Mercurial > hg > orthanc-wsi
annotate Framework/Outputs/DicomPyramidWriter.cpp @ 84:727670c5c125
fix generation of "Dimension Index Sequence" and "Dimension Index Values"
author | Sebastien Jodogne <s.jodogne@gmail.com> |
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date | Thu, 15 Dec 2016 12:36:20 +0100 |
parents | 7a3853d51c45 |
children | ff0ef01c332c |
rev | line source |
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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 | |
16
7a88c614be04
preparing for precompiled headers
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21 #include "../PrecompiledHeadersWSI.h" |
0 | 22 #include "DicomPyramidWriter.h" |
23 | |
24 #include "../DicomToolbox.h" | |
25 | |
59
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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); | |
84
727670c5c125
fix generation of "Dimension Index Sequence" and "Dimension Index Values"
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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64 |
727670c5c125
fix generation of "Dimension Index Sequence" and "Dimension Index Values"
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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65 // NB: Method DcmItem::putAndInsertUint32Array() should be used at |
727670c5c125
fix generation of "Dimension Index Sequence" and "Dimension Index Values"
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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66 // this point, but it is missing in DCMTK 3.6.0 |
727670c5c125
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parents:
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67 std::string index = (boost::lexical_cast<std::string>(x / GetTileWidth() + 1) + "\\" + |
727670c5c125
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68 boost::lexical_cast<std::string>(y / GetTileHeight() + 1)); |
0 | 69 |
70 std::auto_ptr<DcmItem> dimension(new DcmItem); | |
84
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parents:
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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 } |