Mercurial > hg > orthanc-stone

annotate OrthancStone/Sources/Loaders/OrthancMultiframeVolumeLoader.cpp @ 2123:538c7b7c6e46 deep-learning

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integration mainline->deep-learning
author Sebastien Jodogne <s.jodogne@gmail.com>
date Fri, 22 Mar 2024 16:11:42 +0100
parents c23eef785569
children 16c01cc201e7
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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) 2017-2024 Osimis S.A., Belgium
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6 * Copyright (C) 2021-2024 Sebastien Jodogne, ICTEAM UCLouvain, Belgium
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7 *
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8 * This program is free software: you can redistribute it and/or
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9 * modify it under the terms of the GNU Lesser General Public License
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10 * as published by the Free Software Foundation, either version 3 of
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11 * the License, or (at your option) any later version.
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12 *
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13 * This program is distributed in the hope that it will be useful, but
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14 * WITHOUT ANY WARRANTY; without even the implied warranty of
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15 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU
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16 * Lesser General Public License for more details.
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17 *
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18 * You should have received a copy of the GNU Lesser General Public
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19 * License along with this program. If not, see
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20 * <http://www.gnu.org/licenses/>.
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21 **/
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22
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23
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24 #include "OrthancMultiframeVolumeLoader.h"
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25
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26 #include <Endianness.h>
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27 #include <Toolbox.h>
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28
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29 #if STONE_TIME_BLOCKING_OPS
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30 # include <boost/date_time/posix_time/posix_time.hpp>
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31 #endif
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32
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33 namespace OrthancStone
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34 {
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35 class OrthancMultiframeVolumeLoader::LoadRTDoseGeometry : public LoaderStateMachine::State
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36 {
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37 private:
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38 std::unique_ptr<Orthanc::DicomMap> dicom_;
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39
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40 public:
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41 LoadRTDoseGeometry(OrthancMultiframeVolumeLoader& that,
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42 Orthanc::DicomMap* dicom) :
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43 State(that),
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44 dicom_(dicom)
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45 {
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46 if (dicom == NULL)
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47 {
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48 throw Orthanc::OrthancException(Orthanc::ErrorCode_NullPointer);
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49 }
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50
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51 }
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52
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53 virtual void Handle(const OrthancRestApiCommand::SuccessMessage& message) ORTHANC_OVERRIDE
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54 {
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55 // Complete the DICOM tags with just-received "Grid Frame Offset Vector"
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56 std::string s = Orthanc::Toolbox::StripSpaces(message.GetAnswer());
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57 dicom_->SetValue(Orthanc::DICOM_TAG_GRID_FRAME_OFFSET_VECTOR, s, false);
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58
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59 GetLoader<OrthancMultiframeVolumeLoader>().SetGeometry(*dicom_);
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60 }
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61 };
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62
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63
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64 static std::string GetSopClassUid(const Orthanc::DicomMap& dicom)
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65 {
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66 std::string s;
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67 if (!dicom.LookupStringValue(s, Orthanc::DICOM_TAG_SOP_CLASS_UID, false))
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68 {
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69 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadFileFormat,
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70 "DICOM file without SOP class UID");
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71 }
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72 else
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73 {
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74 return s;
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75 }
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76 }
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77
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78
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79 class OrthancMultiframeVolumeLoader::LoadGeometry : public State
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80 {
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81 public:
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82 explicit LoadGeometry(OrthancMultiframeVolumeLoader& that) :
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83 State(that)
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84 {
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85 }
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86
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87 virtual void Handle(const OrthancRestApiCommand::SuccessMessage& message)
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88 {
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89 OrthancMultiframeVolumeLoader& loader = GetLoader<OrthancMultiframeVolumeLoader>();
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90
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91 Json::Value body;
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92 message.ParseJsonBody(body);
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93
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94 if (body.type() != Json::objectValue)
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95 {
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96 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadJson, "JSON body should be an object value");
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97 }
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98
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99 std::unique_ptr<Orthanc::DicomMap> dicom(new Orthanc::DicomMap);
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100 dicom->FromDicomAsJson(body);
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101
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102 if (StringToSopClassUid(GetSopClassUid(*dicom)) == SopClassUid_RTDose)
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103 {
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104 // Download the "Grid Frame Offset Vector" DICOM tag, that is
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105 // mandatory for RT-DOSE, but is too long to be returned by default
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106
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107 std::unique_ptr<OrthancRestApiCommand> command(new OrthancRestApiCommand);
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108 command->SetCallerName("OrthancMultiframeVolumeLoader::LoadGeometry");
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109 command->SetUri("/instances/" + loader.GetInstanceId() + "/content/" +
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110 Orthanc::DICOM_TAG_GRID_FRAME_OFFSET_VECTOR.Format());
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111 command->AcquirePayload(new LoadRTDoseGeometry(loader, dicom.release()));
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112
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113 Schedule(command.release());
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114 }
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115 else
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116 {
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117 loader.SetGeometry(*dicom);
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118 }
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119 }
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120 };
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121
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122 class OrthancMultiframeVolumeLoader::LoadTransferSyntax : public State
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123 {
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124 public:
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125 explicit LoadTransferSyntax(OrthancMultiframeVolumeLoader& that) :
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126 State(that)
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127 {
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128 }
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129
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130 virtual void Handle(const OrthancRestApiCommand::SuccessMessage& message)
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131 {
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132 GetLoader<OrthancMultiframeVolumeLoader>().SetTransferSyntax(message.GetAnswer());
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133 }
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134 };
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135
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136 class OrthancMultiframeVolumeLoader::LoadUncompressedPixelData : public State
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137 {
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138 public:
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139 explicit LoadUncompressedPixelData(OrthancMultiframeVolumeLoader& that) :
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140 State(that)
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141 {
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142 }
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143
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144 virtual void Handle(const OrthancRestApiCommand::SuccessMessage& message)
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145 {
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146 GetLoader<OrthancMultiframeVolumeLoader>().SetUncompressedPixelData(message.GetAnswer());
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147 }
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148 };
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149
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150 const std::string& OrthancMultiframeVolumeLoader::GetInstanceId() const
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151 {
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152 if (IsActive())
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153 {
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154 return instanceId_;
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155 }
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156 else
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157 {
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158 LOG(ERROR) << "OrthancMultiframeVolumeLoader::GetInstanceId(): (!IsActive())";
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159 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadSequenceOfCalls);
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160 }
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161 }
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162
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163 void OrthancMultiframeVolumeLoader::ScheduleFrameDownloads()
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164 {
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165 if (transferSyntaxUid_.empty() ||
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166 !volume_->HasGeometry())
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167 {
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168 return;
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169 }
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170 /*
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171 1.2.840.10008.1.2 Implicit VR Endian: Default Transfer Syntax for DICOM
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172 1.2.840.10008.1.2.1 Explicit VR Little Endian
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173 1.2.840.10008.1.2.2 Explicit VR Big Endian
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174
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175 See https://www.dicomlibrary.com/dicom/transfer-syntax/
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176 */
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177 if (transferSyntaxUid_ == "1.2.840.10008.1.2" ||
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178 transferSyntaxUid_ == "1.2.840.10008.1.2.1" ||
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179 transferSyntaxUid_ == "1.2.840.10008.1.2.2")
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180 {
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181 std::unique_ptr<OrthancRestApiCommand> command(new OrthancRestApiCommand);
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182 command->SetCallerName("OrthancMultiframeVolumeLoader::ScheduleFrameDownloads");
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183 command->SetHttpHeader("Accept-Encoding", "gzip");
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184 command->SetUri("/instances/" + instanceId_ + "/content/" +
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185 Orthanc::DICOM_TAG_PIXEL_DATA.Format() + "/0");
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186 command->AcquirePayload(new LoadUncompressedPixelData(*this));
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187 Schedule(command.release());
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188 }
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189 else
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190 {
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191 throw Orthanc::OrthancException(
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192 Orthanc::ErrorCode_NotImplemented,
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193 "No support for multiframe instances with transfer syntax: " + transferSyntaxUid_);
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194 }
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195 }
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196
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197 void OrthancMultiframeVolumeLoader::SetTransferSyntax(const std::string& transferSyntax)
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198 {
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199 transferSyntaxUid_ = Orthanc::Toolbox::StripSpaces(transferSyntax);
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200 ScheduleFrameDownloads();
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201 }
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202
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203 void OrthancMultiframeVolumeLoader::SetGeometry(const Orthanc::DicomMap& dicom)
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204 {
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205 DicomInstanceParameters parameters(dicom);
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206 volume_->SetDicomParameters(parameters);
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207
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208 Orthanc::PixelFormat format;
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209 if (!parameters.GetImageInformation().ExtractPixelFormat(format, true))
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210 {
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211 throw Orthanc::OrthancException(Orthanc::ErrorCode_NotImplemented);
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212 }
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213
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214 double spacingZ;
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215 switch (parameters.GetSopClassUid())
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216 {
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217 case SopClassUid_RTDose:
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218 if (!parameters.ComputeFrameOffsetsSpacing(spacingZ))
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219 {
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220 throw Orthanc::OrthancException(Orthanc::ErrorCode_NotImplemented,
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221 "Cannot load RT-DOSE with incorrect GridFrameOffsetVector (3004,000C)");
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222 }
1337
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223 break;
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224
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225 default:
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226 throw Orthanc::OrthancException(
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227 Orthanc::ErrorCode_NotImplemented,
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228 "No support for multiframe instances with SOP class UID: " + GetSopClassUid(dicom));
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229 }
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230
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231 isReversedFrameOffsets_ = parameters.IsReversedFrameOffsets();
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232
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233 const unsigned int width = parameters.GetImageInformation().GetWidth();
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234 const unsigned int height = parameters.GetImageInformation().GetHeight();
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235 const unsigned int depth = parameters.GetImageInformation().GetNumberOfFrames();
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236
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237 {
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238 VolumeImageGeometry geometry;
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239 geometry.SetSizeInVoxels(width, height, depth);
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240 geometry.SetAxialGeometry(parameters.GetMultiFrameGeometry());
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241 geometry.SetVoxelDimensions(parameters.GetPixelSpacingX(),
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242 parameters.GetPixelSpacingY(), spacingZ);
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243 volume_->Initialize(geometry, format, true /* Do compute range */);
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244 }
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245
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246 volume_->GetPixelData().Clear();
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247
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248 ScheduleFrameDownloads();
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249
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250 BroadcastMessage(DicomVolumeImage::GeometryReadyMessage(*volume_));
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251 }
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252
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253
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254 ORTHANC_FORCE_INLINE
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255 static void CopyPixel(uint32_t& target, const void* source)
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256 {
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257 // TODO - check alignement?
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258 target = le32toh(*reinterpret_cast<const uint32_t*>(source));
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259 }
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260
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261 ORTHANC_FORCE_INLINE
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262 static void CopyPixel(uint16_t& target, const void* source)
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263 {
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264 // TODO - check alignement?
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265 target = le16toh(*reinterpret_cast<const uint16_t*>(source));
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266 }
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267
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268 ORTHANC_FORCE_INLINE
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269 static void CopyPixel(int16_t& target, const void* source)
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270 {
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271 // byte swapping is the same for unsigned and signed integers
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272 // (the sign bit is always stored with the MSByte)
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273 uint16_t* targetUp = reinterpret_cast<uint16_t*>(&target);
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274 CopyPixel(*targetUp, source);
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275 }
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276
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277 template <typename T>
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278 void OrthancMultiframeVolumeLoader::CopyPixelDataAndComputeDistribution(
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279 const std::string& pixelData, std::map<T, PixelCount>& distribution)
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280 {
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281 #if STONE_TIME_BLOCKING_OPS
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282 boost::posix_time::ptime timerStart = boost::posix_time::microsec_clock::universal_time();
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283 #endif
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284
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52b8b96cb55f cleaning namespaces
Sebastien Jodogne <s.jodogne@gmail.com>
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285 ImageBuffer3D& target = volume_->GetPixelData();
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286
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287 const unsigned int bpp = target.GetBytesPerPixel();
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288 const unsigned int width = target.GetWidth();
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289 const unsigned int height = target.GetHeight();
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290 const unsigned int depth = target.GetDepth();
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291
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292 if (pixelData.size() != bpp * width * height * depth)
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293 {
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294 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadFileFormat,
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295 "The pixel data has not the proper size");
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296 }
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297
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298 if (pixelData.empty())
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299 {
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300 return;
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301 }
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302
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303 // first pass to initialize map
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304 #if 0
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305 {
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306 const uint8_t* source = reinterpret_cast<const uint8_t*>(pixelData.c_str());
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307
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308 for (unsigned int z = 0; z < depth; z++)
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309 {
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310 for (unsigned int y = 0; y < height; y++)
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311 {
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312 for (unsigned int x = 0; x < width; x++)
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313 {
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314 T value;
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315 CopyPixel(value, source);
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316 distribution[value] = 0;
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317 source += bpp;
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318 }
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319 }
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320 }
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321 }
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322 #endif
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323
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324 {
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325 const uint8_t* source = reinterpret_cast<const uint8_t*>(pixelData.c_str());
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326
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327 for (unsigned int z = 0; z < depth; z++)
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328 {
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990f396484b1 fix rendering of RT-DOSE with negative GridFrameOffsetVector
Sebastien Jodogne <s.jodogne@gmail.com>
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329 unsigned targetZ;
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330 if (isReversedFrameOffsets_)
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331 {
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332 targetZ = depth - 1 - z;
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333 }
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334 else
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335 {
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336 targetZ = z;
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337 }
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Sebastien Jodogne <s.jodogne@gmail.com>
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diff changeset
338
990f396484b1 fix rendering of RT-DOSE with negative GridFrameOffsetVector
Sebastien Jodogne <s.jodogne@gmail.com>
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339 ImageBuffer3D::SliceWriter writer(target, VolumeProjection_Axial, targetZ);
1337
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340
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341 assert(writer.GetAccessor().GetWidth() == width &&
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342 writer.GetAccessor().GetHeight() == height);
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104e0b0f2316 Fixed the broken function, and left the unoptimized
Benjamin Golinvaux <bgo@osimis.io>
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343 #if 0
104e0b0f2316 Fixed the broken function, and left the unoptimized
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344 for (unsigned int y = 0; y < height; y++)
104e0b0f2316 Fixed the broken function, and left the unoptimized
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345 {
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Benjamin Golinvaux <bgo@osimis.io>
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346 assert(sizeof(T) == Orthanc::GetBytesPerPixel(target.GetFormat()));
1337
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347
1362
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diff changeset
348 T* target = reinterpret_cast<T*>(writer.GetAccessor().GetRow(y));
104e0b0f2316 Fixed the broken function, and left the unoptimized
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diff changeset
349
104e0b0f2316 Fixed the broken function, and left the unoptimized
Benjamin Golinvaux <bgo@osimis.io>
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diff changeset
350 for (unsigned int x = 0; x < width; x++)
104e0b0f2316 Fixed the broken function, and left the unoptimized
Benjamin Golinvaux <bgo@osimis.io>
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diff changeset
351 {
104e0b0f2316 Fixed the broken function, and left the unoptimized
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diff changeset
352 CopyPixel(*target, source);
104e0b0f2316 Fixed the broken function, and left the unoptimized
Benjamin Golinvaux <bgo@osimis.io>
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diff changeset
353
104e0b0f2316 Fixed the broken function, and left the unoptimized
Benjamin Golinvaux <bgo@osimis.io>
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diff changeset
354 distribution[*target] += 1;
104e0b0f2316 Fixed the broken function, and left the unoptimized
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diff changeset
355
104e0b0f2316 Fixed the broken function, and left the unoptimized
Benjamin Golinvaux <bgo@osimis.io>
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diff changeset
356 target++;
104e0b0f2316 Fixed the broken function, and left the unoptimized
Benjamin Golinvaux <bgo@osimis.io>
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diff changeset
357 source += bpp;
104e0b0f2316 Fixed the broken function, and left the unoptimized
Benjamin Golinvaux <bgo@osimis.io>
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diff changeset
358 }
104e0b0f2316 Fixed the broken function, and left the unoptimized
Benjamin Golinvaux <bgo@osimis.io>
parents: 1349
diff changeset
359 }
104e0b0f2316 Fixed the broken function, and left the unoptimized
Benjamin Golinvaux <bgo@osimis.io>
parents: 1349
diff changeset
360 #else
104e0b0f2316 Fixed the broken function, and left the unoptimized
Benjamin Golinvaux <bgo@osimis.io>
parents: 1349
diff changeset
361 // optimized version (fixed) as of 2020-04-15
1349
b1e6bef86955 Tentative loop optimization in CopyPixelDataAndComputeDistribution
Benjamin Golinvaux <bgo@osimis.io>
parents: 1337
diff changeset
362 unsigned int pitch = writer.GetAccessor().GetPitch();
1362
104e0b0f2316 Fixed the broken function, and left the unoptimized
Benjamin Golinvaux <bgo@osimis.io>
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diff changeset
363 T* targetAddrLine = reinterpret_cast<T*>(writer.GetAccessor().GetRow(0));
1349
b1e6bef86955 Tentative loop optimization in CopyPixelDataAndComputeDistribution
Benjamin Golinvaux <bgo@osimis.io>
parents: 1337
diff changeset
364 assert(sizeof(T) == Orthanc::GetBytesPerPixel(target.GetFormat()));
b1e6bef86955 Tentative loop optimization in CopyPixelDataAndComputeDistribution
Benjamin Golinvaux <bgo@osimis.io>
parents: 1337
diff changeset
365
1337
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366 for (unsigned int y = 0; y < height; y++)
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diff changeset
367 {
1362
104e0b0f2316 Fixed the broken function, and left the unoptimized
Benjamin Golinvaux <bgo@osimis.io>
parents: 1349
diff changeset
368 T* targetAddrPix = targetAddrLine;
1337
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diff changeset
369 for (unsigned int x = 0; x < width; x++)
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Benjamin Golinvaux <bgo@osimis.io>
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diff changeset
370 {
1362
104e0b0f2316 Fixed the broken function, and left the unoptimized
Benjamin Golinvaux <bgo@osimis.io>
parents: 1349
diff changeset
371 CopyPixel(*targetAddrPix, source);
1337
b1396be5aa27 Moved the fixed loaders back from the dead
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parents:
diff changeset
372
1757
28979b77ce90 Suppressed one pass on the dose distribution computation
bgo@SHARKNADO.localdomain
parents: 1751
diff changeset
373 distribution[*targetAddrPix].count_ += 1;
1337
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parents:
diff changeset
374
1362
104e0b0f2316 Fixed the broken function, and left the unoptimized
Benjamin Golinvaux <bgo@osimis.io>
parents: 1349
diff changeset
375 targetAddrPix++;
1337
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Benjamin Golinvaux <bgo@osimis.io>
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diff changeset
376 source += bpp;
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Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
377 }
1362
104e0b0f2316 Fixed the broken function, and left the unoptimized
Benjamin Golinvaux <bgo@osimis.io>
parents: 1349
diff changeset
378 uint8_t* targetAddrLineBytes = reinterpret_cast<uint8_t*>(targetAddrLine) + pitch;
104e0b0f2316 Fixed the broken function, and left the unoptimized
Benjamin Golinvaux <bgo@osimis.io>
parents: 1349
diff changeset
379 targetAddrLine = reinterpret_cast<T*>(targetAddrLineBytes);
1337
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parents:
diff changeset
380 }
1362
104e0b0f2316 Fixed the broken function, and left the unoptimized
Benjamin Golinvaux <bgo@osimis.io>
parents: 1349
diff changeset
381 #endif
1337
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parents:
diff changeset
382 }
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Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
383 }
1751
946eb7200b82 FastParseVector usage + timing instrumentation guarded by STONE_TIME_BLOCKING_OPS
Benjamin Golinvaux <bgo@osimis.io>
parents: 1739
diff changeset
384 #if STONE_TIME_BLOCKING_OPS
946eb7200b82 FastParseVector usage + timing instrumentation guarded by STONE_TIME_BLOCKING_OPS
Benjamin Golinvaux <bgo@osimis.io>
parents: 1739
diff changeset
385 boost::posix_time::ptime timerEnd = boost::posix_time::microsec_clock::universal_time();
946eb7200b82 FastParseVector usage + timing instrumentation guarded by STONE_TIME_BLOCKING_OPS
Benjamin Golinvaux <bgo@osimis.io>
parents: 1739
diff changeset
386 boost::posix_time::time_duration duration = timerEnd - timerStart;
946eb7200b82 FastParseVector usage + timing instrumentation guarded by STONE_TIME_BLOCKING_OPS
Benjamin Golinvaux <bgo@osimis.io>
parents: 1739
diff changeset
387 int64_t durationMs = duration.total_milliseconds();
946eb7200b82 FastParseVector usage + timing instrumentation guarded by STONE_TIME_BLOCKING_OPS
Benjamin Golinvaux <bgo@osimis.io>
parents: 1739
diff changeset
388 LOG(WARNING) << "OrthancMultiframeVolumeLoader::CopyPixelDataAndComputeDistribution took " << durationMs << " ms";
946eb7200b82 FastParseVector usage + timing instrumentation guarded by STONE_TIME_BLOCKING_OPS
Benjamin Golinvaux <bgo@osimis.io>
parents: 1739
diff changeset
389 #endif
1337
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
390 }
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parents:
diff changeset
391
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Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
392 template <typename T>
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Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
393 void OrthancMultiframeVolumeLoader::ComputeMinMaxWithOutlierRejection(
1757
28979b77ce90 Suppressed one pass on the dose distribution computation
bgo@SHARKNADO.localdomain
parents: 1751
diff changeset
394 const std::map<T, PixelCount>& distribution)
1337
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
395 {
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parents:
diff changeset
396 if (distribution.size() == 0)
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parents:
diff changeset
397 {
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parents:
diff changeset
398 LOG(ERROR) << "ComputeMinMaxWithOutlierRejection -- Volume image empty.";
b1396be5aa27 Moved the fixed loaders back from the dead
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parents:
diff changeset
399 }
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parents:
diff changeset
400 else
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Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
401 {
1640
52b8b96cb55f cleaning namespaces
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1634
diff changeset
402 ImageBuffer3D& target = volume_->GetPixelData();
1337
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
403
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parents:
diff changeset
404 const uint64_t width = target.GetWidth();
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parents:
diff changeset
405 const uint64_t height = target.GetHeight();
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Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
406 const uint64_t depth = target.GetDepth();
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Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
407 const uint64_t voxelCount = width * height * depth;
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Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
408
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parents:
diff changeset
409 // now that we have distribution[pixelValue] == numberOfPixelsWithValue
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Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
410 // compute number of values and check (assertion) that it is equal to
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parents:
diff changeset
411 // width * height * depth
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Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
412 {
1757
28979b77ce90 Suppressed one pass on the dose distribution computation
bgo@SHARKNADO.localdomain
parents: 1751
diff changeset
413 typename std::map<T, PixelCount>::const_iterator it = distribution.begin();
1337
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
414 uint64_t totalCount = 0;
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Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
415 distributionRawMin_ = static_cast<float>(it->first);
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Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
416
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Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
417 while (it != distribution.end())
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Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
418 {
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Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
419 T pixelValue = it->first;
1757
28979b77ce90 Suppressed one pass on the dose distribution computation
bgo@SHARKNADO.localdomain
parents: 1751
diff changeset
420 totalCount += it->second.count_;
1571
85e117739eca cppcheck
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1512
diff changeset
421 ++it;
1337
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
422 if (it == distribution.end())
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
423 distributionRawMax_ = static_cast<float>(pixelValue);
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
424 }
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
425 LOG(INFO) << "Volume image. First distribution value = "
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
426 << static_cast<float>(distributionRawMin_)
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
427 << " | Last distribution value = "
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
428 << static_cast<float>(distributionRawMax_);
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
429
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
430 if (totalCount != voxelCount)
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
431 {
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
432 LOG(ERROR) << "Internal error in dose distribution computation. TC ("
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
433 << totalCount << ") != VoxC (" << voxelCount;
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
434 throw Orthanc::OrthancException(Orthanc::ErrorCode_InternalError);
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
435 }
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
436 }
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
437
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
438 // compute the number of voxels to reject at each end of the distribution
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
439 uint64_t endRejectionCount = static_cast<uint64_t>(
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
440 outliersHalfRejectionRate_ * voxelCount);
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
441
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
442 if (endRejectionCount > voxelCount)
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
443 {
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
444 LOG(ERROR) << "Internal error in dose distribution computation."
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
445 << " endRejectionCount = " << endRejectionCount
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
446 << " | voxelCount = " << voxelCount;
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
447 throw Orthanc::OrthancException(Orthanc::ErrorCode_InternalError);
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
448 }
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
449
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
450 // this will contain the actual distribution minimum after outlier
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
451 // rejection
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
452 T resultMin = 0;
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
453
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
454 // then start from start and remove pixel values up to
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
455 // endRejectionCount voxels rejected
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
456 {
1757
28979b77ce90 Suppressed one pass on the dose distribution computation
bgo@SHARKNADO.localdomain
parents: 1751
diff changeset
457 typename std::map<T, PixelCount>::const_iterator it = distribution.begin();
1337
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
458
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
459 uint64_t currentCount = 0;
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
460
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
461 while (it != distribution.end())
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
462 {
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
463 T pixelValue = it->first;
1757
28979b77ce90 Suppressed one pass on the dose distribution computation
bgo@SHARKNADO.localdomain
parents: 1751
diff changeset
464 uint64_t count = it->second.count_;
1337
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
465
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
466 // if this pixelValue crosses the rejection threshold, let's set it
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
467 // and exit the loop
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
468 if ((currentCount <= endRejectionCount) &&
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
469 (currentCount + count > endRejectionCount))
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
470 {
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
471 resultMin = pixelValue;
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
472 break;
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
473 }
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
474 else
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
475 {
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
476 currentCount += count;
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
477 }
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
478 // and continue walking along the distribution
1571
85e117739eca cppcheck
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1512
diff changeset
479 ++it;
1337
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
480 }
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
481 }
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
482
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
483 // this will contain the actual distribution maximum after outlier
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
484 // rejection
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
485 T resultMax = 0;
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
486 // now start from END and remove pixel values up to
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
487 // endRejectionCount voxels rejected
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
488 {
1757
28979b77ce90 Suppressed one pass on the dose distribution computation
bgo@SHARKNADO.localdomain
parents: 1751
diff changeset
489 typename std::map<T, PixelCount>::const_reverse_iterator it = distribution.rbegin();
1337
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
490
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
491 uint64_t currentCount = 0;
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
492
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
493 while (it != distribution.rend())
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
494 {
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
495 T pixelValue = it->first;
1757
28979b77ce90 Suppressed one pass on the dose distribution computation
bgo@SHARKNADO.localdomain
parents: 1751
diff changeset
496 uint64_t count = it->second.count_;
1337
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
497
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
498 if ((currentCount <= endRejectionCount) &&
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
499 (currentCount + count > endRejectionCount))
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
500 {
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
501 resultMax = pixelValue;
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
502 break;
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
503 }
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
504 else
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
505 {
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
506 currentCount += count;
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
507 }
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
508 // and continue walking along the distribution
1571
85e117739eca cppcheck
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1512
diff changeset
509 ++it;
1337
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
510 }
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
511 }
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
512 if (resultMin > resultMax)
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
513 {
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
514 LOG(ERROR) << "Internal error in dose distribution computation! " <<
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
515 "resultMin (" << resultMin << ") > resultMax (" << resultMax << ")";
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
516 throw Orthanc::OrthancException(Orthanc::ErrorCode_InternalError);
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
517 }
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
518 computedDistributionMin_ = static_cast<float>(resultMin);
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
519 computedDistributionMax_ = static_cast<float>(resultMax);
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
520 }
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
521 }
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
522
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
523 template <typename T>
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
524 void OrthancMultiframeVolumeLoader::CopyPixelDataAndComputeMinMax(
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
525 const std::string& pixelData)
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
526 {
1757
28979b77ce90 Suppressed one pass on the dose distribution computation
bgo@SHARKNADO.localdomain
parents: 1751
diff changeset
527 std::map<T, PixelCount> distribution;
1337
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
528 CopyPixelDataAndComputeDistribution(pixelData, distribution);
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
529 ComputeMinMaxWithOutlierRejection(distribution);
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
530 }
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
531
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
532 void OrthancMultiframeVolumeLoader::SetUncompressedPixelData(const std::string& pixelData)
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
533 {
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
534 switch (volume_->GetPixelData().GetFormat())
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
535 {
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
536 case Orthanc::PixelFormat_Grayscale32:
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
537 CopyPixelDataAndComputeMinMax<uint32_t>(pixelData);
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
538 break;
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
539 case Orthanc::PixelFormat_Grayscale16:
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
540 CopyPixelDataAndComputeMinMax<uint16_t>(pixelData);
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
541 break;
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
542 case Orthanc::PixelFormat_SignedGrayscale16:
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
543 CopyPixelDataAndComputeMinMax<int16_t>(pixelData);
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
544 break;
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
545 default:
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
546 throw Orthanc::OrthancException(Orthanc::ErrorCode_NotImplemented);
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
547 }
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
548
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
549 volume_->IncrementRevision();
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
550
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
551 pixelDataLoaded_ = true;
1640
52b8b96cb55f cleaning namespaces
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1634
diff changeset
552 BroadcastMessage(DicomVolumeImage::ContentUpdatedMessage(*volume_));
1337
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
553 }
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
554
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
555 bool OrthancMultiframeVolumeLoader::HasGeometry() const
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
556 {
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
557 return volume_->HasGeometry();
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
558 }
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
559
1640
52b8b96cb55f cleaning namespaces
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1634
diff changeset
560 const VolumeImageGeometry& OrthancMultiframeVolumeLoader::GetImageGeometry() const
1337
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
561 {
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
562 return volume_->GetGeometry();
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
563 }
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
564
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
565 OrthancMultiframeVolumeLoader::OrthancMultiframeVolumeLoader(
1640
52b8b96cb55f cleaning namespaces
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1634
diff changeset
566 ILoadersContext& loadersContext,
52b8b96cb55f cleaning namespaces
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1634
diff changeset
567 boost::shared_ptr<DicomVolumeImage> volume,
1337
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
568 float outliersHalfRejectionRate)
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parents:
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569 : LoaderStateMachine(loadersContext)
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570 , volume_(volume)
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990f396484b1 fix rendering of RT-DOSE with negative GridFrameOffsetVector
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parents: 1871
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571 , isReversedFrameOffsets_(false)
1337
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572 , pixelDataLoaded_(false)
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573 , outliersHalfRejectionRate_(outliersHalfRejectionRate)
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574 , distributionRawMin_(0)
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575 , distributionRawMax_(0)
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576 , computedDistributionMin_(0)
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577 , computedDistributionMax_(0)
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578 {
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579 if (volume.get() == NULL)
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580 {
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581 throw Orthanc::OrthancException(Orthanc::ErrorCode_NullPointer);
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582 }
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583 }
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584
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585
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586 boost::shared_ptr<OrthancMultiframeVolumeLoader>
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587 OrthancMultiframeVolumeLoader::Create(
1640
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588 ILoadersContext& loadersContext,
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589 boost::shared_ptr<DicomVolumeImage> volume,
1337
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590 float outliersHalfRejectionRate /*= 0.0005*/)
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591 {
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592 boost::shared_ptr<OrthancMultiframeVolumeLoader> obj(
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593 new OrthancMultiframeVolumeLoader(
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594 loadersContext,
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595 volume,
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596 outliersHalfRejectionRate));
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597 obj->LoaderStateMachine::PostConstructor();
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598 return obj;
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599 }
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600
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parents:
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601 OrthancMultiframeVolumeLoader::~OrthancMultiframeVolumeLoader()
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parents:
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602 {
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603 LOG(TRACE) << "OrthancMultiframeVolumeLoader::~OrthancMultiframeVolumeLoader()";
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604 }
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605
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606 void OrthancMultiframeVolumeLoader::GetDistributionMinMax
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607 (float& minValue, float& maxValue) const
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parents:
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608 {
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parents:
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609 if (distributionRawMin_ == 0 && distributionRawMax_ == 0)
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parents:
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610 {
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parents:
diff changeset
611 LOG(WARNING) << "GetDistributionMinMaxWithOutliersRejection called before computation!";
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612 }
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parents:
diff changeset
613 minValue = distributionRawMin_;
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parents:
diff changeset
614 maxValue = distributionRawMax_;
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parents:
diff changeset
615 }
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Benjamin Golinvaux <bgo@osimis.io>
parents:
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616
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parents:
diff changeset
617 void OrthancMultiframeVolumeLoader::GetDistributionMinMaxWithOutliersRejection
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parents:
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618 (float& minValue, float& maxValue) const
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parents:
diff changeset
619 {
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diff changeset
620 if (computedDistributionMin_ == 0 && computedDistributionMax_ == 0)
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parents:
diff changeset
621 {
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parents:
diff changeset
622 LOG(WARNING) << "GetDistributionMinMaxWithOutliersRejection called before computation!";
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parents:
diff changeset
623 }
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diff changeset
624 minValue = computedDistributionMin_;
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parents:
diff changeset
625 maxValue = computedDistributionMax_;
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626 }
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627
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parents:
diff changeset
628 void OrthancMultiframeVolumeLoader::LoadInstance(const std::string& instanceId)
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Benjamin Golinvaux <bgo@osimis.io>
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629 {
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parents:
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630 Start();
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parents:
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631
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parents:
diff changeset
632 instanceId_ = instanceId;
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parents:
diff changeset
633
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Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
634 {
1640
52b8b96cb55f cleaning namespaces
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1634
diff changeset
635 std::unique_ptr<OrthancRestApiCommand> command(new OrthancRestApiCommand);
1831
a03260db8835 Added SetCallerName to IOracleCommand to ease debugging
Benjamin Golinvaux <bgo@osimis.io>
parents: 1758
diff changeset
636 command->SetCallerName("OrthancMultiframeVolumeLoader::LoadInstance");
1337
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parents:
diff changeset
637 command->SetHttpHeader("Accept-Encoding", "gzip");
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parents:
diff changeset
638 command->SetUri("/instances/" + instanceId + "/tags");
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Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
639 command->AcquirePayload(new LoadGeometry(*this));
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Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
640 Schedule(command.release());
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parents:
diff changeset
641 }
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parents:
diff changeset
642
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Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
643 {
1640
52b8b96cb55f cleaning namespaces
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1634
diff changeset
644 std::unique_ptr<OrthancRestApiCommand> command(new OrthancRestApiCommand);
1831
a03260db8835 Added SetCallerName to IOracleCommand to ease debugging
Benjamin Golinvaux <bgo@osimis.io>
parents: 1758
diff changeset
645 command->SetCallerName("OrthancMultiframeVolumeLoader::LoadInstance");
1337
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Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
646 command->SetUri("/instances/" + instanceId + "/metadata/TransferSyntax");
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Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
647 command->AcquirePayload(new LoadTransferSyntax(*this));
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parents:
diff changeset
648 Schedule(command.release());
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Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
649 }
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parents:
diff changeset
650 }
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parents:
diff changeset
651 }