Mercurial > hg > orthanc

annotate Core/DicomFormat/DicomIntegerPixelAccessor.cpp @ 3860:9ccbbd55bc23

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allow Keeping the SOPInstanceUID in /instances/../modify
author Alain Mazy <alain@mazy.be>
date Fri, 24 Apr 2020 17:30:41 +0200
parents 94f4a18a79cc
children
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1 /**
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2 * Orthanc - A Lightweight, RESTful DICOM Store
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3 * Copyright (C) 2012-2016 Sebastien Jodogne, Medical Physics
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4 * Department, University Hospital of Liege, Belgium
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5 * Copyright (C) 2017-2020 Osimis S.A., Belgium
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6 *
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7 * This program is free software: you can redistribute it and/or
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8 * modify it under the terms of the GNU General Public License as
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9 * published by the Free Software Foundation, either version 3 of the
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10 * License, or (at your option) any later version.
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11 *
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12 * In addition, as a special exception, the copyright holders of this
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13 * program give permission to link the code of its release with the
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14 * OpenSSL project's "OpenSSL" library (or with modified versions of it
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15 * that use the same license as the "OpenSSL" library), and distribute
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16 * the linked executables. You must obey the GNU General Public License
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17 * in all respects for all of the code used other than "OpenSSL". If you
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18 * modify file(s) with this exception, you may extend this exception to
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19 * your version of the file(s), but you are not obligated to do so. If
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20 * you do not wish to do so, delete this exception statement from your
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21 * version. If you delete this exception statement from all source files
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22 * in the program, then also delete it here.
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23 *
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24 * This program is distributed in the hope that it will be useful, but
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25 * WITHOUT ANY WARRANTY; without even the implied warranty of
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26 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU
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27 * General Public License for more details.
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28 *
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29 * You should have received a copy of the GNU General Public License
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30 * along with this program. If not, see <http://www.gnu.org/licenses/>.
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31 **/
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33
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34 #include "../PrecompiledHeaders.h"
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35
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36 #ifndef NOMINMAX
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37 #define NOMINMAX
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38 #endif
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39
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40 #include "DicomIntegerPixelAccessor.h"
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41
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42 #include "../OrthancException.h"
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43 #include <boost/lexical_cast.hpp>
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44 #include <limits>
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45 #include <cassert>
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46 #include <stdio.h>
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47
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48 namespace Orthanc
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49 {
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50 DicomIntegerPixelAccessor::DicomIntegerPixelAccessor(const DicomMap& values,
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51 const void* pixelData,
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52 size_t size) :
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53 information_(values),
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54 pixelData_(pixelData),
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55 size_(size)
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56 {
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57 if (information_.GetBitsAllocated() > 32 ||
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58 information_.GetBitsStored() >= 32)
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59 {
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60 // Not available, as the accessor internally uses int32_t values
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61 throw OrthancException(ErrorCode_NotImplemented);
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62 }
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63
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64 frame_ = 0;
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65 frameOffset_ = information_.GetFrameSize();
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66
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67 if (information_.GetNumberOfFrames() * frameOffset_ > size)
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68 {
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69 throw OrthancException(ErrorCode_BadFileFormat);
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70 }
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71
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72 if (information_.IsSigned())
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73 {
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74 // Pixels are signed
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75 mask_ = (1 << (information_.GetBitsStored() - 1)) - 1;
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76 signMask_ = (1 << (information_.GetBitsStored() - 1));
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77 }
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78 else
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79 {
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80 // Pixels are unsigned
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81 mask_ = (1 << information_.GetBitsStored()) - 1;
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82 signMask_ = 0;
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83 }
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85 if (information_.IsPlanar())
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86 {
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87 /**
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88 * Each color plane shall be sent contiguously. For RGB images,
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89 * this means the order of the pixel values sent is R1, R2, R3,
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90 * ..., G1, G2, G3, ..., B1, B2, B3, etc.
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91 **/
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92 rowOffset_ = information_.GetWidth() * information_.GetBytesPerValue();
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93 }
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94 else
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95 {
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96 /**
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97 * The sample values for the first pixel are followed by the
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98 * sample values for the second pixel, etc. For RGB images, this
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99 * means the order of the pixel values sent shall be R1, G1, B1,
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100 * R2, G2, B2, ..., etc.
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101 **/
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102 rowOffset_ = information_.GetWidth() * information_.GetBytesPerValue() * information_.GetChannelCount();
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103 }
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104 }
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106
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107 void DicomIntegerPixelAccessor::GetExtremeValues(int32_t& min,
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108 int32_t& max) const
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109 {
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110 if (information_.GetHeight() == 0 || information_.GetWidth() == 0)
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111 {
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112 min = max = 0;
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113 return;
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114 }
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115
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116 min = std::numeric_limits<int32_t>::max();
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117 max = std::numeric_limits<int32_t>::min();
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118
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119 for (unsigned int y = 0; y < information_.GetHeight(); y++)
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120 {
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121 for (unsigned int x = 0; x < information_.GetWidth(); x++)
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122 {
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123 for (unsigned int c = 0; c < information_.GetChannelCount(); c++)
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124 {
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125 int32_t v = GetValue(x, y);
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126 if (v < min)
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127 min = v;
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128 if (v > max)
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129 max = v;
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130 }
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131 }
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132 }
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133 }
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134
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135
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136 int32_t DicomIntegerPixelAccessor::GetValue(unsigned int x,
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137 unsigned int y,
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138 unsigned int channel) const
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139 {
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140 assert(x < information_.GetWidth() &&
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141 y < information_.GetHeight() &&
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142 channel < information_.GetChannelCount());
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143
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144 const uint8_t* pixel = reinterpret_cast<const uint8_t*>(pixelData_) +
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145 y * rowOffset_ + frame_ * frameOffset_;
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146
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147 // http://dicom.nema.org/medical/dicom/current/output/html/part03.html#sect_C.7.6.3.1.3
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148 if (information_.IsPlanar())
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149 {
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150 /**
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151 * Each color plane shall be sent contiguously. For RGB images,
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152 * this means the order of the pixel values sent is R1, R2, R3,
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153 * ..., G1, G2, G3, ..., B1, B2, B3, etc.
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154 **/
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155 assert(frameOffset_ % information_.GetChannelCount() == 0);
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156 pixel += channel * frameOffset_ / information_.GetChannelCount() + x * information_.GetBytesPerValue();
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157 }
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158 else
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159 {
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160 /**
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161 * The sample values for the first pixel are followed by the
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162 * sample values for the second pixel, etc. For RGB images, this
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163 * means the order of the pixel values sent shall be R1, G1, B1,
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164 * R2, G2, B2, ..., etc.
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165 **/
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166 pixel += channel * information_.GetBytesPerValue() + x * information_.GetChannelCount() * information_.GetBytesPerValue();
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167 }
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168
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169 uint32_t v;
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170 v = pixel[0];
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171 if (information_.GetBytesPerValue() >= 2)
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172 v = v + (static_cast<uint32_t>(pixel[1]) << 8);
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173 if (information_.GetBytesPerValue() >= 3)
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174 v = v + (static_cast<uint32_t>(pixel[2]) << 16);
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175 if (information_.GetBytesPerValue() >= 4)
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176 v = v + (static_cast<uint32_t>(pixel[3]) << 24);
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177
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178 v = v >> information_.GetShift();
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179
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180 if (v & signMask_)
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181 {
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182 // Signed value
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183 // http://en.wikipedia.org/wiki/Two%27s_complement#Subtraction_from_2N
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184 return -static_cast<int32_t>(mask_) + static_cast<int32_t>(v & mask_) - 1;
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185 }
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186 else
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187 {
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188 // Unsigned value
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189 return static_cast<int32_t>(v & mask_);
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190 }
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191 }
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192
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193
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194 void DicomIntegerPixelAccessor::SetCurrentFrame(unsigned int frame)
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195 {
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196 if (frame >= information_.GetNumberOfFrames())
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197 {
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198 throw OrthancException(ErrorCode_ParameterOutOfRange);
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199 }
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200
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201 frame_ = frame;
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202 }
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203
0
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204 }