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815
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1 /**
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2 * Stone of Orthanc
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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) 2017-2019 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 Affero 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 * Affero 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 Affero General Public License
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18 * along with this program. If not, see <http://www.gnu.org/licenses/>.
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19 **/
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20
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21
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22 #include "OrthancMultiframeVolumeLoader.h"
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23
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816
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24 #include <Core/Endianness.h>
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815
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25 #include <Core/Toolbox.h>
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26
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27 namespace OrthancStone
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28 {
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29 class OrthancMultiframeVolumeLoader::LoadRTDoseGeometry : public LoaderStateMachine::State
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30 {
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31 private:
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32 std::auto_ptr<Orthanc::DicomMap> dicom_;
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33
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34 public:
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35 LoadRTDoseGeometry(OrthancMultiframeVolumeLoader& that,
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36 Orthanc::DicomMap* dicom) :
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37 State(that),
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38 dicom_(dicom)
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39 {
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40 if (dicom == NULL)
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41 {
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42 throw Orthanc::OrthancException(Orthanc::ErrorCode_NullPointer);
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43 }
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44
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45 }
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46
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47 virtual void Handle(const OrthancRestApiCommand::SuccessMessage& message)
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48 {
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49 // Complete the DICOM tags with just-received "Grid Frame Offset Vector"
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50 std::string s = Orthanc::Toolbox::StripSpaces(message.GetAnswer());
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51 dicom_->SetValue(Orthanc::DICOM_TAG_GRID_FRAME_OFFSET_VECTOR, s, false);
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52
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53 GetLoader<OrthancMultiframeVolumeLoader>().SetGeometry(*dicom_);
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54 }
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55 };
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56
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57
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58 static std::string GetSopClassUid(const Orthanc::DicomMap& dicom)
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59 {
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60 std::string s;
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61 if (!dicom.CopyToString(s, Orthanc::DICOM_TAG_SOP_CLASS_UID, false))
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62 {
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63 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadFileFormat,
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64 "DICOM file without SOP class UID");
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65 }
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66 else
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67 {
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68 return s;
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69 }
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70 }
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71
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72
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73 class OrthancMultiframeVolumeLoader::LoadGeometry : public State
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74 {
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75 public:
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76 LoadGeometry(OrthancMultiframeVolumeLoader& that) :
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77 State(that)
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78 {
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79 }
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80
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81 virtual void Handle(const OrthancRestApiCommand::SuccessMessage& message)
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82 {
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83 OrthancMultiframeVolumeLoader& loader = GetLoader<OrthancMultiframeVolumeLoader>();
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84
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85 Json::Value body;
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86 message.ParseJsonBody(body);
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87
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88 if (body.type() != Json::objectValue)
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89 {
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90 throw Orthanc::OrthancException(Orthanc::ErrorCode_NetworkProtocol);
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91 }
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92
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93 std::auto_ptr<Orthanc::DicomMap> dicom(new Orthanc::DicomMap);
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94 dicom->FromDicomAsJson(body);
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95
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96 if (StringToSopClassUid(GetSopClassUid(*dicom)) == SopClassUid_RTDose)
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97 {
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98 // Download the "Grid Frame Offset Vector" DICOM tag, that is
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99 // mandatory for RT-DOSE, but is too long to be returned by default
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100
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101 std::auto_ptr<OrthancRestApiCommand> command(new OrthancRestApiCommand);
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102 command->SetUri("/instances/" + loader.GetInstanceId() + "/content/" +
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103 Orthanc::DICOM_TAG_GRID_FRAME_OFFSET_VECTOR.Format());
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104 command->SetPayload(new LoadRTDoseGeometry(loader, dicom.release()));
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105
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106 Schedule(command.release());
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107 }
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108 else
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109 {
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110 loader.SetGeometry(*dicom);
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111 }
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112 }
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113 };
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114
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115
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116
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117 class OrthancMultiframeVolumeLoader::LoadTransferSyntax : public State
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118 {
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119 public:
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120 LoadTransferSyntax(OrthancMultiframeVolumeLoader& that) :
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121 State(that)
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122 {
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123 }
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124
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125 virtual void Handle(const OrthancRestApiCommand::SuccessMessage& message)
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126 {
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127 GetLoader<OrthancMultiframeVolumeLoader>().SetTransferSyntax(message.GetAnswer());
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128 }
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129 };
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130
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131
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132 class OrthancMultiframeVolumeLoader::LoadUncompressedPixelData : public State
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133 {
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134 public:
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135 LoadUncompressedPixelData(OrthancMultiframeVolumeLoader& that) :
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136 State(that)
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137 {
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138 }
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139
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140 virtual void Handle(const OrthancRestApiCommand::SuccessMessage& message)
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141 {
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142 GetLoader<OrthancMultiframeVolumeLoader>().SetUncompressedPixelData(message.GetAnswer());
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143 }
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144 };
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145
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146
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147 const std::string& OrthancMultiframeVolumeLoader::GetInstanceId() const
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148 {
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149 if (IsActive())
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150 {
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151 return instanceId_;
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152 }
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153 else
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154 {
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155 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadSequenceOfCalls);
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156 }
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157 }
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158
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159
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160 void OrthancMultiframeVolumeLoader::ScheduleFrameDownloads()
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161 {
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162 if (transferSyntaxUid_.empty() ||
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163 !volume_->HasGeometry())
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164 {
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165 return;
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166 }
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167 /*
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168 1.2.840.10008.1.2 Implicit VR Endian: Default Transfer Syntax for DICOM
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169 1.2.840.10008.1.2.1 Explicit VR Little Endian
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170 1.2.840.10008.1.2.2 Explicit VR Big Endian
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171
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172 See https://www.dicomlibrary.com/dicom/transfer-syntax/
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173 */
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174 if (transferSyntaxUid_ == "1.2.840.10008.1.2" ||
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175 transferSyntaxUid_ == "1.2.840.10008.1.2.1" ||
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176 transferSyntaxUid_ == "1.2.840.10008.1.2.2")
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177 {
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178 std::auto_ptr<OrthancRestApiCommand> command(new OrthancRestApiCommand);
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179 command->SetHttpHeader("Accept-Encoding", "gzip");
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180 command->SetUri("/instances/" + instanceId_ + "/content/" +
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181 Orthanc::DICOM_TAG_PIXEL_DATA.Format() + "/0");
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182 command->SetPayload(new LoadUncompressedPixelData(*this));
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183 Schedule(command.release());
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184 }
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185 else
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186 {
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187 throw Orthanc::OrthancException(
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188 Orthanc::ErrorCode_NotImplemented,
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189 "No support for multiframe instances with transfer syntax: " + transferSyntaxUid_);
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190 }
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191 }
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192
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193
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194 void OrthancMultiframeVolumeLoader::SetTransferSyntax(const std::string& transferSyntax)
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195 {
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196 transferSyntaxUid_ = Orthanc::Toolbox::StripSpaces(transferSyntax);
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197 ScheduleFrameDownloads();
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198 }
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199
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200
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201 void OrthancMultiframeVolumeLoader::SetGeometry(const Orthanc::DicomMap& dicom)
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202 {
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203 DicomInstanceParameters parameters(dicom);
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204 volume_->SetDicomParameters(parameters);
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205
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206 Orthanc::PixelFormat format;
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207 if (!parameters.GetImageInformation().ExtractPixelFormat(format, true))
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208 {
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209 throw Orthanc::OrthancException(Orthanc::ErrorCode_NotImplemented);
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210 }
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211
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212 double spacingZ;
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213 switch (parameters.GetSopClassUid())
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214 {
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215 case SopClassUid_RTDose:
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216 spacingZ = parameters.GetThickness();
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217 break;
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218
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219 default:
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220 throw Orthanc::OrthancException(
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221 Orthanc::ErrorCode_NotImplemented,
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222 "No support for multiframe instances with SOP class UID: " + GetSopClassUid(dicom));
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223 }
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224
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225 const unsigned int width = parameters.GetImageInformation().GetWidth();
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226 const unsigned int height = parameters.GetImageInformation().GetHeight();
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227 const unsigned int depth = parameters.GetImageInformation().GetNumberOfFrames();
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228
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229 {
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230 VolumeImageGeometry geometry;
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231 geometry.SetSize(width, height, depth);
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232 geometry.SetAxialGeometry(parameters.GetGeometry());
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233 geometry.SetVoxelDimensions(parameters.GetPixelSpacingX(),
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234 parameters.GetPixelSpacingY(), spacingZ);
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235 volume_->Initialize(geometry, format);
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236 }
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237
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238 volume_->GetPixelData().Clear();
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239
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240 ScheduleFrameDownloads();
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241
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242 BroadcastMessage(DicomVolumeImage::GeometryReadyMessage(*volume_));
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243 }
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244
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245
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246 ORTHANC_FORCE_INLINE
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247 static void CopyPixel(uint32_t& target,
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248 const void* source)
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249 {
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250 // TODO - check alignement?
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251 target = le32toh(*reinterpret_cast<const uint32_t*>(source));
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252 }
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253
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254
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255 template <typename T>
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256 void OrthancMultiframeVolumeLoader::CopyPixelData(const std::string& pixelData)
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257 {
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258 ImageBuffer3D& target = volume_->GetPixelData();
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259
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260 const unsigned int bpp = target.GetBytesPerPixel();
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261 const unsigned int width = target.GetWidth();
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262 const unsigned int height = target.GetHeight();
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263 const unsigned int depth = target.GetDepth();
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264
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265 if (pixelData.size() != bpp * width * height * depth)
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266 {
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267 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadFileFormat,
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268 "The pixel data has not the proper size");
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269 }
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270
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271 if (pixelData.empty())
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272 {
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273 return;
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274 }
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275
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276 const uint8_t* source = reinterpret_cast<const uint8_t*>(pixelData.c_str());
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277
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278 for (unsigned int z = 0; z < depth; z++)
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279 {
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280 ImageBuffer3D::SliceWriter writer(target, VolumeProjection_Axial, z);
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281
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282 assert (writer.GetAccessor().GetWidth() == width &&
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283 writer.GetAccessor().GetHeight() == height);
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284
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285 for (unsigned int y = 0; y < height; y++)
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286 {
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287 assert(sizeof(T) == Orthanc::GetBytesPerPixel(target.GetFormat()));
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288
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289 T* target = reinterpret_cast<T*>(writer.GetAccessor().GetRow(y));
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290
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291 for (unsigned int x = 0; x < width; x++)
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292 {
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293 CopyPixel(*target, source);
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294
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295 target ++;
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296 source += bpp;
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297 }
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298 }
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299 }
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300 }
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301
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302
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303 void OrthancMultiframeVolumeLoader::SetUncompressedPixelData(const std::string& pixelData)
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304 {
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305 switch (volume_->GetPixelData().GetFormat())
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306 {
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307 case Orthanc::PixelFormat_Grayscale32:
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308 CopyPixelData<uint32_t>(pixelData);
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309 break;
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310
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311 default:
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312 throw Orthanc::OrthancException(Orthanc::ErrorCode_NotImplemented);
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313 }
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314
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315 volume_->IncrementRevision();
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316
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317 BroadcastMessage(DicomVolumeImage::ContentUpdatedMessage(*volume_));
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318 }
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319
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320
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321 OrthancMultiframeVolumeLoader::OrthancMultiframeVolumeLoader(const boost::shared_ptr<DicomVolumeImage>& volume,
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322 IOracle& oracle,
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323 IObservable& oracleObservable) :
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324 LoaderStateMachine(oracle, oracleObservable),
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325 IObservable(oracleObservable.GetBroker()),
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326 volume_(volume)
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327 {
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328 if (volume.get() == NULL)
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329 {
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330 throw Orthanc::OrthancException(Orthanc::ErrorCode_NullPointer);
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331 }
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332 }
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333
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334
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335 void OrthancMultiframeVolumeLoader::LoadInstance(const std::string& instanceId)
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336 {
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337 Start();
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338
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339 instanceId_ = instanceId;
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340
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341 {
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342 std::auto_ptr<OrthancRestApiCommand> command(new OrthancRestApiCommand);
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343 command->SetHttpHeader("Accept-Encoding", "gzip");
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344 command->SetUri("/instances/" + instanceId + "/tags");
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345 command->SetPayload(new LoadGeometry(*this));
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346 Schedule(command.release());
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347 }
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348
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349 {
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350 std::auto_ptr<OrthancRestApiCommand> command(new OrthancRestApiCommand);
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351 command->SetUri("/instances/" + instanceId + "/metadata/TransferSyntax");
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352 command->SetPayload(new LoadTransferSyntax(*this));
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353 Schedule(command.release());
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354 }
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355 }
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356 }
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