diff --git a/code/core/rttbBaseType.h b/code/core/rttbBaseType.h index 7b5e336..e18ba5f 100644 --- a/code/core/rttbBaseType.h +++ b/code/core/rttbBaseType.h @@ -1,613 +1,614 @@ // ----------------------------------------------------------------------- // RTToolbox - DKFZ radiotherapy quantitative evaluation library // // Copyright (c) German Cancer Research Center (DKFZ), // Software development for Integrated Diagnostics and Therapy (SIDT). // ALL RIGHTS RESERVED. // See rttbCopyright.txt or // http://www.dkfz.de/en/sidt/projects/rttb/copyright.html // // This software is distributed WITHOUT ANY WARRANTY; without even // the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR // PURPOSE. See the above copyright notices for more information. // //------------------------------------------------------------------------ #ifndef __BASE_TYPE_NEW_H #define __BASE_TYPE_NEW_H #include #include #include #include #include #include #include #include #ifdef _MSC_VER #pragma warning(push) #pragma warning(disable: 4251) #endif namespace rttb { const double errorConstant = 1e-5; const double reducedErrorConstant = 0.0001; using Index1D = unsigned short; /*! @class Index3D @brief 3D index. */ class Index3D: public boost::numeric::ublas::vector { public: Index3D() : boost::numeric::ublas::vector(3,0) {} explicit Index3D(const Index1D value) : boost::numeric::ublas::vector(3, value) {} Index3D(const Index1D xValue, const Index1D yValue, const Index1D zValue) : boost::numeric::ublas::vector(3, xValue) { (*this)(1) = yValue; (*this)(2) = zValue; } const Index1D x() const { return (*this)(0); } const Index1D y() const { return (*this)(1); } const Index1D z() const { return (*this)(2); } friend bool operator==(const Index3D& gi1, const Index3D& gi2) { if (gi1.size() != gi2.size()) { return false; } for (size_t i = 0; i < gi1.size(); i++) { if (gi1(i) != gi2(i)) { return false; } } return true; } friend std::ostream& operator<<(std::ostream& s, const Index3D& aVector) { s << "[ " << aVector(0) << ", " << aVector(1) << ", " << aVector(2) << " ]"; return s; } }; using IndexList = std::list; using FileNameString = std::string; using ContourGeometricTypeString = std::string; using WorldCoordinate = double; /*! @class WorldCoordinate3D @brief 3D coordinate in real world coordinates like in DICOM to define ImagePositionPatient. */ class WorldCoordinate3D: public boost::numeric::ublas::vector { public: WorldCoordinate3D() : boost::numeric::ublas::vector(3,0) {} explicit WorldCoordinate3D(const WorldCoordinate value) : boost::numeric::ublas::vector(3, value) {} WorldCoordinate3D(const WorldCoordinate xValue, const WorldCoordinate yValue, const WorldCoordinate zValue) : boost::numeric::ublas::vector(3, xValue) { (*this)(1) = yValue; (*this)(2) = zValue; } + WorldCoordinate3D(const WorldCoordinate3D& w): boost::numeric::ublas::vector(3) { (*this)(0) = w.x(); (*this)(1) = w.y(); (*this)(2) = w.z(); } const WorldCoordinate x() const { return (*this)(0); } const WorldCoordinate y() const { return (*this)(1); } const WorldCoordinate z() const { return (*this)(2); } //vector cross product (not included in boost.ublas) - WorldCoordinate3D cross(WorldCoordinate3D aVector) const + WorldCoordinate3D cross(const WorldCoordinate3D& aVector) const { WorldCoordinate3D result; WorldCoordinate x = (*this)(0); WorldCoordinate y = (*this)(1); WorldCoordinate z = (*this)(2); result(0) = y * aVector(2) - z * aVector(1); result(1) = z * aVector(0) - x * aVector(2); result(2) = x * aVector(1) - y * aVector(0); return result; } const std::string toString() const { std::string s = std::to_string(x()) + " " + std::to_string(y()) + " " + std::to_string(z()); return s; } WorldCoordinate3D& operator=(const WorldCoordinate3D& wc) { (*this)(0) = wc.x(); (*this)(1) = wc.y(); (*this)(2) = wc.z(); return (*this); } - WorldCoordinate3D& operator=(const boost::numeric::ublas::vector wc) + WorldCoordinate3D& operator=(const boost::numeric::ublas::vector& wc) { (*this)(0) = wc(0); (*this)(1) = wc(1); (*this)(2) = wc(2); return (*this); } - WorldCoordinate3D operator-(const boost::numeric::ublas::vector wc) + WorldCoordinate3D operator-(const boost::numeric::ublas::vector& wc) const { return WorldCoordinate3D((*this)(0) - wc(0), (*this)(1) - wc(1), (*this)(2) - wc(2)); } - WorldCoordinate3D operator+(const boost::numeric::ublas::vector wc) + WorldCoordinate3D operator+(const boost::numeric::ublas::vector& wc) const { return WorldCoordinate3D((*this)(0) + wc(0), (*this)(1) + wc(1), (*this)(2) + wc(2)); } friend bool operator==(const WorldCoordinate3D& wc1, const WorldCoordinate3D& wc2) { if (wc1.size() != wc2.size()) { return false; } for (size_t i = 0; i < wc1.size(); i++) { if (wc1(i) != wc2(i)) { return false; } } return true; } bool equalsAlmost(const WorldCoordinate3D& another, double errorConstantWC = 1e-5) const { if (size() != another.size()) { return false; } double dist = norm_2(*this - another); return dist < errorConstantWC; } friend std::ostream& operator<<(std::ostream& s, const WorldCoordinate3D& aVector) { s << "[ " << aVector(0) << ", " << aVector(1) << ", " << aVector(2) << " ]"; return s; } }; /* ! @brief continuous index */ using ContinuousVoxelGridIndex3D = rttb::WorldCoordinate3D; using ImageSize = rttb::Index3D; using GridVolumeType = double; /*! @class SpacingVectorType3D @brief 3D spacing vector. @pre values of this vector may not be negative. */ class SpacingVectorType3D: public boost::numeric::ublas::vector { public: SpacingVectorType3D() : boost::numeric::ublas::vector(3,0) {} explicit SpacingVectorType3D(const GridVolumeType value) : boost::numeric::ublas::vector(3, value) { if (value < 0) { throw std::invalid_argument("received negative value"); } } SpacingVectorType3D(const GridVolumeType xValue, const GridVolumeType yValue, const GridVolumeType zValue) : boost::numeric::ublas::vector(3) { if (xValue < 0 || yValue < 0 || zValue < 0) { throw std::invalid_argument("received negative value"); } (*this)(0) = xValue; (*this)(1) = yValue; (*this)(2) = zValue; } SpacingVectorType3D(const SpacingVectorType3D& w) : SpacingVectorType3D(w.x(), w.y(), w.z()) { } const GridVolumeType x() const { return (*this)(0); } const GridVolumeType y() const { return (*this)(1); } const GridVolumeType z() const { return (*this)(2); } const std::string toString() const { std::string s = std::to_string(x()) + " " + std::to_string(y()) + " " + std::to_string(z()); return s; } SpacingVectorType3D& operator=(const SpacingVectorType3D& wc) { (*this)(0) = wc.x(); (*this)(1) = wc.y(); (*this)(2) = wc.z(); return (*this); } SpacingVectorType3D& operator=(const WorldCoordinate3D& wc) { (*this)(0) = GridVolumeType(wc.x()); (*this)(1) = GridVolumeType(wc.y()); (*this)(2) = GridVolumeType(wc.z()); return (*this); } SpacingVectorType3D& operator=(const boost::numeric::ublas::vector wc) { (*this)(0) = wc(0); (*this)(1) = wc(1); (*this)(2) = wc(2); return (*this); } friend bool operator==(const SpacingVectorType3D& wc1, const SpacingVectorType3D& wc2) { if (wc1.size() != wc2.size()) { return false; } for (size_t i = 0; i < wc1.size(); i++) { if (wc1(i) != wc2(i)) { return false; } } return true; } bool equalsAlmost(const SpacingVectorType3D& another, double errorConstantSV = 1e-5) const { if ((*this).size() != another.size()) { return false; } double dist = norm_2(*this - another); return dist < errorConstantSV; } friend std::ostream& operator<<(std::ostream& s, const SpacingVectorType3D& aVector) { s << "[ " << aVector(0) << ", " << aVector(1) << ", " << aVector(2) << " ]"; return s; } }; /*! @class OrientationMatrix @brief Used to store image orientation information */ class OrientationMatrix : public boost::numeric::ublas::matrix { public: /*! The default constructor generates a 3x3 unit matrix */ OrientationMatrix() : boost::numeric::ublas::matrix(3, 3, 0) { for (std::size_t m = 0; m < (*this).size1(); m++) { (*this)(m, m) = 1; } } explicit OrientationMatrix(const WorldCoordinate value) : boost::numeric::ublas::matrix(3, 3, value) {} bool equalsAlmost(const OrientationMatrix& anOrientationMatrix, double errorConstantOM=1e-5) const { if (anOrientationMatrix.size1() == (*this).size1()) { if (anOrientationMatrix.size2() == (*this).size2()) { for (std::size_t m = 0; m < anOrientationMatrix.size1(); m++) { for (std::size_t n = 0; n < anOrientationMatrix.size2(); n++) { if ((std::abs((*this)(m, n) - anOrientationMatrix(m, n)) > errorConstantOM)) { return false; } } }// end element comparison } else { return false; } } else { return false; } return true; } friend bool operator==(const OrientationMatrix& om1, const OrientationMatrix& om2) { return om1.equalsAlmost(om2, 0.0); } friend std::ostream& operator<<(std::ostream& s, const OrientationMatrix& anOrientationMatrix) { s << "[ "; for (std::size_t m = 0; m < anOrientationMatrix.size1(); m++) { s << "[ "; for (std::size_t n = 0; n < anOrientationMatrix.size2(); n++) { if (n == 0) { s << anOrientationMatrix(m, n); } else { s << ", " << anOrientationMatrix(m, n); } } s << " ]"; } s << " ]"; return s; } }; /*! base for 2D and 3D VoxelIndex; Therefore required beside VoxelGridID */ using GridIndexType = unsigned int; /*! @class VoxelGridIndex3D @brief 3D voxel grid index in a discret geometry (matrix/image). @details analogous to DICOM where ImagePositionPatient gives the position of the center of the first coordinate (0/0/0) */ class VoxelGridIndex3D: public boost::numeric::ublas::vector { public: VoxelGridIndex3D() : boost::numeric::ublas::vector(3,0) {} explicit VoxelGridIndex3D(const GridIndexType value) : boost::numeric::ublas::vector(3, value) {} VoxelGridIndex3D(const GridIndexType xValue, const GridIndexType yValue, const GridIndexType zValue) : boost::numeric::ublas::vector(3, xValue) { (*this)(1) = yValue; (*this)(2) = zValue; } const GridIndexType x() const { return (*this)(0); } const GridIndexType y() const { return (*this)(1); } const GridIndexType z() const { return (*this)(2); } const std::string toString() const { std::string s = std::to_string(x()) + " " + std::to_string(y()) + " " + std::to_string(z()); return s; } VoxelGridIndex3D& operator=(const Index3D& ui) { (*this)(0) = ui(0); (*this)(1) = ui(1); (*this)(2) = ui(2); return (*this); } friend bool operator==(const VoxelGridIndex3D& gi1, const VoxelGridIndex3D& gi2) { if (gi1.size() != gi2.size()) { return false; } for (size_t i = 0; i < gi1.size(); i++) { if (gi1(i) != gi2(i)) { return false; } } return true; } friend std::ostream& operator<<(std::ostream& s, const VoxelGridIndex3D& aVector) { s << "[ " << aVector(0) << ", " << aVector(1) << ", " << aVector(2) << " ]"; return s; } }; /*! @class VoxelGridIndex3D @brief 2D voxel grid index. */ class VoxelGridIndex2D: public boost::numeric::ublas::vector { public: VoxelGridIndex2D() : boost::numeric::ublas::vector(2,0) {} explicit VoxelGridIndex2D(const GridIndexType value) : boost::numeric::ublas::vector(2, value) {} VoxelGridIndex2D(const GridIndexType xValue, const GridIndexType yValue) : boost::numeric::ublas::vector(2, xValue) { (*this)(1) = yValue; } const GridIndexType x() const { return (*this)(0); } const GridIndexType y() const { return (*this)(1); } const std::string toString() const { std::string s = std::to_string(x()) + " " + std::to_string(y()); return s; } friend bool operator==(const VoxelGridIndex2D& gi1, const VoxelGridIndex2D& gi2) { if (gi1.size() != gi2.size()) { return false; } for (size_t i = 0; i < gi1.size(); i++) { if (gi1(i) != gi2(i)) { return false; } } return true; } friend std::ostream& operator<<(std::ostream& s, const VoxelGridIndex2D& aVector) { s << "[ " << aVector(0) << ", " << aVector(1) << " ]"; return s; } }; using GridSizeType = long; using VoxelGridID = int; //starts from 0 and is continuously counting all positions on the grid using VoxelGridDimensionType = unsigned int; typedef double FractionType, DVHVoxelNumber; typedef double DoseCalcType, DoseTypeGy, GenericValueType, DoseVoxelVolumeType, VolumeType, GridVolumeType, PercentType, VoxelNumberType, BEDType, LQEDType; using IDType = std::string; using StructureLabel = std::string; struct DVHRole { enum Type { TargetVolume = 1, HealthyTissue = 2, WholeVolume = 4, UserDefined = 128 } Type; }; struct DVHType { enum Type { Differential = 1, Cumulative = 2 } Type; }; using FileNameType = std::string; using PolygonType = std::vector; using PolygonSequenceType = std::vector; using IndexValueType = double; using DoseStatisticType = double; using DICOMRTFileNameString = std::string; using Uint16 = unsigned short; typedef std::string XMLString, StatisticsString; }//end: namespace rttb #ifdef _MSC_VER #pragma warning(pop) #endif #endif