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annotate OrthancServer/Sources/DicomInstanceToStore.cpp @ 4507:b4c58795f3a8

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widening the use of DicomTransferSyntax enum
author Sebastien Jodogne <s.jodogne@gmail.com>
date Thu, 11 Feb 2021 09:33:48 +0100
parents ac69c9f76c71
children 8f9090b137f1
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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) 2017-2021 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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32
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33
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34 #include "PrecompiledHeadersServer.h"
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35 #include "DicomInstanceToStore.h"
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36
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37 #include "OrthancConfiguration.h"
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38
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39 #include "../../OrthancFramework/Sources/DicomParsing/FromDcmtkBridge.h"
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40 #include "../../OrthancFramework/Sources/DicomParsing/ParsedDicomFile.h"
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41 #include "../../OrthancFramework/Sources/Logging.h"
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42 #include "../../OrthancFramework/Sources/OrthancException.h"
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43
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44 #include <dcmtk/dcmdata/dcfilefo.h>
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45 #include <dcmtk/dcmdata/dcdeftag.h>
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46
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47
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48 namespace Orthanc
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49 {
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50 // Anonymous namespace to avoid clashes between compilation modules
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51 namespace
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52 {
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53 template <typename T>
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54 class SmartContainer
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55 {
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56 private:
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57 T* content_;
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58 bool toDelete_;
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59 bool isReadOnly_;
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60
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61 void Deallocate()
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62 {
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63 if (content_ && toDelete_)
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64 {
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65 delete content_;
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66 toDelete_ = false;
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67 content_ = NULL;
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68 }
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69 }
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70
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71 public:
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72 SmartContainer() : content_(NULL), toDelete_(false), isReadOnly_(true)
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73 {
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74 }
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75
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76 ~SmartContainer()
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77 {
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78 Deallocate();
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79 }
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80
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81 void Allocate()
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82 {
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83 Deallocate();
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84 content_ = new T;
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85 toDelete_ = true;
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86 isReadOnly_ = false;
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87 }
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88
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89 void TakeOwnership(T* content)
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90 {
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91 if (content == NULL)
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92 {
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93 throw OrthancException(ErrorCode_ParameterOutOfRange);
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94 }
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95
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96 Deallocate();
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97 content_ = content;
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98 toDelete_ = true;
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99 isReadOnly_ = false;
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100 }
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101
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102 void SetReference(T& content) // Read and write assign, without transfering ownership
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103 {
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104 Deallocate();
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105 content_ = &content;
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106 toDelete_ = false;
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107 isReadOnly_ = false;
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108 }
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109
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110 void SetConstReference(const T& content) // Read-only assign, without transfering ownership
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111 {
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112 Deallocate();
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113 content_ = &const_cast<T&>(content);
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114 toDelete_ = false;
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115 isReadOnly_ = true;
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116 }
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117
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118 bool HasContent() const
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119 {
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120 return content_ != NULL;
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121 }
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122
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123 T& GetContent()
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124 {
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125 if (content_ == NULL)
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126 {
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127 throw OrthancException(ErrorCode_BadSequenceOfCalls);
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128 }
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129
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130 if (isReadOnly_)
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131 {
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132 throw OrthancException(ErrorCode_ReadOnly);
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133 }
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134
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135 return *content_;
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136 }
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137
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138 const T& GetConstContent() const
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139 {
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140 if (content_ == NULL)
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141 {
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142 throw OrthancException(ErrorCode_BadSequenceOfCalls);
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143 }
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144
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145 return *content_;
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146 }
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147 };
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148 }
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149
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150
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151 class DicomInstanceToStore::PImpl
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152 {
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153 public:
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154 DicomInstanceOrigin origin_;
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155 bool hasBuffer_;
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156 std::unique_ptr<std::string> ownBuffer_;
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157 const void* bufferData_;
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158 size_t bufferSize_;
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159 SmartContainer<ParsedDicomFile> parsed_;
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160 MetadataMap metadata_;
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161
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162 PImpl() :
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163 hasBuffer_(false),
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164 bufferData_(NULL),
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165 bufferSize_(0)
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166 {
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167 }
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168
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169 private:
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170 void ComputeParsedDicomFileIfMissing()
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171 {
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172 if (!parsed_.HasContent())
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173 {
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174 if (!hasBuffer_)
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175 {
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176 throw OrthancException(ErrorCode_InternalError);
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177 }
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178
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179 if (ownBuffer_.get() != NULL)
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180 {
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181 parsed_.TakeOwnership(new ParsedDicomFile(*ownBuffer_));
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182 }
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183 else
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184 {
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185 parsed_.TakeOwnership(new ParsedDicomFile(bufferData_, bufferSize_));
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186 }
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187 }
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188 }
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189
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190 void ComputeDicomBufferIfMissing()
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191 {
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192 if (!hasBuffer_)
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193 {
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194 if (!parsed_.HasContent())
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195 {
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196 throw OrthancException(ErrorCode_NotImplemented);
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197 }
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198
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199 // Serialize the parsed DICOM file
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200 ownBuffer_.reset(new std::string);
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diff changeset
201 if (!FromDcmtkBridge::SaveToMemoryBuffer(*ownBuffer_,
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diff changeset
202 *parsed_.GetContent().GetDcmtkObject().getDataset()))
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203 {
2955
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204 throw OrthancException(ErrorCode_InternalError,
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205 "Unable to serialize a DICOM file to a memory buffer");
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diff changeset
206 }
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207
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diff changeset
208 hasBuffer_ = true;
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diff changeset
209 }
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diff changeset
210 }
a27b0e9a3fd9 refactoring DicomInstanceToStore
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diff changeset
211
a27b0e9a3fd9 refactoring DicomInstanceToStore
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diff changeset
212
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diff changeset
213 public:
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diff changeset
214 void SetBuffer(const void* data,
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diff changeset
215 size_t size)
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diff changeset
216 {
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diff changeset
217 ownBuffer_.reset(NULL);
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diff changeset
218 bufferData_ = data;
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diff changeset
219 bufferSize_ = size;
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diff changeset
220 hasBuffer_ = true;
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diff changeset
221 }
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parents: 3712
diff changeset
222
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diff changeset
223 const void* GetBufferData()
2894
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diff changeset
224 {
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diff changeset
225 ComputeDicomBufferIfMissing();
3841
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diff changeset
226
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diff changeset
227 if (!hasBuffer_)
2894
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diff changeset
228 {
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diff changeset
229 throw OrthancException(ErrorCode_InternalError);
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diff changeset
230 }
a27b0e9a3fd9 refactoring DicomInstanceToStore
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diff changeset
231
3841
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diff changeset
232 if (ownBuffer_.get() != NULL)
2894
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diff changeset
233 {
3841
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parents: 3712
diff changeset
234 if (ownBuffer_->empty())
be7df7fe3d80 avoid one memcpy of the DICOM buffer on "POST /instances"
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diff changeset
235 {
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diff changeset
236 return NULL;
be7df7fe3d80 avoid one memcpy of the DICOM buffer on "POST /instances"
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diff changeset
237 }
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diff changeset
238 else
be7df7fe3d80 avoid one memcpy of the DICOM buffer on "POST /instances"
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diff changeset
239 {
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diff changeset
240 return ownBuffer_->c_str();
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diff changeset
241 }
2894
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diff changeset
242 }
a27b0e9a3fd9 refactoring DicomInstanceToStore
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2640
diff changeset
243 else
a27b0e9a3fd9 refactoring DicomInstanceToStore
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diff changeset
244 {
3841
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diff changeset
245 return bufferData_;
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diff changeset
246 }
a27b0e9a3fd9 refactoring DicomInstanceToStore
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2640
diff changeset
247 }
a27b0e9a3fd9 refactoring DicomInstanceToStore
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2640
diff changeset
248
a27b0e9a3fd9 refactoring DicomInstanceToStore
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parents: 2640
diff changeset
249
a27b0e9a3fd9 refactoring DicomInstanceToStore
Sebastien Jodogne <s.jodogne@gmail.com>
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diff changeset
250 size_t GetBufferSize()
a27b0e9a3fd9 refactoring DicomInstanceToStore
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2640
diff changeset
251 {
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Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4504
diff changeset
252 ComputeDicomBufferIfMissing();
2894
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diff changeset
253
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diff changeset
254 if (!hasBuffer_)
2894
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diff changeset
255 {
a27b0e9a3fd9 refactoring DicomInstanceToStore
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diff changeset
256 throw OrthancException(ErrorCode_InternalError);
a27b0e9a3fd9 refactoring DicomInstanceToStore
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parents: 2640
diff changeset
257 }
a27b0e9a3fd9 refactoring DicomInstanceToStore
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diff changeset
258
3841
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Sebastien Jodogne <s.jodogne@gmail.com>
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diff changeset
259 if (ownBuffer_.get() != NULL)
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260 {
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261 return ownBuffer_->size();
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262 }
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263 else
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264 {
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265 return bufferSize_;
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266 }
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267 }
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268
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269
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270 bool LookupTransferSyntax(DicomTransferSyntax& result)
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271 {
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272 DicomMap header;
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273 if (DicomMap::ParseDicomMetaInformation(header, GetBufferData(), GetBufferSize()))
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274 {
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275 const DicomValue* value = header.TestAndGetValue(DICOM_TAG_TRANSFER_SYNTAX_UID);
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276 if (value != NULL &&
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277 !value->IsBinary() &&
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278 !value->IsNull())
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279 {
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280 return ::Orthanc::LookupTransferSyntax(result, Toolbox::StripSpaces(value->GetContent()));
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281 }
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282 }
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283 else
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284 {
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285 // This is a DICOM file without a proper meta-header. Fallback
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286 // to DCMTK, which will fully parse the dataset to retrieve
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287 // the transfer syntax. Added in Orthanc 1.8.2.
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288 return GetParsedDicomFile().LookupTransferSyntax(result);
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289 }
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290
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291 return false;
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292 }
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293
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294
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295 ParsedDicomFile& GetParsedDicomFile()
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296 {
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297 ComputeParsedDicomFileIfMissing();
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298
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299 if (parsed_.HasContent())
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300 {
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301 return parsed_.GetContent();
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302 }
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303 else
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304 {
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305 throw OrthancException(ErrorCode_InternalError);
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306 }
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307 }
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308 };
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309
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310
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311 DicomInstanceToStore::DicomInstanceToStore() :
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312 pimpl_(new PImpl)
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313 {
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314 }
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315
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316
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317 void DicomInstanceToStore::SetOrigin(const DicomInstanceOrigin& origin)
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318 {
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319 pimpl_->origin_ = origin;
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320 }
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321
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diff changeset
322
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diff changeset
323 const DicomInstanceOrigin& DicomInstanceToStore::GetOrigin() const
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diff changeset
324 {
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325 return pimpl_->origin_;
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diff changeset
326 }
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diff changeset
327
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diff changeset
328
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diff changeset
329 void DicomInstanceToStore::SetBuffer(const void* dicom,
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diff changeset
330 size_t size)
2894
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diff changeset
331 {
3841
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diff changeset
332 pimpl_->SetBuffer(dicom, size);
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333 }
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diff changeset
334
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diff changeset
335
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diff changeset
336 void DicomInstanceToStore::SetParsedDicomFile(ParsedDicomFile& parsed)
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diff changeset
337 {
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338 pimpl_->parsed_.SetReference(parsed);
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diff changeset
339 }
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340
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341
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diff changeset
342 const DicomInstanceToStore::MetadataMap& DicomInstanceToStore::GetMetadata() const
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diff changeset
343 {
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344 return pimpl_->metadata_;
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345 }
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346
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diff changeset
347
4506
ac69c9f76c71 refactoring ServerIndex::Store()
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diff changeset
348 void DicomInstanceToStore::ClearMetadata()
2894
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diff changeset
349 {
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diff changeset
350 pimpl_->metadata_.clear();
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diff changeset
351 }
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diff changeset
352
a27b0e9a3fd9 refactoring DicomInstanceToStore
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diff changeset
353
1004
a226e0959d8b DicomInstanceToStore
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diff changeset
354 void DicomInstanceToStore::AddMetadata(ResourceType level,
1003
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parents:
diff changeset
355 MetadataType metadata,
1d35281d967c DicomInstanceToStore
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diff changeset
356 const std::string& value)
1d35281d967c DicomInstanceToStore
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diff changeset
357 {
2894
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diff changeset
358 pimpl_->metadata_[std::make_pair(level, metadata)] = value;
1003
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parents:
diff changeset
359 }
1d35281d967c DicomInstanceToStore
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diff changeset
360
1d35281d967c DicomInstanceToStore
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parents:
diff changeset
361
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diff changeset
362 const void* DicomInstanceToStore::GetBufferData() const
1003
1d35281d967c DicomInstanceToStore
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parents:
diff changeset
363 {
3847
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diff changeset
364 return const_cast<PImpl&>(*pimpl_).GetBufferData();
1003
1d35281d967c DicomInstanceToStore
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parents:
diff changeset
365 }
1d35281d967c DicomInstanceToStore
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diff changeset
366
1d35281d967c DicomInstanceToStore
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parents:
diff changeset
367
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diff changeset
368 size_t DicomInstanceToStore::GetBufferSize() const
1003
1d35281d967c DicomInstanceToStore
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parents:
diff changeset
369 {
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diff changeset
370 return const_cast<PImpl&>(*pimpl_).GetBufferSize();
1004
a226e0959d8b DicomInstanceToStore
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diff changeset
371 }
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diff changeset
372
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diff changeset
373
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diff changeset
374 bool DicomInstanceToStore::LookupTransferSyntax(DicomTransferSyntax& result) const
2189
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parents: 2131
diff changeset
375 {
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376 return const_cast<PImpl&>(*pimpl_).LookupTransferSyntax(result);
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diff changeset
377 }
2898
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diff changeset
378
e5e3253a1164 DicomInstanceToStore::GetHasher()
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diff changeset
379
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diff changeset
380 bool DicomInstanceToStore::HasPixelData() const
281045a1e6db new "info" field in "ReceivedInstanceFilter()" callback
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diff changeset
381 {
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diff changeset
382 return const_cast<PImpl&>(*pimpl_).GetParsedDicomFile().HasTag(DICOM_TAG_PIXEL_DATA);
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diff changeset
383 }
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diff changeset
384
7610af1532c3 prototyping automated transcoding of incoming DICOM files
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diff changeset
385 ParsedDicomFile& DicomInstanceToStore::GetParsedDicomFile() const
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386 {
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387 return const_cast<PImpl&>(*pimpl_).GetParsedDicomFile();
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388 }
4507
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389
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390 void DicomInstanceToStore::GetSummary(DicomMap& summary) const
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391 {
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392 OrthancConfiguration::DefaultExtractDicomSummary(summary, GetParsedDicomFile());
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393 }
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394
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395 void DicomInstanceToStore::GetDicomAsJson(Json::Value& dicomAsJson) const
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396 {
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397 OrthancConfiguration::DefaultDicomDatasetToJson(dicomAsJson, GetParsedDicomFile());
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398 }
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399
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400 void DicomInstanceToStore::DatasetToJson(Json::Value& target,
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401 DicomToJsonFormat format,
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402 DicomToJsonFlags flags,
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403 unsigned int maxStringLength) const
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404 {
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405 return GetParsedDicomFile().DatasetToJson(target, format, flags, maxStringLength);
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406 }
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407
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408 unsigned int DicomInstanceToStore::GetFramesCount() const
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409 {
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410 return GetParsedDicomFile().GetFramesCount();
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411 }
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412
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413 ImageAccessor* DicomInstanceToStore::DecodeFrame(unsigned int frame) const
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414 {
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415 return GetParsedDicomFile().DecodeFrame(frame);
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416 }
1003
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417 }