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1 /**
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2 * Orthanc - A Lightweight, RESTful DICOM Store
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3 * Copyright (C) 2012-2016 Sebastien Jodogne, Medical Physics
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4 * Department, University Hospital of Liege, Belgium
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5 *
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6 * This program is free software: you can redistribute it and/or
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7 * modify it under the terms of the GNU Affero General Public License
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8 * as published by the Free Software Foundation, either version 3 of
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9 * the License, or (at your option) any later version.
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10 *
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11 * This program is distributed in the hope that it will be useful, but
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12 * WITHOUT ANY WARRANTY; without even the implied warranty of
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13 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU
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14 * Affero General Public License for more details.
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15 *
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16 * You should have received a copy of the GNU Affero General Public License
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17 * along with this program. If not, see <http://www.gnu.org/licenses/>.
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18 **/
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19
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20
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21 #include "DicomPyramidWriter.h"
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22
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23 #include "../DicomToolbox.h"
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24
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25 #include "../Orthanc/Core/Logging.h"
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26 #include "../Orthanc/Core/OrthancException.h"
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27 #include "../Orthanc/OrthancServer/FromDcmtkBridge.h"
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28
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29 #include <dcmtk/dcmdata/dcdeftag.h>
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30 #include <boost/lexical_cast.hpp>
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31
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32 namespace OrthancWSI
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33 {
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34 void DicomPyramidWriter::FlushInternal(MultiframeDicomWriter& writer,
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35 bool force)
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36 {
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37 if (writer.GetFramesCount() > 0 &&
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38 writer.GetSize() > 0 &&
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39 (force || (maxSize_ != 0 && writer.GetSize() >= maxSize_)))
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40 {
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41 countInstances_ += 1;
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42
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43 std::string dicom;
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44 writer.Flush(dicom, countInstances_);
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45 target_.Write(dicom);
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46 }
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47 }
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48
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49
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50 DcmItem* DicomPyramidWriter::CreateFunctionalGroup(unsigned int frame,
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51 unsigned int x,
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52 unsigned int y,
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53 unsigned int totalWidth,
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54 unsigned int totalHeight,
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55 float physicalZ) const
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56 {
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57 float physicalX, physicalY;
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58 volume_.GetLocation(physicalX, physicalY, x, y, totalWidth, totalHeight);
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59
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60 std::string tmpX = boost::lexical_cast<std::string>(physicalX);
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61 std::string tmpY = boost::lexical_cast<std::string>(physicalY);
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62 std::string tmpZ = boost::lexical_cast<std::string>(physicalZ);
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63
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64 std::auto_ptr<DcmItem> dimension(new DcmItem);
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65 if (!dimension->putAndInsertUint32(DCM_DimensionIndexValues, frame).good())
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66 {
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67 throw Orthanc::OrthancException(Orthanc::ErrorCode_InternalError);
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68 }
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69
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70 // From Supp 145: The column position of the top left pixel of the
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71 // Total Pixel Matrix is 1. The row position of the top left pixel
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72 // of the Total Pixel Matrix is 1.
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73 std::auto_ptr<DcmItem> position(new DcmItem);
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74 if (!position->putAndInsertSint32(DCM_ColumnPositionInTotalImagePixelMatrix, x + 1).good() ||
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75 !position->putAndInsertSint32(DCM_RowPositionInTotalImagePixelMatrix, y + 1).good() ||
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76 !position->putAndInsertString(DCM_XOffsetInSlideCoordinateSystem, tmpX.c_str()).good() ||
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77 !position->putAndInsertString(DCM_YOffsetInSlideCoordinateSystem, tmpY.c_str()).good() ||
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78 !position->putAndInsertString(DCM_ZOffsetInSlideCoordinateSystem, tmpZ.c_str()).good())
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79 {
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80 throw Orthanc::OrthancException(Orthanc::ErrorCode_InternalError);
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81 }
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82
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83
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84 std::auto_ptr<DcmSequenceOfItems> sequencePosition(new DcmSequenceOfItems(DCM_PlanePositionSlideSequence));
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85 if (!sequencePosition->insert(position.release(), false, false).good())
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86 {
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87 throw Orthanc::OrthancException(Orthanc::ErrorCode_InternalError);
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88 }
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89
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90 std::auto_ptr<DcmSequenceOfItems> sequenceDimension(new DcmSequenceOfItems(DCM_FrameContentSequence));
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91 if (!sequenceDimension->insert(dimension.release(), false, false).good())
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92 {
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93 throw Orthanc::OrthancException(Orthanc::ErrorCode_InternalError);
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94 }
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95
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96 std::auto_ptr<DcmItem> item(new DcmItem);
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97 if (!item->insert(sequencePosition.release(), false, false).good() ||
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98 !item->insert(sequenceDimension.release(), false, false).good())
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99 {
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100 throw Orthanc::OrthancException(Orthanc::ErrorCode_InternalError);
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101 }
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102
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103 return item.release();
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104 }
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105
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106
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107 void DicomPyramidWriter::WriteRawTileInternal(const std::string& tile,
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108 const Level& level,
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109 unsigned int x,
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110 unsigned int y)
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111 {
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112 if (x >= level.countTilesX_ ||
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113 y >= level.countTilesY_)
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114 {
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115 LOG(ERROR) << "Tile index out of range: " << x << "," << y
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116 << " (max: " << level.countTilesX_ << "," << level.countTilesY_ << ")";
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117 throw Orthanc::OrthancException(Orthanc::ErrorCode_ParameterOutOfRange);
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118 }
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119
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120 const unsigned int z = level.z_;
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121
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122 {
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123 boost::mutex::scoped_lock lock(mutex_);
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124
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125 if (z >= writers_.size())
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126 {
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127 writers_.resize(z + 1);
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128 }
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129
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130 MultiframeDicomWriter* writer = writers_[z];
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131
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132 if (writer == NULL)
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133 {
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134 writer = new MultiframeDicomWriter
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135 (dataset_, GetImageCompression(), GetPixelFormat(), level.width_, level.height_,
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136 GetTileWidth(), GetTileHeight());
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137 writers_[z] = writer;
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138 }
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139
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140 std::auto_ptr<DcmItem> functionalGroup(CreateFunctionalGroup(writer->GetFramesCount() + 1,
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141 x * GetTileWidth(),
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142 y * GetTileHeight(),
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143 writer->GetTotalWidth(),
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144 writer->GetTotalHeight(),
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145 0.0f /* TODO Z-plane */));
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146
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147 writer->AddFrame(tile, functionalGroup.release());
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148 FlushInternal(*writer, false);
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149
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150 countTiles_ ++;
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151 }
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152 }
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153
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154
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155 DicomPyramidWriter::DicomPyramidWriter(IFileTarget& target,
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156 const DcmDataset& dataset,
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157 Orthanc::PixelFormat pixelFormat,
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158 ImageCompression compression,
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159 unsigned int tileWidth,
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160 unsigned int tileHeight,
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161 size_t maxSize, // If "0", no automatic flushing
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162 const ImagedVolumeParameters& volume) :
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163 PyramidWriterBase(pixelFormat, compression, tileWidth, tileHeight),
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164 target_(target),
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165 dataset_(dataset),
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166 maxSize_(maxSize),
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167 countTiles_(0),
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168 countInstances_(0),
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169 volume_(volume)
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170 {
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171 }
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172
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173
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174 DicomPyramidWriter::~DicomPyramidWriter()
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175 {
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176 LOG(WARNING) << "Closing the DICOM pyramid (" << countTiles_ << " tiles were written)";
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177
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178 for (size_t i = 0; i < writers_.size(); i++)
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179 {
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180 if (writers_[i] != NULL)
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181 {
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182 FlushInternal(*writers_[i], true);
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183 delete writers_[i];
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184 }
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185 }
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186 }
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187
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188
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189 void DicomPyramidWriter::Flush()
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190 {
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191 boost::mutex::scoped_lock lock(mutex_);
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192
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193 for (size_t i = 0; i < writers_.size(); i++)
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194 {
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195 FlushInternal(*writers_[i], true);
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196 }
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197 }
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198 }
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