bool SoMVTVolumeCalculator::validateInput()
{
if (!inputVolume.getValue() || !refVolume.getValue())
return false;
// check if images have the same size
SoItkDataImage* resultImage = inputVolume.getValue();
SoItkDataImage* referenceImage = refVolume.getValue();
if( resultImage->getNumDimension() != 3 || referenceImage->getNumDimension() != 3 )
{
SoDebugError::post( __FILE__, "Image dimension not supported yet" );
SoDebugError::post( __FILE__, "Only works with volume data" );
return false;
}
SegmentationType* itkResultImage = static_cast< SegmentationType* >( resultImage->getPointer() );
SegmentationType::RegionType resRegion = itkResultImage->GetLargestPossibleRegion();
SegmentationType* itkValidationImage = static_cast< SegmentationType* >( referenceImage->getPointer() );
SegmentationType::RegionType valRegion = itkValidationImage->GetLargestPossibleRegion();
if (resRegion.GetSize() != valRegion.GetSize())
{
SoDebugError::post( __FILE__, "Image format not supported yet" );
SoDebugError::post( __FILE__, "Only works with UNSIGNED_SHORT" );
return false;
}
SegmentationType::SpacingType valSpacing = itkValidationImage->GetSpacing();
volumeFactor = 0.001*valSpacing[0]*valSpacing[1]*valSpacing[2];
SegmentationType::SpacingType resSpacing = itkResultImage->GetSpacing();
if (resSpacing[0]!=valSpacing[0] || resSpacing[1]!=valSpacing[1] || resSpacing[2]!=valSpacing[2])
{
SoDebugError::post( __FILE__, "WARNING: Spacing of segmentation different from reference! Adjusting values..." );
}
return true;
}
int main(int argc, char* argv[])
{
if (argc < 3)
{
std::cout << "Usage: " << argv[0] << " segmentation reference [-o OutputName] [-t threshold]" << std::endl;
std::cout << "Output: resultFilename, referenceFilename, sensitivity, specificity, PPV" << std::endl;
return -1;
}
// initialisation
SegmentationReaderType::Pointer resultReader = SegmentationReaderType::New();
FloatSegmentationReaderType::Pointer validationReader = FloatSegmentationReaderType::New();
SegmentationPointer resultImage = resultReader->GetOutput();
FloatSegmentationPointer validationImage = validationReader->GetOutput();
char resultFilename[512];
sprintf( resultFilename, "%s", argv[1] );
char referenceFilename[512];
sprintf( referenceFilename, "%s", argv[2] );
double threshold = 0.5;
for (int i = 3; i < argc; i++) {
if (strcmp(argv[i], "-t") == 0 && i < (argc - 1)) {
threshold = atof(argv[i+1]);
}
}
std::cerr << "setting threhold as " << threshold << std::endl;
// read result image:
try {
//cout << "loading result image ... " << endl;
resultReader->SetFileName( resultFilename );
resultReader->Update();
}
catch(...) {
printf( "Could not load image %s\n", resultFilename );
return -2;
}
// read validation image:
try {
//cout << "loading reference image ... " << endl;
validationReader->SetFileName( referenceFilename );
validationReader->Update();
}
catch(...) {
printf( "Could not load image %s\n", referenceFilename );
return -2;
}
// check if images have the same size
SegmentationType::RegionType resRegion = resultImage->GetLargestPossibleRegion();
FloatSegmentationType::RegionType valRegion = validationImage->GetLargestPossibleRegion();
if (resRegion.GetSize() != valRegion.GetSize())
{
printf( "Image sizes for %s and %s are different!\n", resultFilename, referenceFilename );
return -3;
}
FloatSegmentationType::SpacingType valSpacing = validationImage->GetSpacing();
double volumeFactor = 0.001*valSpacing[0]*valSpacing[1]*valSpacing[2];
SegmentationType::SpacingType resSpacing = resultImage->GetSpacing();
if (resSpacing[0]!=valSpacing[0] || resSpacing[1]!=valSpacing[1] || resSpacing[2]!=valSpacing[2])
{
std::cerr << "WARNING: Spacing of segmentation different from reference! Sum "
<< fabs(resSpacing[0] - valSpacing[0]) + fabs(resSpacing[1] - valSpacing[1]) + fabs(resSpacing[2] - valSpacing[2])
<< std::endl;
}
// Tanimoto overlap metric
unsigned long tp = 0, tn = 0, fp = 0, fn = 0;
IteratorType resIt( resultImage, resRegion );
FloatIteratorType valIt( validationImage, valRegion );
for ( resIt.GoToBegin(), valIt.GoToBegin(); !resIt.IsAtEnd(); ++resIt, ++valIt ) {
if (resIt.Get()!=0) {
if (valIt.Get()>threshold) {
tp ++;
} else {
fp ++;
}
} else {
if (valIt.Get()>threshold) {
fn ++;
} else {
tn ++;
}
}
}
double sensitivity = double(tp) / double(tp + fn);
double specificity = double(tn) / double(tn + fp);
double ppv = double(tp) / double(tp + fp);
char resultBuffer[1024];
sprintf(resultBuffer, "%s; %s; %d; %d; %d; %d; %.4f; %.4f; %.4f;\n", resultFilename, referenceFilename, tp, fp, tn, fn, sensitivity, specificity, ppv);
printf(resultBuffer);
return 0;
}