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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 "DicomPyramidInstance.h"
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22
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23 #include "../Orthanc/Core/Logging.h"
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24 #include "../Orthanc/Core/OrthancException.h"
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25 #include "../Orthanc/Core/Toolbox.h"
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26 #include "../DicomToolbox.h"
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27
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28 #include <cassert>
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29
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30 namespace OrthancWSI
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31 {
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32 static ImageCompression DetectImageCompression(const Json::Value& header)
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33 {
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34 std::string s = Orthanc::Toolbox::StripSpaces
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35 (DicomToolbox::GetMandatoryStringTag(header, "TransferSyntaxUID"));
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36
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37 if (s == "1.2.840.10008.1.2" ||
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38 s == "1.2.840.10008.1.2.1")
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39 {
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40 return ImageCompression_None;
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41 }
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42 else if (s == "1.2.840.10008.1.2.4.50")
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43 {
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44 return ImageCompression_Jpeg;
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45 }
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46 else if (s == "1.2.840.10008.1.2.4.90" ||
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47 s == "1.2.840.10008.1.2.4.91")
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48 {
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49 return ImageCompression_Jpeg2000;
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50 }
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51 else
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52 {
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53 LOG(ERROR) << "Unsupported transfer syntax: " << s;
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54 throw Orthanc::OrthancException(Orthanc::ErrorCode_NotImplemented);
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55 }
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56 }
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57
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58
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59 static Orthanc::PixelFormat DetectPixelFormat(const Json::Value& dicom)
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60 {
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61 std::string photometric = Orthanc::Toolbox::StripSpaces
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62 (DicomToolbox::GetMandatoryStringTag(dicom, "PhotometricInterpretation"));
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63
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64 if (photometric == "PALETTE")
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65 {
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66 LOG(ERROR) << "Unsupported photometric interpretation: " << photometric;
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67 throw Orthanc::OrthancException(Orthanc::ErrorCode_NotImplemented);
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68 }
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69
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70 unsigned int bitsStored = DicomToolbox::GetUnsignedIntegerTag(dicom, "BitsStored");
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71 unsigned int samplesPerPixel = DicomToolbox::GetUnsignedIntegerTag(dicom, "SamplesPerPixel");
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72 bool isSigned = (DicomToolbox::GetUnsignedIntegerTag(dicom, "PixelRepresentation") != 0);
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73
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74 if (bitsStored == 8 &&
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75 samplesPerPixel == 1 &&
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76 !isSigned)
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77 {
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78 return Orthanc::PixelFormat_Grayscale8;
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79 }
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80 else if (bitsStored == 8 &&
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81 samplesPerPixel == 3 &&
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82 !isSigned)
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83 {
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84 return Orthanc::PixelFormat_RGB24;
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85 }
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86 else
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87 {
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88 LOG(ERROR) << "Unsupported pixel format";
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89 throw Orthanc::OrthancException(Orthanc::ErrorCode_NotImplemented);
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90 }
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91 }
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92
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93
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94 DicomPyramidInstance::DicomPyramidInstance(IOrthancConnection& orthanc,
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95 const std::string& instanceId) :
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96 instanceId_(instanceId)
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97 {
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98 Json::Value dicom, header;
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99 IOrthancConnection::RestApiGet(dicom, orthanc, "/instances/" + instanceId + "/tags?simplify");
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100 IOrthancConnection::RestApiGet(header, orthanc, "/instances/" + instanceId + "/header?simplify");
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101
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102 if (DicomToolbox::GetMandatoryStringTag(dicom, "SOPClassUID") != "1.2.840.10008.5.1.4.1.1.77.1.6" ||
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103 DicomToolbox::GetMandatoryStringTag(dicom, "Modality") != "SM")
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104 {
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105 throw Orthanc::OrthancException(Orthanc::ErrorCode_ParameterOutOfRange);
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106 }
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107
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108 compression_ = DetectImageCompression(header);
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109 format_ = DetectPixelFormat(dicom);
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110 tileWidth_ = DicomToolbox::GetUnsignedIntegerTag(dicom, "Columns");
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111 tileHeight_ = DicomToolbox::GetUnsignedIntegerTag(dicom, "Rows");
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112 totalWidth_ = DicomToolbox::GetUnsignedIntegerTag(dicom, "TotalPixelMatrixColumns");
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113 totalHeight_ = DicomToolbox::GetUnsignedIntegerTag(dicom, "TotalPixelMatrixRows");
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114
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115 const Json::Value& frames = DicomToolbox::GetSequenceTag(dicom, "PerFrameFunctionalGroupsSequence");
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116
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117 if (frames.size() != DicomToolbox::GetUnsignedIntegerTag(dicom, "NumberOfFrames"))
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118 {
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119 LOG(ERROR) << "Mismatch between the number of frames in instance: " << instanceId;
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120 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadFileFormat);
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121 }
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122
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123 frames_.resize(frames.size());
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124
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125 for (Json::Value::ArrayIndex i = 0; i < frames.size(); i++)
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126 {
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127 const Json::Value& frame = DicomToolbox::GetSequenceTag(frames[i], "PlanePositionSlideSequence");
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128 if (frame.size() != 1)
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129 {
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130 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadFileFormat);
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131 }
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132
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133 // "-1", because coordinates are shifted by 1 in DICOM
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134 int xx = DicomToolbox::GetIntegerTag(frame[0], "ColumnPositionInTotalImagePixelMatrix") - 1;
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135 int yy = DicomToolbox::GetIntegerTag(frame[0], "RowPositionInTotalImagePixelMatrix") - 1;
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136
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137 unsigned int x = static_cast<unsigned int>(xx);
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138 unsigned int y = static_cast<unsigned int>(yy);
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139
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140 if (xx < 0 ||
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141 yy < 0 ||
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142 x % tileWidth_ != 0 ||
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143 y % tileHeight_ != 0 ||
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144 x >= totalWidth_ ||
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145 y >= totalHeight_)
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146 {
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147 LOG(ERROR) << "Frame " << i << " with unexpected tile location ("
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148 << x << "," << y << ") in instance: " << instanceId;
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149 throw Orthanc::OrthancException(Orthanc::ErrorCode_BadFileFormat);
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150 }
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151
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152 frames_[i].first = x / tileWidth_;
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153 frames_[i].second = y / tileHeight_;
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154 }
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155 }
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156
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157
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158 unsigned int DicomPyramidInstance::GetFrameLocationX(size_t frame) const
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159 {
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160 assert(frame < frames_.size());
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161 return frames_[frame].first;
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162 }
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163
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164
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165 unsigned int DicomPyramidInstance::GetFrameLocationY(size_t frame) const
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166 {
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167 assert(frame < frames_.size());
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168 return frames_[frame].second;
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169 }
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170 }
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