Mercurial > hg > orthanc-stone

annotate OrthancStone/Sources/Loaders/OrthancMultiframeVolumeLoader.cpp @ 2041:85a20cbfcc04 deep-learning

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author Sebastien Jodogne <s.jodogne@gmail.com>
date Wed, 01 Feb 2023 08:23:26 +0100
parents 7053b8a0aaec
children 990f396484b1
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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) 2017-2022 Osimis S.A., Belgium
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6 * Copyright (C) 2021-2022 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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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 spacingZ = parameters.GetSliceThickness();
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219 break;
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220
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221 default:
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222 throw Orthanc::OrthancException(
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223 Orthanc::ErrorCode_NotImplemented,
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224 "No support for multiframe instances with SOP class UID: " + GetSopClassUid(dicom));
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225 }
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226
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227 const unsigned int width = parameters.GetImageInformation().GetWidth();
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228 const unsigned int height = parameters.GetImageInformation().GetHeight();
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229 const unsigned int depth = parameters.GetImageInformation().GetNumberOfFrames();
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230
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231 {
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232 VolumeImageGeometry geometry;
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233 geometry.SetSizeInVoxels(width, height, depth);
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234 geometry.SetAxialGeometry(parameters.GetGeometry());
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235 geometry.SetVoxelDimensions(parameters.GetPixelSpacingX(),
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236 parameters.GetPixelSpacingY(), spacingZ);
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237 volume_->Initialize(geometry, format, true /* Do compute range */);
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238 }
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239
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240 volume_->GetPixelData().Clear();
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241
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242 ScheduleFrameDownloads();
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243
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244
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245
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246 BroadcastMessage(DicomVolumeImage::GeometryReadyMessage(*volume_));
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247 }
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248
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249
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250 ORTHANC_FORCE_INLINE
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251 static void CopyPixel(uint32_t& target, const void* source)
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252 {
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253 // TODO - check alignement?
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254 target = le32toh(*reinterpret_cast<const uint32_t*>(source));
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255 }
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256
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257 ORTHANC_FORCE_INLINE
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258 static void CopyPixel(uint16_t& target, const void* source)
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259 {
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260 // TODO - check alignement?
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261 target = le16toh(*reinterpret_cast<const uint16_t*>(source));
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262 }
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263
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264 ORTHANC_FORCE_INLINE
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265 static void CopyPixel(int16_t& target, const void* source)
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266 {
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267 // byte swapping is the same for unsigned and signed integers
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268 // (the sign bit is always stored with the MSByte)
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269 uint16_t* targetUp = reinterpret_cast<uint16_t*>(&target);
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270 CopyPixel(*targetUp, source);
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271 }
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272
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273 template <typename T>
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274 void OrthancMultiframeVolumeLoader::CopyPixelDataAndComputeDistribution(
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275 const std::string& pixelData, std::map<T, PixelCount>& distribution)
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276 {
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277 #if STONE_TIME_BLOCKING_OPS
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278 boost::posix_time::ptime timerStart = boost::posix_time::microsec_clock::universal_time();
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279 #endif
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280
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281 ImageBuffer3D& target = volume_->GetPixelData();
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282
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283 const unsigned int bpp = target.GetBytesPerPixel();
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284 const unsigned int width = target.GetWidth();
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285 const unsigned int height = target.GetHeight();
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286 const unsigned int depth = target.GetDepth();
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287
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diff changeset
288 if (pixelData.size() != bpp * width * height * depth)
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289 {
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diff changeset
290 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadFileFormat,
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diff changeset
291 "The pixel data has not the proper size");
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292 }
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293
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diff changeset
294 if (pixelData.empty())
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diff changeset
295 {
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296 return;
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297 }
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298
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299 // first pass to initialize map
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28979b77ce90 Suppressed one pass on the dose distribution computation
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300 #if 0
1337
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301 {
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302 const uint8_t* source = reinterpret_cast<const uint8_t*>(pixelData.c_str());
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303
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304 for (unsigned int z = 0; z < depth; z++)
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diff changeset
305 {
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306 for (unsigned int y = 0; y < height; y++)
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307 {
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308 for (unsigned int x = 0; x < width; x++)
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diff changeset
309 {
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310 T value;
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311 CopyPixel(value, source);
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312 distribution[value] = 0;
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313 source += bpp;
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314 }
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315 }
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316 }
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317 }
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bgo@SHARKNADO.localdomain
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318 #endif
1337
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319
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320 {
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321 const uint8_t* source = reinterpret_cast<const uint8_t*>(pixelData.c_str());
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322
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323 for (unsigned int z = 0; z < depth; z++)
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324 {
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52b8b96cb55f cleaning namespaces
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1634
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325 ImageBuffer3D::SliceWriter writer(target, VolumeProjection_Axial, z);
1337
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326
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327 assert(writer.GetAccessor().GetWidth() == width &&
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328 writer.GetAccessor().GetHeight() == height);
1362
104e0b0f2316 Fixed the broken function, and left the unoptimized
Benjamin Golinvaux <bgo@osimis.io>
parents: 1349
diff changeset
329 #if 0
104e0b0f2316 Fixed the broken function, and left the unoptimized
Benjamin Golinvaux <bgo@osimis.io>
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330 for (unsigned int y = 0; y < height; y++)
104e0b0f2316 Fixed the broken function, and left the unoptimized
Benjamin Golinvaux <bgo@osimis.io>
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diff changeset
331 {
104e0b0f2316 Fixed the broken function, and left the unoptimized
Benjamin Golinvaux <bgo@osimis.io>
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332 assert(sizeof(T) == Orthanc::GetBytesPerPixel(target.GetFormat()));
1337
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333
1362
104e0b0f2316 Fixed the broken function, and left the unoptimized
Benjamin Golinvaux <bgo@osimis.io>
parents: 1349
diff changeset
334 T* target = reinterpret_cast<T*>(writer.GetAccessor().GetRow(y));
104e0b0f2316 Fixed the broken function, and left the unoptimized
Benjamin Golinvaux <bgo@osimis.io>
parents: 1349
diff changeset
335
104e0b0f2316 Fixed the broken function, and left the unoptimized
Benjamin Golinvaux <bgo@osimis.io>
parents: 1349
diff changeset
336 for (unsigned int x = 0; x < width; x++)
104e0b0f2316 Fixed the broken function, and left the unoptimized
Benjamin Golinvaux <bgo@osimis.io>
parents: 1349
diff changeset
337 {
104e0b0f2316 Fixed the broken function, and left the unoptimized
Benjamin Golinvaux <bgo@osimis.io>
parents: 1349
diff changeset
338 CopyPixel(*target, source);
104e0b0f2316 Fixed the broken function, and left the unoptimized
Benjamin Golinvaux <bgo@osimis.io>
parents: 1349
diff changeset
339
104e0b0f2316 Fixed the broken function, and left the unoptimized
Benjamin Golinvaux <bgo@osimis.io>
parents: 1349
diff changeset
340 distribution[*target] += 1;
104e0b0f2316 Fixed the broken function, and left the unoptimized
Benjamin Golinvaux <bgo@osimis.io>
parents: 1349
diff changeset
341
104e0b0f2316 Fixed the broken function, and left the unoptimized
Benjamin Golinvaux <bgo@osimis.io>
parents: 1349
diff changeset
342 target++;
104e0b0f2316 Fixed the broken function, and left the unoptimized
Benjamin Golinvaux <bgo@osimis.io>
parents: 1349
diff changeset
343 source += bpp;
104e0b0f2316 Fixed the broken function, and left the unoptimized
Benjamin Golinvaux <bgo@osimis.io>
parents: 1349
diff changeset
344 }
104e0b0f2316 Fixed the broken function, and left the unoptimized
Benjamin Golinvaux <bgo@osimis.io>
parents: 1349
diff changeset
345 }
104e0b0f2316 Fixed the broken function, and left the unoptimized
Benjamin Golinvaux <bgo@osimis.io>
parents: 1349
diff changeset
346 #else
104e0b0f2316 Fixed the broken function, and left the unoptimized
Benjamin Golinvaux <bgo@osimis.io>
parents: 1349
diff changeset
347 // optimized version (fixed) as of 2020-04-15
1349
b1e6bef86955 Tentative loop optimization in CopyPixelDataAndComputeDistribution
Benjamin Golinvaux <bgo@osimis.io>
parents: 1337
diff changeset
348 unsigned int pitch = writer.GetAccessor().GetPitch();
1362
104e0b0f2316 Fixed the broken function, and left the unoptimized
Benjamin Golinvaux <bgo@osimis.io>
parents: 1349
diff changeset
349 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
350 assert(sizeof(T) == Orthanc::GetBytesPerPixel(target.GetFormat()));
b1e6bef86955 Tentative loop optimization in CopyPixelDataAndComputeDistribution
Benjamin Golinvaux <bgo@osimis.io>
parents: 1337
diff changeset
351
1337
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352 for (unsigned int y = 0; y < height; y++)
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diff changeset
353 {
1362
104e0b0f2316 Fixed the broken function, and left the unoptimized
Benjamin Golinvaux <bgo@osimis.io>
parents: 1349
diff changeset
354 T* targetAddrPix = targetAddrLine;
1337
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diff changeset
355 for (unsigned int x = 0; x < width; x++)
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Benjamin Golinvaux <bgo@osimis.io>
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diff changeset
356 {
1362
104e0b0f2316 Fixed the broken function, and left the unoptimized
Benjamin Golinvaux <bgo@osimis.io>
parents: 1349
diff changeset
357 CopyPixel(*targetAddrPix, source);
1337
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diff changeset
358
1757
28979b77ce90 Suppressed one pass on the dose distribution computation
bgo@SHARKNADO.localdomain
parents: 1751
diff changeset
359 distribution[*targetAddrPix].count_ += 1;
1337
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parents:
diff changeset
360
1362
104e0b0f2316 Fixed the broken function, and left the unoptimized
Benjamin Golinvaux <bgo@osimis.io>
parents: 1349
diff changeset
361 targetAddrPix++;
1337
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362 source += bpp;
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Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
363 }
1362
104e0b0f2316 Fixed the broken function, and left the unoptimized
Benjamin Golinvaux <bgo@osimis.io>
parents: 1349
diff changeset
364 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
365 targetAddrLine = reinterpret_cast<T*>(targetAddrLineBytes);
1337
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parents:
diff changeset
366 }
1362
104e0b0f2316 Fixed the broken function, and left the unoptimized
Benjamin Golinvaux <bgo@osimis.io>
parents: 1349
diff changeset
367 #endif
1337
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
368 }
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
369 }
1751
946eb7200b82 FastParseVector usage + timing instrumentation guarded by STONE_TIME_BLOCKING_OPS
Benjamin Golinvaux <bgo@osimis.io>
parents: 1739
diff changeset
370 #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
371 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
372 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
373 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
374 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
375 #endif
1337
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
376 }
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
377
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
378 template <typename T>
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Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
379 void OrthancMultiframeVolumeLoader::ComputeMinMaxWithOutlierRejection(
1757
28979b77ce90 Suppressed one pass on the dose distribution computation
bgo@SHARKNADO.localdomain
parents: 1751
diff changeset
380 const std::map<T, PixelCount>& distribution)
1337
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
381 {
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parents:
diff changeset
382 if (distribution.size() == 0)
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parents:
diff changeset
383 {
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parents:
diff changeset
384 LOG(ERROR) << "ComputeMinMaxWithOutlierRejection -- Volume image empty.";
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
385 }
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Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
386 else
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Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
387 {
1640
52b8b96cb55f cleaning namespaces
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1634
diff changeset
388 ImageBuffer3D& target = volume_->GetPixelData();
1337
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Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
389
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parents:
diff changeset
390 const uint64_t width = target.GetWidth();
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diff changeset
391 const uint64_t height = target.GetHeight();
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parents:
diff changeset
392 const uint64_t depth = target.GetDepth();
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Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
393 const uint64_t voxelCount = width * height * depth;
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Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
394
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Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
395 // now that we have distribution[pixelValue] == numberOfPixelsWithValue
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Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
396 // compute number of values and check (assertion) that it is equal to
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parents:
diff changeset
397 // width * height * depth
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Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
398 {
1757
28979b77ce90 Suppressed one pass on the dose distribution computation
bgo@SHARKNADO.localdomain
parents: 1751
diff changeset
399 typename std::map<T, PixelCount>::const_iterator it = distribution.begin();
1337
b1396be5aa27 Moved the fixed loaders back from the dead
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parents:
diff changeset
400 uint64_t totalCount = 0;
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parents:
diff changeset
401 distributionRawMin_ = static_cast<float>(it->first);
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Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
402
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parents:
diff changeset
403 while (it != distribution.end())
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Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
404 {
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Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
405 T pixelValue = it->first;
1757
28979b77ce90 Suppressed one pass on the dose distribution computation
bgo@SHARKNADO.localdomain
parents: 1751
diff changeset
406 totalCount += it->second.count_;
1571
85e117739eca cppcheck
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1512
diff changeset
407 ++it;
1337
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
408 if (it == distribution.end())
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
409 distributionRawMax_ = static_cast<float>(pixelValue);
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
410 }
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Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
411 LOG(INFO) << "Volume image. First distribution value = "
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Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
412 << static_cast<float>(distributionRawMin_)
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Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
413 << " | Last distribution value = "
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Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
414 << static_cast<float>(distributionRawMax_);
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
415
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
416 if (totalCount != voxelCount)
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Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
417 {
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Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
418 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
419 << totalCount << ") != VoxC (" << voxelCount;
b1396be5aa27 Moved the fixed loaders back from the dead
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parents:
diff changeset
420 throw Orthanc::OrthancException(Orthanc::ErrorCode_InternalError);
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
421 }
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
422 }
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
423
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
424 // 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
425 uint64_t endRejectionCount = static_cast<uint64_t>(
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
426 outliersHalfRejectionRate_ * voxelCount);
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
427
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
428 if (endRejectionCount > voxelCount)
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 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
431 << " endRejectionCount = " << endRejectionCount
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
432 << " | voxelCount = " << voxelCount;
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
433 throw Orthanc::OrthancException(Orthanc::ErrorCode_InternalError);
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
434 }
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 // 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
437 // rejection
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
438 T resultMin = 0;
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
439
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
440 // 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
441 // endRejectionCount voxels rejected
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
442 {
1757
28979b77ce90 Suppressed one pass on the dose distribution computation
bgo@SHARKNADO.localdomain
parents: 1751
diff changeset
443 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
444
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
445 uint64_t currentCount = 0;
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
446
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
447 while (it != distribution.end())
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 T pixelValue = it->first;
1757
28979b77ce90 Suppressed one pass on the dose distribution computation
bgo@SHARKNADO.localdomain
parents: 1751
diff changeset
450 uint64_t count = it->second.count_;
1337
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
451
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
452 // 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
453 // and exit the loop
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
454 if ((currentCount <= endRejectionCount) &&
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
455 (currentCount + count > endRejectionCount))
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
456 {
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
457 resultMin = pixelValue;
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
458 break;
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
459 }
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
460 else
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
461 {
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
462 currentCount += count;
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
463 }
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
464 // and continue walking along the distribution
1571
85e117739eca cppcheck
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1512
diff changeset
465 ++it;
1337
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
466 }
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
467 }
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
468
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
469 // 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
470 // rejection
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
471 T resultMax = 0;
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
472 // 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
473 // endRejectionCount voxels rejected
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
474 {
1757
28979b77ce90 Suppressed one pass on the dose distribution computation
bgo@SHARKNADO.localdomain
parents: 1751
diff changeset
475 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
476
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
477 uint64_t currentCount = 0;
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
478
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
479 while (it != distribution.rend())
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 T pixelValue = it->first;
1757
28979b77ce90 Suppressed one pass on the dose distribution computation
bgo@SHARKNADO.localdomain
parents: 1751
diff changeset
482 uint64_t count = it->second.count_;
1337
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
483
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
484 if ((currentCount <= endRejectionCount) &&
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
485 (currentCount + count > endRejectionCount))
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
486 {
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
487 resultMax = pixelValue;
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
488 break;
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
489 }
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
490 else
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
491 {
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
492 currentCount += count;
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
493 }
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
494 // and continue walking along the distribution
1571
85e117739eca cppcheck
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1512
diff changeset
495 ++it;
1337
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
496 }
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 (resultMin > resultMax)
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
499 {
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
500 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
501 "resultMin (" << resultMin << ") > resultMax (" << resultMax << ")";
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
502 throw Orthanc::OrthancException(Orthanc::ErrorCode_InternalError);
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 computedDistributionMin_ = static_cast<float>(resultMin);
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
505 computedDistributionMax_ = static_cast<float>(resultMax);
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
506 }
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
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
509 template <typename T>
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
510 void OrthancMultiframeVolumeLoader::CopyPixelDataAndComputeMinMax(
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
511 const std::string& pixelData)
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
512 {
1757
28979b77ce90 Suppressed one pass on the dose distribution computation
bgo@SHARKNADO.localdomain
parents: 1751
diff changeset
513 std::map<T, PixelCount> distribution;
1337
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
514 CopyPixelDataAndComputeDistribution(pixelData, distribution);
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
515 ComputeMinMaxWithOutlierRejection(distribution);
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
516 }
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 void OrthancMultiframeVolumeLoader::SetUncompressedPixelData(const std::string& pixelData)
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
519 {
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
520 switch (volume_->GetPixelData().GetFormat())
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 case Orthanc::PixelFormat_Grayscale32:
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
523 CopyPixelDataAndComputeMinMax<uint32_t>(pixelData);
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
524 break;
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
525 case Orthanc::PixelFormat_Grayscale16:
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
526 CopyPixelDataAndComputeMinMax<uint16_t>(pixelData);
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
527 break;
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
528 case Orthanc::PixelFormat_SignedGrayscale16:
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
529 CopyPixelDataAndComputeMinMax<int16_t>(pixelData);
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
530 break;
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
531 default:
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
532 throw Orthanc::OrthancException(Orthanc::ErrorCode_NotImplemented);
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
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
535 volume_->IncrementRevision();
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
536
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
537 pixelDataLoaded_ = true;
1640
52b8b96cb55f cleaning namespaces
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1634
diff changeset
538 BroadcastMessage(DicomVolumeImage::ContentUpdatedMessage(*volume_));
1337
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
539 }
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
540
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
541 bool OrthancMultiframeVolumeLoader::HasGeometry() const
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
542 {
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
543 return volume_->HasGeometry();
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
544 }
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
545
1640
52b8b96cb55f cleaning namespaces
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1634
diff changeset
546 const VolumeImageGeometry& OrthancMultiframeVolumeLoader::GetImageGeometry() const
1337
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 return volume_->GetGeometry();
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
549 }
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 OrthancMultiframeVolumeLoader::OrthancMultiframeVolumeLoader(
1640
52b8b96cb55f cleaning namespaces
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1634
diff changeset
552 ILoadersContext& loadersContext,
52b8b96cb55f cleaning namespaces
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1634
diff changeset
553 boost::shared_ptr<DicomVolumeImage> volume,
1337
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
554 float outliersHalfRejectionRate)
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
555 : LoaderStateMachine(loadersContext)
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
556 , volume_(volume)
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
557 , pixelDataLoaded_(false)
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
558 , outliersHalfRejectionRate_(outliersHalfRejectionRate)
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
559 , distributionRawMin_(0)
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
560 , distributionRawMax_(0)
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
561 , computedDistributionMin_(0)
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
562 , computedDistributionMax_(0)
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 if (volume.get() == NULL)
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
565 {
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
566 throw Orthanc::OrthancException(Orthanc::ErrorCode_NullPointer);
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
567 }
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
568 }
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
569
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
570
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
571 boost::shared_ptr<OrthancMultiframeVolumeLoader>
b1396be5aa27 Moved the fixed loaders back from the dead
Benjamin Golinvaux <bgo@osimis.io>
parents:
diff changeset
572 OrthancMultiframeVolumeLoader::Create(
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573 ILoadersContext& loadersContext,
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574 boost::shared_ptr<DicomVolumeImage> volume,
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575 float outliersHalfRejectionRate /*= 0.0005*/)
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576 {
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577 boost::shared_ptr<OrthancMultiframeVolumeLoader> obj(
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578 new OrthancMultiframeVolumeLoader(
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579 loadersContext,
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580 volume,
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581 outliersHalfRejectionRate));
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582 obj->LoaderStateMachine::PostConstructor();
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583 return obj;
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584 }
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585
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586 OrthancMultiframeVolumeLoader::~OrthancMultiframeVolumeLoader()
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587 {
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588 LOG(TRACE) << "OrthancMultiframeVolumeLoader::~OrthancMultiframeVolumeLoader()";
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589 }
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590
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591 void OrthancMultiframeVolumeLoader::GetDistributionMinMax
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592 (float& minValue, float& maxValue) const
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593 {
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594 if (distributionRawMin_ == 0 && distributionRawMax_ == 0)
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595 {
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596 LOG(WARNING) << "GetDistributionMinMaxWithOutliersRejection called before computation!";
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597 }
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598 minValue = distributionRawMin_;
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599 maxValue = distributionRawMax_;
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600 }
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601
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602 void OrthancMultiframeVolumeLoader::GetDistributionMinMaxWithOutliersRejection
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603 (float& minValue, float& maxValue) const
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604 {
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605 if (computedDistributionMin_ == 0 && computedDistributionMax_ == 0)
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606 {
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607 LOG(WARNING) << "GetDistributionMinMaxWithOutliersRejection called before computation!";
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608 }
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609 minValue = computedDistributionMin_;
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610 maxValue = computedDistributionMax_;
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611 }
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612
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613 void OrthancMultiframeVolumeLoader::LoadInstance(const std::string& instanceId)
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614 {
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615 Start();
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616
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617 instanceId_ = instanceId;
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618
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619 {
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620 std::unique_ptr<OrthancRestApiCommand> command(new OrthancRestApiCommand);
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621 command->SetCallerName("OrthancMultiframeVolumeLoader::LoadInstance");
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622 command->SetHttpHeader("Accept-Encoding", "gzip");
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623 command->SetUri("/instances/" + instanceId + "/tags");
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624 command->AcquirePayload(new LoadGeometry(*this));
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625 Schedule(command.release());
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626 }
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627
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628 {
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629 std::unique_ptr<OrthancRestApiCommand> command(new OrthancRestApiCommand);
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630 command->SetCallerName("OrthancMultiframeVolumeLoader::LoadInstance");
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631 command->SetUri("/instances/" + instanceId + "/metadata/TransferSyntax");
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632 command->AcquirePayload(new LoadTransferSyntax(*this));
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diff changeset
633 Schedule(command.release());
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634 }
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635 }
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636 }