void QmitkBinaryThresholdToolGUI::OnAcceptThresholdPreview()
{
if (m_BinaryThresholdTool.IsNotNull())
{
QmitkNewSegmentationDialog* dialog = new QmitkNewSegmentationDialog( this ); // needs a QWidget as parent, "this" is not QWidget
dialog->setPrompt("What did you just segment?");
int dialogReturnValue = dialog->exec();
std::string organName = dialog->GetSegmentationName().toStdString();
mitk::Color color = dialog->GetColor();
delete dialog;
if ( dialogReturnValue != QDialog::Rejected ) // user clicked cancel or pressed Esc or something similar
{
this->thresholdAccepted();
m_BinaryThresholdTool->AcceptCurrentThresholdValue( organName, color );
}
else
{
this->thresholdCanceled();
m_BinaryThresholdTool->CancelThresholding();
}
}
}
void QmitkSegmentationView::CreateNewSegmentation()
{
mitk::DataNode::Pointer node = m_Controls->m_ManualToolSelectionBox->GetToolManager()->GetReferenceData(0);
if (node.IsNotNull())
{
mitk::Image::Pointer image = dynamic_cast<mitk::Image*>( node->GetData() );
if (image.IsNotNull())
{
if (image->GetDimension()>1)
{
// ask about the name and organ type of the new segmentation
QmitkNewSegmentationDialog* dialog = new QmitkNewSegmentationDialog( m_Parent ); // needs a QWidget as parent, "this" is not QWidget
QString storedList = QString::fromStdString( this->GetPreferences()->GetByteArray("Organ-Color-List","") );
QStringList organColors;
if (storedList.isEmpty())
{
organColors = GetDefaultOrganColorString();
}
else
{
/*
a couple of examples of how organ names are stored:
a simple item is built up like 'name#AABBCC' where #AABBCC is the hexadecimal notation of a color as known from HTML
items are stored separated by ';'
this makes it necessary to escape occurrences of ';' in name.
otherwise the string "hugo;ypsilon#AABBCC;eugen#AABBCC" could not be parsed as two organs
but we would get "hugo" and "ypsilon#AABBCC" and "eugen#AABBCC"
so the organ name "hugo;ypsilon" is stored as "hugo\;ypsilon"
and must be unescaped after loading
the following lines could be one split with Perl's negative lookbehind
*/
// recover string list from BlueBerry view's preferences
QString storedString = QString::fromStdString( this->GetPreferences()->GetByteArray("Organ-Color-List","") );
MITK_DEBUG << "storedString: " << storedString.toStdString();
// match a string consisting of any number of repetitions of either "anything but ;" or "\;". This matches everything until the next unescaped ';'
QRegExp onePart("(?:[^;]|\\\\;)*");
MITK_DEBUG << "matching " << onePart.pattern().toStdString();
int count = 0;
int pos = 0;
while( (pos = onePart.indexIn( storedString, pos )) != -1 )
{
++count;
int length = onePart.matchedLength();
if (length == 0) break;
QString matchedString = storedString.mid(pos, length);
MITK_DEBUG << " Captured length " << length << ": " << matchedString.toStdString();
pos += length + 1; // skip separating ';'
// unescape possible occurrences of '\;' in the string
matchedString.replace("\\;", ";");
// add matched string part to output list
organColors << matchedString;
}
MITK_DEBUG << "Captured " << count << " organ name/colors";
}
dialog->SetSuggestionList( organColors );
int dialogReturnValue = dialog->exec();
if ( dialogReturnValue == QDialog::Rejected ) return; // user clicked cancel or pressed Esc or something similar
// ask the user about an organ type and name, add this information to the image's (!) propertylist
// create a new image of the same dimensions and smallest possible pixel type
mitk::ToolManager* toolManager = m_Controls->m_ManualToolSelectionBox->GetToolManager();
mitk::Tool* firstTool = toolManager->GetToolById(0);
if (firstTool)
{
try
{
mitk::DataNode::Pointer emptySegmentation =
firstTool->CreateEmptySegmentationNode( image, dialog->GetSegmentationName().toStdString(), dialog->GetColor() );
//Here we change the reslice interpolation mode for a segmentation, so that contours in rotated slice can be shown correctly
emptySegmentation->SetProperty( "reslice interpolation", mitk::VtkResliceInterpolationProperty::New(VTK_RESLICE_NEAREST) );
// initialize showVolume to false to prevent recalculating the volume while working on the segmentation
emptySegmentation->SetProperty( "showVolume", mitk::BoolProperty::New( false ) );
if (!emptySegmentation) return; // could be aborted by user
UpdateOrganList( organColors, dialog->GetSegmentationName(), dialog->GetColor() );
/*
escape ';' here (replace by '\;'), see longer comment above
*/
std::string stringForStorage = organColors.replaceInStrings(";","\\;").join(";").toStdString();
MITK_DEBUG << "Will store: " << stringForStorage;
this->GetPreferences()->PutByteArray("Organ-Color-List", stringForStorage );
this->GetPreferences()->Flush();
if(m_Controls->m_ManualToolSelectionBox->GetToolManager()->GetWorkingData(0))
{
m_Controls->m_ManualToolSelectionBox->GetToolManager()->GetWorkingData(0)->SetSelected(false);
}
emptySegmentation->SetSelected(true);
this->GetDefaultDataStorage()->Add( emptySegmentation, node ); // add as a child, because the segmentation "derives" from the original
this->FireNodeSelected( emptySegmentation );
this->OnSelectionChanged( emptySegmentation );
this->SetToolManagerSelection(node, emptySegmentation);
}
catch (std::bad_alloc)
{
QMessageBox::warning(NULL,"Create new segmentation","Could not allocate memory for new segmentation");
}
}
}
else
{
QMessageBox::information(NULL,"Segmentation","Segmentation is currently not supported for 2D images");
}
}
}
else
{
MITK_ERROR << "'Create new segmentation' button should never be clickable unless a patient image is selected...";
}
}
void QmitkSegmentationView::CreateNewSegmentation()
{
mitk::DataNode::Pointer node = mitk::ToolManagerProvider::GetInstance()->GetToolManager()->GetReferenceData(0);
if (node.IsNotNull())
{
mitk::Image::Pointer image = dynamic_cast<mitk::Image*>(node->GetData());
if (image.IsNotNull())
{
if (image->GetDimension() > 1)
{
// ask about the name and organ type of the new segmentation
QmitkNewSegmentationDialog* dialog = new QmitkNewSegmentationDialog(m_Parent); // needs a QWidget as parent, "this" is not QWidget
QStringList organColors = mitk::OrganNamesHandling::GetDefaultOrganColorString();;
dialog->SetSuggestionList(organColors);
int dialogReturnValue = dialog->exec();
if (dialogReturnValue == QDialog::Rejected)
{
// user clicked cancel or pressed Esc or something similar
return;
}
// ask the user about an organ type and name, add this information to the image's (!) propertylist
// create a new image of the same dimensions and smallest possible pixel type
mitk::ToolManager* toolManager = mitk::ToolManagerProvider::GetInstance()->GetToolManager();
mitk::Tool* firstTool = toolManager->GetToolById(0);
if (firstTool)
{
try
{
std::string newNodeName = dialog->GetSegmentationName().toStdString();
if (newNodeName.empty())
{
newNodeName = "no_name";
}
mitk::DataNode::Pointer emptySegmentation = firstTool->CreateEmptySegmentationNode(image, newNodeName, dialog->GetColor());
// initialize showVolume to false to prevent recalculating the volume while working on the segmentation
emptySegmentation->SetProperty("showVolume", mitk::BoolProperty::New(false));
if (!emptySegmentation)
{
return; // could be aborted by user
}
mitk::OrganNamesHandling::UpdateOrganList(organColors, dialog->GetSegmentationName(), dialog->GetColor());
// escape ';' here (replace by '\;'), see longer comment above
QString stringForStorage = organColors.replaceInStrings(";", "\\;").join(";");
MITK_DEBUG << "Will store: " << stringForStorage;
this->GetPreferences()->Put("Organ-Color-List", stringForStorage);
this->GetPreferences()->Flush();
if (mitk::ToolManagerProvider::GetInstance()->GetToolManager()->GetWorkingData(0))
{
mitk::ToolManagerProvider::GetInstance()->GetToolManager()->GetWorkingData(0)->SetSelected(false);
}
emptySegmentation->SetSelected(true);
this->GetDataStorage()->Add(emptySegmentation, node); // add as a child, because the segmentation "derives" from the original
this->FireNodeSelected(emptySegmentation);
this->OnSelectionChanged(emptySegmentation);
m_Controls->segImageSelector->SetSelectedNode(emptySegmentation);
mitk::RenderingManager::GetInstance()->InitializeViews(emptySegmentation->GetData()->GetTimeGeometry(), mitk::RenderingManager::REQUEST_UPDATE_ALL, true);
}
catch (std::bad_alloc)
{
QMessageBox::warning(nullptr, tr("Create new segmentation"), tr("Could not allocate memory for new segmentation"));
}
}
}
else
{
QMessageBox::information(nullptr, tr("Segmentation"), tr("Segmentation is currently not supported for 2D images"));
}
}
}
else
{
MITK_ERROR << "'Create new segmentation' button should never be clickable unless a patient image is selected...";
}
}
