Mercurial > hg > orthanc-stone
annotate Framework/Volumes/DicomVolumeImageMPRSlicer.cpp @ 1289:343aa1dfaa90 bugs/2020-02-invisible-slice
Ongoing work on invisible slice bug (logging + removed unused function)
author | Benjamin Golinvaux <bgo@osimis.io> |
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date | Wed, 19 Feb 2020 17:05:08 +0100 |
parents | 8e82fdc6200e |
children | 7def6ab2929f |
rev | line source |
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814 | 1 /** |
2 * Stone of Orthanc | |
3 * Copyright (C) 2012-2016 Sebastien Jodogne, Medical Physics | |
4 * Department, University Hospital of Liege, Belgium | |
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5 * Copyright (C) 2017-2020 Osimis S.A., Belgium |
814 | 6 * |
7 * This program is free software: you can redistribute it and/or | |
8 * modify it under the terms of the GNU Affero General Public License | |
9 * as published by the Free Software Foundation, either version 3 of | |
10 * the License, or (at your option) any later version. | |
11 * | |
12 * This program is distributed in the hope that it will be useful, but | |
13 * WITHOUT ANY WARRANTY; without even the implied warranty of | |
14 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU | |
15 * Affero General Public License for more details. | |
16 * | |
17 * You should have received a copy of the GNU Affero General Public License | |
18 * along with this program. If not, see <http://www.gnu.org/licenses/>. | |
19 **/ | |
20 | |
21 | |
22 #include "DicomVolumeImageMPRSlicer.h" | |
23 | |
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24 #include "../StoneException.h" |
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25 |
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26 #include "../Toolbox/ImageToolbox.h" |
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27 |
814 | 28 #include <Core/OrthancException.h> |
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29 //#include <Core/Images/PngWriter.h> |
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30 #include <Core/Images/JpegWriter.h> |
814 | 31 |
32 namespace OrthancStone | |
33 { | |
34 void DicomVolumeImageMPRSlicer::Slice::CheckValid() const | |
35 { | |
36 if (!valid_) | |
37 { | |
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38 LOG(ERROR) << "DicomVolumeImageMPRSlicer::Slice::CheckValid(): (!valid_)"; |
814 | 39 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadSequenceOfCalls); |
40 } | |
41 } | |
42 | |
43 | |
44 DicomVolumeImageMPRSlicer::Slice::Slice(const DicomVolumeImage& volume, | |
45 const CoordinateSystem3D& cuttingPlane) : | |
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46 volume_(volume), |
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47 revision_(volume_.GetRevision()) |
814 | 48 { |
49 valid_ = (volume_.HasDicomParameters() && | |
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50 volume_.GetGeometry().DetectSlice(projection_, sliceIndex_, |
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51 cuttingPlane)); |
814 | 52 } |
53 | |
54 | |
55 VolumeProjection DicomVolumeImageMPRSlicer::Slice::GetProjection() const | |
56 { | |
57 CheckValid(); | |
58 return projection_; | |
59 } | |
60 | |
61 | |
62 unsigned int DicomVolumeImageMPRSlicer::Slice::GetSliceIndex() const | |
63 { | |
64 CheckValid(); | |
65 return sliceIndex_; | |
66 } | |
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67 |
814 | 68 |
69 ISceneLayer* DicomVolumeImageMPRSlicer::Slice::CreateSceneLayer(const ILayerStyleConfigurator* configurator, | |
70 const CoordinateSystem3D& cuttingPlane) | |
71 { | |
72 CheckValid(); | |
73 | |
74 if (configurator == NULL) | |
75 { | |
76 throw Orthanc::OrthancException(Orthanc::ErrorCode_NullPointer, | |
77 "A style configurator is mandatory for textures"); | |
78 } | |
79 | |
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80 LOG(INFO) << "DicomVolumeImageMPRSlicer::Slice::CreateSceneLayer(). volume_ address is " << (void*)(&volume_) << " and its SOPInstanceUID is " << volume_.GetDicomParameters().GetSopInstanceUid(); |
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81 |
814 | 82 std::auto_ptr<TextureBaseSceneLayer> texture; |
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83 |
814 | 84 { |
85 const DicomInstanceParameters& parameters = volume_.GetDicomParameters(); | |
86 ImageBuffer3D::SliceReader reader(volume_.GetPixelData(), projection_, sliceIndex_); | |
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87 |
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88 if (OrthancStone_Internals_dump_LoadTexture_histogram == 1) |
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89 { |
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90 LOG(INFO) << "+----------------------------------------+"; |
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91 LOG(INFO) << "| This is not an error! |"; |
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92 LOG(INFO) << "+----------------------------------------+"; |
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93 LOG(INFO) << "Work on the \"invisible slice\" bug"; |
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94 LOG(INFO) << "DicomVolumeImageMPRSlicer::Slice::CreateSceneLayer"; |
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95 LOG(INFO) << "InvisibleSlice -- about to dump histogram (100 buckets) for volume_ " |
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96 << "with OrthancId: " << parameters.GetOrthancInstanceIdentifier() |
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97 << " and SopInstanceUid: " << parameters.GetSopInstanceUid() |
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98 << " for projection_ (AxiCorSag): projection_ " |
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99 << " and slice: " << sliceIndex_; |
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100 |
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101 HistogramData hd; |
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102 double minValue = 0; |
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103 double maxValue = 0; |
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104 ComputeMinMax(reader.GetAccessor(), minValue, maxValue); |
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105 double binSize = (maxValue - minValue) * 0.01; |
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106 ComputeHistogram(reader.GetAccessor(), hd, binSize); |
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107 std::string s; |
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108 DumpHistogramResult(s, hd); |
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109 LOG(INFO) << s; |
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110 LOG(INFO) << "+----------------------------------------+"; |
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111 LOG(INFO) << "| end of debug dump |"; |
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112 LOG(INFO) << "+----------------------------------------+"; |
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113 } |
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114 |
814 | 115 texture.reset(dynamic_cast<TextureBaseSceneLayer*> |
116 (configurator->CreateTextureFromDicom(reader.GetAccessor(), parameters))); | |
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117 |
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118 // <DEBUG-BLOCK> |
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119 #if 0 |
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120 Orthanc::JpegWriter writer; |
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121 writer.SetQuality(60); |
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122 static int index = 0; |
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123 std::string filePath = "C:\\temp\\sliceReader_P"; |
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124 filePath += boost::lexical_cast<std::string>(projection_); |
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125 filePath += "_I"; |
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126 filePath += boost::lexical_cast<std::string>(index); |
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127 filePath += ".jpg"; |
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128 index++; |
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129 writer.WriteToFile(filePath, reader.GetAccessor()); |
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130 #endif |
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131 // <END-OF-DEBUG-BLOCK> |
814 | 132 } |
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133 |
814 | 134 const CoordinateSystem3D& system = volume_.GetGeometry().GetProjectionGeometry(projection_); |
135 | |
136 double x0, y0, x1, y1; | |
137 cuttingPlane.ProjectPoint(x0, y0, system.GetOrigin()); | |
138 cuttingPlane.ProjectPoint(x1, y1, system.GetOrigin() + system.GetAxisX()); | |
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139 |
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140 // <DEBUG-BLOCK> |
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141 #if 0 |
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142 { |
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143 LOG(ERROR) << "+----------------------------------------------------+"; |
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144 LOG(ERROR) << "| DicomVolumeImageMPRSlicer::Slice::CreateSceneLayer |"; |
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145 LOG(ERROR) << "+----------------------------------------------------+"; |
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146 std::string projectionString; |
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147 switch (projection_) |
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148 { |
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149 case VolumeProjection_Coronal: |
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150 projectionString = "CORONAL"; |
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151 break; |
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152 case VolumeProjection_Axial: |
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153 projectionString = "CORONAL"; |
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154 break; |
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155 case VolumeProjection_Sagittal: |
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156 projectionString = "SAGITTAL"; |
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157 break; |
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158 default: |
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159 ORTHANC_ASSERT(false); |
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160 } |
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161 if(volume_.GetGeometry().GetDepth() == 200) |
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162 LOG(ERROR) << "| CT IMAGE 512x512 with projection " << projectionString; |
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163 else |
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164 LOG(ERROR) << "| RTDOSE IMAGE NNNxNNN with projection " << projectionString; |
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165 LOG(ERROR) << "+----------------------------------------------------+"; |
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166 LOG(ERROR) << "| cuttingPlane = " << cuttingPlane; |
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167 LOG(ERROR) << "| point to project = " << system.GetOrigin(); |
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168 LOG(ERROR) << "| result = x0: " << x0 << " y0: " << y0; |
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169 LOG(ERROR) << "+----------------------- END ------------------------+"; |
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170 } |
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171 #endif |
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172 // <END-OF-DEBUG-BLOCK> |
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173 |
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174 #if 1 // BGO 2019-08-13 |
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175 // The sagittal coordinate system has a Y vector going down. The displayed |
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176 // image (scene coords) has a Y vector pointing upwards (towards the patient |
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177 // coord Z index) |
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178 // we need to flip the Y local coordinates to get the scene-coord offset. |
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179 // TODO: this is quite ugly. Isn't there a better way? |
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180 if(projection_ == VolumeProjection_Sagittal) |
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181 texture->SetOrigin(x0, -y0); |
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182 else |
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183 texture->SetOrigin(x0, y0); |
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184 #else |
814 | 185 texture->SetOrigin(x0, y0); |
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186 #endif |
814 | 187 |
188 double dx = x1 - x0; | |
189 double dy = y1 - y0; | |
190 if (!LinearAlgebra::IsCloseToZero(dx) || | |
191 !LinearAlgebra::IsCloseToZero(dy)) | |
192 { | |
193 texture->SetAngle(atan2(dy, dx)); | |
194 } | |
195 | |
196 Vector tmp = volume_.GetGeometry().GetVoxelDimensions(projection_); | |
197 texture->SetPixelSpacing(tmp[0], tmp[1]); | |
198 | |
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199 // <DEBUG-BLOCK> |
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200 { |
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201 //using std::endl; |
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202 //std::stringstream ss; |
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203 //ss << "DicomVolumeImageMPRSlicer::Slice::CreateSceneLayer | cuttingPlane = " << cuttingPlane << " | projection_ = " << projection_ << endl; |
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204 //ss << "volume_.GetGeometry().GetProjectionGeometry(projection_) = " << system << endl; |
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205 //ss << "cuttingPlane.ProjectPoint(x0, y0, system.GetOrigin()); --> | x0 = " << x0 << " | y0 = " << y0 << "| x1 = " << x1 << " | y1 = " << y1 << endl; |
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206 //ss << "volume_.GetGeometry() = " << volume_.GetGeometry() << endl; |
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207 //ss << "volume_.GetGeometry() = " << volume_.GetGeometry() << endl; |
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208 //LOG(ERROR) << ss.str(); |
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209 } |
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210 // <END-OF-DEBUG-BLOCK> |
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211 |
814 | 212 return texture.release(); |
213 } | |
214 | |
215 | |
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216 DicomVolumeImageMPRSlicer::~DicomVolumeImageMPRSlicer() |
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217 { |
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218 LOG(TRACE) << "DicomVolumeImageMPRSlicer::~DicomVolumeImageMPRSlicer()"; |
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219 } |
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220 |
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221 IVolumeSlicer::IExtractedSlice* |
814 | 222 DicomVolumeImageMPRSlicer::ExtractSlice(const CoordinateSystem3D& cuttingPlane) |
223 { | |
224 if (volume_->HasGeometry()) | |
225 { | |
226 return new Slice(*volume_, cuttingPlane); | |
227 } | |
228 else | |
229 { | |
230 return new IVolumeSlicer::InvalidSlice; | |
231 } | |
232 } | |
233 } |