Mercurial > hg > orthanc-wsi
annotate Framework/Outputs/DicomPyramidWriter.cpp @ 95:8dfc5bbf80f5 OrthancWSI-0.3
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| author | Sebastien Jodogne <s.jodogne@gmail.com> |
|---|---|
| date | Fri, 23 Dec 2016 17:06:27 +0100 |
| parents | 727670c5c125 |
| children | ff0ef01c332c |
| 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 | |
| 5 * | |
| 6 * This program is free software: you can redistribute it and/or | |
| 7 * modify it under the terms of the GNU Affero General Public License | |
| 8 * as published by the Free Software Foundation, either version 3 of | |
| 9 * the License, or (at your option) any later version. | |
| 10 * | |
| 11 * This program is distributed in the hope that it will be useful, but | |
| 12 * WITHOUT ANY WARRANTY; without even the implied warranty of | |
| 13 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU | |
| 14 * Affero General Public License for more details. | |
| 15 * | |
| 16 * You should have received a copy of the GNU Affero General Public License | |
| 17 * along with this program. If not, see <http://www.gnu.org/licenses/>. | |
| 18 **/ | |
| 19 | |
| 20 | |
|
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21 #include "../PrecompiledHeadersWSI.h" |
| 0 | 22 #include "DicomPyramidWriter.h" |
| 23 | |
| 24 #include "../DicomToolbox.h" | |
| 25 | |
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26 #include "../../Resources/Orthanc/Core/Logging.h" |
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27 #include "../../Resources/Orthanc/Core/OrthancException.h" |
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28 #include "../../Resources/Orthanc/OrthancServer/FromDcmtkBridge.h" |
| 0 | 29 |
| 30 #include <dcmtk/dcmdata/dcdeftag.h> | |
| 31 #include <boost/lexical_cast.hpp> | |
| 32 | |
| 33 namespace OrthancWSI | |
| 34 { | |
| 35 void DicomPyramidWriter::FlushInternal(MultiframeDicomWriter& writer, | |
| 36 bool force) | |
| 37 { | |
| 38 if (writer.GetFramesCount() > 0 && | |
| 39 writer.GetSize() > 0 && | |
| 40 (force || (maxSize_ != 0 && writer.GetSize() >= maxSize_))) | |
| 41 { | |
| 42 countInstances_ += 1; | |
| 43 | |
| 44 std::string dicom; | |
| 45 writer.Flush(dicom, countInstances_); | |
| 46 target_.Write(dicom); | |
| 47 } | |
| 48 } | |
| 49 | |
| 50 | |
| 51 DcmItem* DicomPyramidWriter::CreateFunctionalGroup(unsigned int frame, | |
| 52 unsigned int x, | |
| 53 unsigned int y, | |
| 54 unsigned int totalWidth, | |
| 55 unsigned int totalHeight, | |
| 56 float physicalZ) const | |
| 57 { | |
| 58 float physicalX, physicalY; | |
| 59 volume_.GetLocation(physicalX, physicalY, x, y, totalWidth, totalHeight); | |
| 60 | |
| 61 std::string tmpX = boost::lexical_cast<std::string>(physicalX); | |
| 62 std::string tmpY = boost::lexical_cast<std::string>(physicalY); | |
| 63 std::string tmpZ = boost::lexical_cast<std::string>(physicalZ); | |
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64 |
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65 // NB: Method DcmItem::putAndInsertUint32Array() should be used at |
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66 // this point, but it is missing in DCMTK 3.6.0 |
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67 std::string index = (boost::lexical_cast<std::string>(x / GetTileWidth() + 1) + "\\" + |
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68 boost::lexical_cast<std::string>(y / GetTileHeight() + 1)); |
| 0 | 69 |
| 70 std::auto_ptr<DcmItem> dimension(new DcmItem); | |
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71 if (!dimension->putAndInsertString(DCM_DimensionIndexValues, index.c_str()).good()) |
| 0 | 72 { |
| 73 throw Orthanc::OrthancException(Orthanc::ErrorCode_InternalError); | |
| 74 } | |
| 75 | |
| 76 // From Supp 145: The column position of the top left pixel of the | |
| 77 // Total Pixel Matrix is 1. The row position of the top left pixel | |
| 78 // of the Total Pixel Matrix is 1. | |
| 79 std::auto_ptr<DcmItem> position(new DcmItem); | |
| 80 if (!position->putAndInsertSint32(DCM_ColumnPositionInTotalImagePixelMatrix, x + 1).good() || | |
| 81 !position->putAndInsertSint32(DCM_RowPositionInTotalImagePixelMatrix, y + 1).good() || | |
| 82 !position->putAndInsertString(DCM_XOffsetInSlideCoordinateSystem, tmpX.c_str()).good() || | |
| 83 !position->putAndInsertString(DCM_YOffsetInSlideCoordinateSystem, tmpY.c_str()).good() || | |
| 84 !position->putAndInsertString(DCM_ZOffsetInSlideCoordinateSystem, tmpZ.c_str()).good()) | |
| 85 { | |
| 86 throw Orthanc::OrthancException(Orthanc::ErrorCode_InternalError); | |
| 87 } | |
| 88 | |
| 89 | |
| 90 std::auto_ptr<DcmSequenceOfItems> sequencePosition(new DcmSequenceOfItems(DCM_PlanePositionSlideSequence)); | |
| 91 if (!sequencePosition->insert(position.release(), false, false).good()) | |
| 92 { | |
| 93 throw Orthanc::OrthancException(Orthanc::ErrorCode_InternalError); | |
| 94 } | |
| 95 | |
| 96 std::auto_ptr<DcmSequenceOfItems> sequenceDimension(new DcmSequenceOfItems(DCM_FrameContentSequence)); | |
| 97 if (!sequenceDimension->insert(dimension.release(), false, false).good()) | |
| 98 { | |
| 99 throw Orthanc::OrthancException(Orthanc::ErrorCode_InternalError); | |
| 100 } | |
| 101 | |
| 102 std::auto_ptr<DcmItem> item(new DcmItem); | |
| 103 if (!item->insert(sequencePosition.release(), false, false).good() || | |
| 104 !item->insert(sequenceDimension.release(), false, false).good()) | |
| 105 { | |
| 106 throw Orthanc::OrthancException(Orthanc::ErrorCode_InternalError); | |
| 107 } | |
| 108 | |
| 109 return item.release(); | |
| 110 } | |
| 111 | |
| 112 | |
| 113 void DicomPyramidWriter::WriteRawTileInternal(const std::string& tile, | |
| 114 const Level& level, | |
| 115 unsigned int x, | |
| 116 unsigned int y) | |
| 117 { | |
| 118 if (x >= level.countTilesX_ || | |
| 119 y >= level.countTilesY_) | |
| 120 { | |
| 121 LOG(ERROR) << "Tile index out of range: " << x << "," << y | |
| 122 << " (max: " << level.countTilesX_ << "," << level.countTilesY_ << ")"; | |
| 123 throw Orthanc::OrthancException(Orthanc::ErrorCode_ParameterOutOfRange); | |
| 124 } | |
| 125 | |
| 126 const unsigned int z = level.z_; | |
| 127 | |
| 128 { | |
| 129 boost::mutex::scoped_lock lock(mutex_); | |
| 130 | |
| 131 if (z >= writers_.size()) | |
| 132 { | |
| 133 writers_.resize(z + 1); | |
| 134 } | |
| 135 | |
| 136 MultiframeDicomWriter* writer = writers_[z]; | |
| 137 | |
| 138 if (writer == NULL) | |
| 139 { | |
| 140 writer = new MultiframeDicomWriter | |
| 141 (dataset_, GetImageCompression(), GetPixelFormat(), level.width_, level.height_, | |
| 142 GetTileWidth(), GetTileHeight()); | |
| 143 writers_[z] = writer; | |
| 144 } | |
| 145 | |
| 146 std::auto_ptr<DcmItem> functionalGroup(CreateFunctionalGroup(writer->GetFramesCount() + 1, | |
| 147 x * GetTileWidth(), | |
| 148 y * GetTileHeight(), | |
| 149 writer->GetTotalWidth(), | |
| 150 writer->GetTotalHeight(), | |
| 151 0.0f /* TODO Z-plane */)); | |
| 152 | |
| 153 writer->AddFrame(tile, functionalGroup.release()); | |
| 154 FlushInternal(*writer, false); | |
| 155 | |
| 156 countTiles_ ++; | |
| 157 } | |
| 158 } | |
| 159 | |
| 160 | |
| 161 DicomPyramidWriter::DicomPyramidWriter(IFileTarget& target, | |
| 162 const DcmDataset& dataset, | |
| 163 Orthanc::PixelFormat pixelFormat, | |
| 164 ImageCompression compression, | |
| 165 unsigned int tileWidth, | |
| 166 unsigned int tileHeight, | |
| 167 size_t maxSize, // If "0", no automatic flushing | |
| 168 const ImagedVolumeParameters& volume) : | |
| 169 PyramidWriterBase(pixelFormat, compression, tileWidth, tileHeight), | |
| 170 target_(target), | |
| 171 dataset_(dataset), | |
| 172 maxSize_(maxSize), | |
| 173 countTiles_(0), | |
| 174 countInstances_(0), | |
| 175 volume_(volume) | |
| 176 { | |
| 177 } | |
| 178 | |
| 179 | |
| 180 DicomPyramidWriter::~DicomPyramidWriter() | |
| 181 { | |
| 182 LOG(WARNING) << "Closing the DICOM pyramid (" << countTiles_ << " tiles were written)"; | |
| 183 | |
| 184 for (size_t i = 0; i < writers_.size(); i++) | |
| 185 { | |
| 186 if (writers_[i] != NULL) | |
| 187 { | |
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188 try |
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189 { |
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190 FlushInternal(*writers_[i], true); |
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191 } |
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192 catch (Orthanc::OrthancException&) |
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193 { |
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194 LOG(ERROR) << "Cannot push the pending tiles to the DICOM pyramid while finalizing"; |
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195 } |
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196 |
| 0 | 197 delete writers_[i]; |
| 198 } | |
| 199 } | |
| 200 } | |
| 201 | |
| 202 | |
| 203 void DicomPyramidWriter::Flush() | |
| 204 { | |
| 205 boost::mutex::scoped_lock lock(mutex_); | |
| 206 | |
| 207 for (size_t i = 0; i < writers_.size(); i++) | |
| 208 { | |
| 209 FlushInternal(*writers_[i], true); | |
| 210 } | |
| 211 } | |
| 212 } |