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annotate OrthancServer/Internals/DicomFrameIndex.cpp @ 1924:6c73df12ca51

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New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
author Sebastien Jodogne <s.jodogne@gmail.com>
date Mon, 07 Mar 2016 17:43:20 +0100
parents
children 84c7eaeb5244
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1924
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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 General Public License as
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8 * published by the Free Software Foundation, either version 3 of the
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9 * License, or (at your option) any later version.
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10 *
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11 * In addition, as a special exception, the copyright holders of this
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12 * program give permission to link the code of its release with the
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13 * OpenSSL project's "OpenSSL" library (or with modified versions of it
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14 * that use the same license as the "OpenSSL" library), and distribute
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15 * the linked executables. You must obey the GNU General Public License
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16 * in all respects for all of the code used other than "OpenSSL". If you
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17 * modify file(s) with this exception, you may extend this exception to
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18 * your version of the file(s), but you are not obligated to do so. If
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19 * you do not wish to do so, delete this exception statement from your
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20 * version. If you delete this exception statement from all source files
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21 * in the program, then also delete it here.
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22 *
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23 * This program is distributed in the hope that it will be useful, but
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24 * WITHOUT ANY WARRANTY; without even the implied warranty of
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25 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU
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26 * General Public License for more details.
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27 *
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28 * You should have received a copy of the GNU General Public License
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29 * along with this program. If not, see <http://www.gnu.org/licenses/>.
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30 **/
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31
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32
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33 #include "../PrecompiledHeadersServer.h"
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34 #include "DicomFrameIndex.h"
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35
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36 #include "../../Core/OrthancException.h"
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37 #include "../../Core/DicomFormat/DicomImageInformation.h"
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38 #include "../FromDcmtkBridge.h"
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39 #include "DicomImageDecoder.h"
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40
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41 #include <boost/lexical_cast.hpp>
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42
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43 #include <dcmtk/dcmdata/dcdeftag.h>
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44 #include <dcmtk/dcmdata/dcpxitem.h>
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45 #include <dcmtk/dcmdata/dcpixseq.h>
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46
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47 #if defined(_WIN32) // Windows machines are always little-endian
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48 # define le32toh(x) x
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49 #elif defined(__APPLE__)
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50 # include <libkern/OSByteOrder.h>
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51 # define le32toh(x) OSSwapLittleToHostInt32(x)
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52 #else
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53 # include <endian.h>
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54 #endif
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55
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56
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57 namespace Orthanc
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58 {
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59 class DicomFrameIndex::FragmentIndex : public DicomFrameIndex::IIndex
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60 {
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61 private:
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62 DcmPixelSequence* pixelSequence_;
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63 std::vector<DcmPixelItem*> startFragment_;
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64 std::vector<unsigned int> countFragments_;
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65 std::vector<unsigned int> frameSize_;
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66
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67 void GetOffsetTable(std::vector<uint32_t>& table)
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68 {
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69 DcmPixelItem* item = NULL;
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70 if (!pixelSequence_->getItem(item, 0).good() ||
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71 item == NULL)
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72 {
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73 throw OrthancException(ErrorCode_BadFileFormat);
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74 }
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75
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76 uint32_t length = item->getLength();
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77 if (length == 0)
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78 {
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79 table.clear();
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80 return;
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81 }
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82
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83 if (length % 4 != 0)
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84 {
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85 // Error: Each fragment is index with 4 bytes (uint32_t)
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86 throw OrthancException(ErrorCode_BadFileFormat);
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87 }
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88
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89 uint8_t* content = NULL;
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90 if (!item->getUint8Array(content).good() ||
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91 content == NULL)
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92 {
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93 throw OrthancException(ErrorCode_InternalError);
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94 }
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95
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96 table.resize(length / 4);
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97
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98 // The offset table is always in little endian in the DICOM
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99 // file. Swap it to host endianness if needed.
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100 const uint32_t* offset = reinterpret_cast<const uint32_t*>(content);
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101 for (size_t i = 0; i < table.size(); i++, offset++)
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102 {
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103 table[i] = le32toh(*offset);
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104 }
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105 }
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106
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107
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108 public:
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109 FragmentIndex(DcmPixelSequence* pixelSequence,
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110 unsigned int countFrames) :
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111 pixelSequence_(pixelSequence)
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112 {
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113 assert(pixelSequence != NULL);
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114
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115 startFragment_.resize(countFrames);
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116 countFragments_.resize(countFrames);
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117 frameSize_.resize(countFrames);
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118
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119 // The first fragment corresponds to the offset table
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120 unsigned int countFragments = static_cast<unsigned int>(pixelSequence_->card());
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121 if (countFragments < countFrames + 1)
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122 {
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123 throw OrthancException(ErrorCode_BadFileFormat);
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124 }
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125
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126 if (countFragments == countFrames + 1)
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127 {
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128 // Simple case: There is one fragment per frame.
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129
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130 DcmObject* fragment = pixelSequence_->nextInContainer(NULL); // Skip the offset table
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131 if (fragment == NULL)
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132 {
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133 throw OrthancException(ErrorCode_InternalError);
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134 }
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135
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136 for (unsigned int i = 0; i < countFrames; i++)
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137 {
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138 fragment = pixelSequence_->nextInContainer(fragment);
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139 startFragment_[i] = dynamic_cast<DcmPixelItem*>(fragment);
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140 frameSize_[i] = fragment->getLength();
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141 countFragments_[i] = 1;
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142 }
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143
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144 return;
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145 }
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146
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147 // Parse the offset table
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148 std::vector<uint32_t> offsetOfFrame;
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149 GetOffsetTable(offsetOfFrame);
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150
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151 if (offsetOfFrame.size() != countFrames ||
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152 offsetOfFrame[0] != 0)
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153 {
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154 throw OrthancException(ErrorCode_BadFileFormat);
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155 }
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156
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157
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158 // Loop over the fragments (ignoring the offset table). This is
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159 // an alternative, faster implementation to DCMTK's
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160 // "DcmCodec::determineStartFragment()".
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161 DcmObject* fragment = pixelSequence_->nextInContainer(NULL);
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162 if (fragment == NULL)
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163 {
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164 throw OrthancException(ErrorCode_InternalError);
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165 }
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166
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167 fragment = pixelSequence_->nextInContainer(fragment); // Skip the offset table
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168 if (fragment == NULL)
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169 {
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diff changeset
170 throw OrthancException(ErrorCode_InternalError);
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171 }
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172
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173 uint32_t offset = 0;
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174 unsigned int currentFrame = 0;
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175 startFragment_[0] = dynamic_cast<DcmPixelItem*>(fragment);
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176
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177 unsigned int currentFragment = 1;
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178 while (fragment != NULL)
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179 {
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180 if (currentFrame + 1 < countFrames &&
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181 offset == offsetOfFrame[currentFrame + 1])
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182 {
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183 currentFrame += 1;
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184 startFragment_[currentFrame] = dynamic_cast<DcmPixelItem*>(fragment);
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185 }
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186
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187 frameSize_[currentFrame] += fragment->getLength();
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188 countFragments_[currentFrame]++;
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189
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190 // 8 bytes = overhead for the item tag and length field
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191 offset += fragment->getLength() + 8;
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192
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193 currentFragment++;
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194 fragment = pixelSequence_->nextInContainer(fragment);
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195 }
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196
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197 if (currentFragment != countFragments ||
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198 currentFrame + 1 != countFrames ||
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diff changeset
199 fragment != NULL)
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diff changeset
200 {
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diff changeset
201 throw OrthancException(ErrorCode_BadFileFormat);
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202 }
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diff changeset
203
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204 assert(startFragment_.size() == countFragments_.size() &&
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diff changeset
205 startFragment_.size() == frameSize_.size());
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206 }
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parents:
diff changeset
207
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208
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209 virtual void GetRawFrame(std::string& frame,
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210 unsigned int index) const
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211 {
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parents:
diff changeset
212 if (index >= startFragment_.size())
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
213 {
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
214 throw OrthancException(ErrorCode_ParameterOutOfRange);
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
215 }
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
216
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
217 frame.resize(frameSize_[index]);
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
218 if (frame.size() == 0)
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
219 {
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
220 return;
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
221 }
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
222
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
223 uint8_t* target = reinterpret_cast<uint8_t*>(&frame[0]);
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
224
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
225 size_t offset = 0;
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
226 DcmPixelItem* fragment = startFragment_[index];
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
227 for (unsigned int i = 0; i < countFragments_[index]; i++)
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
228 {
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
229 uint8_t* content = NULL;
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
230 if (!fragment->getUint8Array(content).good() ||
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
231 content == NULL)
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
232 {
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
233 throw OrthancException(ErrorCode_InternalError);
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
234 }
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
235
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
236 assert(offset + fragment->getLength() <= frame.size());
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
237
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
238 memcpy(target + offset, content, fragment->getLength());
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
239 offset += fragment->getLength();
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
240
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
241 fragment = dynamic_cast<DcmPixelItem*>(pixelSequence_->nextInContainer(fragment));
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
242 }
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
243 }
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
244 };
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
245
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
246
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
247
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
248 class DicomFrameIndex::UncompressedIndex : public DicomFrameIndex::IIndex
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
249 {
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
250 private:
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
251 uint8_t* pixelData_;
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
252 size_t frameSize_;
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
253
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
254 public:
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
255 UncompressedIndex(DcmDataset& dataset,
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
256 unsigned int countFrames,
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
257 size_t frameSize) :
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
258 pixelData_(NULL),
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
259 frameSize_(frameSize)
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
260 {
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
261 size_t size = 0;
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
262
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
263 DcmElement* e;
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
264 if (dataset.findAndGetElement(DCM_PixelData, e).good() &&
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
265 e != NULL)
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
266 {
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
267 size = e->getLength();
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
268
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
269 if (size > 0)
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
270 {
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
271 pixelData_ = NULL;
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
272 if (!e->getUint8Array(pixelData_).good() ||
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
273 pixelData_ == NULL)
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
274 {
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
275 throw OrthancException(ErrorCode_BadFileFormat);
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
276 }
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
277 }
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
278 }
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
279
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
280 if (size < frameSize_ * countFrames)
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
281 {
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
282 throw OrthancException(ErrorCode_BadFileFormat);
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
283 }
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
284 }
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
285
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
286 virtual void GetRawFrame(std::string& frame,
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
287 unsigned int index) const
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
288 {
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
289 frame.resize(frameSize_);
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
290 if (frameSize_ > 0)
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
291 {
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
292 memcpy(&frame[0], pixelData_ + index * frameSize_, frameSize_);
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
293 }
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
294 }
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
295 };
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
296
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
297
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
298 class DicomFrameIndex::PsmctRle1Index : public DicomFrameIndex::IIndex
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
299 {
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
300 private:
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
301 std::string pixelData_;
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
302 size_t frameSize_;
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
303
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
304 public:
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
305 PsmctRle1Index(DcmDataset& dataset,
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
306 unsigned int countFrames,
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
307 size_t frameSize) :
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
308 frameSize_(frameSize)
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
309 {
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
310 if (!DicomImageDecoder::DecodePsmctRle1(pixelData_, dataset) ||
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
311 pixelData_.size() < frameSize * countFrames)
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
312 {
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
313 throw OrthancException(ErrorCode_BadFileFormat);
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
314 }
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
315 }
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
316
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
317 virtual void GetRawFrame(std::string& frame,
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
318 unsigned int index) const
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
319 {
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
320 frame.resize(frameSize_);
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
321 if (frameSize_ > 0)
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
322 {
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
323 memcpy(&frame[0], reinterpret_cast<const uint8_t*>(&pixelData_[0]) + index * frameSize_, frameSize_);
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
324 }
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
325 }
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
326 };
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
327
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
328
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
329
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
330
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
331 unsigned int DicomFrameIndex::GetFramesCount(DcmDataset& dataset)
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
332 {
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
333 const char* tmp = NULL;
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
334 if (!dataset.findAndGetString(DCM_NumberOfFrames, tmp).good() ||
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
335 tmp == NULL)
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
336 {
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
337 return 1;
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
338 }
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
339
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
340 int count = -1;
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
341 try
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
342 {
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
343 count = boost::lexical_cast<int>(tmp);
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
344 }
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
345 catch (boost::bad_lexical_cast&)
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
346 {
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
347 }
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
348
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
349 if (count < 0)
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
350 {
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
351 throw OrthancException(ErrorCode_BadFileFormat);
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
352 }
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
353 else
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
354 {
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
355 return count;
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
356 }
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
357 }
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
358
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
359
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
360 DicomFrameIndex::DicomFrameIndex(DcmDataset& dataset)
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
361 {
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
362 countFrames_ = GetFramesCount(dataset);
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
363 if (countFrames_ == 0)
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
364 {
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
365 // The image has no frame. No index is to be built.
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
366 return;
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
367 }
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
368
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
369 // Test whether this image is composed of a sequence of fragments
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
370 DcmPixelSequence* pixelSequence = FromDcmtkBridge::GetPixelSequence(dataset);
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
371 if (pixelSequence != NULL)
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
372 {
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
373 index_.reset(new FragmentIndex(pixelSequence, countFrames_));
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
374 return;
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
375 }
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
376
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
377 // Extract information about the image structure
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
378 DicomMap tags;
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
379 FromDcmtkBridge::Convert(tags, dataset);
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
380
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
381 DicomImageInformation information(tags);
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
382
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
383 // Access to the raw pixel data
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
384 if (DicomImageDecoder::IsPsmctRle1(dataset))
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
385 {
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
386 index_.reset(new PsmctRle1Index(dataset, countFrames_, information.GetFrameSize()));
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
387 }
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
388 else
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
389 {
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
390 index_.reset(new UncompressedIndex(dataset, countFrames_, information.GetFrameSize()));
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
391 }
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
392 }
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
393
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
394
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
395 void DicomFrameIndex::GetRawFrame(std::string& frame,
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
396 unsigned int index) const
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
397 {
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
398 if (index >= countFrames_)
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
399 {
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
400 throw OrthancException(ErrorCode_ParameterOutOfRange);
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
401 }
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
402 else if (index_.get() != NULL)
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
403 {
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
404 return index_->GetRawFrame(frame, index);
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
405 }
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
406 else
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
407 {
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
408 frame.clear();
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
409 }
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
410 }
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
411 }