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/************************************************************************
*
* Copyright (C) 2009-2022 IRCAD France
* Copyright (C) 2012-2020 IHU Strasbourg
*
* This file is part of Sight.
*
* Sight is free software: you can redistribute it and/or modify it under
* the terms of the GNU Lesser General Public License as published by
* the Free Software Foundation, either version 3 of the License, or
* (at your option) any later version.
*
* Sight is distributed in the hope that it will be useful,
* but WITHOUT ANY WARRANTY; without even the implied warranty of
* MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
* GNU Lesser General Public License for more details.
*
* You should have received a copy of the GNU Lesser General Public
* License along with Sight. If not, see <https://www.gnu.org/licenses/>.
*
***********************************************************************/
#include "io/dicom/helper/DicomDataTools.hpp"
#include "io/dicom/helper/Encoding.hpp"
#include <core/base.hpp>
#include <core/tools/IntrinsicTypes.hpp>
#include <gdcmGlobal.h>
#include <gdcmPhotometricInterpretation.h>
#include <gdcmPixelFormat.h>
namespace sight::io::dicom
{
namespace helper
{
//------------------------------------------------------------------------------
typedef std::map<core::tools::Type, gdcm::PixelFormat::ScalarType> PixelTypeConversionMapType;
static const PixelTypeConversionMapType s_PIXEL_TYPE_CONVERSION_MAP = {
{core::tools::Type::create("uint8"), gdcm::PixelFormat::UINT8},
{core::tools::Type::create("int8"), gdcm::PixelFormat::INT8},
// {core::tools::Type::create("XXX") , gdcm::PixelFormat::UINT12} , // Unsupported by VTK Render
// {core::tools::Type::create("XXX") , gdcm::PixelFormat::INT12} , // Unsupported by VTK Render
{core::tools::Type::create("uint16"), gdcm::PixelFormat::UINT16},
{core::tools::Type::create("int16"), gdcm::PixelFormat::INT16},
{core::tools::Type::create("uint32"), gdcm::PixelFormat::UINT32},
{core::tools::Type::create("int32"), gdcm::PixelFormat::INT32},
// { core::tools::Type::create("XXX") , gdcm::PixelFormat::FLOAT16} , // Unsupported by VTK Render
{core::tools::Type::create("float"), gdcm::PixelFormat::FLOAT32},
{core::tools::Type::create("double"), gdcm::PixelFormat::FLOAT64}
};
//------------------------------------------------------------------------------
const gdcm::PixelFormat DicomDataTools::getPixelType(const core::tools::Type& type)
{
auto it = s_PIXEL_TYPE_CONVERSION_MAP.find(type);
if(it != s_PIXEL_TYPE_CONVERSION_MAP.end())
{
return it->second;
}
return gdcm::PixelFormat::UNKNOWN;
}
//------------------------------------------------------------------------------
const gdcm::PhotometricInterpretation DicomDataTools::getPhotometricInterpretation(const data::Image::csptr& image)
{
gdcm::PhotometricInterpretation pi;
const std::size_t components = image->numComponents();
// Attempt a guess (VTK do the same choice)
switch(components)
{
case 1: // It could well be MONOCHROME1
pi = gdcm::PhotometricInterpretation::MONOCHROME2;
break;
case 3: // It could well be YBR
pi = gdcm::PhotometricInterpretation::RGB;
break;
case 4: // It could well be CMYK
pi = gdcm::PhotometricInterpretation::ARGB;
break;
default:
SIGHT_ERROR("Photometric interpretation not found");
pi = gdcm::PhotometricInterpretation::UNKNOWN;
break;
}
return pi;
}
//------------------------------------------------------------------------------
gdcm::Surface::VIEWType DicomDataTools::convertToPresentationType(
data::Material::RepresentationType representationMode
)
{
switch(representationMode)
{
case data::Material::SURFACE:
return gdcm::Surface::SURFACE;
case data::Material::POINT:
return gdcm::Surface::POINTS;
case data::Material::WIREFRAME:
return gdcm::Surface::WIREFRAME;
default:
SIGHT_WARN("Representation type not handle (changed to : SURFACE)");
return gdcm::Surface::SURFACE;
}
}
//------------------------------------------------------------------------------
data::Material::RepresentationType DicomDataTools::convertToRepresentationMode(
gdcm::Surface::VIEWType presentationType
)
{
switch(presentationType)
{
case gdcm::Surface::SURFACE:
return data::Material::SURFACE;
case gdcm::Surface::WIREFRAME:
return data::Material::WIREFRAME;
case gdcm::Surface::POINTS:
return data::Material::POINT;
default:
SIGHT_WARN("Presentation type not handle (changed to : SURFACE)");
return data::Material::SURFACE;
}
}
//------------------------------------------------------------------------------
std::size_t DicomDataTools::convertPointToFrameNumber(
const data::Image::csptr& image,
const data::Point::csptr& point
)
{
// Retrieve Z spacing
const double zSpacing = (image->numDimensions() > 2) ? (image->getSpacing()[2]) : 1;
// Retrieve Z coordinate of image origin
const double zOrigin = (image->numDimensions() > 2) ? (image->getOrigin()[2]) : 0;
// Retrieve Z coordinate
const double zCoordinate = static_cast<double>(point->getCoord()[2]);
// Compute frame number
const std::size_t frameNumber = static_cast<std::size_t>(floor((zCoordinate - zOrigin) / zSpacing + 0.5)) + 1;
SIGHT_THROW_EXCEPTION_IF(
io::dicom::exception::Failed("Coordinates out of image bounds."),
frameNumber<1 || frameNumber> image->getSize()[2]
);
return frameNumber;
}
//------------------------------------------------------------------------------
double DicomDataTools::convertFrameNumberToZCoordinate(
const data::Image::csptr& image,
const std::size_t frameNumber
)
{
// Retrieve Z spacing
const double zSpacing = (image->numDimensions() > 2) ? (image->getSpacing()[2]) : 1;
// Retrieve Z coordinate of image origin
const double zOrigin = (image->numDimensions() > 2) ? (image->getOrigin()[2]) : 0;
// Compute coordinate
const std::size_t frameIndex = (frameNumber - 1);
SIGHT_THROW_EXCEPTION_IF(
io::dicom::exception::Failed("Coordinates out of image bounds."),
frameIndex >= image->getSize()[2]
);
const double zCoordinate = zOrigin + static_cast<double>(frameIndex) * zSpacing;
return zCoordinate;
}
//------------------------------------------------------------------------------
} //namespace helper
} //namespace sight::io::dicom
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