annotate OrthancFramework/Sources/Images/ImageAccessor.cpp @ 4337:7707fa761b71

OrthancImport.py sample
author Sebastien Jodogne <s.jodogne@gmail.com>
date Wed, 02 Dec 2020 11:01:59 +0100
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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 Lesser General Public License
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9 * as published by the Free Software Foundation, either version 3 of
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10 * the License, or (at your option) any later version.
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11 *
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12 * This program is distributed in the hope that it will be useful, but
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13 * WITHOUT ANY WARRANTY; without even the implied warranty of
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14 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU
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15 * Lesser General Public License for more details.
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16 *
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17 * You should have received a copy of the GNU Lesser General Public
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18 * License along with this program. If not, see
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19 * <http://www.gnu.org/licenses/>.
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20 **/
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21
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22
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23 #include "../PrecompiledHeaders.h"
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24 #include "ImageAccessor.h"
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25
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26 #include "../Logging.h"
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27 #include "../OrthancException.h"
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28 #include "../ChunkedBuffer.h"
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29
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30 #include <stdint.h>
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31 #include <cassert>
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32 #include <boost/lexical_cast.hpp>
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33
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34
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35
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36 namespace Orthanc
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37 {
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38 template <typename PixelType>
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39 static void ToMatlabStringInternal(ChunkedBuffer& target,
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40 const ImageAccessor& source)
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41 {
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42 target.AddChunk("double([ ");
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43
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44 const unsigned int width = source.GetWidth();
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45 const unsigned int height = source.GetHeight();
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46
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47 for (unsigned int y = 0; y < height; y++)
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48 {
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49 const PixelType* p = reinterpret_cast<const PixelType*>(source.GetConstRow(y));
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50
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51 std::string s;
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52 if (y > 0)
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53 {
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54 s = "; ";
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55 }
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56
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57 s.reserve(width * 8);
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58
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59 for (unsigned int x = 0; x < width; x++, p++)
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60 {
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61 s += boost::lexical_cast<std::string>(static_cast<double>(*p)) + " ";
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62 }
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63
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64 target.AddChunk(s);
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65 }
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66
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67 target.AddChunk("])");
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68 }
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69
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70
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71 static void RGB24ToMatlabString(ChunkedBuffer& target,
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72 const ImageAccessor& source)
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73 {
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74 assert(source.GetFormat() == PixelFormat_RGB24);
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75
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76 target.AddChunk("double(permute(reshape([ ");
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77
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78 const unsigned int width = source.GetWidth();
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79 const unsigned int height = source.GetHeight();
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80
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81 for (unsigned int y = 0; y < height; y++)
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82 {
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83 const uint8_t* p = reinterpret_cast<const uint8_t*>(source.GetConstRow(y));
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84
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85 std::string s;
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86 s.reserve(width * 3 * 8);
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87
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88 for (unsigned int x = 0; x < 3 * width; x++, p++)
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89 {
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90 s += boost::lexical_cast<std::string>(static_cast<int>(*p)) + " ";
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91 }
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92
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93 target.AddChunk(s);
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94 }
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95
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96 target.AddChunk("], [ 3 " + boost::lexical_cast<std::string>(height) +
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97 " " + boost::lexical_cast<std::string>(width) + " ]), [ 3 2 1 ]))");
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98 }
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99
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100
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101 ImageAccessor::ImageAccessor()
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102 {
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103 AssignEmpty(PixelFormat_Grayscale8);
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104 }
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105
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106 ImageAccessor::~ImageAccessor()
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107 {
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108 }
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109
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110 bool ImageAccessor::IsReadOnly() const
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111 {
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112 return readOnly_;
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113 }
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114
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115 PixelFormat ImageAccessor::GetFormat() const
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116 {
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117 return format_;
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118 }
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119
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120 unsigned int ImageAccessor::GetBytesPerPixel() const
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121 {
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122 return ::Orthanc::GetBytesPerPixel(format_);
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123 }
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124
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125 unsigned int ImageAccessor::GetWidth() const
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126 {
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127 return width_;
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128 }
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129
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130 unsigned int ImageAccessor::GetHeight() const
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131 {
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132 return height_;
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133 }
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134
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135 unsigned int ImageAccessor::GetPitch() const
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136 {
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137 return pitch_;
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138 }
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139
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140 unsigned int ImageAccessor::GetSize() const
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141 {
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diff changeset
142 return GetHeight() * GetPitch();
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diff changeset
143 }
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diff changeset
144
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diff changeset
145 const void *ImageAccessor::GetConstBuffer() const
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146 {
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diff changeset
147 return buffer_;
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diff changeset
148 }
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149
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150 void* ImageAccessor::GetBuffer()
798
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151 {
e1d27ee2114a ImageAccessor abstraction
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152 if (readOnly_)
e1d27ee2114a ImageAccessor abstraction
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153 {
2954
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154 throw OrthancException(ErrorCode_ReadOnly,
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155 "Trying to write to a read-only image");
798
e1d27ee2114a ImageAccessor abstraction
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156 }
e1d27ee2114a ImageAccessor abstraction
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157
e1d27ee2114a ImageAccessor abstraction
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158 return buffer_;
e1d27ee2114a ImageAccessor abstraction
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parents:
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159 }
e1d27ee2114a ImageAccessor abstraction
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parents:
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160
e1d27ee2114a ImageAccessor abstraction
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161
e1d27ee2114a ImageAccessor abstraction
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162 const void* ImageAccessor::GetConstRow(unsigned int y) const
e1d27ee2114a ImageAccessor abstraction
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163 {
e1d27ee2114a ImageAccessor abstraction
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164 if (buffer_ != NULL)
e1d27ee2114a ImageAccessor abstraction
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parents:
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165 {
1922
369897749653 ImageAccessor::GetRegion
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166 return buffer_ + y * pitch_;
798
e1d27ee2114a ImageAccessor abstraction
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167 }
e1d27ee2114a ImageAccessor abstraction
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parents:
diff changeset
168 else
e1d27ee2114a ImageAccessor abstraction
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parents:
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169 {
e1d27ee2114a ImageAccessor abstraction
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170 return NULL;
e1d27ee2114a ImageAccessor abstraction
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171 }
e1d27ee2114a ImageAccessor abstraction
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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172 }
e1d27ee2114a ImageAccessor abstraction
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173
e1d27ee2114a ImageAccessor abstraction
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174
4201
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175 void* ImageAccessor::GetRow(unsigned int y)
798
e1d27ee2114a ImageAccessor abstraction
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176 {
e1d27ee2114a ImageAccessor abstraction
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177 if (readOnly_)
e1d27ee2114a ImageAccessor abstraction
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178 {
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179 throw OrthancException(ErrorCode_ReadOnly,
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180 "Trying to write to a read-only image");
798
e1d27ee2114a ImageAccessor abstraction
Sebastien Jodogne <s.jodogne@gmail.com>
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181 }
e1d27ee2114a ImageAccessor abstraction
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182
e1d27ee2114a ImageAccessor abstraction
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183 if (buffer_ != NULL)
e1d27ee2114a ImageAccessor abstraction
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184 {
1922
369897749653 ImageAccessor::GetRegion
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185 return buffer_ + y * pitch_;
798
e1d27ee2114a ImageAccessor abstraction
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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186 }
e1d27ee2114a ImageAccessor abstraction
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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187 else
e1d27ee2114a ImageAccessor abstraction
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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188 {
e1d27ee2114a ImageAccessor abstraction
Sebastien Jodogne <s.jodogne@gmail.com>
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189 return NULL;
e1d27ee2114a ImageAccessor abstraction
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
190 }
e1d27ee2114a ImageAccessor abstraction
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
191 }
e1d27ee2114a ImageAccessor abstraction
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parents:
diff changeset
192
e1d27ee2114a ImageAccessor abstraction
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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193
e1d27ee2114a ImageAccessor abstraction
Sebastien Jodogne <s.jodogne@gmail.com>
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diff changeset
194 void ImageAccessor::AssignEmpty(PixelFormat format)
e1d27ee2114a ImageAccessor abstraction
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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195 {
e1d27ee2114a ImageAccessor abstraction
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parents:
diff changeset
196 readOnly_ = false;
e1d27ee2114a ImageAccessor abstraction
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parents:
diff changeset
197 format_ = format;
e1d27ee2114a ImageAccessor abstraction
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diff changeset
198 width_ = 0;
e1d27ee2114a ImageAccessor abstraction
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199 height_ = 0;
e1d27ee2114a ImageAccessor abstraction
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200 pitch_ = 0;
e1d27ee2114a ImageAccessor abstraction
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201 buffer_ = NULL;
e1d27ee2114a ImageAccessor abstraction
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
202 }
e1d27ee2114a ImageAccessor abstraction
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parents:
diff changeset
203
e1d27ee2114a ImageAccessor abstraction
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parents:
diff changeset
204
e1d27ee2114a ImageAccessor abstraction
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parents:
diff changeset
205 void ImageAccessor::AssignReadOnly(PixelFormat format,
e1d27ee2114a ImageAccessor abstraction
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
206 unsigned int width,
e1d27ee2114a ImageAccessor abstraction
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diff changeset
207 unsigned int height,
e1d27ee2114a ImageAccessor abstraction
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diff changeset
208 unsigned int pitch,
e1d27ee2114a ImageAccessor abstraction
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diff changeset
209 const void *buffer)
e1d27ee2114a ImageAccessor abstraction
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210 {
e1d27ee2114a ImageAccessor abstraction
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parents:
diff changeset
211 readOnly_ = true;
e1d27ee2114a ImageAccessor abstraction
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parents:
diff changeset
212 format_ = format;
e1d27ee2114a ImageAccessor abstraction
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parents:
diff changeset
213 width_ = width;
e1d27ee2114a ImageAccessor abstraction
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diff changeset
214 height_ = height;
e1d27ee2114a ImageAccessor abstraction
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215 pitch_ = pitch;
1922
369897749653 ImageAccessor::GetRegion
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diff changeset
216 buffer_ = reinterpret_cast<uint8_t*>(const_cast<void*>(buffer));
860
Sebastien Jodogne <s.jodogne@gmail.com>
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diff changeset
217
1916
5bcf721bde4f IImageWriter
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parents: 1900
diff changeset
218 if (GetBytesPerPixel() * width_ > pitch_)
5bcf721bde4f IImageWriter
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parents: 1900
diff changeset
219 {
5bcf721bde4f IImageWriter
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parents: 1900
diff changeset
220 throw OrthancException(ErrorCode_ParameterOutOfRange);
5bcf721bde4f IImageWriter
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
221 }
798
e1d27ee2114a ImageAccessor abstraction
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diff changeset
222 }
e1d27ee2114a ImageAccessor abstraction
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223
4300
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diff changeset
224 void ImageAccessor::GetReadOnlyAccessor(ImageAccessor &target) const
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diff changeset
225 {
b30a8de92ad9 abi continued
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diff changeset
226 target.AssignReadOnly(format_, width_, height_, pitch_, buffer_);
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diff changeset
227 }
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diff changeset
228
798
e1d27ee2114a ImageAccessor abstraction
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229
e1d27ee2114a ImageAccessor abstraction
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diff changeset
230 void ImageAccessor::AssignWritable(PixelFormat format,
e1d27ee2114a ImageAccessor abstraction
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parents:
diff changeset
231 unsigned int width,
e1d27ee2114a ImageAccessor abstraction
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parents:
diff changeset
232 unsigned int height,
e1d27ee2114a ImageAccessor abstraction
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
233 unsigned int pitch,
e1d27ee2114a ImageAccessor abstraction
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
234 void *buffer)
e1d27ee2114a ImageAccessor abstraction
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parents:
diff changeset
235 {
e1d27ee2114a ImageAccessor abstraction
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diff changeset
236 readOnly_ = false;
e1d27ee2114a ImageAccessor abstraction
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diff changeset
237 format_ = format;
e1d27ee2114a ImageAccessor abstraction
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diff changeset
238 width_ = width;
e1d27ee2114a ImageAccessor abstraction
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diff changeset
239 height_ = height;
e1d27ee2114a ImageAccessor abstraction
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parents:
diff changeset
240 pitch_ = pitch;
1922
369897749653 ImageAccessor::GetRegion
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parents: 1916
diff changeset
241 buffer_ = reinterpret_cast<uint8_t*>(buffer);
860
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 824
diff changeset
242
1916
5bcf721bde4f IImageWriter
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
243 if (GetBytesPerPixel() * width_ > pitch_)
5bcf721bde4f IImageWriter
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
244 {
5bcf721bde4f IImageWriter
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parents: 1900
diff changeset
245 throw OrthancException(ErrorCode_ParameterOutOfRange);
5bcf721bde4f IImageWriter
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
246 }
798
e1d27ee2114a ImageAccessor abstraction
Sebastien Jodogne <s.jodogne@gmail.com>
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247 }
874
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248
87791ebc1f50 download matlab images
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diff changeset
249
2865
0f07bdae0805 ImageAccessor::GetWriteableAccessor() and GetReadOnlyAccessor()
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diff changeset
250 void ImageAccessor::GetWriteableAccessor(ImageAccessor& target) const
0f07bdae0805 ImageAccessor::GetWriteableAccessor() and GetReadOnlyAccessor()
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parents: 2861
diff changeset
251 {
0f07bdae0805 ImageAccessor::GetWriteableAccessor() and GetReadOnlyAccessor()
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parents: 2861
diff changeset
252 if (readOnly_)
0f07bdae0805 ImageAccessor::GetWriteableAccessor() and GetReadOnlyAccessor()
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2861
diff changeset
253 {
0f07bdae0805 ImageAccessor::GetWriteableAccessor() and GetReadOnlyAccessor()
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2861
diff changeset
254 throw OrthancException(ErrorCode_ReadOnly);
0f07bdae0805 ImageAccessor::GetWriteableAccessor() and GetReadOnlyAccessor()
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2861
diff changeset
255 }
0f07bdae0805 ImageAccessor::GetWriteableAccessor() and GetReadOnlyAccessor()
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2861
diff changeset
256 else
0f07bdae0805 ImageAccessor::GetWriteableAccessor() and GetReadOnlyAccessor()
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2861
diff changeset
257 {
0f07bdae0805 ImageAccessor::GetWriteableAccessor() and GetReadOnlyAccessor()
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2861
diff changeset
258 target.AssignWritable(format_, width_, height_, pitch_, buffer_);
0f07bdae0805 ImageAccessor::GetWriteableAccessor() and GetReadOnlyAccessor()
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2861
diff changeset
259 }
0f07bdae0805 ImageAccessor::GetWriteableAccessor() and GetReadOnlyAccessor()
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2861
diff changeset
260 }
0f07bdae0805 ImageAccessor::GetWriteableAccessor() and GetReadOnlyAccessor()
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2861
diff changeset
261
0f07bdae0805 ImageAccessor::GetWriteableAccessor() and GetReadOnlyAccessor()
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2861
diff changeset
262
874
87791ebc1f50 download matlab images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 861
diff changeset
263 void ImageAccessor::ToMatlabString(std::string& target) const
87791ebc1f50 download matlab images
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parents: 861
diff changeset
264 {
87791ebc1f50 download matlab images
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parents: 861
diff changeset
265 ChunkedBuffer buffer;
87791ebc1f50 download matlab images
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parents: 861
diff changeset
266
87791ebc1f50 download matlab images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 861
diff changeset
267 switch (GetFormat())
87791ebc1f50 download matlab images
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parents: 861
diff changeset
268 {
87791ebc1f50 download matlab images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 861
diff changeset
269 case PixelFormat_Grayscale8:
87791ebc1f50 download matlab images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 861
diff changeset
270 ToMatlabStringInternal<uint8_t>(buffer, *this);
87791ebc1f50 download matlab images
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diff changeset
271 break;
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diff changeset
272
87791ebc1f50 download matlab images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 861
diff changeset
273 case PixelFormat_Grayscale16:
87791ebc1f50 download matlab images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 861
diff changeset
274 ToMatlabStringInternal<uint16_t>(buffer, *this);
87791ebc1f50 download matlab images
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diff changeset
275 break;
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diff changeset
276
2415
7e217a1cc63f PixelFormat_Float32
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2244
diff changeset
277 case PixelFormat_Grayscale32:
7e217a1cc63f PixelFormat_Float32
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2244
diff changeset
278 ToMatlabStringInternal<uint32_t>(buffer, *this);
7e217a1cc63f PixelFormat_Float32
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2244
diff changeset
279 break;
7e217a1cc63f PixelFormat_Float32
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2244
diff changeset
280
2645
89b789366596 Grayscale64 pixel format
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2447
diff changeset
281 case PixelFormat_Grayscale64:
89b789366596 Grayscale64 pixel format
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2447
diff changeset
282 ToMatlabStringInternal<uint64_t>(buffer, *this);
89b789366596 Grayscale64 pixel format
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2447
diff changeset
283 break;
89b789366596 Grayscale64 pixel format
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284
874
87791ebc1f50 download matlab images
Sebastien Jodogne <s.jodogne@gmail.com>
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diff changeset
285 case PixelFormat_SignedGrayscale16:
87791ebc1f50 download matlab images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 861
diff changeset
286 ToMatlabStringInternal<int16_t>(buffer, *this);
87791ebc1f50 download matlab images
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diff changeset
287 break;
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diff changeset
288
1993
e2a3ff770b48 introducing float32 images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1922
diff changeset
289 case PixelFormat_Float32:
e2a3ff770b48 introducing float32 images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1922
diff changeset
290 ToMatlabStringInternal<float>(buffer, *this);
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291 break;
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292
874
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293 case PixelFormat_RGB24:
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294 RGB24ToMatlabString(buffer, *this);
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295 break;
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296
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297 default:
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298 throw OrthancException(ErrorCode_NotImplemented);
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299 }
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300
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301 buffer.Flatten(target);
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302 }
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303
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369897749653 ImageAccessor::GetRegion
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304
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305
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306 void ImageAccessor::GetRegion(ImageAccessor& accessor,
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307 unsigned int x,
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308 unsigned int y,
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309 unsigned int width,
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310 unsigned int height) const
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311 {
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312 if (x + width > width_ ||
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313 y + height > height_)
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314 {
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315 throw OrthancException(ErrorCode_ParameterOutOfRange);
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316 }
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317
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318 if (width == 0 ||
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319 height == 0)
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320 {
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321 accessor.AssignWritable(format_, 0, 0, 0, NULL);
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322 }
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323 else
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324 {
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325 uint8_t* p = (buffer_ +
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326 y * pitch_ +
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327 x * GetBytesPerPixel());
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328
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329 if (readOnly_)
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330 {
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331 accessor.AssignReadOnly(format_, width, height, pitch_, p);
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332 }
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333 else
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334 {
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335 accessor.AssignWritable(format_, width, height, pitch_, p);
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336 }
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337 }
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338 }
369897749653 ImageAccessor::GetRegion
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339
2103
a89ca69ec1d1 ImageAccessor::SetFormat
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340
a89ca69ec1d1 ImageAccessor::SetFormat
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341 void ImageAccessor::SetFormat(PixelFormat format)
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342 {
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343 if (readOnly_)
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344 {
2954
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345 throw OrthancException(ErrorCode_ReadOnly,
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346 "Trying to modify the format of a read-only image");
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347 }
a89ca69ec1d1 ImageAccessor::SetFormat
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348
a89ca69ec1d1 ImageAccessor::SetFormat
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349 if (::Orthanc::GetBytesPerPixel(format) != ::Orthanc::GetBytesPerPixel(format_))
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350 {
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351 throw OrthancException(ErrorCode_IncompatibleImageFormat);
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352 }
a89ca69ec1d1 ImageAccessor::SetFormat
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diff changeset
353
a89ca69ec1d1 ImageAccessor::SetFormat
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354 format_ = format;
a89ca69ec1d1 ImageAccessor::SetFormat
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diff changeset
355 }
4273
0034f855c023 tuning log categories from command-line, and binary compat with orthanc framework 1.7.2
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diff changeset
356
0034f855c023 tuning log categories from command-line, and binary compat with orthanc framework 1.7.2
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diff changeset
357
0034f855c023 tuning log categories from command-line, and binary compat with orthanc framework 1.7.2
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358 #if ORTHANC_BUILDING_FRAMEWORK_LIBRARY == 1
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359 void* ImageAccessor::GetBuffer() const
0034f855c023 tuning log categories from command-line, and binary compat with orthanc framework 1.7.2
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diff changeset
360 {
0034f855c023 tuning log categories from command-line, and binary compat with orthanc framework 1.7.2
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diff changeset
361 return const_cast<ImageAccessor&>(*this).GetBuffer();
0034f855c023 tuning log categories from command-line, and binary compat with orthanc framework 1.7.2
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diff changeset
362 }
0034f855c023 tuning log categories from command-line, and binary compat with orthanc framework 1.7.2
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diff changeset
363
0034f855c023 tuning log categories from command-line, and binary compat with orthanc framework 1.7.2
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diff changeset
364 void* ImageAccessor::GetRow(unsigned int y) const
0034f855c023 tuning log categories from command-line, and binary compat with orthanc framework 1.7.2
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diff changeset
365 {
0034f855c023 tuning log categories from command-line, and binary compat with orthanc framework 1.7.2
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diff changeset
366 return const_cast<ImageAccessor&>(*this).GetRow(y);
0034f855c023 tuning log categories from command-line, and binary compat with orthanc framework 1.7.2
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diff changeset
367 }
0034f855c023 tuning log categories from command-line, and binary compat with orthanc framework 1.7.2
Sebastien Jodogne <s.jodogne@gmail.com>
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diff changeset
368 #endif
798
e1d27ee2114a ImageAccessor abstraction
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parents:
diff changeset
369 }