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annotate OrthancServer/FromDcmtkBridge.cpp @ 977:2a9e08136860 plugins

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author Sebastien Jodogne <s.jodogne@gmail.com>
date Mon, 30 Jun 2014 16:09:41 +0200
parents 63973b76a51f
children 2f76b92addd4
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1 /**
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2 * Orthanc - A Lightweight, RESTful DICOM Store
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3 * Copyright (C) 2012-2014 Medical Physics Department, CHU of Liege,
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4 * Belgium
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5 *
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6 * This program is free software: you can redistribute it and/or
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7 * modify it under the terms of the GNU General Public License as
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8 * published by the Free Software Foundation, either version 3 of the
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9 * License, or (at your option) any later version.
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10 *
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11 * In addition, as a special exception, the copyright holders of this
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12 * program give permission to link the code of its release with the
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13 * OpenSSL project's "OpenSSL" library (or with modified versions of it
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14 * that use the same license as the "OpenSSL" library), and distribute
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15 * the linked executables. You must obey the GNU General Public License
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16 * in all respects for all of the code used other than "OpenSSL". If you
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17 * modify file(s) with this exception, you may extend this exception to
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18 * your version of the file(s), but you are not obligated to do so. If
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19 * you do not wish to do so, delete this exception statement from your
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20 * version. If you delete this exception statement from all source files
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21 * in the program, then also delete it here.
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22 *
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23 * This program is distributed in the hope that it will be useful, but
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24 * WITHOUT ANY WARRANTY; without even the implied warranty of
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25 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU
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26 * General Public License for more details.
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27 *
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28 * You should have received a copy of the GNU General Public License
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29 * along with this program. If not, see <http://www.gnu.org/licenses/>.
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30 **/
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31
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33
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34 #include "PrecompiledHeadersServer.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 "Internals/DicomImageDecoder.h"
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41
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42 #include "FromDcmtkBridge.h"
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43 #include "ToDcmtkBridge.h"
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44 #include "../Core/Toolbox.h"
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45 #include "../Core/OrthancException.h"
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46 #include "../Core/ImageFormats/PngWriter.h"
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47 #include "../Core/Uuid.h"
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48 #include "../Core/DicomFormat/DicomString.h"
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49 #include "../Core/DicomFormat/DicomNullValue.h"
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50 #include "../Core/DicomFormat/DicomIntegerPixelAccessor.h"
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52 #include <list>
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53 #include <limits>
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54
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55 #include <boost/lexical_cast.hpp>
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56
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57 #include <dcmtk/dcmdata/dcchrstr.h>
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58 #include <dcmtk/dcmdata/dcdicent.h>
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59 #include <dcmtk/dcmdata/dcdict.h>
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60 #include <dcmtk/dcmdata/dcfilefo.h>
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61 #include <dcmtk/dcmdata/dcistrmb.h>
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62 #include <dcmtk/dcmdata/dcuid.h>
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63 #include <dcmtk/dcmdata/dcmetinf.h>
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64 #include <dcmtk/dcmdata/dcdeftag.h>
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65
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66 #include <dcmtk/dcmdata/dcvrae.h>
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67 #include <dcmtk/dcmdata/dcvras.h>
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68 #include <dcmtk/dcmdata/dcvrcs.h>
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69 #include <dcmtk/dcmdata/dcvrda.h>
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70 #include <dcmtk/dcmdata/dcvrds.h>
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71 #include <dcmtk/dcmdata/dcvrdt.h>
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72 #include <dcmtk/dcmdata/dcvrfd.h>
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73 #include <dcmtk/dcmdata/dcvrfl.h>
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74 #include <dcmtk/dcmdata/dcvris.h>
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75 #include <dcmtk/dcmdata/dcvrlo.h>
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76 #include <dcmtk/dcmdata/dcvrlt.h>
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77 #include <dcmtk/dcmdata/dcvrpn.h>
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78 #include <dcmtk/dcmdata/dcvrsh.h>
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79 #include <dcmtk/dcmdata/dcvrsl.h>
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80 #include <dcmtk/dcmdata/dcvrss.h>
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81 #include <dcmtk/dcmdata/dcvrst.h>
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82 #include <dcmtk/dcmdata/dcvrtm.h>
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83 #include <dcmtk/dcmdata/dcvrui.h>
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84 #include <dcmtk/dcmdata/dcvrul.h>
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85 #include <dcmtk/dcmdata/dcvrus.h>
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86 #include <dcmtk/dcmdata/dcvrut.h>
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87 #include <dcmtk/dcmdata/dcpixel.h>
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88 #include <dcmtk/dcmdata/dcpixseq.h>
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89 #include <dcmtk/dcmdata/dcpxitem.h>
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92 #include <boost/math/special_functions/round.hpp>
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93 #include <glog/logging.h>
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94 #include <dcmtk/dcmdata/dcostrmb.h>
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96
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97 namespace Orthanc
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98 {
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99 static inline uint16_t GetCharValue(char c)
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100 {
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101 if (c >= '0' && c <= '9')
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102 return c - '0';
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103 else if (c >= 'a' && c <= 'f')
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104 return c - 'a' + 10;
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105 else if (c >= 'A' && c <= 'F')
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106 return c - 'A' + 10;
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107 else
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108 return 0;
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109 }
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110
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111 static inline uint16_t GetTagValue(const char* c)
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112 {
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113 return ((GetCharValue(c[0]) << 12) +
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114 (GetCharValue(c[1]) << 8) +
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115 (GetCharValue(c[2]) << 4) +
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116 GetCharValue(c[3]));
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117 }
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118
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119
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120 Encoding FromDcmtkBridge::DetectEncoding(DcmDataset& dataset)
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121 {
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122 // By default, assume UTF-8 encoding (as in dcm2xml.cc)
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123 Encoding encoding = Encoding_Utf8;
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124
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125 OFString tmp;
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126 if (dataset.findAndGetOFString(DCM_SpecificCharacterSet, tmp).good())
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127 {
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128 std::string characterSet = Toolbox::StripSpaces(std::string(tmp.c_str()));
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129
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130 // TODO Add more encodings
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131
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132 if (characterSet == "ISO_IR 6" ||
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133 characterSet == "ISO_IR 192")
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134 {
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135 encoding = Encoding_Utf8;
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136 }
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137 else if (characterSet == "ISO_IR 100")
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138 {
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139 encoding = Encoding_Latin1;
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140 }
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141 else if (!characterSet.empty())
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142 {
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143 LOG(WARNING) << "Value of Specific Character Set (0008,0005) is not supported: " << characterSet;
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144 // Fallback to ASCII (remove all special characters)
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145 encoding = Encoding_Ascii;
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146 }
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147 }
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148
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149 return encoding;
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150 }
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151
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152
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153 void FromDcmtkBridge::Convert(DicomMap& target, DcmDataset& dataset)
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154 {
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155 Encoding encoding = DetectEncoding(dataset);
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156
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157 target.Clear();
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158 for (unsigned long i = 0; i < dataset.card(); i++)
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159 {
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160 DcmElement* element = dataset.getElement(i);
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161 if (element && element->isLeaf())
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162 {
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163 target.SetValue(element->getTag().getGTag(),
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164 element->getTag().getETag(),
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165 ConvertLeafElement(*element, encoding));
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166 }
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167 }
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168 }
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169
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170
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171 DicomTag FromDcmtkBridge::GetTag(const DcmElement& element)
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172 {
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173 return DicomTag(element.getGTag(), element.getETag());
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174 }
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175
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176
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177 DicomValue* FromDcmtkBridge::ConvertLeafElement(DcmElement& element,
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178 Encoding encoding)
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179 {
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180 if (!element.isLeaf())
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181 {
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182 throw OrthancException("Only applicable to leaf elements");
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183 }
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184
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185 if (element.isaString())
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186 {
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187 char *c;
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188 if (element.getString(c).good() &&
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189 c != NULL)
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190 {
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191 std::string s(c);
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192 std::string utf8 = Toolbox::ConvertToUtf8(s, encoding);
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193 return new DicomString(utf8);
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194 }
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195 else
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196 {
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197 return new DicomNullValue;
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198 }
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199 }
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200
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201 try
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202 {
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203 // http://support.dcmtk.org/docs/dcvr_8h-source.html
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204 switch (element.getVR())
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205 {
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206
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207 /**
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208 * TODO.
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209 **/
306
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210
302
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211 case EVR_OB: // other byte
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212 case EVR_OF: // other float
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213 case EVR_OW: // other word
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214 case EVR_AT: // attribute tag
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215 case EVR_UN: // unknown value representation
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216 return new DicomNullValue();
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217
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218 /**
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219 * String types, should never happen at this point because of
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220 * "element.isaString()".
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221 **/
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222
306
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223 case EVR_DS: // decimal string
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224 case EVR_IS: // integer string
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225 case EVR_AS: // age string
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226 case EVR_DA: // date string
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227 case EVR_DT: // date time string
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228 case EVR_TM: // time string
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229 case EVR_AE: // application entity title
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230 case EVR_CS: // code string
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231 case EVR_SH: // short string
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232 case EVR_LO: // long string
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233 case EVR_ST: // short text
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234 case EVR_LT: // long text
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235 case EVR_UT: // unlimited text
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236 case EVR_PN: // person name
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237 case EVR_UI: // unique identifier
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238 return new DicomNullValue();
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239
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240
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241 /**
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242 * Numerical types
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243 **/
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244
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245 case EVR_SL: // signed long
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246 {
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247 Sint32 f;
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248 if (dynamic_cast<DcmSignedLong&>(element).getSint32(f).good())
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249 return new DicomString(boost::lexical_cast<std::string>(f));
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250 else
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251 return new DicomNullValue();
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252 }
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253
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254 case EVR_SS: // signed short
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255 {
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256 Sint16 f;
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257 if (dynamic_cast<DcmSignedShort&>(element).getSint16(f).good())
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258 return new DicomString(boost::lexical_cast<std::string>(f));
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259 else
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260 return new DicomNullValue();
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261 }
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262
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263 case EVR_UL: // unsigned long
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264 {
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265 Uint32 f;
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266 if (dynamic_cast<DcmUnsignedLong&>(element).getUint32(f).good())
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267 return new DicomString(boost::lexical_cast<std::string>(f));
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268 else
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269 return new DicomNullValue();
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270 }
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271
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272 case EVR_US: // unsigned short
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273 {
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274 Uint16 f;
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275 if (dynamic_cast<DcmUnsignedShort&>(element).getUint16(f).good())
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276 return new DicomString(boost::lexical_cast<std::string>(f));
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277 else
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278 return new DicomNullValue();
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279 }
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280
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281 case EVR_FL: // float single-precision
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282 {
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283 Float32 f;
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284 if (dynamic_cast<DcmFloatingPointSingle&>(element).getFloat32(f).good())
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285 return new DicomString(boost::lexical_cast<std::string>(f));
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286 else
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287 return new DicomNullValue();
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288 }
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289
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290 case EVR_FD: // float double-precision
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291 {
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292 Float64 f;
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293 if (dynamic_cast<DcmFloatingPointDouble&>(element).getFloat64(f).good())
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294 return new DicomString(boost::lexical_cast<std::string>(f));
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295 else
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296 return new DicomNullValue();
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297 }
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298
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299
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300 /**
302
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301 * Sequence types, should never occur at this point because of
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302 * "element.isLeaf()".
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303 **/
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304
302
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305 case EVR_SQ: // sequence of items
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306 return new DicomNullValue;
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307
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308
302
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309 /**
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310 * Internal to DCMTK.
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311 **/
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312
302
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313 case EVR_ox: // OB or OW depending on context
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314 case EVR_xs: // SS or US depending on context
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315 case EVR_lt: // US, SS or OW depending on context, used for LUT Data (thus the name)
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316 case EVR_na: // na="not applicable", for data which has no VR
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317 case EVR_up: // up="unsigned pointer", used internally for DICOMDIR suppor
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318 case EVR_item: // used internally for items
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319 case EVR_metainfo: // used internally for meta info datasets
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320 case EVR_dataset: // used internally for datasets
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321 case EVR_fileFormat: // used internally for DICOM files
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322 case EVR_dicomDir: // used internally for DICOMDIR objects
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323 case EVR_dirRecord: // used internally for DICOMDIR records
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324 case EVR_pixelSQ: // used internally for pixel sequences in a compressed image
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325 case EVR_pixelItem: // used internally for pixel items in a compressed image
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326 case EVR_UNKNOWN: // used internally for elements with unknown VR (encoded with 4-byte length field in explicit VR)
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327 case EVR_PixelData: // used internally for uncompressed pixeld data
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328 case EVR_OverlayData: // used internally for overlay data
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329 case EVR_UNKNOWN2B: // used internally for elements with unknown VR with 2-byte length field in explicit VR
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330 return new DicomNullValue;
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331
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332
302
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333 /**
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334 * Default case.
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335 **/
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336
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337 default:
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338 return new DicomNullValue;
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339 }
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340 }
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341 catch (boost::bad_lexical_cast)
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342 {
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343 return new DicomNullValue;
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344 }
306
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345 catch (std::bad_cast)
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346 {
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347 return new DicomNullValue;
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348 }
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349 }
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350
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351
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352 static void StoreElement(Json::Value& target,
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353 DcmElement& element,
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354 unsigned int maxStringLength,
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355 Encoding encoding);
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356
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357 static void StoreItem(Json::Value& target,
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358 DcmItem& item,
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359 unsigned int maxStringLength,
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360 Encoding encoding)
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361 {
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362 target = Json::Value(Json::objectValue);
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363
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364 for (unsigned long i = 0; i < item.card(); i++)
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365 {
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366 DcmElement* element = item.getElement(i);
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367 StoreElement(target, *element, maxStringLength, encoding);
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368 }
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369 }
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370
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371
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372 static void StoreElement(Json::Value& target,
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373 DcmElement& element,
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374 unsigned int maxStringLength,
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375 Encoding encoding)
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376 {
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377 assert(target.type() == Json::objectValue);
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378
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379 DicomTag tag(FromDcmtkBridge::GetTag(element));
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380 const std::string formattedTag = tag.Format();
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381
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382 #if 0
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383 const std::string tagName = FromDcmtkBridge::GetName(tag);
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384 #else
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385 // This version of the code gives access to the name of the private tags
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386 DcmTag tagbis(element.getTag());
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387 const std::string tagName(tagbis.getTagName());
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388 #endif
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389
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390 if (element.isLeaf())
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391 {
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392 Json::Value value(Json::objectValue);
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393 value["Name"] = tagName;
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394
306
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395 if (tagbis.getPrivateCreator() != NULL)
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396 {
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397 value["PrivateCreator"] = tagbis.getPrivateCreator();
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398 }
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399
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400 std::auto_ptr<DicomValue> v(FromDcmtkBridge::ConvertLeafElement(element, encoding));
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401 if (v->IsNull())
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402 {
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403 value["Type"] = "Null";
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404 value["Value"] = Json::nullValue;
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405 }
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406 else
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407 {
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408 std::string s = v->AsString();
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409 if (maxStringLength == 0 ||
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410 s.size() <= maxStringLength)
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411 {
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412 value["Type"] = "String";
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413 value["Value"] = s;
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414 }
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415 else
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416 {
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417 value["Type"] = "TooLong";
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418 value["Value"] = Json::nullValue;
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419 }
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420 }
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421
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422 target[formattedTag] = value;
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423 }
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424 else
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425 {
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426 Json::Value children(Json::arrayValue);
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427
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428 // "All subclasses of DcmElement except for DcmSequenceOfItems
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429 // are leaf nodes, while DcmSequenceOfItems, DcmItem, DcmDataset
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430 // etc. are not." The following cast is thus OK.
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431 DcmSequenceOfItems& sequence = dynamic_cast<DcmSequenceOfItems&>(element);
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432
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433 for (unsigned long i = 0; i < sequence.card(); i++)
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434 {
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435 DcmItem* child = sequence.getItem(i);
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436 Json::Value& v = children.append(Json::objectValue);
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437 StoreItem(v, *child, maxStringLength, encoding);
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438 }
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439
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440 target[formattedTag]["Name"] = tagName;
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441 target[formattedTag]["Type"] = "Sequence";
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parents: 2
diff changeset
442 target[formattedTag]["Value"] = children;
0
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
443 }
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
444 }
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
445
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
446
3959d33612cc initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
447 void FromDcmtkBridge::ToJson(Json::Value& root,
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
448 DcmDataset& dataset,
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
449 unsigned int maxStringLength)
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
450 {
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2fd5a163776d primitives for proper encoding handling
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parents: 949
diff changeset
451 StoreItem(root, dataset, maxStringLength, DetectEncoding(dataset));
0
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
452 }
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
453
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
454
3959d33612cc initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
455
3959d33612cc initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
456 void FromDcmtkBridge::ToJson(Json::Value& target,
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
457 const std::string& path,
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
458 unsigned int maxStringLength)
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
459 {
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
460 DcmFileFormat dicom;
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
461 if (!dicom.loadFile(path.c_str()).good())
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
462 {
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diff changeset
463 throw OrthancException(ErrorCode_BadFileFormat);
0
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
464 }
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
465 else
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
466 {
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
467 FromDcmtkBridge::ToJson(target, *dicom.getDataset(), maxStringLength);
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
468 }
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
469 }
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
470
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
471
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
472
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Sebastien Jodogne <s.jodogne@gmail.com>
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473 std::string FromDcmtkBridge::GetName(const DicomTag& t)
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474 {
106
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diff changeset
475 // Some patches for important tags because of different DICOM
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476 // dictionaries between DCMTK versions
291
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477 std::string n = t.GetMainTagsName();
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parents: 285
diff changeset
478 if (n.size() != 0)
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parents: 285
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479 {
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480 return n;
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481 }
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482 // End of patches
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483
305
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484 #if 0
0
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485 DcmTagKey tag(t.GetGroup(), t.GetElement());
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486 const DcmDataDictionary& dict = dcmDataDict.rdlock();
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487 const DcmDictEntry* entry = dict.findEntry(tag, NULL);
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488
306
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489 std::string s(DcmTag_ERROR_TagName);
0
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490 if (entry != NULL)
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parents:
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491 {
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parents:
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492 s = std::string(entry->getTagName());
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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493 }
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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494
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495 dcmDataDict.unlock();
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496 return s;
305
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diff changeset
497 #else
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diff changeset
498 DcmTag tag(t.GetGroup(), t.GetElement());
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diff changeset
499 const char* name = tag.getTagName();
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parents: 304
diff changeset
500 if (name == NULL)
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parents: 304
diff changeset
501 {
306
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parents: 305
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502 return DcmTag_ERROR_TagName;
305
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parents: 304
diff changeset
503 }
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parents: 304
diff changeset
504 else
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parents: 304
diff changeset
505 {
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diff changeset
506 return std::string(name);
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parents: 304
diff changeset
507 }
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parents: 304
diff changeset
508 #endif
0
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
509 }
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parents:
diff changeset
510
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parents:
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511
304
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parents: 303
diff changeset
512 DicomTag FromDcmtkBridge::ParseTag(const char* name)
0
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parents:
diff changeset
513 {
304
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parents: 303
diff changeset
514 if (strlen(name) == 9 &&
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parents: 303
diff changeset
515 isxdigit(name[0]) &&
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parents: 303
diff changeset
516 isxdigit(name[1]) &&
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diff changeset
517 isxdigit(name[2]) &&
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parents: 303
diff changeset
518 isxdigit(name[3]) &&
4eea080e6e7a refactoring
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parents: 303
diff changeset
519 name[4] == '-' &&
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parents: 303
diff changeset
520 isxdigit(name[5]) &&
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parents: 303
diff changeset
521 isxdigit(name[6]) &&
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parents: 303
diff changeset
522 isxdigit(name[7]) &&
4eea080e6e7a refactoring
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parents: 303
diff changeset
523 isxdigit(name[8]))
4eea080e6e7a refactoring
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parents: 303
diff changeset
524 {
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parents: 303
diff changeset
525 uint16_t group = GetTagValue(name);
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parents: 303
diff changeset
526 uint16_t element = GetTagValue(name + 5);
4eea080e6e7a refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 303
diff changeset
527 return DicomTag(group, element);
4eea080e6e7a refactoring
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parents: 303
diff changeset
528 }
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parents: 303
diff changeset
529
305
86bb79522f19 name of the private tags
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parents: 304
diff changeset
530 #if 0
0
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parents:
diff changeset
531 const DcmDataDictionary& dict = dcmDataDict.rdlock();
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
532 const DcmDictEntry* entry = dict.findEntry(name);
3959d33612cc initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
533
3959d33612cc initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
534 if (entry == NULL)
3959d33612cc initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
535 {
3959d33612cc initial commit
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parents:
diff changeset
536 dcmDataDict.unlock();
62
a70bb32802ae renaming Server
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parents: 57
diff changeset
537 throw OrthancException("Unknown DICOM tag");
0
3959d33612cc initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
538 }
3959d33612cc initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
539 else
3959d33612cc initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
540 {
3959d33612cc initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
541 DcmTagKey key = entry->getKey();
3959d33612cc initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
542 DicomTag tag(key.getGroup(), key.getElement());
3959d33612cc initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
543 dcmDataDict.unlock();
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
544 return tag;
3959d33612cc initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
545 }
305
86bb79522f19 name of the private tags
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parents: 304
diff changeset
546 #else
86bb79522f19 name of the private tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 304
diff changeset
547 DcmTag tag;
86bb79522f19 name of the private tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 304
diff changeset
548 if (DcmTag::findTagFromName(name, tag).good())
86bb79522f19 name of the private tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 304
diff changeset
549 {
86bb79522f19 name of the private tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 304
diff changeset
550 return DicomTag(tag.getGTag(), tag.getETag());
86bb79522f19 name of the private tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 304
diff changeset
551 }
86bb79522f19 name of the private tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 304
diff changeset
552 else
86bb79522f19 name of the private tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 304
diff changeset
553 {
86bb79522f19 name of the private tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 304
diff changeset
554 throw OrthancException("Unknown DICOM tag");
86bb79522f19 name of the private tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 304
diff changeset
555 }
86bb79522f19 name of the private tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 304
diff changeset
556 #endif
0
3959d33612cc initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
557 }
3959d33612cc initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
558
3959d33612cc initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
559
3959d33612cc initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
560 void FromDcmtkBridge::Print(FILE* fp, const DicomMap& m)
3959d33612cc initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
561 {
3959d33612cc initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
562 for (DicomMap::Map::const_iterator
656
08eca5d86aad fixes to cppcheck
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 465
diff changeset
563 it = m.map_.begin(); it != m.map_.end(); ++it)
0
3959d33612cc initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
564 {
3959d33612cc initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
565 DicomTag t = it->first;
3959d33612cc initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
566 std::string s = it->second->AsString();
319
760d0f32cb34 PMSCT_RLE1
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 318
diff changeset
567 fprintf(fp, "0x%04x 0x%04x (%s) [%s]\n", t.GetGroup(), t.GetElement(), GetName(t).c_str(), s.c_str());
0
3959d33612cc initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
568 }
3959d33612cc initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
569 }
3959d33612cc initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
570
3959d33612cc initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
571
3959d33612cc initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
572 void FromDcmtkBridge::ToJson(Json::Value& result,
3959d33612cc initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
573 const DicomMap& values)
3959d33612cc initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
574 {
3959d33612cc initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
575 if (result.type() != Json::objectValue)
3959d33612cc initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
576 {
62
a70bb32802ae renaming Server
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parents: 57
diff changeset
577 throw OrthancException(ErrorCode_BadParameterType);
0
3959d33612cc initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
578 }
3959d33612cc initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
579
3959d33612cc initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
580 result.clear();
3959d33612cc initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
581
3959d33612cc initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
582 for (DicomMap::Map::const_iterator
656
08eca5d86aad fixes to cppcheck
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 465
diff changeset
583 it = values.map_.begin(); it != values.map_.end(); ++it)
0
3959d33612cc initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
584 {
3959d33612cc initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
585 result[GetName(it->first)] = it->second->AsString();
3959d33612cc initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
586 }
3959d33612cc initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
587 }
176
81f11fb357f2 uid generation
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parents: 136
diff changeset
588
81f11fb357f2 uid generation
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 136
diff changeset
589
788
7ebe4bf87196 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 784
diff changeset
590 std::string FromDcmtkBridge::GenerateUniqueIdentifier(ResourceType level)
176
81f11fb357f2 uid generation
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 136
diff changeset
591 {
81f11fb357f2 uid generation
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 136
diff changeset
592 char uid[100];
81f11fb357f2 uid generation
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 136
diff changeset
593
81f11fb357f2 uid generation
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 136
diff changeset
594 switch (level)
81f11fb357f2 uid generation
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 136
diff changeset
595 {
788
7ebe4bf87196 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 784
diff changeset
596 case ResourceType_Patient:
311
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597 // The "PatientID" field is of type LO (Long String), 64
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598 // Bytes Maximum. An UUID is of length 36, thus it can be used
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599 // as a random PatientID.
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600 return Toolbox::GenerateUuid();
306
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601
788
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602 case ResourceType_Instance:
302
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603 return dcmGenerateUniqueIdentifier(uid, SITE_INSTANCE_UID_ROOT);
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604
788
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605 case ResourceType_Series:
302
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606 return dcmGenerateUniqueIdentifier(uid, SITE_SERIES_UID_ROOT);
176
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607
788
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608 case ResourceType_Study:
302
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609 return dcmGenerateUniqueIdentifier(uid, SITE_STUDY_UID_ROOT);
176
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610
302
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611 default:
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612 throw OrthancException(ErrorCode_ParameterOutOfRange);
176
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613 }
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614 }
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615
291
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616 bool FromDcmtkBridge::SaveToMemoryBuffer(std::string& buffer,
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617 DcmDataset* dataSet)
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618 {
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619 // Determine the transfer syntax which shall be used to write the
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620 // information to the file. We always switch to the Little Endian
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621 // syntax, with explicit length.
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622
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623 // http://support.dcmtk.org/docs/dcxfer_8h-source.html
661
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parents: 656
diff changeset
624
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parents: 656
diff changeset
625
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626 /**
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627 * Note that up to Orthanc 0.7.1 (inclusive), the
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628 * "EXS_LittleEndianExplicit" was always used to save the DICOM
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629 * dataset into memory. We now keep the original transfer syntax
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parents: 656
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630 * (if available).
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diff changeset
631 **/
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diff changeset
632 E_TransferSyntax xfer = dataSet->getOriginalXfer();
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parents: 656
diff changeset
633 if (xfer == EXS_Unknown)
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634 {
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diff changeset
635 // No information about the original transfer syntax: This is
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parents: 656
diff changeset
636 // most probably a DICOM dataset that was read from memory.
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637 xfer = EXS_LittleEndianExplicit;
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638 }
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diff changeset
639
291
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640 E_EncodingType encodingType = /*opt_sequenceType*/ EET_ExplicitLength;
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641
661
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642 // Create the meta-header information
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diff changeset
643 DcmFileFormat ff(dataSet);
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644 ff.validateMetaInfo(xfer);
291
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645
661
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parents: 656
diff changeset
646 // Create a memory buffer with the proper size
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647 uint32_t s = ff.calcElementLength(xfer, encodingType);
291
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648 buffer.resize(s);
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649 DcmOutputBufferStream ob(&buffer[0], s);
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650
661
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parents: 656
diff changeset
651 // Fill the memory buffer with the meta-header and the dataset
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parents: 656
diff changeset
652 ff.transferInit();
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parents: 656
diff changeset
653 OFCondition c = ff.write(ob, xfer, encodingType, NULL,
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diff changeset
654 /*opt_groupLength*/ EGL_recalcGL,
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diff changeset
655 /*opt_paddingType*/ EPD_withoutPadding);
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diff changeset
656 ff.transferEnd();
291
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diff changeset
657
661
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diff changeset
658 // Handle errors
291
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659 if (c.good())
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660 {
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661 return true;
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662 }
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663 else
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diff changeset
664 {
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665 buffer.clear();
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666 return false;
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667 }
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668 }
0
3959d33612cc initial commit
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diff changeset
669 }