Mercurial > hg > orthanc-stone
changeset 684:7719eb852dd5
new class: VolumeImageGeometry
author | Sebastien Jodogne <s.jodogne@gmail.com> |
---|---|
date | Thu, 16 May 2019 16:47:46 +0200 |
parents | dbc1d8bfc68a |
children | ea1a5b963798 |
files | Framework/Toolbox/FiniteProjectiveCamera.cpp Framework/Toolbox/OrientedBoundingBox.cpp Framework/Toolbox/ShearWarpProjectiveTransform.cpp Framework/Toolbox/VolumeImageGeometry.cpp Framework/Toolbox/VolumeImageGeometry.h Framework/Volumes/ImageBuffer3D.cpp Framework/Volumes/ImageBuffer3D.h Framework/Volumes/VolumeReslicer.cpp Framework/dev.h Resources/CMake/OrthancStoneConfiguration.cmake Samples/Sdl/Loader.cpp |
diffstat | 11 files changed, 407 insertions(+), 266 deletions(-) [+] |
line wrap: on
line diff
--- a/Framework/Toolbox/FiniteProjectiveCamera.cpp Thu May 16 16:01:36 2019 +0200 +++ b/Framework/Toolbox/FiniteProjectiveCamera.cpp Thu May 16 16:47:46 2019 +0200 @@ -316,7 +316,7 @@ LOG(WARNING) << "Output pixel format: " << Orthanc::EnumerationToString(target.GetFormat()); std::auto_ptr<OrthancStone::ParallelSlices> slices(source.GetGeometry(projection)); - const OrthancStone::Vector pixelSpacing = source.GetVoxelDimensions(projection); + const OrthancStone::Vector pixelSpacing = source.GetGeometry().GetVoxelDimensions(projection); const unsigned int targetWidth = target.GetWidth(); const unsigned int targetHeight = target.GetHeight();
--- a/Framework/Toolbox/OrientedBoundingBox.cpp Thu May 16 16:01:36 2019 +0200 +++ b/Framework/Toolbox/OrientedBoundingBox.cpp Thu May 16 16:47:46 2019 +0200 @@ -37,8 +37,8 @@ throw Orthanc::OrthancException(Orthanc::ErrorCode_IncompatibleImageSize); } - const CoordinateSystem3D& geometry = image.GetAxialGeometry(); - Vector dim = image.GetVoxelDimensions(VolumeProjection_Axial); + const CoordinateSystem3D& geometry = image.GetGeometry().GetAxialGeometry(); + Vector dim = image.GetGeometry().GetVoxelDimensions(VolumeProjection_Axial); u_ = geometry.GetAxisX(); v_ = geometry.GetAxisY();
--- a/Framework/Toolbox/ShearWarpProjectiveTransform.cpp Thu May 16 16:01:36 2019 +0200 +++ b/Framework/Toolbox/ShearWarpProjectiveTransform.cpp Thu May 16 16:47:46 2019 +0200 @@ -380,8 +380,8 @@ // Compute the "world" matrix that maps the source volume to the // (0,0,0)->(1,1,1) unit cube - Vector origin = source.GetCoordinates(0, 0, 0); - Vector ps = source.GetVoxelDimensions(VolumeProjection_Axial); + Vector origin = source.GetGeometry().GetCoordinates(0, 0, 0); + Vector ps = source.GetGeometry().GetVoxelDimensions(VolumeProjection_Axial); Matrix world = LinearAlgebra::Product( GeometryToolbox::CreateScalingMatrix(1.0 / ps[0], 1.0 / ps[1], 1.0 / ps[2]), GeometryToolbox::CreateTranslationMatrix(-origin[0], -origin[1], -origin[2]));
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Framework/Toolbox/VolumeImageGeometry.cpp Thu May 16 16:47:46 2019 +0200 @@ -0,0 +1,205 @@ +/** + * Stone of Orthanc + * Copyright (C) 2012-2016 Sebastien Jodogne, Medical Physics + * Department, University Hospital of Liege, Belgium + * Copyright (C) 2017-2019 Osimis S.A., Belgium + * + * This program is free software: you can redistribute it and/or + * modify it under the terms of the GNU Affero General Public License + * as published by the Free Software Foundation, either version 3 of + * the License, or (at your option) any later version. + * + * This program 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 + * Affero General Public License for more details. + * + * You should have received a copy of the GNU Affero General Public License + * along with this program. If not, see <http://www.gnu.org/licenses/>. + **/ + + +#include "VolumeImageGeometry.h" + +#include "../Toolbox/GeometryToolbox.h" + +#include <Core/OrthancException.h> + + +namespace OrthancStone +{ + void VolumeImageGeometry::Invalidate() + { + Vector p = (axialGeometry_.GetOrigin() + + static_cast<double>(depth_ - 1) * voxelDimensions_[2] * axialGeometry_.GetNormal()); + + coronalGeometry_ = CoordinateSystem3D(p, + axialGeometry_.GetAxisX(), + -axialGeometry_.GetNormal()); + + sagittalGeometry_ = CoordinateSystem3D(p, + axialGeometry_.GetAxisY(), + -axialGeometry_.GetNormal()); + + Vector origin = ( + axialGeometry_.MapSliceToWorldCoordinates(-0.5 * voxelDimensions_[0], + -0.5 * voxelDimensions_[1]) - + 0.5 * voxelDimensions_[2] * axialGeometry_.GetNormal()); + + Vector scaling; + + if (width_ == 0 || + height_ == 0 || + depth_ == 0) + { + LinearAlgebra::AssignVector(scaling, 1, 1, 1); + } + else + { + scaling = ( + axialGeometry_.GetAxisX() * voxelDimensions_[0] * static_cast<double>(width_) + + axialGeometry_.GetAxisY() * voxelDimensions_[1] * static_cast<double>(height_) + + axialGeometry_.GetNormal() * voxelDimensions_[2] * static_cast<double>(depth_)); + } + + transform_ = LinearAlgebra::Product( + GeometryToolbox::CreateTranslationMatrix(origin[0], origin[1], origin[2]), + GeometryToolbox::CreateScalingMatrix(scaling[0], scaling[1], scaling[2])); + + LinearAlgebra::InvertMatrix(transformInverse_, transform_); + } + + + VolumeImageGeometry::VolumeImageGeometry() : + width_(0), + height_(0), + depth_(0) + { + LinearAlgebra::AssignVector(voxelDimensions_, 1, 1, 1); + Invalidate(); + } + + + void VolumeImageGeometry::SetSize(unsigned int width, + unsigned int height, + unsigned int depth) + { + width_ = width; + height_ = height; + depth_ = depth; + Invalidate(); + } + + + void VolumeImageGeometry::SetAxialGeometry(const CoordinateSystem3D& geometry) + { + axialGeometry_ = geometry; + Invalidate(); + } + + + void VolumeImageGeometry::SetVoxelDimensions(double x, + double y, + double z) + { + if (x <= 0 || + y <= 0 || + z <= 0) + { + throw Orthanc::OrthancException(Orthanc::ErrorCode_ParameterOutOfRange); + } + else + { + LinearAlgebra::AssignVector(voxelDimensions_, x, y, z); + Invalidate(); + } + } + + + Vector VolumeImageGeometry::GetVoxelDimensions(VolumeProjection projection) const + { + switch (projection) + { + case VolumeProjection_Axial: + return voxelDimensions_; + + case VolumeProjection_Coronal: + return LinearAlgebra::CreateVector(voxelDimensions_[0], voxelDimensions_[2], voxelDimensions_[1]); + + case VolumeProjection_Sagittal: + return LinearAlgebra::CreateVector(voxelDimensions_[1], voxelDimensions_[2], voxelDimensions_[0]); + + default: + throw Orthanc::OrthancException(Orthanc::ErrorCode_ParameterOutOfRange); + } + } + + + void VolumeImageGeometry::GetSliceSize(unsigned int& width, + unsigned int& height, + VolumeProjection projection) + { + switch (projection) + { + case VolumeProjection_Axial: + width = width_; + height = height_; + break; + + case VolumeProjection_Coronal: + width = width_; + height = depth_; + break; + + case VolumeProjection_Sagittal: + width = height_; + height = depth_; + break; + + default: + throw Orthanc::OrthancException(Orthanc::ErrorCode_ParameterOutOfRange); + } + } + + + + Vector VolumeImageGeometry::GetCoordinates(float x, + float y, + float z) const + { + Vector p = LinearAlgebra::Product(transform_, LinearAlgebra::CreateVector(x, y, z, 1)); + + assert(LinearAlgebra::IsNear(p[3], 1)); // Affine transform, no perspective effect + + // Back to non-homogeneous coordinates + return LinearAlgebra::CreateVector(p[0], p[1], p[2]); + } + + + bool VolumeImageGeometry::DetectProjection(VolumeProjection& projection, + const CoordinateSystem3D& plane) const + { + if (GeometryToolbox::IsParallel(plane.GetNormal(), + axialGeometry_.GetNormal())) + { + projection = VolumeProjection_Axial; + return true; + } + else if (GeometryToolbox::IsParallel(plane.GetNormal(), + coronalGeometry_.GetNormal())) + { + projection = VolumeProjection_Coronal; + return true; + } + else if (GeometryToolbox::IsParallel(plane.GetNormal(), + sagittalGeometry_.GetNormal())) + { + projection = VolumeProjection_Sagittal; + return true; + } + else + { + return false; + } + } +}
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Framework/Toolbox/VolumeImageGeometry.h Thu May 16 16:47:46 2019 +0200 @@ -0,0 +1,104 @@ +/** + * Stone of Orthanc + * Copyright (C) 2012-2016 Sebastien Jodogne, Medical Physics + * Department, University Hospital of Liege, Belgium + * Copyright (C) 2017-2019 Osimis S.A., Belgium + * + * This program is free software: you can redistribute it and/or + * modify it under the terms of the GNU Affero General Public License + * as published by the Free Software Foundation, either version 3 of + * the License, or (at your option) any later version. + * + * This program 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 + * Affero General Public License for more details. + * + * You should have received a copy of the GNU Affero General Public License + * along with this program. If not, see <http://www.gnu.org/licenses/>. + **/ + + +#pragma once + +#include "../StoneEnumerations.h" +#include "CoordinateSystem3D.h" + +namespace OrthancStone +{ + class VolumeImageGeometry + { + private: + unsigned int width_; + unsigned int height_; + unsigned int depth_; + CoordinateSystem3D axialGeometry_; + CoordinateSystem3D coronalGeometry_; + CoordinateSystem3D sagittalGeometry_; + Vector voxelDimensions_; + Matrix transform_; + Matrix transformInverse_; + + void Invalidate(); + + public: + VolumeImageGeometry(); + + unsigned int GetWidth() const + { + return width_; + } + + unsigned int GetHeight() const + { + return height_; + } + + unsigned int GetDepth() const + { + return depth_; + } + + const CoordinateSystem3D& GetAxialGeometry() const + { + return axialGeometry_; + } + + const CoordinateSystem3D& GetCoronalGeometry() const + { + return coronalGeometry_; + } + + const CoordinateSystem3D& GetSagittalGeometry() const + { + return sagittalGeometry_; + } + + void SetSize(unsigned int width, + unsigned int height, + unsigned int depth); + + // Set the geometry of the first axial slice (i.e. the one whose + // depth == 0) + void SetAxialGeometry(const CoordinateSystem3D& geometry); + + void SetVoxelDimensions(double x, + double y, + double z); + + Vector GetVoxelDimensions(VolumeProjection projection) const; + + void GetSliceSize(unsigned int& width, + unsigned int& height, + VolumeProjection projection); + + // Get the 3D position of a point in the volume, where x, y and z + // lie in the [0;1] range + Vector GetCoordinates(float x, + float y, + float z) const; + + bool DetectProjection(VolumeProjection& projection, + const CoordinateSystem3D& plane) const; + }; +}
--- a/Framework/Volumes/ImageBuffer3D.cpp Thu May 16 16:01:36 2019 +0200 +++ b/Framework/Volumes/ImageBuffer3D.cpp Thu May 16 16:47:46 2019 +0200 @@ -118,13 +118,11 @@ computeRange_(computeRange), hasRange_(false) { - LinearAlgebra::AssignVector(voxelDimensions_, 1, 1, 1); + geometry_.SetSize(width, height, depth); LOG(INFO) << "Created a 3D image of size " << width << "x" << height << "x" << depth << " in " << Orthanc::EnumerationToString(format) << " (" << (GetEstimatedMemorySize() / (1024ll * 1024ll)) << "MB)"; - - UpdateGeometry(); } @@ -134,123 +132,57 @@ } - void ImageBuffer3D::SetAxialGeometry(const CoordinateSystem3D& geometry) - { - axialGeometry_ = geometry; - UpdateGeometry(); - } - - - void ImageBuffer3D::SetVoxelDimensions(double x, - double y, - double z) - { - if (x <= 0 || - y <= 0 || - z <= 0) - { - throw Orthanc::OrthancException(Orthanc::ErrorCode_ParameterOutOfRange); - } - else - { - LinearAlgebra::AssignVector(voxelDimensions_, x, y, z); - UpdateGeometry(); - } - } - - - Vector ImageBuffer3D::GetVoxelDimensions(VolumeProjection projection) const - { - switch (projection) - { - case VolumeProjection_Axial: - return voxelDimensions_; - - case VolumeProjection_Coronal: - return LinearAlgebra::CreateVector(voxelDimensions_[0], voxelDimensions_[2], voxelDimensions_[1]); - - case VolumeProjection_Sagittal: - return LinearAlgebra::CreateVector(voxelDimensions_[1], voxelDimensions_[2], voxelDimensions_[0]); - - default: - throw Orthanc::OrthancException(Orthanc::ErrorCode_ParameterOutOfRange); - } - } - - - void ImageBuffer3D::GetSliceSize(unsigned int& width, - unsigned int& height, - VolumeProjection projection) - { - switch (projection) - { - case VolumeProjection_Axial: - width = width_; - height = height_; - break; - - case VolumeProjection_Coronal: - width = width_; - height = depth_; - break; - - case VolumeProjection_Sagittal: - width = height_; - height = depth_; - break; - - default: - throw Orthanc::OrthancException(Orthanc::ErrorCode_ParameterOutOfRange); - } - } ParallelSlices* ImageBuffer3D::GetGeometry(VolumeProjection projection) const { + const Vector dimensions = geometry_.GetVoxelDimensions(VolumeProjection_Axial); + const CoordinateSystem3D& axial = geometry_.GetAxialGeometry(); + std::auto_ptr<ParallelSlices> result(new ParallelSlices); switch (projection) { - case VolumeProjection_Axial: - for (unsigned int z = 0; z < depth_; z++) - { - Vector origin = axialGeometry_.GetOrigin(); - origin += static_cast<double>(z) * voxelDimensions_[2] * axialGeometry_.GetNormal(); + case VolumeProjection_Axial: + for (unsigned int z = 0; z < depth_; z++) + { + Vector origin = axial.GetOrigin(); + origin += static_cast<double>(z) * dimensions[2] * axial.GetNormal(); - result->AddSlice(origin, - axialGeometry_.GetAxisX(), - axialGeometry_.GetAxisY()); - } - break; + result->AddSlice(origin, + axial.GetAxisX(), + axial.GetAxisY()); + } + break; - case VolumeProjection_Coronal: - for (unsigned int y = 0; y < height_; y++) - { - Vector origin = axialGeometry_.GetOrigin(); - origin += static_cast<double>(y) * voxelDimensions_[1] * axialGeometry_.GetAxisY(); - origin += static_cast<double>(depth_ - 1) * voxelDimensions_[2] * axialGeometry_.GetNormal(); + case VolumeProjection_Coronal: + for (unsigned int y = 0; y < height_; y++) + { + Vector origin = axial.GetOrigin(); + origin += static_cast<double>(y) * dimensions[1] * axial.GetAxisY(); + origin += static_cast<double>(depth_ - 1) * dimensions[2] * axial.GetNormal(); - result->AddSlice(origin, - axialGeometry_.GetAxisX(), - -axialGeometry_.GetNormal()); - } - break; + result->AddSlice(origin, + axial.GetAxisX(), + -axial.GetNormal()); + } + break; - case VolumeProjection_Sagittal: - for (unsigned int x = 0; x < width_; x++) - { - Vector origin = axialGeometry_.GetOrigin(); - origin += static_cast<double>(x) * voxelDimensions_[0] * axialGeometry_.GetAxisX(); - origin += static_cast<double>(depth_ - 1) * voxelDimensions_[2] * axialGeometry_.GetNormal(); + case VolumeProjection_Sagittal: + for (unsigned int x = 0; x < width_; x++) + { + Vector origin = axial.GetOrigin(); + origin += static_cast<double>(x) * dimensions[0] * axial.GetAxisX(); + origin += static_cast<double>(depth_ - 1) * dimensions[2] * axial.GetNormal(); - result->AddSlice(origin, - axialGeometry_.GetAxisY(), - -axialGeometry_.GetNormal()); - } - break; + result->AddSlice(origin, + axial.GetAxisY(), + -axial.GetNormal()); + } + break; - default: - throw Orthanc::OrthancException(Orthanc::ErrorCode_ParameterOutOfRange); + default: + throw Orthanc::OrthancException(Orthanc::ErrorCode_ParameterOutOfRange); } return result.release(); @@ -276,24 +208,24 @@ switch (slice.GetFormat()) { - case Orthanc::PixelFormat_Grayscale8: - case Orthanc::PixelFormat_Grayscale16: - case Orthanc::PixelFormat_Grayscale32: - case Orthanc::PixelFormat_SignedGrayscale16: - { - int64_t a, b; - Orthanc::ImageProcessing::GetMinMaxIntegerValue(a, b, slice); - sliceMin = static_cast<float>(a); - sliceMax = static_cast<float>(b); - break; - } + case Orthanc::PixelFormat_Grayscale8: + case Orthanc::PixelFormat_Grayscale16: + case Orthanc::PixelFormat_Grayscale32: + case Orthanc::PixelFormat_SignedGrayscale16: + { + int64_t a, b; + Orthanc::ImageProcessing::GetMinMaxIntegerValue(a, b, slice); + sliceMin = static_cast<float>(a); + sliceMax = static_cast<float>(b); + break; + } - case Orthanc::PixelFormat_Float32: - Orthanc::ImageProcessing::GetMinMaxFloatValue(sliceMin, sliceMax, slice); - break; + case Orthanc::PixelFormat_Float32: + Orthanc::ImageProcessing::GetMinMaxFloatValue(sliceMin, sliceMax, slice); + break; - default: - return; + default: + return; } if (hasRange_) @@ -367,8 +299,8 @@ sagittal_->GetReadOnlyAccessor(accessor_); break; - default: - throw Orthanc::OrthancException(Orthanc::ErrorCode_ParameterOutOfRange); + default: + throw Orthanc::OrthancException(Orthanc::ErrorCode_ParameterOutOfRange); } } @@ -411,8 +343,8 @@ sagittal_->GetWriteableAccessor(accessor_); break; - default: - throw Orthanc::OrthancException(Orthanc::ErrorCode_ParameterOutOfRange); + default: + throw Orthanc::OrthancException(Orthanc::ErrorCode_ParameterOutOfRange); } } @@ -457,80 +389,4 @@ const void* p = image_.GetConstRow(y + height_ * (depth_ - 1 - z)); return reinterpret_cast<const uint16_t*>(p) [x]; } - - - void ImageBuffer3D::UpdateGeometry() - { - Vector p = (axialGeometry_.GetOrigin() + - static_cast<double>(depth_ - 1) * voxelDimensions_[2] * axialGeometry_.GetNormal()); - - coronalGeometry_ = CoordinateSystem3D(p, - axialGeometry_.GetAxisX(), - -axialGeometry_.GetNormal()); - - sagittalGeometry_ = CoordinateSystem3D(p, - axialGeometry_.GetAxisY(), - -axialGeometry_.GetNormal()); - - Vector origin = ( - axialGeometry_.MapSliceToWorldCoordinates(-0.5 * voxelDimensions_[0], - -0.5 * voxelDimensions_[1]) - - 0.5 * voxelDimensions_[2] * axialGeometry_.GetNormal()); - - Vector scaling = ( - axialGeometry_.GetAxisX() * voxelDimensions_[0] * static_cast<double>(width_) + - axialGeometry_.GetAxisY() * voxelDimensions_[1] * static_cast<double>(height_) + - axialGeometry_.GetNormal() * voxelDimensions_[2] * static_cast<double>(depth_)); - - transform_ = LinearAlgebra::Product( - GeometryToolbox::CreateTranslationMatrix(origin[0], origin[1], origin[2]), - GeometryToolbox::CreateScalingMatrix(scaling[0], scaling[1], scaling[2])); - - LinearAlgebra::InvertMatrix(transformInverse_, transform_); - } - - - Vector ImageBuffer3D::GetCoordinates(float x, - float y, - float z) const - { - Vector p = LinearAlgebra::Product(transform_, LinearAlgebra::CreateVector(x, y, z, 1)); - - assert(LinearAlgebra::IsNear(p[3], 1)); // Affine transform, no perspective effect - - // Back to non-homogeneous coordinates - return LinearAlgebra::CreateVector(p[0], p[1], p[2]); - } - - - bool ImageBuffer3D::DetectProjection(VolumeProjection& projection, - const CoordinateSystem3D& plane) const - { - if (GeometryToolbox::IsParallel(plane.GetNormal(), - axialGeometry_.GetNormal())) - { - projection = VolumeProjection_Axial; - return true; - } - - { - if (GeometryToolbox::IsParallel(plane.GetNormal(), - coronalGeometry_.GetNormal())) - { - projection = VolumeProjection_Coronal; - return true; - } - } - - { - if (GeometryToolbox::IsParallel(plane.GetNormal(), - sagittalGeometry_.GetNormal())) - { - projection = VolumeProjection_Sagittal; - return true; - } - } - - return false; - } }
--- a/Framework/Volumes/ImageBuffer3D.h Thu May 16 16:01:36 2019 +0200 +++ b/Framework/Volumes/ImageBuffer3D.h Thu May 16 16:47:46 2019 +0200 @@ -23,7 +23,7 @@ #include "../StoneEnumerations.h" #include "../Layers/RenderStyle.h" -#include "../Toolbox/CoordinateSystem3D.h" +#include "../Toolbox/VolumeImageGeometry.h" #include "../Toolbox/DicomFrameConverter.h" #include "../Toolbox/ParallelSlices.h" @@ -34,10 +34,7 @@ class ImageBuffer3D : public boost::noncopyable { private: - CoordinateSystem3D axialGeometry_; - CoordinateSystem3D coronalGeometry_; - CoordinateSystem3D sagittalGeometry_; - Vector voxelDimensions_; + VolumeImageGeometry geometry_; // TODO => Move this out of this class Orthanc::Image image_; Orthanc::PixelFormat format_; unsigned int width_; @@ -50,8 +47,6 @@ Matrix transform_; Matrix transformInverse_; - void UpdateGeometry(); - void ExtendImageRange(const Orthanc::ImageAccessor& slice); void GetAxialSliceAccessor(Orthanc::ImageAccessor& target, @@ -83,35 +78,16 @@ void Clear(); - // Set the geometry of the first axial slice (i.e. the one whose - // depth == 0) - void SetAxialGeometry(const CoordinateSystem3D& geometry); - - const CoordinateSystem3D& GetAxialGeometry() const + VolumeImageGeometry& GetGeometry() { - return axialGeometry_; - } - - const CoordinateSystem3D& GetCoronalGeometry() const - { - return coronalGeometry_; + return geometry_; } - const CoordinateSystem3D& GetSagittalGeometry() const + const VolumeImageGeometry& GetGeometry() const { - return sagittalGeometry_; + return geometry_; } - void SetVoxelDimensions(double x, - double y, - double z); - - Vector GetVoxelDimensions(VolumeProjection projection) const; - - void GetSliceSize(unsigned int& width, - unsigned int& height, - VolumeProjection projection); - const Orthanc::ImageAccessor& GetInternalImage() const { return image_; @@ -177,16 +153,7 @@ unsigned int y, unsigned int z) const; - // Get the 3D position of a point in the volume, where x, y and z - // lie in the [0;1] range - Vector GetCoordinates(float x, - float y, - float z) const; - - bool DetectProjection(VolumeProjection& projection, - const CoordinateSystem3D& plane) const; - - + class SliceReader : public boost::noncopyable { private:
--- a/Framework/Volumes/VolumeReslicer.cpp Thu May 16 16:01:36 2019 +0200 +++ b/Framework/Volumes/VolumeReslicer.cpp Thu May 16 16:47:46 2019 +0200 @@ -749,7 +749,8 @@ { // Choose the default voxel size as the finest voxel dimension // of the source volumetric image - const OrthancStone::Vector dim = source.GetVoxelDimensions(OrthancStone::VolumeProjection_Axial); + const OrthancStone::Vector dim = + source.GetGeometry().GetVoxelDimensions(OrthancStone::VolumeProjection_Axial); double voxelSize = dim[0]; if (dim[1] < voxelSize)
--- a/Framework/dev.h Thu May 16 16:01:36 2019 +0200 +++ b/Framework/dev.h Thu May 16 16:47:46 2019 +0200 @@ -157,9 +157,9 @@ << "x" << loader_.GetSlicesCount() << " in " << Orthanc::EnumerationToString(format); image_.reset(new ImageBuffer3D(format, width, height, static_cast<unsigned int>(loader_.GetSlicesCount()), computeRange_)); - image_->SetAxialGeometry(loader_.GetSlice(0).GetGeometry()); - image_->SetVoxelDimensions(loader_.GetSlice(0).GetPixelSpacingX(), - loader_.GetSlice(0).GetPixelSpacingY(), spacingZ); + image_->GetGeometry().SetAxialGeometry(loader_.GetSlice(0).GetGeometry()); + image_->GetGeometry().SetVoxelDimensions(loader_.GetSlice(0).GetPixelSpacingX(), + loader_.GetSlice(0).GetPixelSpacingY(), spacingZ); image_->Clear(); downloadStack_.reset(new DownloadStack(static_cast<unsigned int>(loader_.GetSlicesCount()))); @@ -301,7 +301,7 @@ }; - class VolumeImageGeometry + class OLD_VolumeImageGeometry { private: unsigned int width_; @@ -403,8 +403,8 @@ } public: - VolumeImageGeometry(const OrthancVolumeImage& volume, - VolumeProjection projection) + OLD_VolumeImageGeometry(const OrthancVolumeImage& volume, + VolumeProjection projection) { if (volume.GetSlicesCount() == 0) { @@ -521,9 +521,9 @@ OrthancVolumeImage& volume_; - std::auto_ptr<VolumeImageGeometry> axialGeometry_; - std::auto_ptr<VolumeImageGeometry> coronalGeometry_; - std::auto_ptr<VolumeImageGeometry> sagittalGeometry_; + std::auto_ptr<OLD_VolumeImageGeometry> axialGeometry_; + std::auto_ptr<OLD_VolumeImageGeometry> coronalGeometry_; + std::auto_ptr<OLD_VolumeImageGeometry> sagittalGeometry_; bool IsGeometryReady() const @@ -536,9 +536,9 @@ assert(&message.GetOrigin() == &volume_); // These 3 values are only used to speed up the IVolumeSlicer - axialGeometry_.reset(new VolumeImageGeometry(volume_, VolumeProjection_Axial)); - coronalGeometry_.reset(new VolumeImageGeometry(volume_, VolumeProjection_Coronal)); - sagittalGeometry_.reset(new VolumeImageGeometry(volume_, VolumeProjection_Sagittal)); + axialGeometry_.reset(new OLD_VolumeImageGeometry(volume_, VolumeProjection_Axial)); + coronalGeometry_.reset(new OLD_VolumeImageGeometry(volume_, VolumeProjection_Coronal)); + sagittalGeometry_.reset(new OLD_VolumeImageGeometry(volume_, VolumeProjection_Sagittal)); BroadcastMessage(IVolumeSlicer::GeometryReadyMessage(*this)); } @@ -567,7 +567,7 @@ BroadcastMessage(IVolumeSlicer::ContentChangedMessage(*this)); } - const VolumeImageGeometry& GetProjectionGeometry(VolumeProjection projection) + const OLD_VolumeImageGeometry& GetProjectionGeometry(VolumeProjection projection) { if (!IsGeometryReady()) { @@ -676,7 +676,7 @@ if (IsGeometryReady() && DetectProjection(projection, viewportSlice)) { - const VolumeImageGeometry& geometry = GetProjectionGeometry(projection); + const OLD_VolumeImageGeometry& geometry = GetProjectionGeometry(projection); size_t closest; @@ -716,7 +716,7 @@ private: SliceViewerWidget& widget_; VolumeProjection projection_; - std::auto_ptr<VolumeImageGeometry> slices_; + std::auto_ptr<OLD_VolumeImageGeometry> slices_; size_t slice_; protected: @@ -727,7 +727,7 @@ const OrthancVolumeImage& image = dynamic_cast<const OrthancVolumeImage&>(message.GetOrigin()); - slices_.reset(new VolumeImageGeometry(image, projection_)); + slices_.reset(new OLD_VolumeImageGeometry(image, projection_)); SetSlice(slices_->GetSlicesCount() / 2); widget_.FitContent();
--- a/Resources/CMake/OrthancStoneConfiguration.cmake Thu May 16 16:01:36 2019 +0200 +++ b/Resources/CMake/OrthancStoneConfiguration.cmake Thu May 16 16:47:46 2019 +0200 @@ -391,6 +391,7 @@ ${ORTHANC_STONE_ROOT}/Framework/Toolbox/SlicesSorter.cpp ${ORTHANC_STONE_ROOT}/Framework/Toolbox/UndoRedoStack.cpp ${ORTHANC_STONE_ROOT}/Framework/Toolbox/ViewportGeometry.cpp + ${ORTHANC_STONE_ROOT}/Framework/Toolbox/VolumeImageGeometry.cpp ${ORTHANC_STONE_ROOT}/Framework/Viewport/CairoContext.cpp ${ORTHANC_STONE_ROOT}/Framework/Viewport/CairoSurface.cpp ${ORTHANC_STONE_ROOT}/Framework/Viewport/IMouseTracker.h
--- a/Samples/Sdl/Loader.cpp Thu May 16 16:01:36 2019 +0200 +++ b/Samples/Sdl/Loader.cpp Thu May 16 16:47:46 2019 +0200 @@ -1292,8 +1292,9 @@ parameters.GetImageInformation().GetHeight(), slices.GetSlicesCount(), false /* don't compute range */)); - image_->SetAxialGeometry(slices.GetSliceGeometry(0)); - image_->SetVoxelDimensions(parameters.GetPixelSpacingX(), parameters.GetPixelSpacingY(), spacingZ); + image_->GetGeometry().SetAxialGeometry(slices.GetSliceGeometry(0)); + image_->GetGeometry().SetVoxelDimensions(parameters.GetPixelSpacingX(), + parameters.GetPixelSpacingY(), spacingZ); } image_->Clear(); @@ -1458,6 +1459,12 @@ that_.volume_.SetGeometry(slices); + { + OrthancStone::LinearAlgebra::Print(that_.volume_.GetImage().GetGeometry().GetCoordinates(0, 0, 0)); + OrthancStone::LinearAlgebra::Print(that_.volume_.GetImage().GetGeometry().GetCoordinates(1, 1, 1)); + return; + } + for (size_t i = 0; i < that_.volume_.GetSlicesCount(); i++) { const DicomInstanceParameters& slice = that_.volume_.GetSliceParameters(i);