#include "vvSaveState.h"
#include "vvReadState.h"
#include "clitkConfiguration.h"
+#include "clitkMatrix.h"
// ITK include
#include <itkImage.h>
#define COLUMN_IMAGE_NAME 7
#ifdef CLITK_PRIVATE_FEATURES
-#define EXTENSIONS "Images ( *.bmp *.png *.jpeg *.jpg *.tif *.mhd *.mha *.hdr *.vox *.his *.xdr *.SCAN *.nii *.nrrd *.nhdr *.refscan *.nii.gz *.usf *.svl)"
+#define EXTENSIONS "Images ( *.bmp *.dcm *.png *.jpeg *.jpg *.tif *.mhd *.mha *.hdr *.vox *.his *.xdr *.SCAN *.nii *.nrrd *.nhdr *.refscan *.nii.gz *.usf *.svl)"
#else
-#define EXTENSIONS "Images ( *.bmp *.png *.jpeg *.jpg *.tif *.mhd *.mha *.hdr *.vox *.his *.xdr *.SCAN *.nii *.nrrd *.nhdr *.refscan *.nii.gz)"
+#define EXTENSIONS "Images ( *.bmp *.dcm *.png *.jpeg *.jpg *.tif *.mhd *.mha *.hdr *.vox *.his *.xdr *.SCAN *.nii *.nrrd *.nhdr *.refscan *.nii.gz)"
#endif
mSlicerManagers[selected]->GetTSlice());
landmarksPanel->SetCurrentPath(mInputPathName.toStdString());
landmarksPanel->SetCurrentImage(mSlicerManagers[selected]->GetFileName().c_str());
-
+
emit SelectedImageHasChanged(mSlicerManagers[selected]);
}
//------------------------------------------------------------------------------
infoPanel->setNPixel(QString::number(NPixel)+" ("+inputSizeInBytes+")");
transformation = imageSelected->GetTransform()[tSlice]->GetMatrix();
- infoPanel->setTransformation(Get4x4MatrixDoubleAsString(transformation));
+ infoPanel->setTransformation(clitk::Get4x4MatrixDoubleAsString(transformation).c_str());
landmarksPanel->SetCurrentLandmarks(mSlicerManagers[index]->GetLandmarks(),
mSlicerManagers[index]->GetTSlice());
// infoPanel->setOrigin(GetVectorDoubleAsString(origin));
// infoPanel->setSpacing(GetVectorDoubleAsString(inputSpacing));
// infoPanel->setNPixel(QString::number(NPixel)+" ("+inputSizeInBytes+")");
-//
+//
// landmarksPanel->SetCurrentLandmarks(mSlicerManagers[index]->GetLandmarks(),
// mSlicerManagers[index]->GetTSlice());
// landmarksPanel->SetCurrentPath(mInputPathName.toStdString());
// landmarksPanel->SetCurrentImage(mSlicerManagers[index]->GetFileName().c_str());
-//
+//
// overlayPanel->getCurrentImageName(mSlicerManagers[index]->GetFileName().c_str());
// for (int i = 0; i < 4; i++) {
// if (DataTree->selectedItems()[0]->data(i+1,Qt::CheckStateRole).toInt() > 0 || i == 3) {
}
//------------------------------------------------------------------------------
-//------------------------------------------------------------------------------
-QString vvMainWindow::Get4x4MatrixDoubleAsString(vtkSmartPointer<vtkMatrix4x4> matrix, const int precision)
-{
- std::ostringstream strmatrix;
-
- // Figure out the number of digits of the integer part of the largest absolute value
- // for each column
- unsigned width[4];
- for (unsigned int j = 0; j < 4; j++){
- double absmax = 0.;
- for (unsigned int i = 0; i < 4; i++)
- absmax = std::max(absmax, vnl_math_abs(matrix->GetElement(i, j)));
- unsigned ndigits = (unsigned)std::max(0.,std::log10(absmax))+1;
- width[j] = precision+ndigits+3;
- }
-
- // Output with correct width, aligned to the right
- for (unsigned int i = 0; i < 4; i++) {
- for (unsigned int j = 0; j < 4; j++) {
- strmatrix.setf(ios::fixed,ios::floatfield);
- strmatrix.precision(precision);
- strmatrix.fill(' ');
- strmatrix.width(width[j]);
- strmatrix << std::right << matrix->GetElement(i, j);
- }
- strmatrix << std::endl;
- }
- QString result = strmatrix.str().c_str();
- return result;
-}
-//------------------------------------------------------------------------------
-
//------------------------------------------------------------------------------
QString vvMainWindow::GetVectorDoubleAsString(std::vector<double> vectorDouble)
{
clickedParentItem->setData(column, Qt::CheckStateRole, vis?2:0);
// Children
- std::map<std::string, int> actorTypeCounts;
+ std::map<std::string, int> actorTypeCounts;
for (int iChild = 0; iChild < clickedParentItem->childCount(); iChild++) {
QTreeWidgetItem* currentChildItem = clickedParentItem->child(iChild);
std::string actorType = currentChildItem->data(1,Qt::UserRole).toString().toStdString();
mSlicerManagers.back()->SetSlicerWindow(1,NEViewWidget->GetRenderWindow());
mSlicerManagers.back()->SetSlicerWindow(2,SOViewWidget->GetRenderWindow());
mSlicerManagers.back()->SetSlicerWindow(3,SEViewWidget->GetRenderWindow());
+ mSlicerManagers.back()->Render(); // SR: displayed #slice is wrong without this
}
}
if (DataTree->topLevelItem(index)->child(child) == item) break;
}
if (overlay_type=="fusionSequence") {
- //removing the overlay sequence in a fusion sequence visualization mode
+ //removing the overlay sequence in a fusion sequence visualization mode
//reset the transforms
overlayPanel->getFusionSequenceProperty(-1, false, 0, false);
else if (role == "fusionSequence") {
//both versions of the secondary sequence must be updated.
mSlicerManagers[index]->ReloadFusionSequence();
- mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->Reload();
+ mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->Reload();
}
else {
mSlicerManagers[index]->Reload();
//if we update the secondary sequence, then the overlay of the main sequence should also be updated
- if (mSlicerManagers[index]->IsSecondarySequenceOfFusionSequence()) mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->ReloadFusionSequence();
+ if (mSlicerManagers[index]->IsSecondarySequenceOfFusionSequence()) mSlicerManagers[mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager()]->ReloadFusionSequence();
}
// Update view and info
ImageInfoChanged();
mSlicerManagers[index]->GetFusionLevel());
if (mSlicerManagers[index]->IsMainSequenceOfFusionSequence()) {
overlayPanel->getFusionSequenceProperty(mSlicerManagers[index]->GetFusionSequenceFrameIndex(),
- mSlicerManagers[index]->GetFusionSequenceSpatialSyncFlag(),
+ mSlicerManagers[index]->GetFusionSequenceSpatialSyncFlag(),
mSlicerManagers[index]->GetFusionSequenceNbFrames(),
mSlicerManagers[index]->GetFusionSequenceTemporalSyncFlag());
}
mSlicerManagers[ind]->GetFusionWindow(),
mSlicerManagers[ind]->GetFusionLevel());
overlayPanel->getFusionSequenceProperty(mSlicerManagers[ind]->GetFusionSequenceFrameIndex(),
- mSlicerManagers[ind]->GetFusionSequenceSpatialSyncFlag(),
+ mSlicerManagers[ind]->GetFusionSequenceSpatialSyncFlag(),
mSlicerManagers[ind]->GetFusionSequenceNbFrames(),
mSlicerManagers[ind]->GetFusionSequenceTemporalSyncFlag());
}
double window = mSlicerManagers[index]->GetColorWindow();
double level = mSlicerManagers[index]->GetColorLevel();
+ double fusWindow = mSlicerManagers[index]->GetFusionWindow();
+ double fusLevel = mSlicerManagers[index]->GetFusionLevel();
+
+ double overWindow = mSlicerManagers[index]->GetOverlayColorWindow();
+ double overLevel = mSlicerManagers[index]->GetOverlayColorLevel();
+
for (unsigned int i = 0; i < mSlicerManagers.size(); i++) {
if (mSlicerManagers[i] == NULL)
continue;
mSlicerManagers[i]->SetColorWindow(window);
mSlicerManagers[i]->SetColorLevel(level);
mSlicerManagers[i]->SetPreset(WL_USER);
+ mSlicerManagers[i]->SetFusionWindow(fusWindow);
+ mSlicerManagers[i]->SetFusionLevel(fusLevel);
+ mSlicerManagers[i]->SetOverlayColorWindow(overWindow);
+ mSlicerManagers[i]->SetOverlayColorLevel(overLevel);
mSlicerManagers[i]->Render();
}
}
{
if (!landmarksPanel->LoadFromFile(files))
QMessageBox::information(this,tr("Problem reading Landmarks !"),"File doesn't exist!");
-
+
landmarksPanel->SetCurrentPath(mInputPathName.toStdString());
landmarksPanel->SetCurrentImage(mSlicerManagers[index]->GetFileName().c_str());
}
return;
}
- QString Extensions = "Images ( *.mhd)";
- Extensions += ";;Images ( *.mha)";
- Extensions += ";;VF Images ( *.vf)";
- Extensions += ";;nii Images ( *.nii)";
- Extensions += ";;nrrd Images ( *.nrrd)";
- Extensions += ";;nhdr Images ( *.nhdr)";
+ QString Extensions = "Images ( *.mhd *.mha *.vf *.nii *.nrrd *.nhdr)";
+ // Extensions += ";;Images ( *.mha)";
+ // Extensions += ";;VF Images ( *.vf)";
+ // Extensions += ";;nii Images ( *.nii)";
+ // Extensions += ";;nrrd Images ( *.nrrd)";
+ // Extensions += ";;nhdr Images ( *.nhdr)";
Extensions += ";;All Files (*)";
QString file = QFileDialog::getOpenFileName(this,tr("Load deformation field"),mInputPathName,Extensions);
if (!file.isEmpty())
}
else { //first part of the file -> index in secondary seq.
if ( tmpVect(i)<nbFrameMain ) temporalCorrespondances.push_back(tmpVect(i));
- else { signalOK=false; break; } //pointing outside the secondary sequence...
- }
+ else { signalOK=false; break; } //pointing outside the secondary sequence...
+ }
}
}
else {signalOK=false;}
{
int index = GetSlicerIndexFromItem(DataTree->selectedItems()[0]);
- if (!mSlicerManagers[index]->IsInvolvedInFusionSequence()) return;
+ if (!mSlicerManagers[index]->IsInvolvedInFusionSequence()) return;
//check if the focus moved to the linked sequence, and in this case, select the master sequence instead
if (!mSlicerManagers[index]->IsMainSequenceOfFusionSequence()) {
}
int secondaryIndex = mSlicerManagers[index]->GetFusionSequenceIndexOfLinkedManager();
if (secondaryIndex==-1) return; //this should never happen
- if ( (!mSlicerManagers[index]->IsMainSequenceOfFusionSequence()) ||
- (!mSlicerManagers[secondaryIndex]->IsSecondarySequenceOfFusionSequence()) )
+ if ( (!mSlicerManagers[index]->IsMainSequenceOfFusionSequence()) ||
+ (!mSlicerManagers[secondaryIndex]->IsSecondarySequenceOfFusionSequence()) )
{return;} //this should never happen, raise an exception?
if (mSlicerManagers[index]->GetSlicer(0)->GetFusion()) {
mainSequenceFrameIndex = mSlicerManagers[index]->GetFusionSequenceCorrespondances()[ nbFramesMain + fusionSequenceFrameIndex];
//and set it!
mSlicerManagers[index]->SetTSlice(mainSequenceFrameIndex, false);
- //warning, there is a loopback, and modification of the TSlice in main sequence forces an update of the TSlice in secondary, etc...
+ //warning, there is a loopback, and modification of the TSlice in main sequence forces an update of the TSlice in secondary, etc...
}
//i is the SlicerManager that is in charge of this slicer.
if (mSlicerManagers[i]->IsInvolvedInFusionSequence()) {
//if the slicerManager is involved in a fusionSequence as the secondary sequence, then update the slider position in the overlay panel and everything accordingly
- if (mSlicerManagers[i]->IsSecondarySequenceOfFusionSequence()) {
- overlayPanel->updateFusionSequenceSliderValueFromWindow(value, true);
+ if (mSlicerManagers[i]->IsSecondarySequenceOfFusionSequence()) {
+ overlayPanel->updateFusionSequenceSliderValueFromWindow(value, true);
}
else { //if this is the primary sequence that has been modified
- if (mSlicerManagers[i]->GetFusionSequenceTemporalSyncFlag()) {
+ if (mSlicerManagers[i]->GetFusionSequenceTemporalSyncFlag()) {
//WARNING: for some obscure reason, there are problems when accessing mSlicerManagers[mSlicerManagers[i]->GetFusionSequenceIndexOfLinkedManager()]->GetFusionSequenceFrameIndex();
int estimatedValue=0;
//estimate a corresponding time index for the secondary (US) sequence, and update it accordingly.
- estimatedValue = mSlicerManagers[i]->GetFusionSequenceCorrespondances()[ value ];
+ estimatedValue = mSlicerManagers[i]->GetFusionSequenceCorrespondances()[ value ];
//TODO: at the moment, there is a loop in TSlice modifications
//modifying sequence 1 causes seq 2 to update, which in turns update seq1...
//I disable control on seq1 at the moment.
// Change the slice
slicer->SetSlice(i); // -> change the slice of the current slicer
SM->UpdateSlice(0); // --> this one emit UpdateSlice
- QCoreApplication::flush(); // -> needed to force display of contours
+ QCoreApplication::flush(); // -> needed to force display of contours
- // Screenshot
+ // Screenshot
vtkSmartPointer<vtkWindowToImageFilter> windowToImageFilter = vtkSmartPointer<vtkWindowToImageFilter>::New();
windowToImageFilter->SetInput(renderWindow);
windowToImageFilter->SetMagnification(1);
if (i<100) num = "0"+num;
if (i<1000) num = "0"+num;
- fn = itksys::SystemTools::GetFilenamePath(filename.toStdString()) + "/"+ fn
+ fn = itksys::SystemTools::GetFilenamePath(filename.toStdString()) + "/"+ fn
+ "_" + num + itksys::SystemTools::GetFilenameLastExtension(filename.toStdString());
writer->SetFileName(fn.c_str());
writer->SetInput(windowToImageFilter->GetOutput());
mSlicerManagerCurrentIndex = index;
}
//------------------------------------------------------------------------------
-