelItem(i)->data(j+1,Qt::CheckStateRole).toInt() > 1) {
1542 mSlicerManagers[i]->UpdateSlicer(j,1);
1543 AlreadySelected = true;
1544 } else if (i == DataTree->topLevelItemCount()-1 && !AlreadySelected) {
1545 if (DataTree->selectedItems().size() == 0) {
1546 DataTree->topLevelItem(i)->setSelected(1);
1548 DataTree->topLevelItem(i)->setData(j+1,Qt::CheckStateRole,2);
1549 mSlicerManagers[i]->UpdateSlicer(j,1);
1550 DisplaySliders(i,j);
1552 DataTree->topLevelItem(i)->setData(j+1,Qt::CheckStateRole,0);
1553 mSlicerManagers[i]->UpdateSlicer(j,0);
1560 //------------------------------------------------------------------------------
1562 //------------------------------------------------------------------------------
1563 void vvMainWindow::DisplaySliders(int slicer, int window)
1565 if(!mSlicerManagers[slicer]->GetSlicer(window)->GetRenderer()->GetDraw())
1569 mSlicerManagers[slicer]->GetSlicer(window)->GetSliceRange(range);
1570 int position = mSlicerManagers[slicer]->GetSlicer(window)->GetSlice();
1572 verticalSliders[window]->show();
1574 verticalSliders[window]->hide();
1575 verticalSliders[window]->setRange(range[0],range[1]);
1576 verticalSliders[window]->setValue(position);
1580 tRange[1] = mSlicerManagers[slicer]->GetSlicer(window)->GetTMax();
1582 horizontalSliders[window]->show();
1584 horizontalSliders[window]->hide();
1585 horizontalSliders[window]->setRange(tRange[0],tRange[1]);
1586 int tPosition = mSlicerManagers[slicer]->GetSlicer(window)->GetMaxCurrentTSlice();
1587 horizontalSliders[window]->setValue(tPosition);
1589 //------------------------------------------------------------------------------
1591 //------------------------------------------------------------------------------
1592 void vvMainWindow::CloseImage(QTreeWidgetItem* item, int column)
1594 int index = GetSlicerIndexFromItem(item);
1596 if (DataTree->topLevelItem(index) != item) {
1597 QString warning = "Do you really want to close the overlay : ";
1598 warning += item->data(COLUMN_IMAGE_NAME,Qt::DisplayRole).toString();
1599 QMessageBox msgBox(QMessageBox::Warning, tr("Close Overlay"),
1601 msgBox.addButton(tr("Close"), QMessageBox::AcceptRole);
1602 msgBox.addButton(tr("Cancel"), QMessageBox::RejectRole);
1603 if (msgBox.exec() == QMessageBox::AcceptRole) {
1604 std::string overlay_type=item->data(1,Qt::UserRole).toString().toStdString();
1605 int overlay_index=0;
1606 for (int child = 0; child < DataTree->topLevelItem(index)->childCount(); child++) {
1607 if (DataTree->topLevelItem(index)->\
1608 child(child)->data(1,Qt::UserRole).toString().toStdString() == overlay_type)
1610 if (DataTree->topLevelItem(index)->child(child) == item) break;
1612 if (overlay_type=="fusionSequence") {
1613 //removing the overlay sequence in a fusion sequence visualization mode
1614 //reset the transforms
1615 overlayPanel->getFusionSequenceProperty(-1, false, 0, false);
1617 //unlink and untie the slicer managers
1618 RemoveLink(mSlicerManagers[index]->GetId().c_str(), mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->GetId().c_str());
1619 mSlicerManagers[index]->SetFusionSequenceInvolvmentCode(-1);
1620 mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->SetFusionSequenceInvolvmentCode(-1);
1621 for (unsigned i=0 ; i<4 ; i++) {
1622 mSlicerManagers[index]->GetSlicer(i)->SetFusionSequenceCode(-1);
1623 mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->GetSlicer(i)->SetFusionSequenceCode(-1);
1627 mSlicerManagers[index]->RemoveActor(overlay_type, overlay_index-1);
1628 mSlicerManagers[index]->SetColorMap(0);
1629 DataTree->topLevelItem(index)->takeChild(DataTree->topLevelItem(index)->indexOfChild(item));
1630 mSlicerManagers[index]->Render();
1632 } else if (DataTree->topLevelItemCount() <= 1) {
1633 QString warning = "Do you really want to close the image : ";
1634 warning += item->data(COLUMN_IMAGE_NAME,Qt::DisplayRole).toString();
1635 warning += "\nThis is the last image, you're about to close vv !!!";
1636 QMessageBox msgBox(QMessageBox::Warning, tr("Close Image"),
1638 msgBox.addButton(tr("Close vv"), QMessageBox::AcceptRole);
1639 msgBox.addButton(tr("Cancel"), QMessageBox::RejectRole);
1640 if (msgBox.exec() == QMessageBox::AcceptRole) {
1644 QString warning = "Do you really want to close the image : ";
1645 warning += item->data(COLUMN_IMAGE_NAME,Qt::DisplayRole).toString();
1646 QMessageBox msgBox(QMessageBox::Warning, tr("Close Image"),
1648 msgBox.addButton(tr("Close"), QMessageBox::AcceptRole);
1649 msgBox.addButton(tr("Cancel"), QMessageBox::RejectRole);
1650 if (msgBox.exec() == QMessageBox::AcceptRole) {
1652 // Tell tools that we close an image
1653 emit AnImageIsBeingClosed(mSlicerManagers[index]);
1655 std::vector<vvSlicerManager*>::iterator Manageriter = mSlicerManagers.begin();
1656 DataTree->takeTopLevelItem(index);
1657 for (int i = 0; i < index; i++) {
1660 //if the slicer manager was involved in a fusion sequence visualization...
1661 if ( mSlicerManagers[index]->IsInvolvedInFusionSequence() ) {
1662 //in both cases, close the overlay: find it... and close it
1663 //ideally, I should duplicate the code, and avoid calling CloseImage, since this pops up another interactive box
1664 QTreeWidgetItem* overlayItem;
1665 if (mSlicerManagers[index]->IsMainSequenceOfFusionSequence()) {
1666 for (unsigned i=0 ; i<item->childCount() ; i++) {
1667 overlayItem = item->child(i);
1668 this->CloseImage( overlayItem, 0 );
1672 QTreeWidgetItem* linkedItem = this->GetItemFromSlicerManager( mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()] );
1673 for (unsigned i=0 ; i<linkedItem->childCount() ; i++) {
1674 overlayItem = linkedItem->child(i);
1675 this->CloseImage( overlayItem, 0 );
1679 /* -- this is normally already done when closing the overlay.
1680 //reset the transforms
1681 overlayPanel->getFusionSequenceProperty(-1, false, 0, false);
1683 //unlink and untie the slicer managers
1684 RemoveLink(mSlicerManagers[index]->GetId().c_str(), mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->GetId().c_str());
1685 mSlicerManagers[index]->SetFusionSequenceInvolvmentCode(-1);
1686 mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->SetFusionSequenceInvolvmentCode(-1);
1687 for (unsigned i=0 ; i<4 ; i++) {
1688 mSlicerManagers[index]->GetSlicer(i)->SetFusionSequenceCode(-1);
1689 mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->GetSlicer(i)->SetFusionSequenceCode(-1);
1694 linkPanel->removeImage(index);
1695 mSlicerManagers[index]->RemoveActors();
1697 //remove the slicer manager
1698 delete mSlicerManagers[index];
1699 mSlicerManagers.erase(Manageriter);
1707 //------------------------------------------------------------------------------
1709 //------------------------------------------------------------------------------
1710 void vvMainWindow::ReloadImage(QTreeWidgetItem* item, int column)
1712 // int index = GetSlicerIndexFromItem(item);
1713 // QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
1714 // if (item->data(1,Qt::UserRole).toString() == "vector")
1715 // mSlicerManagers[index]->ReloadVF();
1717 // mSlicerManagers[index]->Reload();
1719 // QApplication::restoreOverrideCursor();
1720 int index = GetSlicerIndexFromItem(item);
1721 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
1722 QString role=item->data(1,Qt::UserRole).toString();
1723 if ( role == "vector") {
1724 mSlicerManagers[index]->ReloadVF();
1726 else if (role == "overlay") {
1727 mSlicerManagers[index]->ReloadOverlay();
1729 else if (role == "fusion") {
1730 mSlicerManagers[index]->ReloadFusion();
1732 else if (role == "fusionSequence") {
1733 //both versions of the secondary sequence must be updated.
1734 mSlicerManagers[index]->ReloadFusionSequence();
1735 mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->Reload();
1738 mSlicerManagers[index]->Reload();
1739 //if we update the secondary sequence, then the overlay of the main sequence should also be updated
1740 if (mSlicerManagers[index]->IsSecondarySequenceOfFusionSequence()) mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->ReloadFusionSequence();
1742 // Update view and info
1744 mSlicerManagers[index]->Render();
1745 QApplication::restoreOverrideCursor();
1747 //------------------------------------------------------------------------------
1749 //------------------------------------------------------------------------------
1750 void vvMainWindow::MousePositionChanged(int visibility,double x, double y, double z, double X, double Y, double Z , double value)
1752 infoPanel->setCurrentInfo(visibility,x,y,z,X,Y,Z,value);
1754 //------------------------------------------------------------------------------
1756 //------------------------------------------------------------------------------
1757 void vvMainWindow::VectorChanged(int visibility,double x, double y, double z, double value)
1759 overlayPanel->getCurrentVectorInfo(visibility,x,y,z,value);
1761 //------------------------------------------------------------------------------
1763 //------------------------------------------------------------------------------
1764 void vvMainWindow::OverlayChanged(int visibility, double valueOver, double valueRef)
1766 overlayPanel->getCurrentOverlayInfo(visibility,valueOver, valueRef);
1768 //------------------------------------------------------------------------------
1770 //------------------------------------------------------------------------------
1771 void vvMainWindow::FusionChanged(int visibility, double value)
1773 overlayPanel->getCurrentFusionInfo(visibility,value);
1775 //------------------------------------------------------------------------------
1777 //------------------------------------------------------------------------------
1778 //called when AddOverlayImage, AddFusionSequence
1779 //or when UpdateWindowLevel() is called ; when slicerManager emits WindowLevelChanged
1780 //when ImageInfoChanged() is called
1781 void vvMainWindow::WindowLevelChanged()
1784 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1785 if(index==-1) return;
1786 windowSpinBox->setValue(mSlicerManagers[index]->GetColorWindow());
1787 levelSpinBox->setValue(mSlicerManagers[index]->GetColorLevel());
1788 colorMapComboBox->setCurrentIndex(mSlicerManagers[index]->GetColorMap());
1789 presetComboBox->setCurrentIndex(mSlicerManagers[index]->GetPreset());
1792 if (mSlicerManagers[index]->GetSlicer(0)->GetOverlay())
1793 overlayPanel->getOverlayProperty(mSlicerManagers[index]->GetOverlayColor(),
1794 mSlicerManagers[index]->GetLinkOverlayWindowLevel(),
1795 mSlicerManagers[index]->GetOverlayColorWindow(),
1796 mSlicerManagers[index]->GetOverlayColorLevel());
1798 overlayPanel->getOverlayProperty(-1,0,0.,0.);
1800 // Fusion & SequenceFusion image
1801 if (mSlicerManagers[index]->GetSlicer(0)->GetFusion()) {
1802 overlayPanel->getFusionProperty(mSlicerManagers[index]->GetFusionOpacity(),
1803 mSlicerManagers[index]->GetFusionThresholdOpacity(),
1804 mSlicerManagers[index]->GetFusionColorMap(),
1805 mSlicerManagers[index]->GetFusionWindow(),
1806 mSlicerManagers[index]->GetFusionLevel());
1807 if (mSlicerManagers[index]->IsMainSequenceOfFusionSequence()) {
1808 overlayPanel->getFusionSequenceProperty(mSlicerManagers[index]->GetFusionSequenceFrameIndex(),
1809 mSlicerManagers[index]->GetFusionSequenceSpatialSyncFlag(),
1810 mSlicerManagers[index]->GetFusionSequenceNbFrames(),
1811 mSlicerManagers[index]->GetFusionSequenceTemporalSyncFlag());
1814 else if ( mSlicerManagers[index]->IsSecondarySequenceOfFusionSequence() ) {
1815 //if the image is involved in a fusion sequence, preserve the overlay panel!
1816 int ind = mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager();
1817 overlayPanel->getFusionProperty(mSlicerManagers[ind]->GetFusionOpacity(),
1818 mSlicerManagers[ind]->GetFusionThresholdOpacity(),
1819 mSlicerManagers[ind]->GetFusionColorMap(),
1820 mSlicerManagers[ind]->GetFusionWindow(),
1821 mSlicerManagers[ind]->GetFusionLevel());
1822 overlayPanel->getFusionSequenceProperty(mSlicerManagers[ind]->GetFusionSequenceFrameIndex(),
1823 mSlicerManagers[ind]->GetFusionSequenceSpatialSyncFlag(),
1824 mSlicerManagers[ind]->GetFusionSequenceNbFrames(),
1825 mSlicerManagers[ind]->GetFusionSequenceTemporalSyncFlag());
1829 overlayPanel->getFusionProperty(-1, -1, -1, -1, -1);
1830 overlayPanel->getFusionSequenceProperty(-1, false, 0, false);
1833 //------------------------------------------------------------------------------
1835 //------------------------------------------------------------------------------
1836 void vvMainWindow::WindowLevelEdited()
1838 presetComboBox->setCurrentIndex(WL_USER);
1839 UpdateWindowLevel();
1841 //------------------------------------------------------------------------------
1843 //------------------------------------------------------------------------------
1844 void vvMainWindow::SetWindowLevel(double w, double l)
1846 windowSpinBox->setValue(w);
1847 levelSpinBox->setValue(l);
1848 presetComboBox->setCurrentIndex(WL_USER);
1849 colorMapComboBox->setCurrentIndex(0);
1850 UpdateWindowLevel();
1852 //------------------------------------------------------------------------------
1854 //------------------------------------------------------------------------------
1855 void vvMainWindow::UpdateWindowLevel()
1857 if (DataTree->selectedItems().size()) {
1858 if (presetComboBox->currentIndex() == WL_VENTILATION) //For ventilation
1859 colorMapComboBox->setCurrentIndex(5);
1860 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1861 mSlicerManagers[index]->SetColorWindow(windowSpinBox->value());
1862 mSlicerManagers[index]->SetColorLevel(levelSpinBox->value());
1863 mSlicerManagers[index]->SetPreset(presetComboBox->currentIndex());
1864 mSlicerManagers[index]->Render();
1865 WindowLevelChanged();
1868 //------------------------------------------------------------------------------
1870 //------------------------------------------------------------------------------
1871 void vvMainWindow::UpdateSlicingPreset()
1873 if (DataTree->selectedItems().size()) {
1874 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1875 mSlicerManagers[index]->SetSlicingPreset(vvSlicerManager::SlicingPresetType(slicingPresetComboBox->currentIndex()));
1878 //------------------------------------------------------------------------------
1880 //------------------------------------------------------------------------------
1881 void vvMainWindow::UpdateColorMap()
1883 if (DataTree->selectedItems().size()) {
1884 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1885 mSlicerManagers[index]->SetColorMap(colorMapComboBox->currentIndex());
1886 mSlicerManagers[index]->Render();
1889 //------------------------------------------------------------------------------
1890 void vvMainWindow::SwitchWindowLevel()
1892 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1893 int window = mSlicerManagers[index]->GetColorWindow();
1894 presetComboBox->setCurrentIndex(WL_USER);
1895 windowSpinBox->setValue(-window);
1896 UpdateWindowLevel();
1898 //------------------------------------------------------------------------------
1900 //------------------------------------------------------------------------------
1901 void vvMainWindow::ApplyWindowLevelToAllImages()
1903 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1904 if(index==-1) return;
1905 double window = mSlicerManagers[index]->GetColorWindow();
1906 double level = mSlicerManagers[index]->GetColorLevel();
1908 double fusWindow = mSlicerManagers[index]->GetFusionWindow();
1909 double fusLevel = mSlicerManagers[index]->GetFusionLevel();
1911 double overWindow = mSlicerManagers[index]->GetOverlayColorWindow();
1912 double overLevel = mSlicerManagers[index]->GetOverlayColorLevel();
1914 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
1915 if (mSlicerManagers[i] == NULL)
1917 mSlicerManagers[i]->SetColorWindow(window);
1918 mSlicerManagers[i]->SetColorLevel(level);
1919 mSlicerManagers[i]->SetPreset(WL_USER);
1920 mSlicerManagers[i]->SetFusionWindow(fusWindow);
1921 mSlicerManagers[i]->SetFusionLevel(fusLevel);
1922 mSlicerManagers[i]->SetOverlayColorWindow(overWindow);
1923 mSlicerManagers[i]->SetOverlayColorLevel(overLevel);
1924 mSlicerManagers[i]->Render();
1927 //------------------------------------------------------------------------------
1929 //------------------------------------------------------------------------------
1930 void vvMainWindow::ApplyWindowToSetOfImages(double window, unsigned int indexMin, unsigned int indexMax)
1932 for (unsigned int i = indexMin; i <= indexMax && i < mSlicerManagers.size(); i++) {
1933 if (mSlicerManagers[i] == NULL)
1935 SetWindowLevel(window, mSlicerManagers[i]->GetColorLevel());
1936 mSlicerManagers[i]->SetColorWindow(window);
1937 mSlicerManagers[i]->SetPreset(WL_USER);
1938 mSlicerManagers[i]->Render();
1941 //------------------------------------------------------------------------------
1943 //------------------------------------------------------------------------------
1944 void vvMainWindow::ApplyLevelToSetOfImages(double level, unsigned int indexMin, unsigned int indexMax)
1946 for (unsigned int i = indexMin; i <= indexMax && i < mSlicerManagers.size(); i++) {
1947 if (mSlicerManagers[i] == NULL)
1949 SetWindowLevel(mSlicerManagers[i]->GetColorWindow(), level);
1950 mSlicerManagers[i]->SetColorLevel(level);
1951 mSlicerManagers[i]->SetPreset(WL_USER);
1952 mSlicerManagers[i]->Render();
1955 //------------------------------------------------------------------------------
1957 //------------------------------------------------------------------------------
1958 void vvMainWindow::UpdateLinkManager(std::string id, int slicer, double x, double y, double z, int temps)
1960 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
1961 if (mSlicerManagers[i]->GetId() == id) {
1962 mSlicerManagers[i]->GetSlicer(slicer)->SetCurrentPosition(x,y,z,temps);
1963 mSlicerManagers[i]->UpdateViews(0,slicer);
1968 //------------------------------------------------------------------------------
1970 //------------------------------------------------------------------------------
1971 void vvMainWindow::UpdateLinkedNavigation(std::string id, vvSlicerManager * sm, vvSlicer* refSlicer)
1973 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
1974 if (id == mSlicerManagers[i]->GetId()) {
1975 mSlicerManagers[i]->UpdateLinkedNavigation(refSlicer);
1979 //------------------------------------------------------------------------------
1981 //------------------------------------------------------------------------------
1982 void vvMainWindow::ShowContextMenu(QPoint point)
1984 if (!DataTree->selectedItems().size()) {
1985 contextActions[1]->setEnabled(0);
1986 contextActions[2]->setEnabled(0);
1987 contextActions[3]->setEnabled(0);
1988 contextActions[4]->setEnabled(0);
1989 contextActions[5]->setEnabled(0);
1990 contextActions[6]->setEnabled(0);
1992 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
1993 contextActions[1]->setEnabled(1);
1994 contextActions[2]->setEnabled(
1995 DataTree->itemWidget(DataTree->selectedItems()[0],
1996 COLUMN_RELOAD_IMAGE)->isEnabled());
1997 contextActions[3]->setEnabled(1);
1998 contextActions[5]->setEnabled(1);
1999 contextActions[6]->setEnabled(1);
2001 if (mSlicerManagers[index]->GetDimension() < 3)
2002 contextActions[4]->setEnabled(0);
2004 contextActions[4]->setEnabled(1);
2006 contextMenu.exec(QCursor::pos());
2008 //------------------------------------------------------------------------------
2010 //------------------------------------------------------------------------------
2011 void vvMainWindow::CloseImage()
2013 CloseImage(DataTree->selectedItems()[0],0);
2015 //------------------------------------------------------------------------------
2017 //------------------------------------------------------------------------------
2018 void vvMainWindow::ReloadImage()
2020 ReloadImage(DataTree->selectedItems()[0],0);
2022 //------------------------------------------------------------------------------
2024 //------------------------------------------------------------------------------
2025 void vvMainWindow::SelectOverlayImage()
2027 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2029 if (!(CheckAddedImage(index, "overlay")))
2032 QString Extensions = EXTENSIONS;
2033 Extensions += ";;All Files (*)";
2034 QStringList files = QFileDialog::getOpenFileNames(this,tr("Load Overlay image"),mInputPathName,Extensions);
2035 if (files.isEmpty())
2038 std::vector<std::string> vecFileNames;
2039 for (int i = 0; i < files.size(); i++) {
2040 vecFileNames.push_back(files[i].toStdString());
2043 AddOverlayImage(index,vecFileNames,vvImageReader::IMAGE);
2045 //------------------------------------------------------------------------------
2047 //------------------------------------------------------------------------------
2048 bool vvMainWindow::CheckAddedImage(int index, QString imageType)
2050 //check if one overlay image is added
2051 for (int child = 0; child < DataTree->topLevelItem(index)->childCount(); child++)
2052 if (DataTree->topLevelItem(index)->child(child)->data(1,Qt::UserRole).toString().compare(imageType) == 0) {
2053 QString error = "Cannot add more than one compared image\n";
2054 error += "Please remove first ";
2055 error += DataTree->topLevelItem(index)->child(child)->data(COLUMN_IMAGE_NAME,Qt::DisplayRole).toString();
2056 QMessageBox::information(this,tr("Problem adding compared image !"),error);
2061 //------------------------------------------------------------------------------
2063 //------------------------------------------------------------------------------
2064 void vvMainWindow::AddOverlayImage(int index, std::vector<std::string> fileNames, vvImageReader::LoadedImageType type)
2066 QString file(fileNames[0].c_str());
2067 if (QFile::exists(file))
2069 mInputPathName = itksys::SystemTools::GetFilenamePath(file.toStdString()).c_str();
2070 itk::ImageIOBase::Pointer reader = itk::ImageIOFactory::CreateImageIO(
2071 file.toStdString().c_str(), itk::ImageIOFactory::ReadMode);
2072 reader->SetFileName(fileNames[0].c_str());
2073 reader->ReadImageInformation();
2074 std::string component = reader->GetComponentTypeAsString(reader->GetComponentType());
2075 int dimension = reader->GetNumberOfDimensions();
2076 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
2077 vvProgressDialog progress("Opening " + file.toStdString());
2078 qApp->processEvents();
2080 std::string filename = itksys::SystemTools::GetFilenameWithoutExtension(file.toStdString()).c_str();
2081 if (mSlicerManagers[index]->SetOverlay(fileNames,dimension, component,type)) {
2082 //create an item in the tree with good settings
2083 QTreeWidgetItem *item = new QTreeWidgetItem();
2084 item->setData(0,Qt::UserRole,file.toStdString().c_str());
2085 item->setData(1,Qt::UserRole,tr("overlay"));
2086 QFileInfo fileinfo(file); //Do not show the path
2087 item->setData(COLUMN_IMAGE_NAME,Qt::DisplayRole,fileinfo.fileName());
2088 item->setToolTip(COLUMN_IMAGE_NAME, mSlicerManagers[index]->GetListOfAbsoluteFilePathInOneString("overlay").c_str());
2089 qApp->processEvents();
2090 #if VTK_MAJOR_VERSION > 5
2091 for ( unsigned int i = 0; i < mSlicerManagers[index]->GetNumberOfSlicers(); i++)
2092 mSlicerManagers[index]->GetSlicer(i)->ForceUpdateDisplayExtent();
2095 for (int j = 1; j <= 4; j++) {
2096 item->setData(j,Qt::CheckStateRole,DataTree->topLevelItem(index)->data(j,Qt::CheckStateRole));
2099 //Create the buttons for reload and close
2100 qApp->processEvents();
2101 QTreePushButton* cButton = new QTreePushButton;
2102 cButton->setItem(item);
2103 cButton->setColumn(COLUMN_CLOSE_IMAGE);
2104 cButton->setToolTip(tr("close image"));
2105 cButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/exit.png")));
2106 connect(cButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2107 this,SLOT(CloseImage(QTreeWidgetItem*, int)));
2109 QTreePushButton* rButton = new QTreePushButton;
2110 rButton->setItem(item);
2111 rButton->setColumn(COLUMN_RELOAD_IMAGE);
2112 rButton->setToolTip(tr("reload image"));
2113 rButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/rotateright.png")));
2114 connect(rButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2115 this,SLOT(ReloadImage(QTreeWidgetItem*, int)));
2117 DataTree->topLevelItem(index)->setExpanded(1);
2118 DataTree->topLevelItem(index)->addChild(item);
2119 DataTree->setItemWidget(item, COLUMN_CLOSE_IMAGE, cButton);
2120 DataTree->setItemWidget(item, COLUMN_RELOAD_IMAGE, rButton);
2122 //set the id of the image
2123 QString id = DataTree->topLevelItem(index)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString();
2124 item->setData(COLUMN_IMAGE_NAME,Qt::UserRole,id.toStdString().c_str());
2126 qApp->processEvents();
2128 QApplication::restoreOverrideCursor();
2130 // Update the display to update, e.g., the sliders
2131 for(int i=0; i<4; i++)
2132 DisplaySliders(index, i);
2134 QApplication::restoreOverrideCursor();
2135 QString error = "Cannot import the new image.\n";
2136 error += mSlicerManagers[index]->GetLastError().c_str();
2137 QMessageBox::information(this,tr("Problem reading image !"),error);
2139 WindowLevelChanged();
2142 QMessageBox::information(this,tr("Problem reading Overlay !"),"File doesn't exist!");
2144 //------------------------------------------------------------------------------
2147 //------------------------------------------------------------------------------
2148 void vvMainWindow::AddROI(int index, QString file)
2151 // Get slice manager
2155 vvImageReader * mReader = new vvImageReader;
2156 mReader->SetInputFilename(filename.toStdString());
2157 mReader->Update(IMAGE);
2158 if (mReader->GetLastError().size() != 0) {
2159 std::cerr << "Error while reading " << filename.toStdString() << std::endl;
2160 QString error = "Cannot open file \n";
2161 error += mReader->GetLastError().c_str();
2162 QMessageBox::information(this,tr("Reading problem"),error);
2166 vvImage::Pointer roi = mReader->GetOutput();
2168 // Create roi in new tool
2169 vvToolStructureSetManager::AddImage(mCurrentSlicerManager, roi);
2172 //------------------------------------------------------------------------------
2174 //------------------------------------------------------------------------------
2175 void vvMainWindow::SelectFusionImage()
2177 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2179 if (!(CheckAddedImage(index, "fusion")) || !(CheckAddedImage(index, "fusionSequence")))
2182 QString Extensions = EXTENSIONS;
2183 Extensions += ";;All Files (*)";
2184 QStringList files = QFileDialog::getOpenFileNames(this,tr("Load Fusion image"),mInputPathName,Extensions);
2185 if (files.isEmpty())
2188 std::vector<std::string> vecFileNames;
2189 for (int i = 0; i < files.size(); i++) {
2190 vecFileNames.push_back(files[i].toStdString());
2192 AddFusionImage(index,vecFileNames,vvImageReader::IMAGE);
2194 //------------------------------------------------------------------------------
2196 //------------------------------------------------------------------------------
2197 void vvMainWindow::ResetTransformationToIdentity()
2199 std::string actorType = DataTree->selectedItems()[0]->data(1,Qt::UserRole).toString().toStdString();
2200 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2201 mSlicerManagers[index]->ResetTransformationToIdentity(actorType);
2204 //------------------------------------------------------------------------------
2206 //------------------------------------------------------------------------------
2207 void vvMainWindow::AddFusionImage(int index, std::vector<std::string> fileNames, vvImageReader::LoadedImageType type)
2209 QString file(fileNames[0].c_str());
2210 if (QFile::exists(file))
2212 mInputPathName = itksys::SystemTools::GetFilenamePath(file.toStdString()).c_str();
2213 itk::ImageIOBase::Pointer reader = itk::ImageIOFactory::CreateImageIO(
2214 file.toStdString().c_str(), itk::ImageIOFactory::ReadMode);
2215 reader->SetFileName(fileNames[0].c_str());
2216 reader->ReadImageInformation();
2217 std::string component = reader->GetComponentTypeAsString(reader->GetComponentType());
2218 int dimension = reader->GetNumberOfDimensions();
2219 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
2220 vvProgressDialog progress("Opening fusion");
2221 qApp->processEvents();
2223 std::string filename = itksys::SystemTools::GetFilenameWithoutExtension(file.toStdString()).c_str();
2224 if (mSlicerManagers[index]->SetFusion(fileNames,dimension, component,type)) {
2225 //create an item in the tree with good settings
2226 QTreeWidgetItem *item = new QTreeWidgetItem();
2227 item->setData(0,Qt::UserRole,file.toStdString().c_str());
2228 item->setData(1,Qt::UserRole,tr("fusion"));
2229 QFileInfo fileinfo(file); //Do not show the path
2230 item->setData(COLUMN_IMAGE_NAME,Qt::DisplayRole,fileinfo.fileName());
2231 item->setToolTip(COLUMN_IMAGE_NAME, mSlicerManagers[index]->GetListOfAbsoluteFilePathInOneString("fusion").c_str());
2232 qApp->processEvents();
2233 #if VTK_MAJOR_VERSION > 5
2234 for ( unsigned int i = 0; i < mSlicerManagers[index]->GetNumberOfSlicers(); i++)
2235 mSlicerManagers[index]->GetSlicer(i)->ForceUpdateDisplayExtent();
2237 for (int j = 1; j <= 4; j++) {
2238 item->setData(j,Qt::CheckStateRole,DataTree->topLevelItem(index)->data(j,Qt::CheckStateRole));
2241 //Create the buttons for reload and close
2242 qApp->processEvents();
2243 QTreePushButton* cButton = new QTreePushButton;
2244 cButton->setItem(item);
2245 cButton->setColumn(COLUMN_CLOSE_IMAGE);
2246 cButton->setToolTip(tr("close image"));
2247 cButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/exit.png")));
2248 connect(cButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2249 this,SLOT(CloseImage(QTreeWidgetItem*, int)));
2251 QTreePushButton* rButton = new QTreePushButton;
2252 rButton->setItem(item);
2253 rButton->setColumn(COLUMN_RELOAD_IMAGE);
2254 rButton->setToolTip(tr("reload image"));
2255 rButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/rotateright.png")));
2256 connect(rButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2257 this,SLOT(ReloadImage(QTreeWidgetItem*, int)));
2259 DataTree->topLevelItem(index)->setExpanded(1);
2260 DataTree->topLevelItem(index)->addChild(item);
2261 DataTree->setItemWidget(item, COLUMN_CLOSE_IMAGE, cButton);
2262 DataTree->setItemWidget(item, COLUMN_RELOAD_IMAGE, rButton);
2264 //set the id of the image
2265 QString id = DataTree->topLevelItem(index)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString();
2266 item->setData(COLUMN_IMAGE_NAME,Qt::UserRole,id.toStdString().c_str());
2268 qApp->processEvents();
2270 QApplication::restoreOverrideCursor();
2272 // Update the display to update, e.g., the sliders
2273 for(int i=0; i<4; i++)
2274 DisplaySliders(index, i);
2276 QApplication::restoreOverrideCursor();
2277 QString error = "Cannot import the new image.\n";
2278 error += mSlicerManagers[index]->GetLastError().c_str();
2279 QMessageBox::information(this,tr("Problem reading image !"),error);
2281 WindowLevelChanged();
2284 QMessageBox::information(this,tr("Problem reading Fusion !"),"File doesn't exist!");
2286 //------------------------------------------------------------------------------
2287 //------------------------------------------------------------------------------
2288 void vvMainWindow::AddLandmarks(int index, std::vector<std::string> files)
2290 if (!landmarksPanel->LoadFromFile(files))
2291 QMessageBox::information(this,tr("Problem reading Landmarks !"),"File doesn't exist!");
2293 landmarksPanel->SetCurrentPath(mInputPathName.toStdString());
2294 landmarksPanel->SetCurrentImage(mSlicerManagers[index]->GetFileName().c_str());
2297 //------------------------------------------------------------------------------
2298 void vvMainWindow::OpenField()
2300 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2302 if (!(CheckAddedImage(index, "vector")))
2305 QString Extensions = "Images ( *.mhd *.mha *.vf *.nii *.nrrd *.nhdr)";
2306 // Extensions += ";;Images ( *.mha)";
2307 // Extensions += ";;VF Images ( *.vf)";
2308 // Extensions += ";;nii Images ( *.nii)";
2309 // Extensions += ";;nrrd Images ( *.nrrd)";
2310 // Extensions += ";;nhdr Images ( *.nhdr)";
2311 Extensions += ";;All Files (*)";
2312 QString file = QFileDialog::getOpenFileName(this,tr("Load deformation field"),mInputPathName,Extensions);
2313 if (!file.isEmpty())
2314 AddField(file,index);
2316 //------------------------------------------------------------------------------
2319 //------------------------------------------------------------------------------
2320 void vvMainWindow::AddFieldEntry(QString filename,int index,bool from_disk)
2322 //create an item in the tree with good settings
2323 QTreeWidgetItem *item = new QTreeWidgetItem();
2324 item->setData(0,Qt::UserRole,filename.toStdString().c_str());
2325 item->setData(1,Qt::UserRole,tr("vector"));
2326 QFileInfo fileinfo(filename); //Do not show the path
2327 item->setData(COLUMN_IMAGE_NAME,Qt::DisplayRole,fileinfo.fileName());
2328 item->setToolTip(COLUMN_IMAGE_NAME, mSlicerManagers[index]->GetListOfAbsoluteFilePathInOneString("vector").c_str());
2329 qApp->processEvents();
2331 for (int j = 1; j <= 4; j++) {
2332 item->setData(j,Qt::CheckStateRole,DataTree->topLevelItem(index)->data(j,Qt::CheckStateRole));
2335 //Create the buttons for reload and close
2336 qApp->processEvents();
2337 QTreePushButton* cButton = new QTreePushButton;
2338 cButton->setItem(item);
2339 cButton->setColumn(COLUMN_CLOSE_IMAGE);
2340 cButton->setToolTip(tr("close vector field"));
2341 cButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/exit.png")));
2342 connect(cButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2343 this,SLOT(CloseImage(QTreeWidgetItem*, int)));
2345 QTreePushButton* rButton = new QTreePushButton;
2346 rButton->setItem(item);
2347 rButton->setColumn(COLUMN_RELOAD_IMAGE);
2348 rButton->setToolTip(tr("reload vector field"));
2349 rButton->setEnabled(from_disk);
2350 rButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/rotateright.png")));
2351 connect(rButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2352 this,SLOT(ReloadImage(QTreeWidgetItem*, int)));
2354 DataTree->topLevelItem(index)->setExpanded(1);
2355 DataTree->topLevelItem(index)->addChild(item);
2356 DataTree->setItemWidget(item, COLUMN_RELOAD_IMAGE, rButton);
2357 DataTree->setItemWidget(item, COLUMN_CLOSE_IMAGE, cButton);
2359 //set the id of the image
2360 QString id = DataTree->topLevelItem(index)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString();
2361 item->setData(COLUMN_IMAGE_NAME,Qt::UserRole,id.toStdString().c_str());
2363 qApp->processEvents();
2365 QApplication::restoreOverrideCursor();
2367 //------------------------------------------------------------------------------
2370 //------------------------------------------------------------------------------
2371 void vvMainWindow::AddField(vvImage::Pointer vf,QString file,int index)
2373 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
2374 vvSlicerManager* imageManager = mSlicerManagers[index];
2375 if (imageManager->SetVF(vf,file.toStdString())) {
2376 AddFieldEntry(file,index,false);
2377 #if VTK_MAJOR_VERSION > 5
2378 for ( unsigned int i = 0; i < mSlicerManagers[index]->GetNumberOfSlicers(); i++)
2379 mSlicerManagers[index]->GetSlicer(i)->ForceUpdateDisplayExtent();
2382 QString error = "Cannot import the vector field for this image.\n";
2383 error += imageManager->GetLastError().c_str();
2384 QMessageBox::information(this,tr("Problem reading VF !"),error);
2386 QApplication::restoreOverrideCursor();
2388 //------------------------------------------------------------------------------
2391 //------------------------------------------------------------------------------
2392 void vvMainWindow::AddField(QString file,int index)
2394 if (QFile::exists(file)) {
2395 mInputPathName = itksys::SystemTools::GetFilenamePath(file.toStdString()).c_str();
2397 //init the progress events
2398 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
2399 vvProgressDialog progress("Opening " + file.toStdString());
2400 qApp->processEvents();
2402 //read the vector and put it in the current mSlicerManager
2403 vvSlicerManager* imageManager = mSlicerManagers[index];
2404 qApp->processEvents();
2406 std::string filename = itksys::SystemTools::GetFilenameWithoutExtension(file.toStdString()).c_str();
2407 if (imageManager->SetVF(file.toStdString())) {
2408 imageManager->Render();
2409 AddFieldEntry(file,index,true);
2411 QApplication::restoreOverrideCursor();
2412 QString error = "Cannot import the vector field for this image.\n";
2413 error += imageManager->GetLastError().c_str();
2414 QMessageBox::information(this,tr("Problem reading VF !"),error);
2417 QMessageBox::information(this,tr("Problem reading VF !"),"File doesn't exist!");
2420 //------------------------------------------------------------------------------
2423 //------------------------------------------------------------------------------
2424 void vvMainWindow::SetVFProperty(int subsampling, int scale, int log, int width, double r, double g, double b)
2426 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2427 if (mSlicerManagers[index]->GetSlicer(0)->GetVF()) {
2428 for (int i = 0; i < 4; i++) {
2429 mSlicerManagers[index]->GetSlicer(i)->SetVFSubSampling(subsampling);
2430 mSlicerManagers[index]->GetSlicer(i)->SetVFScale(scale);
2431 mSlicerManagers[index]->GetSlicer(i)->SetVFWidth(width);
2432 mSlicerManagers[index]->GetSlicer(i)->SetVFColor(r,g,b);
2434 mSlicerManagers[index]->GetSlicer(i)->SetVFLog(1);
2436 mSlicerManagers[index]->GetSlicer(i)->SetVFLog(0);
2440 //------------------------------------------------------------------------------
2443 //------------------------------------------------------------------------------
2444 void vvMainWindow::SetOverlayProperty(int color, int linked, double window, double level)
2446 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2447 if (mSlicerManagers[index]->GetSlicer(0)->GetOverlay()) {
2448 mSlicerManagers[index]->SetOverlayColor(color);
2449 mSlicerManagers[index]->SetColorMap(0);
2450 mSlicerManagers[index]->SetLinkOverlayWindowLevel(linked);
2451 mSlicerManagers[index]->SetOverlayColorWindow(window);
2452 mSlicerManagers[index]->SetOverlayColorLevel(level);
2453 mSlicerManagers[index]->Render();
2456 //------------------------------------------------------------------------------
2458 //------------------------------------------------------------------------------
2459 void vvMainWindow::SetFusionProperty(int opacity, int thresOpacity, int colormap,double window, double level, bool showLegend)
2461 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2462 if (mSlicerManagers[index]->GetSlicer(0)->GetFusion()) {
2463 mSlicerManagers[index]->SetFusionColorMap(colormap);
2464 mSlicerManagers[index]->SetFusionOpacity(opacity);
2465 mSlicerManagers[index]->SetFusionThresholdOpacity(thresOpacity);
2466 mSlicerManagers[index]->SetFusionWindow(window);
2467 mSlicerManagers[index]->SetFusionLevel(level);
2468 mSlicerManagers[index]->SetFusionShowLegend(showLegend);
2469 mSlicerManagers[index]->SetColorMap(0);
2470 mSlicerManagers[index]->Render();
2473 //------------------------------------------------------------------------------
2476 //------------------------------------------------------------------------------
2477 void vvMainWindow::SelectFusionSequence()
2479 //get the index of the slicer manager of the main sequence (CT)
2480 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2482 if (!(CheckAddedImage(index, "fusion")) || !(CheckAddedImage(index, "fusionSequence")))
2485 QString Extensions = EXTENSIONS;
2486 Extensions += ";;All Files (*)";
2487 QStringList files = QFileDialog::getOpenFileNames(this,tr("Load Overlay image sequence"),mInputPathName,Extensions);
2488 if (files.isEmpty())
2491 std::vector<std::string> vecFileNames;
2492 for (int i = 0; i < files.size(); i++) {
2493 vecFileNames.push_back(files[i].toStdString());
2496 //associate the secondary sequence (US) to the main one
2497 AddFusionSequence(index,vecFileNames,vvImageReader::MERGEDWITHTIME);
2499 //------------------------------------------------------------------------------
2502 //------------------------------------------------------------------------------
2503 void vvMainWindow::SelectFusionSequenceCorrespondances()
2505 //make sure the index is right?
2506 //in the end, I should attach the temporal data to the right sequence!
2507 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2508 //in case the other sequence got selected, make sure we select the primary sequence
2509 if ( (!mSlicerManagers[index]->GetSlicer(0)->GetFusion()) && mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()>=0 ) {
2510 index = mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager();
2513 //open a dialog box to find a file
2514 //QString Extensions = EXTENSIONS;
2515 QString Extensions = ";;All Files (*)";
2516 QString fileName = QFileDialog::getOpenFileName(this,tr("Load respiratory signal for fused sequence"),mInputPathName,Extensions);
2517 if (fileName.isNull())
2520 //read it as a vector of values
2521 vnl_vector<double> tmpVect;
2524 file.open(fileName.toStdString().c_str());
2525 tmpVect.read_ascii(file);
2528 //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
2529 bool signalOK = true;
2530 unsigned nbFrameMain = mSlicerManagers[index]->GetImage()->GetTransform().size();
2531 unsigned nbFrameSecondary = mSlicerManagers[index]->GetFusionSequenceNbFrames();
2532 std::cout<<"nbFrameMain = "<<nbFrameMain<<", nbFrameSecondary= "<<nbFrameSecondary<<", signal size: "<<tmpVect.size()<<std::endl;
2533 std::vector<unsigned> temporalCorrespondances;
2534 if ( tmpVect.size() == nbFrameMain + nbFrameSecondary ) {
2535 for (unsigned i=0 ; i<tmpVect.size() ; i++) {
2536 if (i<nbFrameMain) { //first part of the file: i -> index in secondary seq.
2537 if ( tmpVect(i)<nbFrameSecondary ) temporalCorrespondances.push_back(tmpVect(i));
2538 else { signalOK=false; break; } //pointing outside the secondary sequence...
2540 else { //first part of the file -> index in secondary seq.
2541 if ( tmpVect(i)<nbFrameMain ) temporalCorrespondances.push_back(tmpVect(i));
2542 else { signalOK=false; break; } //pointing outside the secondary sequence...
2546 else {signalOK=false;}
2547 if (!signalOK) {//else, send a message to signal the failure...
2548 QString error = "The provided temporal correspondances is invalid - check tooltip.\n";
2549 error += "Ignoring file: " + fileName;
2550 QMessageBox::information(this,tr("Problem adding temporal correspondances!"),error);
2554 //for convenience, associate this sequence to both the current slicer manager, and to the linked one
2555 mSlicerManagers[index]->SetFusionSequenceCorrespondances(temporalCorrespondances);
2556 mSlicerManagers[ mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager() ]->SetFusionSequenceCorrespondances(temporalCorrespondances);
2557 overlayPanel->enableFusionSequenceTemporalSync();
2561 //------------------------------------------------------------------------------
2564 //------------------------------------------------------------------------------
2565 //when this function is called index is the slicer manager index corresponding to the main sequence (CT)
2566 //the files behind fileNames points to the data for the secondary sequence
2567 void vvMainWindow::AddFusionSequence(int index, std::vector<std::string> fileNames, vvImageReader::LoadedImageType type)
2569 QString file(fileNames[0].c_str());
2570 if (QFile::exists(file))
2572 mInputPathName = itksys::SystemTools::GetFilenamePath(file.toStdString()).c_str();
2573 itk::ImageIOBase::Pointer reader = itk::ImageIOFactory::CreateImageIO(
2574 file.toStdString().c_str(), itk::ImageIOFactory::ReadMode);
2575 std::sort (fileNames.begin(), fileNames.end());//make sure the files are sorted.
2576 reader->SetFileName(fileNames[0].c_str());
2577 reader->ReadImageInformation();
2578 std::string component = reader->GetComponentTypeAsString(reader->GetComponentType());
2579 int dimension = reader->GetNumberOfDimensions();
2580 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
2581 vvProgressDialog progress("Opening " + file.toStdString());
2582 qApp->processEvents();
2584 std::string filename = itksys::SystemTools::GetFilenameWithoutExtension(file.toStdString()).c_str();
2586 if (mSlicerManagers[index]->SetFusionSequence(fileNames,dimension, component,type)) {
2587 //create an item in the tree with good settings
2588 QTreeWidgetItem *item = new QTreeWidgetItem();
2589 item->setData(0,Qt::UserRole,file.toStdString().c_str());
2590 item->setData(1,Qt::UserRole,tr("fusionSequence"));
2592 QFileInfo fileinfo(file); //Do not show the path
2593 item->setData(COLUMN_IMAGE_NAME,Qt::DisplayRole,fileinfo.fileName());
2594 item->setToolTip(COLUMN_IMAGE_NAME, mSlicerManagers[index]->GetListOfAbsoluteFilePathInOneString("fusionSequence").c_str());
2595 qApp->processEvents();
2596 #if VTK_MAJOR_VERSION > 5
2597 for ( unsigned int i = 0; i < mSlicerManagers[index]->GetNumberOfSlicers(); i++)
2598 mSlicerManagers[index]->GetSlicer(i)->ForceUpdateDisplayExtent();
2600 for (int j = 1; j <= 4; j++) {
2601 item->setData(j,Qt::CheckStateRole,DataTree->topLevelItem(index)->data(j,Qt::CheckStateRole));
2604 //Create the buttons for reload and close
2605 qApp->processEvents();
2606 QTreePushButton* cButton = new QTreePushButton;
2607 cButton->setItem(item);
2608 cButton->setColumn(COLUMN_CLOSE_IMAGE);
2609 cButton->setToolTip(tr("close image"));
2610 cButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/exit.png")));
2611 connect(cButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2612 this,SLOT(CloseImage(QTreeWidgetItem*, int)));
2614 QTreePushButton* rButton = new QTreePushButton;
2615 rButton->setItem(item);
2616 rButton->setColumn(COLUMN_RELOAD_IMAGE);
2617 rButton->setToolTip(tr("reload image"));
2618 rButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/rotateright.png")));
2619 connect(rButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
2620 this,SLOT(ReloadImage(QTreeWidgetItem*, int)));
2622 DataTree->topLevelItem(index)->setExpanded(1);
2623 DataTree->topLevelItem(index)->addChild(item);
2624 DataTree->setItemWidget(item, COLUMN_CLOSE_IMAGE, cButton);
2625 DataTree->setItemWidget(item, COLUMN_RELOAD_IMAGE, rButton);
2627 //store the original transform matrix
2628 int indexParent = GetSlicerIndexFromItem( DataTree->topLevelItem(index) );
2629 mSlicerManagers[indexParent]->SetFusionSequenceMainTransformMatrix( mSlicerManagers[indexParent]->GetSlicer(0)->GetImage()->GetTransform()[0]->GetMatrix() );
2631 //set the id of the image
2632 QString id = DataTree->topLevelItem(index)->data(COLUMN_IMAGE_NAME,Qt::UserRole).toString();
2633 item->setData(COLUMN_IMAGE_NAME,Qt::UserRole,id.toStdString().c_str());
2635 qApp->processEvents();
2637 //ImageInfoChanged();
2639 QApplication::restoreOverrideCursor();
2640 // Update the display to update, e.g., the sliders
2641 for(int i=0; i<4; i++)
2642 DisplaySliders(index, i);
2645 //This loads the secondary sequence (US) as an independent sequence
2646 LoadImages(fileNames, type);
2647 //reset the transforms to identity
2648 //FIX -- and set the thickness of the US slices to a large value (necessary for visualization purposes...)
2649 double sp_x, sp_y, sp_z;
2650 mSlicerManagers[indexParent]->GetImage()->GetVTKImages()[0]->GetSpacing(sp_x, sp_y, sp_z);
2651 sp_z = std::max(sp_x, std::max(sp_y, sp_z)) + 0.5; //
2652 for (unsigned i=0 ; i<mSlicerManagers.back()->GetImage()->GetTransform().size() ; i++) {
2653 sp_x = mSlicerManagers.back()->GetImage()->GetVTKImages()[i]->GetSpacing()[0];
2654 sp_y = mSlicerManagers.back()->GetImage()->GetVTKImages()[i]->GetSpacing()[1];
2655 mSlicerManagers.back()->GetImage()->GetVTKImages()[i]->SetSpacing( sp_x, sp_y, sp_z);
2656 mSlicerManagers.back()->GetImage()->GetTransform()[i]->Identity();
2657 mSlicerManagers.back()->GetImage()->GetTransform()[i]->Update();
2660 //automatically link both images...
2661 AddLink(mSlicerManagers[indexParent]->GetId().c_str(), mSlicerManagers.back()->GetId().c_str(), false);
2663 //tie the main and secondary sequences by raising flags and informing each another of their respective SlicerManager indices
2664 mSlicerManagers[indexParent]->SetFusionSequenceIndexOfLinkedManager(mSlicerManagers.size()-1);
2665 mSlicerManagers[indexParent]->SetFusionSequenceInvolvmentCode(0); //main sequence
2666 mSlicerManagers.back()->SetFusionSequenceIndexOfLinkedManager(indexParent);
2667 mSlicerManagers.back()->SetFusionSequenceInvolvmentCode(1); //secondary sequence
2668 for (unsigned i=0 ; i<4 ; i++) {
2669 mSlicerManagers.back()->GetSlicer(i)->SetFusionSequenceCode(1); //flag the slicers of the secondary sequence
2673 QApplication::restoreOverrideCursor();
2674 QString error = "Cannot import the new image.\n";
2675 error += mSlicerManagers[index]->GetLastError().c_str();
2676 QMessageBox::information(this,tr("Problem reading image !"),error);
2678 WindowLevelChanged();
2679 ImageInfoChanged(); //this internally calls WindowLevelChanged...
2682 QMessageBox::information(this,tr("Problem reading fusion sequence !"),"File doesn't exist!");
2687 //------------------------------------------------------------------------------
2690 //------------------------------------------------------------------------------
2691 //fusionSequenceFrameIndex and fusionSequenceNbFrames are relative to the secondary sequence (US)
2692 void vvMainWindow::SetFusionSequenceProperty(int fusionSequenceFrameIndex, bool spatialSyncFlag, unsigned int fusionSequenceNbFrames, bool temporalSyncFlag)
2694 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2696 if (!mSlicerManagers[index]->IsInvolvedInFusionSequence()) return;
2698 //check if the focus moved to the linked sequence, and in this case, select the master sequence instead
2699 if (!mSlicerManagers[index]->IsMainSequenceOfFusionSequence()) {
2700 index = mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager();
2702 int secondaryIndex = mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager();
2703 if (secondaryIndex==-1) return; //this should never happen
2704 if ( (!mSlicerManagers[index]->IsMainSequenceOfFusionSequence()) ||
2705 (!mSlicerManagers[secondaryIndex]->IsSecondarySequenceOfFusionSequence()) )
2706 {return;} //this should never happen, raise an exception?
2708 if (mSlicerManagers[index]->GetSlicer(0)->GetFusion()) {
2710 //First, if the spatialSync button is unchecked, then reposition the parent sequence (CT) in its original coordinate frame
2711 if ( (!spatialSyncFlag) && (mSlicerManagers[index]->GetFusionSequenceSpatialSyncFlag()) ) {
2712 for ( unsigned i=0 ; i<mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform().size() ; i++ ) {
2713 mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform()[i]->SetMatrix( mSlicerManagers[index]->GetFusionSequenceMainTransformMatrix() );
2714 mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform()[i]->Update();
2717 for (int i=0; i<mSlicerManagers[index]->GetNumberOfSlicers(); i++) {
2718 mSlicerManagers[index]->GetSlicer(i)->ForceUpdateDisplayExtent();
2719 mSlicerManagers[index]->GetSlicer(i)->Render();
2723 //then, update the property values in the slicer manager
2724 mSlicerManagers[index]->SetFusionSequenceLength(fusionSequenceNbFrames);
2725 mSlicerManagers[index]->SetFusionSequenceSpatialSyncFlag(spatialSyncFlag);
2726 mSlicerManagers[index]->SetFusionSequenceTemporalSyncFlag(temporalSyncFlag);
2727 mSlicerManagers[index]->SetFusionSequenceFrameIndex(fusionSequenceFrameIndex);
2729 //select the right frame of the US sequence
2730 mSlicerManagers[index]->SetFusionSequenceTSlice(fusionSequenceFrameIndex); //here, I should only update the overlayed sequence
2731 mSlicerManagers[secondaryIndex]->SetTSlice(fusionSequenceFrameIndex, false); //this should update the secondary sequence (individual version)
2733 //update the horizontal sliders of the main window
2734 overlayPanel->updateFusionSequenceSliderValueFromWindow(fusionSequenceFrameIndex, false);
2736 if (spatialSyncFlag) { //reslice the CT
2738 if (temporalSyncFlag) { //do the temporal synchronisation
2739 int mainSequenceFrameIndex=0;
2740 //estimate the TSlice to set to the CT
2741 unsigned nbFramesMain = mSlicerManagers[index]->GetImage()->GetTransform().size();
2742 mainSequenceFrameIndex = mSlicerManagers[index]->GetFusionSequenceCorrespondances()[ nbFramesMain + fusionSequenceFrameIndex];
2744 mSlicerManagers[index]->SetTSlice(mainSequenceFrameIndex, false);
2745 //warning, there is a loopback, and modification of the TSlice in main sequence forces an update of the TSlice in secondary, etc...
2749 //Set the transform matrix of the parent sequence (typically CT / 4DCT)
2750 vtkSmartPointer<vtkMatrix4x4> tmpMat = vtkSmartPointer<vtkMatrix4x4>::New();
2751 vtkMatrix4x4::Invert( mSlicerManagers[index]->GetFusionSequenceInitialTransformMatrixAtFrame(fusionSequenceFrameIndex), tmpMat );
2752 for ( unsigned i=0 ; i<mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform().size() ; i++ ) {
2753 mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform()[i]->SetMatrix( mSlicerManagers[index]->GetFusionSequenceMainTransformMatrix() );
2754 mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform()[i]->PreMultiply();
2755 mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform()[i]->Concatenate( tmpMat );
2756 mSlicerManagers[index]->GetSlicer(0)->GetImage()->GetTransform()[i]->Update();
2759 for (int i=0; i<mSlicerManagers[index]->GetNumberOfSlicers(); i++) {
2760 mSlicerManagers[index]->GetSlicer(i)->ForceUpdateDisplayExtent();
2761 mSlicerManagers[index]->GetSlicer(i)->Render();
2768 //------------------------------------------------------------------------------
2771 //------------------------------------------------------------------------------
2772 void vvMainWindow::SaveAs()
2774 if (DataTree->selectedItems()[0]->data(1,Qt::UserRole).toString() == "vector") {
2775 QMessageBox::warning(this,tr("Unsupported type"),tr("Sorry, saving a vector field is unsupported for the moment"));
2779 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
2780 int dimension = mSlicerManagers[index]->GetDimension();
2781 QStringList OutputListeFormat;
2782 OutputListeFormat.clear();
2783 if (dimension == 1) {
2784 OutputListeFormat.push_back(".mhd");
2785 OutputListeFormat.push_back(".mha");
2787 if (dimension == 2) {
2788 OutputListeFormat.push_back(".bmp");
2789 OutputListeFormat.push_back(".png");
2790 OutputListeFormat.push_back(".jpeg");
2791 OutputListeFormat.push_back(".tif");
2792 OutputListeFormat.push_back(".mhd");
2793 OutputListeFormat.push_back(".mha");
2794 OutputListeFormat.push_back(".hdr");
2795 OutputListeFormat.push_back(".vox");
2796 } else if (dimension == 3) {
2797 OutputListeFormat.push_back(".mhd");
2798 OutputListeFormat.push_back(".mha");
2799 OutputListeFormat.push_back(".nii");
2800 OutputListeFormat.push_back(".nrrd");
2801 OutputListeFormat.push_back(".nhdr");
2802 OutputListeFormat.push_back(".hdr");
2803 OutputListeFormat.push_back(".vox");
2804 } else if (dimension == 4) {
2805 OutputListeFormat.push_back(".mhd");
2806 OutputListeFormat.push_back(".mha");
2807 OutputListeFormat.push_back(".nii");
2808 OutputListeFormat.push_back(".nrrd");
2809 OutputListeFormat.push_back(".nhdr");
2811 QString Extensions = "AllFiles(*.*)";
2812 for (int i = 0; i < OutputListeFormat.count(); i++) {
2813 Extensions += ";;Images ( *";
2814 Extensions += OutputListeFormat[i];
2817 QString fileName = QFileDialog::getSaveFileName(this,
2819 mSlicerManagers[index]->GetFileName().c_str(),
2821 if (!fileName.isEmpty()) {
2822 std::string fileformat = itksys::SystemTools::GetFilenameLastExtension(fileName.toStdString());
2823 if (OutputListeFormat.contains(
2824 fileformat.c_str())) {
2825 QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
2826 std::string action = "Saving";
2827 vvProgressDialog progress("Saving "+fileName.toStdString());
2828 qApp->processEvents();
2829 vvImageWriter::Pointer writer = vvImageWriter::New();
2830 writer->SetOutputFileName(fileName.toStdString());
2831 writer->SetInput(mSlicerManagers[index]->GetImage());
2833 // Check on transform and prompt user
2834 writer->SetSaveTransform(false);
2836 for(int i=0; i<4; i++)
2837 for(int j=0; j<4; j++) {
2838 // TODO SR and BP: check on the list of transforms and not the first only
2839 double elt = mSlicerManagers[index]->GetImage()->GetTransform()[0]->GetMatrix()->GetElement(i,j);
2846 QString warning = "The image has an associated linear transform. Do you want to save it along?";
2847 QMessageBox msgBox(QMessageBox::Warning, tr("Save transform"), warning, 0, this);
2848 msgBox.addButton(tr("Yes"), QMessageBox::AcceptRole);
2849 msgBox.addButton(tr("No"), QMessageBox::RejectRole);
2850 if (msgBox.exec() == QMessageBox::AcceptRole)
2851 writer->SetSaveTransform(true);
2855 QApplication::restoreOverrideCursor();
2856 if (writer->GetLastError().size()) {
2857 QString error = "Saving did not succeed\n";
2858 error += writer->GetLastError().c_str();
2859 QMessageBox::information(this,tr("Saving Problem"),error);
2863 QString error = fileformat.c_str();
2864 if (error.isEmpty())
2865 error += "no file format specified !";
2867 error += " format unknown !!!\n";
2868 QMessageBox::information(this,tr("Saving Problem"),error);
2873 //------------------------------------------------------------------------------
2875 //------------------------------------------------------------------------------
2876 void vvMainWindow::SaveCurrentState()
2878 QString Extensions = "XML Files(*.xml)";
2879 QString fileName = QFileDialog::getSaveFileName(this,
2880 tr("Save Current Window State"),
2884 SaveCurrentStateAs(fileName.toStdString());
2886 //------------------------------------------------------------------------------
2888 //------------------------------------------------------------------------------
2889 void vvMainWindow::SaveCurrentStateAs(const std::string& stateFile)
2891 vvSaveState save_state;
2892 save_state.Run(this, stateFile);
2895 //------------------------------------------------------------------------------
2896 void vvMainWindow::ReadSavedState()
2898 QString Extensions = "XML Files(*.xml)";
2899 QString fileName = QFileDialog::getOpenFileName(this,
2900 tr("Load Window State"),
2904 ReadSavedStateFile(fileName.toStdString());
2906 //------------------------------------------------------------------------------
2908 //------------------------------------------------------------------------------
2909 void vvMainWindow::ReadSavedStateFile(const std::string& stateFile)
2911 vvReadState read_state;
2912 read_state.Run(this, stateFile);
2914 //------------------------------------------------------------------------------
2916 //------------------------------------------------------------------------------
2917 void vvMainWindow::LinkAllImages()
2919 linkPanel->linkAll();
2922 //------------------------------------------------------------------------------
2923 void vvMainWindow::AddLink(QString image1,QString image2,bool fromPanel)
2926 // delegate to linkPanel if call came from elsewhere...
2927 linkPanel->addLinkFromIds(image1, image2);
2931 unsigned int sm1 = 0;
2932 unsigned int sm2 = 0;
2934 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
2935 if (image1.toStdString() == mSlicerManagers[i]->GetId()) {
2936 mSlicerManagers[i]->AddLink(image2.toStdString());
2939 if (image2.toStdString() == mSlicerManagers[i]->GetId()) {
2940 mSlicerManagers[i]->AddLink(image1.toStdString());
2945 if (linkPanel->isLinkAll()) {
2946 emit UpdateLinkedNavigation(mSlicerManagers[sm1]->GetId(), mSlicerManagers[mCurrentPickedImageIndex], mSlicerManagers[mCurrentPickedImageIndex]->GetSlicer(0));
2947 emit UpdateLinkedNavigation(mSlicerManagers[sm2]->GetId(), mSlicerManagers[mCurrentPickedImageIndex], mSlicerManagers[mCurrentPickedImageIndex]->GetSlicer(0));
2949 emit UpdateLinkedNavigation(mSlicerManagers[sm2]->GetId(), mSlicerManagers[sm1], mSlicerManagers[sm1]->GetSlicer(0));
2953 //------------------------------------------------------------------------------
2956 //------------------------------------------------------------------------------
2957 void vvMainWindow::RemoveLink(QString image1,QString image2)
2959 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
2960 if (image1.toStdString() == mSlicerManagers[i]->GetId()) {
2961 mSlicerManagers[i]->RemoveLink(image2.toStdString());
2963 if (image2.toStdString() == mSlicerManagers[i]->GetId()) {
2964 mSlicerManagers[i]->RemoveLink(image1.toStdString());
2968 //------------------------------------------------------------------------------
2970 //------------------------------------------------------------------------------
2971 void vvMainWindow::ChangeImageWithIndexOffset(vvSlicerManager *sm, int slicer, int offset)
2973 if(mSlicerManagers.size()==1)
2977 while(sm != mSlicerManagers[index])
2979 index = (index+offset+mSlicerManagers.size()) % mSlicerManagers.size();
2981 QTreeWidgetItem* item = GetItemFromSlicerManager(mSlicerManagers[index]);
2982 item->setData(slicer+1,Qt::CheckStateRole,2); //change checkbox
2983 CurrentImageChanged(mSlicerManagers[index]->GetId()); //select new image
2984 DisplayChanged(item,slicer+1);
2986 //------------------------------------------------------------------------------
2987 void vvMainWindow::HorizontalSliderMoved(int value,int column, int slicer_index)
2989 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
2990 if (DataTree->topLevelItem(i)->data(column,Qt::CheckStateRole).toInt() > 1) {
2991 //i is the SlicerManager that is in charge of this slicer.
2992 if (mSlicerManagers[i]->IsInvolvedInFusionSequence()) {
2993 //if the slicerManager is involved in a fusionSequence as the secondary sequence, then update the slider position in the overlay panel and everything accordingly
2994 if (mSlicerManagers[i]->IsSecondarySequenceOfFusionSequence()) {
2995 overlayPanel->updateFusionSequenceSliderValueFromWindow(value, true);
2997 else { //if this is the primary sequence that has been modified
2998 if (mSlicerManagers[i]->GetFusionSequenceTemporalSyncFlag()) {
2999 //WARNING: for some obscure reason, there are problems when accessing mSlicerManagers[mSlicerManagers[i]->GetFusionSequenceIndexOfLinkedManager()]->GetFusionSequenceFrameIndex();
3001 int estimatedValue=0;
3002 //estimate a corresponding time index for the secondary (US) sequence, and update it accordingly.
3003 estimatedValue = mSlicerManagers[i]->GetFusionSequenceCorrespondances()[ value ];
3004 //TODO: at the moment, there is a loop in TSlice modifications
3005 //modifying sequence 1 causes seq 2 to update, which in turns update seq1...
3006 //I disable control on seq1 at the moment.
3007 //overlayPanel->updateFusionSequenceSliderValueFromWindow(estimatedValue, true);
3012 for (int j = 0; j < 4; j++) {
3013 mSlicerManagers[i]->SetTSliceInSlicer(value,j);
3015 mSlicerManagers[i]->GetSlicer(slicer_index)->Render();
3020 //------------------------------------------------------------------------------
3023 //------------------------------------------------------------------------------
3024 void vvMainWindow::NOHorizontalSliderMoved()
3026 // if (mCurrentTime == NOHorizontalSlider->value()) return;
3027 HorizontalSliderMoved(NOHorizontalSlider->value(),COLUMN_UL_VIEW,0);
3028 // mCurrentTime = NOHorizontalSlider->value();
3030 //------------------------------------------------------------------------------
3033 //------------------------------------------------------------------------------
3034 void vvMainWindow::NEHorizontalSliderMoved()
3036 // if (mCurrentTime == NEHorizontalSlider->value()) return;
3037 HorizontalSliderMoved(NEHorizontalSlider->value(),COLUMN_UR_VIEW,1);
3038 // mCurrentTime = NEHorizontalSlider->value();
3040 //------------------------------------------------------------------------------
3043 //------------------------------------------------------------------------------
3044 void vvMainWindow::SOHorizontalSliderMoved()
3046 // if (mCurrentTime == SOHorizontalSlider->value()) return;
3047 HorizontalSliderMoved(SOHorizontalSlider->value(),COLUMN_DL_VIEW,2);
3048 // mCurrentTime = SOHorizontalSlider->value();
3050 //------------------------------------------------------------------------------
3053 //------------------------------------------------------------------------------
3054 void vvMainWindow::SEHorizontalSliderMoved()
3056 // if (mCurrentTime == SEHorizontalSlider->value()) return;
3057 HorizontalSliderMoved(SEHorizontalSlider->value(),COLUMN_DR_VIEW,3);
3058 // mCurrentTime = SEHorizontalSlider->value();
3060 //------------------------------------------------------------------------------
3062 //------------------------------------------------------------------------------
3063 void vvMainWindow::NOVerticalSliderChanged()
3065 static int value=-1;
3066 if (value == NOVerticalSlider->value()) return;
3067 else value = NOVerticalSlider->value();
3068 // int value = NOVerticalSlider->value();
3069 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
3070 if (DataTree->topLevelItem(i)->data(COLUMN_UL_VIEW,Qt::CheckStateRole).toInt() > 1) {
3071 if (mSlicerManagers[i]->GetSlicer(0)->GetSlice() != value) {
3072 mSlicerManagers[i]->GetSlicer(0)->SetSlice(value);
3073 mSlicerManagers[i]->VerticalSliderHasChanged(0, value);
3075 // If nor Update/Render -> slider not work
3076 // only render = ok navigation, but for contour Update needed but slower ?
3078 mSlicerManagers[i]->UpdateSlice(0); // <-- DS add this. Not too much update ? YES. but needed for ImageContour ...
3079 //mSlicerManagers[i]->GetSlicer(0)->Render(); // <-- DS add this, needed for contour, seems ok ? not too slow ?
3085 //------------------------------------------------------------------------------
3088 //------------------------------------------------------------------------------
3089 void vvMainWindow::NEVerticalSliderChanged()
3091 static int value=-1;
3092 if (value == NEVerticalSlider->value()) return;
3093 else value = NEVerticalSlider->value();
3094 // int value = NEVerticalSlider->value();
3095 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
3096 if (DataTree->topLevelItem(i)->data(COLUMN_UR_VIEW,Qt::CheckStateRole).toInt() > 1) {
3097 if (mSlicerManagers[i]->GetSlicer(1)->GetSlice() != value) {
3098 mSlicerManagers[i]->GetSlicer(1)->SetSlice(value);
3099 mSlicerManagers[i]->VerticalSliderHasChanged(1, value);
3100 mSlicerManagers[i]->UpdateSlice(1);
3101 //mSlicerManagers[i]->GetSlicer(1)->Render(); // <-- DS add this, needed for contour, seems ok ? not too slow ?
3107 //------------------------------------------------------------------------------
3110 //------------------------------------------------------------------------------
3111 void vvMainWindow::SOVerticalSliderChanged()
3113 static int value=-1;
3114 if (value == SOVerticalSlider->value()) return;
3115 else value = SOVerticalSlider->value();
3116 //int value = SOVerticalSlider->value();
3117 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
3118 if (DataTree->topLevelItem(i)->data(COLUMN_DL_VIEW,Qt::CheckStateRole).toInt() > 1) {
3119 if (mSlicerManagers[i]->GetSlicer(2)->GetSlice() != value) {
3120 mSlicerManagers[i]->GetSlicer(2)->SetSlice(value);
3121 mSlicerManagers[i]->VerticalSliderHasChanged(2, value);
3122 mSlicerManagers[i]->UpdateSlice(2);
3123 //mSlicerManagers[i]->GetSlicer(2)->Render(); // <-- DS add this, needed for contour, seems ok ? not too slow ?
3125 // else { DD("avoid SOVerticalSlider slicer update"); }
3130 //------------------------------------------------------------------------------
3133 //------------------------------------------------------------------------------
3134 void vvMainWindow::SEVerticalSliderChanged()
3136 static int value=-1;
3137 if (value == SEVerticalSlider->value()) return;
3138 else value = SEVerticalSlider->value();
3139 // int value = SEVerticalSlider->value();
3140 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
3141 if (DataTree->topLevelItem(i)->data(COLUMN_DR_VIEW,Qt::CheckStateRole).toInt() > 1) {
3142 if (mSlicerManagers[i]->GetSlicer(3)->GetSlice() != value) {
3143 mSlicerManagers[i]->GetSlicer(3)->SetSlice(value);
3144 mSlicerManagers[i]->VerticalSliderHasChanged(3, value);
3145 mSlicerManagers[i]->UpdateSlice(3);
3146 //mSlicerManagers[i]->GetSlicer(3)->Render(); // <-- DS add this, needed for contour, seems ok ? not too slow ?
3152 //------------------------------------------------------------------------------
3155 //------------------------------------------------------------------------------
3156 void vvMainWindow::UpdateSlice(int slicer, int slice)
3158 // DD("vvMainWindow::UpdateSlice");
3162 // if (slice != NOVerticalSlider->value())
3163 NOVerticalSlider->setValue(slice);
3166 NEVerticalSlider->setValue(slice);
3169 SOVerticalSlider->setValue(slice);
3172 SEVerticalSlider->setValue(slice);
3176 // DD("vvMainWindow:UpdateSlice END");
3178 //------------------------------------------------------------------------------
3181 //------------------------------------------------------------------------------
3182 void vvMainWindow::UpdateTSlice(int slicer, int slice, int code)
3184 //FusionSequence: the slider value should be updated for slicers which show the same sequence as requested
3185 bool doUpdate=false;
3186 if (code==-1) doUpdate=true;
3188 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
3189 if (DataTree->topLevelItem(i)->data(slicer+1,Qt::CheckStateRole).toInt() > 1) {
3190 //i is the active SlicerManager
3191 if (mSlicerManagers[i]->GetFusionSequenceInvolvmentCode()==code) doUpdate=true;
3196 if (!doUpdate) return;
3200 if (NOHorizontalSlider->value()==slice) return;
3201 NOHorizontalSlider->setValue(slice);
3204 if (NEHorizontalSlider->value()==slice) return;
3205 NEHorizontalSlider->setValue(slice);
3208 if (SOHorizontalSlider->value()==slice) return;
3209 SOHorizontalSlider->setValue(slice);
3212 if (SEHorizontalSlider->value()==slice) return;
3213 SEHorizontalSlider->setValue(slice);
3217 //------------------------------------------------------------------------------
3220 //------------------------------------------------------------------------------
3221 void vvMainWindow::UpdateSliceRange(int slicer, int min, int max, int tmin, int tmax)
3223 //int position = int((min+max)/2);
3224 int position = mSlicerManagers[mCurrentPickedImageIndex]->GetSlicer(slicer)->GetSlice();
3226 NOVerticalSlider->setRange(min,max);
3227 NOHorizontalSlider->setRange(tmin,tmax);
3228 NOVerticalSlider->setValue(position);
3229 } else if (slicer == 1) {
3230 NEVerticalSlider->setRange(min,max);
3231 NEHorizontalSlider->setRange(tmin,tmax);
3232 NEVerticalSlider->setValue(position);
3233 } else if (slicer == 2) {
3234 SOVerticalSlider->setRange(min,max);
3235 SOHorizontalSlider->setRange(tmin,tmax);
3236 SOVerticalSlider->setValue(position);
3237 } else if (slicer == 3) {
3238 SEVerticalSlider->setRange(min,max);
3239 SEHorizontalSlider->setRange(tmin,tmax);
3240 SEVerticalSlider->setValue(position);
3243 //------------------------------------------------------------------------------
3246 //------------------------------------------------------------------------------
3247 void vvMainWindow::SaveNOScreenshot()
3249 SaveScreenshot(NOViewWidget);
3251 //------------------------------------------------------------------------------
3254 //------------------------------------------------------------------------------
3255 void vvMainWindow::SaveNEScreenshot()
3257 SaveScreenshot(NEViewWidget);
3259 //------------------------------------------------------------------------------
3262 //------------------------------------------------------------------------------
3263 void vvMainWindow::SaveSOScreenshot()
3265 SaveScreenshot(SOViewWidget);
3267 //------------------------------------------------------------------------------
3270 //------------------------------------------------------------------------------
3271 void vvMainWindow::SaveSEScreenshot()
3273 SaveScreenshot(SEViewWidget);
3275 //------------------------------------------------------------------------------
3278 //------------------------------------------------------------------------------
3279 void vvMainWindow::SaveScreenshotAllSlices()
3281 QVTKWidget *widget = NOViewWidget;
3283 int index = 0;// GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
3284 vvSlicerManager * SM = mSlicerManagers[index];
3285 vvImage * image = SM->GetImage();
3286 vvSlicer * slicer = SM->GetSlicer(0);
3287 int orientation = slicer->GetOrientation();
3288 int nbSlices = image->GetSize()[orientation];
3289 vtkSmartPointer<vtkRenderWindow> renderWindow = widget->GetRenderWindow();
3291 // Select filename base
3292 QString filename = QFileDialog::getSaveFileName(this,
3293 tr("Save As (filename will be completed by slice number)"),
3294 itksys::SystemTools::GetFilenamePath(mSlicerManagers[index]->GetFileName()).c_str(),
3295 "Images( *.png);;Images( *.jpg)");
3298 for(int i=0; i<nbSlices; i++) {
3300 slicer->SetSlice(i); // -> change the slice of the current slicer
3301 SM->UpdateSlice(0); // --> this one emit UpdateSlice
3302 QCoreApplication::flush(); // -> needed to force display of contours
3305 vtkSmartPointer<vtkWindowToImageFilter> windowToImageFilter = vtkSmartPointer<vtkWindowToImageFilter>::New();
3306 windowToImageFilter->SetInput(renderWindow);
3307 #if VTK_MAJOR_VERSION >= 8 && VTK_MINOR_VERSION >= 1
3308 windowToImageFilter->SetScale(1);
3310 windowToImageFilter->SetMagnification(1);
3312 windowToImageFilter->SetInputBufferTypeToRGBA(); //also record the alpha (transparency) channel
3313 windowToImageFilter->Update();
3315 vtkSmartPointer<vtkPNGWriter> writer = vtkSmartPointer<vtkPNGWriter>::New();
3316 std::string fn = itksys::SystemTools::GetFilenameWithoutLastExtension(filename.toStdString());
3317 std::string num = clitk::toString(i);
3318 if (i<10) num = "0"+num;
3319 if (i<100) num = "0"+num;
3320 if (i<1000) num = "0"+num;
3322 fn = itksys::SystemTools::GetFilenamePath(filename.toStdString()) + "/"+ fn
3323 + "_" + num + itksys::SystemTools::GetFilenameLastExtension(filename.toStdString());
3324 writer->SetFileName(fn.c_str());
3325 #if VTK_MAJOR_VERSION <= 5
3326 writer->SetInput(windowToImageFilter->GetOutput());
3328 writer->SetInputConnection(windowToImageFilter->GetOutputPort());
3333 //------------------------------------------------------------------------------
3336 //------------------------------------------------------------------------------
3337 void vvMainWindow::SaveScreenshot(QVTKWidget *widget)
3339 QString Extensions = "Images( *.png);;";
3340 Extensions += "Images( *.jpg);;";
3341 Extensions += "Images( *.bmp);;";
3342 Extensions += "Images( *.tif);;";
3343 Extensions += "Images( *.ppm)";
3344 #if defined(VTK_USE_FFMPEG_ENCODER) || defined(VTK_USE_VIDEO_FOR_WINDOWS)
3345 Extensions += ";;Video( *.avi)";
3347 #ifdef VTK_USE_MPEG2_ENCODER
3348 Extensions += ";;Video( *.mpg)";
3350 Extensions += ";;Video( *.gif)";
3352 int smIndex=GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
3353 QString fileName = QFileDialog::getSaveFileName(this,
3355 itksys::SystemTools::GetFilenamePath(mSlicerManagers[smIndex]->GetFileName()).c_str(),
3358 if (!fileName.isEmpty()) {
3359 vtkSmartPointer<vtkWindowToImageFilter> w2i = vtkSmartPointer<vtkWindowToImageFilter>::New();
3360 w2i->SetInput(widget->GetRenderWindow());
3361 #if VTK_MAJOR_VERSION >= 8 && VTK_MINOR_VERSION >= 1
3364 w2i->SetMagnification(1);
3366 w2i->SetInputBufferTypeToRGBA(); //also record the alpha (transparency) channel
3368 vtkImageData *image = w2i->GetOutput();
3370 std::string ext(itksys::SystemTools::GetFilenameLastExtension(fileName.toStdString()));
3373 vtkImageWriter *imgwriter = NULL;
3375 imgwriter = vtkBMPWriter::New();
3376 else if (ext==".tif")
3377 imgwriter = vtkTIFFWriter::New();
3378 else if (ext==".ppm")
3379 imgwriter = vtkPNMWriter::New();
3380 else if (ext==".png")
3381 imgwriter = vtkPNGWriter::New();
3382 else if (ext==".jpg")
3383 imgwriter = vtkJPEGWriter::New();
3385 // Snapshot image if not null
3386 if(imgwriter!=NULL) {
3387 #if VTK_MAJOR_VERSION <= 5
3388 imgwriter->SetInput(image);
3390 imgwriter->SetInputConnection(w2i->GetOutputPort());
3392 imgwriter->SetFileName(fileName.toStdString().c_str());
3398 vtkGenericMovieWriter *vidwriter = NULL;
3400 vvAnimatedGIFWriter *gif = vvAnimatedGIFWriter::New();
3405 int fps = QInputDialog::getInt(this, tr("Number of frames per second"),
3406 tr("FPS:"), 5, 0, 1000, 1, &ok);
3411 int loops = QInputDialog::getInt(this, tr("Loops"),
3412 tr("Number of loops (0 means infinite):"), 0, 0, 1000000000, 1, &ok);
3414 gif->SetLoops(loops);
3417 QString msg = "Would you like to activate dithering?";
3418 QMessageBox msgBox(QMessageBox::Question, tr("Dithering"),msg, 0, this);
3419 msgBox.addButton(tr("Yes"), QMessageBox::AcceptRole);
3420 msgBox.addButton(tr("No"), QMessageBox::RejectRole);
3421 gif->SetDither(msgBox.exec() == QMessageBox::AcceptRole);
3423 #ifdef VTK_USE_VIDEO_FOR_WINDOWS
3425 vtkAVIWriter *mpg = vtkAVIWriter::New();
3429 int fps = QInputDialog::getInt(this, tr("Number of frames per second"),
3430 tr("FPS:"), 5, 0, 1024, 1, &ok);
3436 #ifdef VTK_USE_FFMPEG_ENCODER
3438 vtkFFMPEGWriter *mpg = vtkFFMPEGWriter::New();
3442 int fps = QInputDialog::getInt(this, tr("Number of frames per second"),
3443 tr("FPS:"), 5, 0, 1024, 1, &ok);
3447 mpg->SetBitRateTolerance(int(ceil(12.0*1024*1024/fps)));
3450 #ifdef VTK_USE_MPEG2_ENCODER
3452 vtkMPEG2Writer *mpg = vtkMPEG2Writer::New();
3457 // Take video if not null
3458 if(vidwriter!=NULL){
3459 #if VTK_MAJOR_VERSION <= 5
3460 vidwriter->SetInput(image);
3462 vidwriter->SetInputConnection(w2i->GetOutputPort());
3464 vidwriter->SetFileName(fileName.toStdString().c_str());
3466 int nSlice = mSlicerManagers[smIndex]->GetSlicer(0)->GetTMax();
3467 for(int i=0; i<=nSlice; i++) {
3468 mSlicerManagers[smIndex]->SetNextTSlice(0);
3469 vtkSmartPointer<vtkWindowToImageFilter> w2i = vtkSmartPointer<vtkWindowToImageFilter>::New();
3470 w2i->SetInput(widget->GetRenderWindow());
3472 #if VTK_MAJOR_VERSION <= 5
3473 vidwriter->SetInput(w2i->GetOutput());
3475 vidwriter->SetInputConnection(w2i->GetOutputPort());
3480 vidwriter->Delete();
3484 QMessageBox::information(this,tr("Problem saving screenshot !"),tr("Cannot save image.\nPlease set a file extension !!!"));
3487 //------------------------------------------------------------------------------
3490 //------------------------------------------------------------------------------
3491 void vvMainWindow::GoToCursor()
3493 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
3494 for (int column = 1; column < 5; column++) {
3495 if (DataTree->selectedItems()[0]->data(column,Qt::CheckStateRole).toInt() > 1) {
3496 double* cursorPos = mSlicerManagers[index]->GetSlicer(column-1)->GetCursorPosition();
3497 mSlicerManagers[index]->GetSlicer(column-1)->SetCurrentPosition(
3498 cursorPos[0],cursorPos[1],cursorPos[2],cursorPos[3]);
3499 mSlicerManagers[index]->UpdateViews(1,column-1);
3500 mSlicerManagers[index]->UpdateLinked(column-1);
3505 //------------------------------------------------------------------------------
3507 //------------------------------------------------------------------------------
3508 void vvMainWindow::GoToLandmark()
3510 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
3511 for (int column = 1; column < 5; column++) {
3512 if (DataTree->selectedItems()[0]->data(column,Qt::CheckStateRole).toInt() > 1) {
3513 double* cursorPos = landmarksPanel->GetSelectedPoint();
3514 mSlicerManagers[index]->GetSlicer(column-1)->SetCurrentPosition(
3515 cursorPos[0],cursorPos[1],cursorPos[2],cursorPos[3]);
3516 mSlicerManagers[index]->UpdateViews(1,column-1);
3517 mSlicerManagers[index]->UpdateLinked(column-1);
3522 //------------------------------------------------------------------------------
3524 //------------------------------------------------------------------------------
3525 void vvMainWindow::PlayPause()
3529 playButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/player_play.png")));
3533 int image_number=DataTree->topLevelItemCount();
3535 for (int i=0; i<image_number; i++)
3536 if (mSlicerManagers[i]->GetSlicer(0)->GetTMax() > 0) {
3542 playButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/player_pause.png")));
3543 QTimer::singleShot(1000/mFrameRate, this, SLOT(PlayNext()));
3547 //------------------------------------------------------------------------------
3549 //------------------------------------------------------------------------------
3550 void vvMainWindow::PlayNext()
3552 if (playMode && !this->isHidden()) {
3553 int image_number=DataTree->topLevelItemCount();
3554 ///Only play one slicer per SM, and only if the SM is being displayed
3555 for (int i=0; i<image_number; i++)
3556 for (int j=0; j<4; j++)
3557 if (mSlicerManagers[i]->GetSlicer(0)->GetTMax() > 0 &&
3558 DataTree->topLevelItem(i)->data(j+1,Qt::CheckStateRole).toInt() > 0) {
3559 mSlicerManagers[i]->SetNextTSlice(j);
3562 QTimer::singleShot(1000/mFrameRate, this, SLOT(PlayNext()));
3565 //------------------------------------------------------------------------------
3567 void vvMainWindow::ShowLastImage()
3569 if (mSlicerManagers.size() > 1) {
3570 QTreeWidgetItem * item=DataTree->topLevelItem(DataTree->topLevelItemCount()-1);
3571 CurrentImageChanged(mSlicerManagers.back()->GetId()); //select new image
3572 item->setData(1,Qt::CheckStateRole,2); //show the new image in the first panel
3573 //mSlicerManagers[GetSlicerIndexFromItem(item)]->GetSlicer(0)->SetActorVisibility("image", 0, 1); //Set the Last Image visibles
3574 DisplayChanged(item,1);
3578 //------------------------------------------------------------------------------
3579 void vvMainWindow::UpdateRenderWindows()
3581 for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
3582 for (unsigned int j = 0; j < 4; ++j) {
3583 mSlicerManagers[i]->GetSlicer(j)->RemoveLandmarks();
3584 mSlicerManagers[i]->GetSlicer(j)->DisplayLandmarks();
3587 if (NOViewWidget->GetRenderWindow()) NOViewWidget->GetRenderWindow()->Render();
3588 if (NEViewWidget->GetRenderWindow()) NEViewWidget->GetRenderWindow()->Render();
3589 if (SOViewWidget->GetRenderWindow()) SOViewWidget->GetRenderWindow()->Render();
3590 if (SEViewWidget->GetRenderWindow()) SEViewWidget->GetRenderWindow()->Render();
3592 //------------------------------------------------------------------------------
3594 //------------------------------------------------------------------------------
3595 void vvMainWindow::SegmentationOnCurrentImage()
3597 int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
3599 vvSegmentationDialog segmentation;
3600 segmentation.SetImage(mSlicerManagers[index]->GetSlicer(0)->GetImage());
3601 segmentation.exec();
3603 //------------------------------------------------------------------------------
3605 void vvMainWindow::SurfaceViewerLaunch()
3607 vvSurfaceViewerDialog surfaceViewer;
3608 surfaceViewer.exec();
3610 //------------------------------------------------------------------------------
3613 //------------------------------------------------------------------------------
3614 int vvMainWindow::GetImageDuplicateFilenameNumber(std::string filename)
3617 for(unsigned int l=0; l<mSlicerManagers.size(); l++) {
3618 vvSlicerManager * v = mSlicerManagers[l];
3619 if (v->GetBaseFileName() ==
3620 vtksys::SystemTools::GetFilenameName(vtksys::SystemTools::GetFilenameWithoutLastExtension(filename))) {
3621 number = std::max(number, v->GetBaseFileNameNumber()+1);
3626 //------------------------------------------------------------------------------
3629 //------------------------------------------------------------------------------
3630 vvSlicerManager* vvMainWindow::AddImage(vvImage::Pointer image,std::string filename)
3632 // Change filename if another image exist with the same name
3633 int number = GetImageDuplicateFilenameNumber(filename);
3635 // Create new SliceManager
3636 vvSlicerManager* slicer_manager = new vvSlicerManager(4);
3637 slicer_manager->SetImage(image);//, IMAGE, number);
3638 // filename = filename+"_"+clitk::toString(number);
3639 slicer_manager->SetFilename(filename, number);
3640 mSlicerManagers.push_back(slicer_manager);
3642 //create an item in the tree with good settings
3643 QTreeWidgetItem *item = new QTreeWidgetItem();
3644 item->setData(0,Qt::UserRole,slicer_manager->GetFileName().c_str());//files[i].c_str());
3645 item->setData(1,Qt::UserRole,tr("image"));
3646 item->setData(COLUMN_IMAGE_NAME,Qt::DisplayRole,slicer_manager->GetFileName().c_str());//filename.c_str());
3647 qApp->processEvents();
3649 for (int j = 1; j <= 4; j++) item->setData(j,Qt::CheckStateRole,1);
3651 //Create the buttons for reload and close
3652 qApp->processEvents();
3653 QTreePushButton* cButton = new QTreePushButton;
3654 cButton->setItem(item);
3655 cButton->setColumn(COLUMN_CLOSE_IMAGE);
3656 cButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/exit.png")));
3657 connect(cButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
3658 this,SLOT(CloseImage(QTreeWidgetItem*, int)));
3660 QTreePushButton* rButton = new QTreePushButton;
3661 rButton->setItem(item);
3662 rButton->setColumn(COLUMN_RELOAD_IMAGE);
3663 rButton->setIcon(QIcon(QString::fromUtf8(":/common/icons/rotateright.png")));
3664 rButton->setEnabled(0);
3665 connect(rButton,SIGNAL(clickedInto(QTreeWidgetItem*, int)),
3666 this,SLOT(ReloadImage(QTreeWidgetItem*, int)));
3668 DataTree->addTopLevelItem(item);
3669 DataTree->setItemWidget(item, COLUMN_CLOSE_IMAGE, cButton);
3670 DataTree->setItemWidget(item, COLUMN_RELOAD_IMAGE, rButton);
3672 //set the id of the image
3673 QString id = QDir::current().absoluteFilePath(slicer_manager->GetFileName().c_str()) + QString::number(mSlicerManagers.size()-1);
3674 item->setData(COLUMN_IMAGE_NAME,Qt::UserRole,id.toStdString().c_str());
3675 mSlicerManagers.back()->SetId(id.toStdString());
3677 linkPanel->addImage(slicer_manager->GetFileName().c_str()// filename
3678 , id.toStdString());
3680 connect(mSlicerManagers.back(), SIGNAL(currentImageChanged(std::string)),
3681 this, SLOT(CurrentImageChanged(std::string)));
3682 connect(mSlicerManagers.back(), SIGNAL(currentPickedImageChanged(std::string)),
3683 this, SLOT(CurrentPickedImageChanged(std::string)));
3684 connect(mSlicerManagers.back(), SIGNAL(UpdatePosition(int, double, double, double, double, double, double, double)),
3685 this, SLOT(MousePositionChanged(int,double, double, double, double, double, double, double)));
3686 connect(mSlicerManagers.back(), SIGNAL(UpdateVector(int, double, double, double, double)),
3687 this, SLOT(VectorChanged(int,double,double,double, double)));
3688 connect(mSlicerManagers.back(), SIGNAL(UpdateOverlay(int, double, double)),
3689 this, SLOT(OverlayChanged(int,double,double)));
3690 connect(mSlicerManagers.back(), SIGNAL(UpdateFusion(int, double)),
3691 this, SLOT(FusionChanged(int,double)));
3692 //connect(mSlicerManagers.back(), SIGNAL(UpdateFusionSequence(int, bool, unsigned int)),
3693 // this, SLOT(FusionSequenceChanged(int, bool, unsigned int)));
3694 connect(mSlicerManagers.back(), SIGNAL(WindowLevelChanged()),
3695 this,SLOT(WindowLevelChanged()));
3696 connect(mSlicerManagers.back(), SIGNAL(UpdateSlice(int,int)),
3697 this,SLOT(UpdateSlice(int,int)));
3698 connect(mSlicerManagers.back(), SIGNAL(UpdateTSlice(int, int, int)),
3699 this,SLOT(UpdateTSlice(int, int, int)));
3700 connect(mSlicerManagers.back(), SIGNAL(UpdateTSlice(int, int, int)),
3701 this,SLOT(ImageInfoChanged()));
3702 connect(mSlicerManagers.back(), SIGNAL(UpdateSliceRange(int,int,int,int,int)),
3703 this,SLOT(UpdateSliceRange(int,int,int,int,int)));
3704 connect(mSlicerManagers.back(), SIGNAL(UpdateLinkManager(std::string,int,double,double,double,int)),
3705 this,SLOT(UpdateLinkManager(std::string,int,double,double,double,int)));
3706 connect(mSlicerManagers.back(), SIGNAL(UpdateLinkedNavigation(std::string,vvSlicerManager*,vvSlicer*)),
3707 this,SLOT(UpdateLinkedNavigation(std::string,vvSlicerManager*,vvSlicer*)));
3708 connect(mSlicerManagers.back(), SIGNAL(ChangeImageWithIndexOffset(vvSlicerManager*,int,int)),
3709 this,SLOT(ChangeImageWithIndexOffset(vvSlicerManager*,int,int)));
3710 connect(mSlicerManagers.back(), SIGNAL(LandmarkAdded()),landmarksPanel,SLOT(AddPoint()));
3711 connect(landmarksPanel,SIGNAL(UpdateLandmarkTransform()), mSlicerManagers.back(), SLOT(UpdateLandmark()));
3717 qApp->processEvents();
3720 qApp->processEvents();
3723 return slicer_manager;
3725 //------------------------------------------------------------------------------
3728 //------------------------------------------------------------------------------
3729 void vvMainWindow::UpdateCurrentSlicer()
3732 if (DataTree->selectedItems().size() > 0) {
3733 index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
3735 mSlicerManagerCurrentIndex = index;
3737 //------------------------------------------------------------------------------