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annotate OrthancFramework/Sources/DicomParsing/DcmtkTranscoder.cpp @ 4714:8ffe2fdb541f

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added argument "Metadata" to "/tools/bulk-content"
author Sebastien Jodogne <s.jodogne@gmail.com>
date Wed, 23 Jun 2021 14:57:49 +0200
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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 Lesser General Public License
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9 * as published by the Free Software Foundation, either version 3 of
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10 * the License, or (at your option) any later version.
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11 *
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12 * This program is distributed in the hope that it will be useful, but
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13 * WITHOUT ANY WARRANTY; without even the implied warranty of
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14 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU
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15 * Lesser General Public License for more details.
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16 *
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17 * You should have received a copy of the GNU Lesser General Public
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18 * License along with this program. If not, see
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19 * <http://www.gnu.org/licenses/>.
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20 **/
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21
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22
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23 #include "../PrecompiledHeaders.h"
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24 #include "DcmtkTranscoder.h"
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25
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26
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27 #if !defined(ORTHANC_ENABLE_DCMTK_JPEG)
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28 # error Macro ORTHANC_ENABLE_DCMTK_JPEG must be defined
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29 #endif
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30
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31 #if !defined(ORTHANC_ENABLE_DCMTK_JPEG_LOSSLESS)
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32 # error Macro ORTHANC_ENABLE_DCMTK_JPEG_LOSSLESS must be defined
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33 #endif
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34
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35
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36 #include "FromDcmtkBridge.h"
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37 #include "../Logging.h"
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38 #include "../OrthancException.h"
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39
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40 #include <dcmtk/dcmdata/dcdeftag.h>
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41 #include <dcmtk/dcmjpeg/djrploss.h> // for DJ_RPLossy
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42 #include <dcmtk/dcmjpeg/djrplol.h> // for DJ_RPLossless
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43 #include <dcmtk/dcmjpls/djrparam.h> // for DJLSRepresentationParameter
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44
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45 #include <boost/lexical_cast.hpp>
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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 DcmtkTranscoder::DcmtkTranscoder() :
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51 lossyQuality_(90)
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52 {
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53 }
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54
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55
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56 static bool GetBitsStored(uint16_t& bitsStored,
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57 DcmDataset& dataset)
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58 {
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59 return dataset.findAndGetUint16(DCM_BitsStored, bitsStored).good();
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60 }
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61
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62
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63 void DcmtkTranscoder::SetLossyQuality(unsigned int quality)
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64 {
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65 if (quality == 0 ||
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66 quality > 100)
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67 {
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68 throw OrthancException(
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69 ErrorCode_ParameterOutOfRange,
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70 "The quality for lossy transcoding must be an integer between 1 and 100, received: " +
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71 boost::lexical_cast<std::string>(quality));
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72 }
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73 else
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74 {
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75 LOG(INFO) << "Quality for lossy transcoding using DCMTK is set to: " << quality;
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76 lossyQuality_ = quality;
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77 }
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78 }
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79
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80 unsigned int DcmtkTranscoder::GetLossyQuality() const
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81 {
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82 return lossyQuality_;
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83 }
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84
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85
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86 bool DcmtkTranscoder::InplaceTranscode(DicomTransferSyntax& selectedSyntax /* out */,
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87 DcmFileFormat& dicom,
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88 const std::set<DicomTransferSyntax>& allowedSyntaxes,
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89 bool allowNewSopInstanceUid)
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90 {
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91 if (dicom.getDataset() == NULL)
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92 {
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93 throw OrthancException(ErrorCode_InternalError);
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94 }
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95
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96 DicomTransferSyntax syntax;
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97 if (!FromDcmtkBridge::LookupOrthancTransferSyntax(syntax, dicom))
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98 {
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99 throw OrthancException(ErrorCode_BadFileFormat,
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100 "Cannot determine the transfer syntax");
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101 }
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102
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103 uint16_t bitsStored;
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104 bool hasBitsStored = GetBitsStored(bitsStored, *dicom.getDataset());
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105
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106 if (allowedSyntaxes.find(syntax) != allowedSyntaxes.end())
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107 {
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108 // No transcoding is needed
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109 return true;
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110 }
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111
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112 if (allowedSyntaxes.find(DicomTransferSyntax_LittleEndianImplicit) != allowedSyntaxes.end() &&
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113 FromDcmtkBridge::Transcode(dicom, DicomTransferSyntax_LittleEndianImplicit, NULL))
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114 {
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115 selectedSyntax = DicomTransferSyntax_LittleEndianImplicit;
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116 return true;
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117 }
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118
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119 if (allowedSyntaxes.find(DicomTransferSyntax_LittleEndianExplicit) != allowedSyntaxes.end() &&
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120 FromDcmtkBridge::Transcode(dicom, DicomTransferSyntax_LittleEndianExplicit, NULL))
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121 {
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122 selectedSyntax = DicomTransferSyntax_LittleEndianExplicit;
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123 return true;
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124 }
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125
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126 if (allowedSyntaxes.find(DicomTransferSyntax_BigEndianExplicit) != allowedSyntaxes.end() &&
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127 FromDcmtkBridge::Transcode(dicom, DicomTransferSyntax_BigEndianExplicit, NULL))
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128 {
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129 selectedSyntax = DicomTransferSyntax_BigEndianExplicit;
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130 return true;
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131 }
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132
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133 if (allowedSyntaxes.find(DicomTransferSyntax_DeflatedLittleEndianExplicit) != allowedSyntaxes.end() &&
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134 FromDcmtkBridge::Transcode(dicom, DicomTransferSyntax_DeflatedLittleEndianExplicit, NULL))
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135 {
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136 selectedSyntax = DicomTransferSyntax_DeflatedLittleEndianExplicit;
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137 return true;
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138 }
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139
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140 #if ORTHANC_ENABLE_DCMTK_JPEG == 1
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141 if (allowedSyntaxes.find(DicomTransferSyntax_JPEGProcess1) != allowedSyntaxes.end() &&
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142 allowNewSopInstanceUid &&
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143 (!hasBitsStored || bitsStored == 8))
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144 {
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145 // Check out "dcmjpeg/apps/dcmcjpeg.cc"
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146 DJ_RPLossy parameters(lossyQuality_);
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147
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148 if (FromDcmtkBridge::Transcode(dicom, DicomTransferSyntax_JPEGProcess1, &parameters))
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149 {
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150 selectedSyntax = DicomTransferSyntax_JPEGProcess1;
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151 return true;
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152 }
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153 }
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154 #endif
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155
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156 #if ORTHANC_ENABLE_DCMTK_JPEG == 1
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157 if (allowedSyntaxes.find(DicomTransferSyntax_JPEGProcess2_4) != allowedSyntaxes.end() &&
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158 allowNewSopInstanceUid &&
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159 (!hasBitsStored || bitsStored <= 12))
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160 {
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161 // Check out "dcmjpeg/apps/dcmcjpeg.cc"
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162 DJ_RPLossy parameters(lossyQuality_);
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163 if (FromDcmtkBridge::Transcode(dicom, DicomTransferSyntax_JPEGProcess2_4, &parameters))
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164 {
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165 selectedSyntax = DicomTransferSyntax_JPEGProcess2_4;
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166 return true;
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167 }
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168 }
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169 #endif
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170
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171 #if ORTHANC_ENABLE_DCMTK_JPEG == 1
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172 if (allowedSyntaxes.find(DicomTransferSyntax_JPEGProcess14) != allowedSyntaxes.end())
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173 {
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174 // Check out "dcmjpeg/apps/dcmcjpeg.cc"
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175 DJ_RPLossless parameters(6 /* opt_selection_value */,
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176 0 /* opt_point_transform */);
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177 if (FromDcmtkBridge::Transcode(dicom, DicomTransferSyntax_JPEGProcess14, &parameters))
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178 {
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179 selectedSyntax = DicomTransferSyntax_JPEGProcess14;
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180 return true;
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181 }
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182 }
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183 #endif
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184
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185 #if ORTHANC_ENABLE_DCMTK_JPEG == 1
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186 if (allowedSyntaxes.find(DicomTransferSyntax_JPEGProcess14SV1) != allowedSyntaxes.end())
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187 {
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188 // Check out "dcmjpeg/apps/dcmcjpeg.cc"
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189 DJ_RPLossless parameters(6 /* opt_selection_value */,
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190 0 /* opt_point_transform */);
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191 if (FromDcmtkBridge::Transcode(dicom, DicomTransferSyntax_JPEGProcess14SV1, &parameters))
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192 {
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193 selectedSyntax = DicomTransferSyntax_JPEGProcess14SV1;
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194 return true;
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195 }
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196 }
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197 #endif
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198
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199 #if ORTHANC_ENABLE_DCMTK_JPEG_LOSSLESS == 1
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200 if (allowedSyntaxes.find(DicomTransferSyntax_JPEGLSLossless) != allowedSyntaxes.end())
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201 {
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202 // Check out "dcmjpls/apps/dcmcjpls.cc"
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203 DJLSRepresentationParameter parameters(2 /* opt_nearlossless_deviation */,
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204 OFTrue /* opt_useLosslessProcess */);
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205
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206 /**
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207 * WARNING: This call results in a segmentation fault if using
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208 * the DCMTK package 3.6.2 from Ubuntu 18.04.
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209 **/
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210 if (FromDcmtkBridge::Transcode(dicom, DicomTransferSyntax_JPEGLSLossless, &parameters))
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211 {
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212 selectedSyntax = DicomTransferSyntax_JPEGLSLossless;
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213 return true;
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214 }
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215 }
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216 #endif
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217
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218 #if ORTHANC_ENABLE_DCMTK_JPEG_LOSSLESS == 1
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219 if (allowNewSopInstanceUid &&
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220 allowedSyntaxes.find(DicomTransferSyntax_JPEGLSLossy) != allowedSyntaxes.end())
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221 {
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222 // Check out "dcmjpls/apps/dcmcjpls.cc"
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223 DJLSRepresentationParameter parameters(2 /* opt_nearlossless_deviation */,
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224 OFFalse /* opt_useLosslessProcess */);
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225
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226 /**
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227 * WARNING: This call results in a segmentation fault if using
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228 * the DCMTK package 3.6.2 from Ubuntu 18.04.
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229 **/
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230 if (FromDcmtkBridge::Transcode(dicom, DicomTransferSyntax_JPEGLSLossy, &parameters))
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231 {
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232 selectedSyntax = DicomTransferSyntax_JPEGLSLossy;
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233 return true;
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234 }
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235 }
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236 #endif
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237
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238 return false;
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239 }
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240
3904
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241 bool DcmtkTranscoder::IsSupported(DicomTransferSyntax syntax)
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242 {
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243 if (syntax == DicomTransferSyntax_LittleEndianImplicit ||
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244 syntax == DicomTransferSyntax_LittleEndianExplicit ||
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245 syntax == DicomTransferSyntax_BigEndianExplicit ||
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246 syntax == DicomTransferSyntax_DeflatedLittleEndianExplicit)
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247 {
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248 return true;
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249 }
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250
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251 #if ORTHANC_ENABLE_DCMTK_JPEG == 1
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252 if (syntax == DicomTransferSyntax_JPEGProcess1 ||
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253 syntax == DicomTransferSyntax_JPEGProcess2_4 ||
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254 syntax == DicomTransferSyntax_JPEGProcess14 ||
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255 syntax == DicomTransferSyntax_JPEGProcess14SV1)
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diff changeset
256 {
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257 return true;
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diff changeset
258 }
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diff changeset
259 #endif
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260
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diff changeset
261 #if ORTHANC_ENABLE_DCMTK_JPEG_LOSSLESS == 1
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diff changeset
262 if (syntax == DicomTransferSyntax_JPEGLSLossless ||
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parents: 3902
diff changeset
263 syntax == DicomTransferSyntax_JPEGLSLossy)
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parents: 3902
diff changeset
264 {
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265 return true;
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diff changeset
266 }
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diff changeset
267 #endif
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diff changeset
268
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269 return false;
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diff changeset
270 }
3906
f0dd5ded8927 refactoring using IDicomTranscoder::TranscodedDicom
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diff changeset
271
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diff changeset
272
3944
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diff changeset
273 bool DcmtkTranscoder::Transcode(DicomImage& target,
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diff changeset
274 DicomImage& source /* in, "GetParsed()" possibly modified */,
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diff changeset
275 const std::set<DicomTransferSyntax>& allowedSyntaxes,
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276 bool allowNewSopInstanceUid)
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277 {
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278 target.Clear();
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279
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280 DicomTransferSyntax sourceSyntax;
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281 if (!FromDcmtkBridge::LookupOrthancTransferSyntax(sourceSyntax, source.GetParsed()))
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282 {
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283 LOG(ERROR) << "Unsupport transfer syntax for transcoding";
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284 return false;
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285 }
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286
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287 {
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288 std::string s;
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289 for (std::set<DicomTransferSyntax>::const_iterator
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290 it = allowedSyntaxes.begin(); it != allowedSyntaxes.end(); ++it)
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291 {
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292 if (!s.empty())
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293 {
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294 s += ", ";
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295 }
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296
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297 s += GetTransferSyntaxUid(*it);
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298 }
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299
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300 if (s.empty())
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301 {
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302 s = "<none>";
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303 }
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304
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305 LOG(INFO) << "DCMTK transcoding from " << GetTransferSyntaxUid(sourceSyntax)
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306 << " to one of: " << s;
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307 }
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308
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309 #if !defined(NDEBUG)
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310 const std::string sourceSopInstanceUid = GetSopInstanceUid(source.GetParsed());
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311 #endif
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312
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313 DicomTransferSyntax targetSyntax;
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314 if (allowedSyntaxes.find(sourceSyntax) != allowedSyntaxes.end())
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315 {
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316 // No transcoding is needed
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317 target.AcquireParsed(source);
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318 target.AcquireBuffer(source);
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319 return true;
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320 }
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321 else if (InplaceTranscode(targetSyntax, source.GetParsed(),
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322 allowedSyntaxes, allowNewSopInstanceUid))
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323 {
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324 // Sanity check
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325 DicomTransferSyntax targetSyntax2;
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326 if (FromDcmtkBridge::LookupOrthancTransferSyntax(targetSyntax2, source.GetParsed()) &&
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327 targetSyntax == targetSyntax2 &&
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328 allowedSyntaxes.find(targetSyntax2) != allowedSyntaxes.end())
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329 {
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330 target.AcquireParsed(source);
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331 source.Clear();
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332
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333 #if !defined(NDEBUG)
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334 // Only run the sanity check in debug mode
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335 CheckTranscoding(target, sourceSyntax, sourceSopInstanceUid,
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336 allowedSyntaxes, allowNewSopInstanceUid);
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337 #endif
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338
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339 return true;
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340 }
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341 else
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342 {
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343 throw OrthancException(ErrorCode_InternalError);
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344 }
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345 }
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346 else
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347 {
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348 // Cannot transcode
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349 return false;
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350 }
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351 }
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352 }