Mercurial > hg > orthanc-wsi
annotate Framework/Outputs/DicomPyramidWriter.cpp @ 116:a18bfe1fdd62
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| author | Sebastien Jodogne <s.jodogne@gmail.com> |
|---|---|
| date | Thu, 04 Jan 2018 10:49:34 +0100 |
| parents | a51dee6a1515 |
| children | a0f9a3df1110 |
| rev | line source |
|---|---|
| 0 | 1 /** |
| 2 * Orthanc - A Lightweight, RESTful DICOM Store | |
| 3 * Copyright (C) 2012-2016 Sebastien Jodogne, Medical Physics | |
| 4 * Department, University Hospital of Liege, Belgium | |
|
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5 * Copyright (C) 2017-2018 Osimis S.A., Belgium |
| 0 | 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 | |
|
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22 #include "../PrecompiledHeadersWSI.h" |
| 0 | 23 #include "DicomPyramidWriter.h" |
| 24 | |
| 25 #include "../DicomToolbox.h" | |
| 26 | |
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27 #include "../../Resources/Orthanc/Core/Logging.h" |
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28 #include "../../Resources/Orthanc/Core/OrthancException.h" |
| 116 | 29 #include "../../Resources/Orthanc/Core/DicomParsing/FromDcmtkBridge.h" |
| 0 | 30 |
| 31 #include <dcmtk/dcmdata/dcdeftag.h> | |
| 32 #include <boost/lexical_cast.hpp> | |
| 33 | |
| 34 namespace OrthancWSI | |
| 35 { | |
| 36 void DicomPyramidWriter::FlushInternal(MultiframeDicomWriter& writer, | |
| 37 bool force) | |
| 38 { | |
| 39 if (writer.GetFramesCount() > 0 && | |
| 40 writer.GetSize() > 0 && | |
| 41 (force || (maxSize_ != 0 && writer.GetSize() >= maxSize_))) | |
| 42 { | |
| 43 countInstances_ += 1; | |
| 44 | |
| 45 std::string dicom; | |
| 46 writer.Flush(dicom, countInstances_); | |
| 47 target_.Write(dicom); | |
| 48 } | |
| 49 } | |
| 50 | |
| 51 | |
| 52 DcmItem* DicomPyramidWriter::CreateFunctionalGroup(unsigned int frame, | |
| 53 unsigned int x, | |
| 54 unsigned int y, | |
| 55 unsigned int totalWidth, | |
| 56 unsigned int totalHeight, | |
| 57 float physicalZ) const | |
| 58 { | |
| 59 float physicalX, physicalY; | |
| 60 volume_.GetLocation(physicalX, physicalY, x, y, totalWidth, totalHeight); | |
| 61 | |
| 62 std::string tmpX = boost::lexical_cast<std::string>(physicalX); | |
| 63 std::string tmpY = boost::lexical_cast<std::string>(physicalY); | |
| 64 std::string tmpZ = boost::lexical_cast<std::string>(physicalZ); | |
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65 |
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66 // NB: Method DcmItem::putAndInsertUint32Array() should be used at |
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67 // this point, but it is missing in DCMTK 3.6.0 |
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68 std::string index = (boost::lexical_cast<std::string>(x / GetTileWidth() + 1) + "\\" + |
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69 boost::lexical_cast<std::string>(y / GetTileHeight() + 1)); |
| 0 | 70 |
| 71 std::auto_ptr<DcmItem> dimension(new DcmItem); | |
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72 if (!dimension->putAndInsertString(DCM_DimensionIndexValues, index.c_str()).good()) |
| 0 | 73 { |
| 74 throw Orthanc::OrthancException(Orthanc::ErrorCode_InternalError); | |
| 75 } | |
| 76 | |
| 77 // From Supp 145: The column position of the top left pixel of the | |
| 78 // Total Pixel Matrix is 1. The row position of the top left pixel | |
| 79 // of the Total Pixel Matrix is 1. | |
| 80 std::auto_ptr<DcmItem> position(new DcmItem); | |
| 81 if (!position->putAndInsertSint32(DCM_ColumnPositionInTotalImagePixelMatrix, x + 1).good() || | |
| 82 !position->putAndInsertSint32(DCM_RowPositionInTotalImagePixelMatrix, y + 1).good() || | |
| 83 !position->putAndInsertString(DCM_XOffsetInSlideCoordinateSystem, tmpX.c_str()).good() || | |
| 84 !position->putAndInsertString(DCM_YOffsetInSlideCoordinateSystem, tmpY.c_str()).good() || | |
| 85 !position->putAndInsertString(DCM_ZOffsetInSlideCoordinateSystem, tmpZ.c_str()).good()) | |
| 86 { | |
| 87 throw Orthanc::OrthancException(Orthanc::ErrorCode_InternalError); | |
| 88 } | |
| 89 | |
| 90 | |
| 91 std::auto_ptr<DcmSequenceOfItems> sequencePosition(new DcmSequenceOfItems(DCM_PlanePositionSlideSequence)); | |
| 92 if (!sequencePosition->insert(position.release(), false, false).good()) | |
| 93 { | |
| 94 throw Orthanc::OrthancException(Orthanc::ErrorCode_InternalError); | |
| 95 } | |
| 96 | |
| 97 std::auto_ptr<DcmSequenceOfItems> sequenceDimension(new DcmSequenceOfItems(DCM_FrameContentSequence)); | |
| 98 if (!sequenceDimension->insert(dimension.release(), false, false).good()) | |
| 99 { | |
| 100 throw Orthanc::OrthancException(Orthanc::ErrorCode_InternalError); | |
| 101 } | |
| 102 | |
| 103 std::auto_ptr<DcmItem> item(new DcmItem); | |
| 104 if (!item->insert(sequencePosition.release(), false, false).good() || | |
| 105 !item->insert(sequenceDimension.release(), false, false).good()) | |
| 106 { | |
| 107 throw Orthanc::OrthancException(Orthanc::ErrorCode_InternalError); | |
| 108 } | |
| 109 | |
| 110 return item.release(); | |
| 111 } | |
| 112 | |
| 113 | |
| 114 void DicomPyramidWriter::WriteRawTileInternal(const std::string& tile, | |
| 115 const Level& level, | |
| 116 unsigned int x, | |
| 117 unsigned int y) | |
| 118 { | |
| 119 if (x >= level.countTilesX_ || | |
| 120 y >= level.countTilesY_) | |
| 121 { | |
| 122 LOG(ERROR) << "Tile index out of range: " << x << "," << y | |
| 123 << " (max: " << level.countTilesX_ << "," << level.countTilesY_ << ")"; | |
| 124 throw Orthanc::OrthancException(Orthanc::ErrorCode_ParameterOutOfRange); | |
| 125 } | |
| 126 | |
| 127 const unsigned int z = level.z_; | |
| 128 | |
| 129 { | |
| 130 boost::mutex::scoped_lock lock(mutex_); | |
| 131 | |
| 132 if (z >= writers_.size()) | |
| 133 { | |
| 134 writers_.resize(z + 1); | |
| 135 } | |
| 136 | |
| 137 MultiframeDicomWriter* writer = writers_[z]; | |
| 138 | |
| 139 if (writer == NULL) | |
| 140 { | |
| 141 writer = new MultiframeDicomWriter | |
| 142 (dataset_, GetImageCompression(), GetPixelFormat(), level.width_, level.height_, | |
| 143 GetTileWidth(), GetTileHeight()); | |
| 144 writers_[z] = writer; | |
| 145 } | |
| 146 | |
| 147 std::auto_ptr<DcmItem> functionalGroup(CreateFunctionalGroup(writer->GetFramesCount() + 1, | |
| 148 x * GetTileWidth(), | |
| 149 y * GetTileHeight(), | |
| 150 writer->GetTotalWidth(), | |
| 151 writer->GetTotalHeight(), | |
| 152 0.0f /* TODO Z-plane */)); | |
| 153 | |
| 154 writer->AddFrame(tile, functionalGroup.release()); | |
| 155 FlushInternal(*writer, false); | |
| 156 | |
| 157 countTiles_ ++; | |
| 158 } | |
| 159 } | |
| 160 | |
| 161 | |
| 162 DicomPyramidWriter::DicomPyramidWriter(IFileTarget& target, | |
| 163 const DcmDataset& dataset, | |
| 164 Orthanc::PixelFormat pixelFormat, | |
| 165 ImageCompression compression, | |
| 166 unsigned int tileWidth, | |
| 167 unsigned int tileHeight, | |
| 168 size_t maxSize, // If "0", no automatic flushing | |
| 169 const ImagedVolumeParameters& volume) : | |
| 170 PyramidWriterBase(pixelFormat, compression, tileWidth, tileHeight), | |
| 171 target_(target), | |
| 172 dataset_(dataset), | |
| 173 maxSize_(maxSize), | |
| 174 countTiles_(0), | |
| 175 countInstances_(0), | |
| 176 volume_(volume) | |
| 177 { | |
| 178 } | |
| 179 | |
| 180 | |
| 181 DicomPyramidWriter::~DicomPyramidWriter() | |
| 182 { | |
| 183 LOG(WARNING) << "Closing the DICOM pyramid (" << countTiles_ << " tiles were written)"; | |
| 184 | |
| 185 for (size_t i = 0; i < writers_.size(); i++) | |
| 186 { | |
| 187 if (writers_[i] != NULL) | |
| 188 { | |
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189 try |
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190 { |
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191 FlushInternal(*writers_[i], true); |
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192 } |
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193 catch (Orthanc::OrthancException&) |
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194 { |
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195 LOG(ERROR) << "Cannot push the pending tiles to the DICOM pyramid while finalizing"; |
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196 } |
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197 |
| 0 | 198 delete writers_[i]; |
| 199 } | |
| 200 } | |
| 201 } | |
| 202 | |
| 203 | |
| 204 void DicomPyramidWriter::Flush() | |
| 205 { | |
| 206 boost::mutex::scoped_lock lock(mutex_); | |
| 207 | |
| 208 for (size_t i = 0; i < writers_.size(); i++) | |
| 209 { | |
| 210 FlushInternal(*writers_[i], true); | |
| 211 } | |
| 212 } | |
| 213 } |