Mercurial > hg > orthanc
annotate OrthancFramework/Sources/DicomParsing/ParsedDicomFile.cpp @ 5345:34781fb0172a
fix unit test Versions.BoostStatic
| author | Sebastien Jodogne <s.jodogne@gmail.com> |
|---|---|
| date | Wed, 28 Jun 2023 12:40:46 +0200 |
| parents | 138e9d0c08c1 |
| children | 303e930fff0f |
| rev | line source |
|---|---|
| 790 | 1 /** |
| 2 * Orthanc - A Lightweight, RESTful DICOM Store | |
| 1900 | 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 * Copyright (C) 2017-2023 Osimis S.A., Belgium |
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6 * Copyright (C) 2021-2023 Sebastien Jodogne, ICTEAM UCLouvain, Belgium |
| 790 | 7 * |
| 8 * This program is free software: you can redistribute it and/or | |
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9 * modify it under the terms of the GNU Lesser General Public License |
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10 * as published by the Free Software Foundation, either version 3 of |
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11 * the License, or (at your option) any later version. |
| 790 | 12 * |
| 13 * This program is distributed in the hope that it will be useful, but | |
| 14 * WITHOUT ANY WARRANTY; without even the implied warranty of | |
| 15 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU | |
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16 * Lesser General Public License for more details. |
| 790 | 17 * |
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18 * You should have received a copy of the GNU Lesser General Public |
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19 * License along with this program. If not, see |
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20 * <http://www.gnu.org/licenses/>. |
| 790 | 21 **/ |
| 22 | |
| 23 | |
| 24 | |
| 25 /*========================================================================= | |
| 26 | |
| 27 This file is based on portions of the following project: | |
| 28 | |
| 29 Program: GDCM (Grassroots DICOM). A DICOM library | |
| 30 Module: http://gdcm.sourceforge.net/Copyright.html | |
| 31 | |
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32 Copyright (c) 2006-2011 Mathieu Malaterre |
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33 Copyright (c) 1993-2005 CREATIS |
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34 (CREATIS = Centre de Recherche et d'Applications en Traitement de l'Image) |
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35 All rights reserved. |
| 790 | 36 |
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37 Redistribution and use in source and binary forms, with or without |
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38 modification, are permitted provided that the following conditions are met: |
| 790 | 39 |
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40 * Redistributions of source code must retain the above copyright notice, |
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41 this list of conditions and the following disclaimer. |
| 790 | 42 |
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43 * Redistributions in binary form must reproduce the above copyright notice, |
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44 this list of conditions and the following disclaimer in the documentation |
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45 and/or other materials provided with the distribution. |
| 790 | 46 |
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47 * Neither name of Mathieu Malaterre, or CREATIS, nor the names of any |
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48 contributors (CNRS, INSERM, UCB, Universite Lyon I), may be used to |
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49 endorse or promote products derived from this software without specific |
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50 prior written permission. |
| 790 | 51 |
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52 THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS ``AS IS'' |
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53 AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE |
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54 IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE |
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55 ARE DISCLAIMED. IN NO EVENT SHALL THE AUTHORS OR CONTRIBUTORS BE LIABLE FOR |
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56 ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL |
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57 DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR |
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58 SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER |
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59 CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, |
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60 OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE |
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61 OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. |
| 790 | 62 |
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63 =========================================================================*/ |
| 790 | 64 |
| 65 | |
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66 #include "../PrecompiledHeaders.h" |
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67 |
| 790 | 68 #ifndef NOMINMAX |
| 69 #define NOMINMAX | |
| 70 #endif | |
| 71 | |
| 72 #include "ParsedDicomFile.h" | |
| 73 | |
| 74 #include "FromDcmtkBridge.h" | |
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75 #include "Internals/DicomFrameIndex.h" |
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76 #include "Internals/DicomImageDecoder.h" |
| 790 | 77 #include "ToDcmtkBridge.h" |
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78 |
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79 #include "../DicomFormat/DicomImageInformation.h" |
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80 #include "../Images/Image.h" |
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81 #include "../Images/ImageProcessing.h" |
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82 #include "../Images/PamReader.h" |
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83 #include "../Logging.h" |
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84 #include "../OrthancException.h" |
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85 #include "../SerializationToolbox.h" |
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86 #include "../Toolbox.h" |
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87 |
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88 #if ORTHANC_SANDBOXED == 0 |
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89 # include "../SystemToolbox.h" |
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90 #endif |
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92 #if ORTHANC_ENABLE_JPEG == 1 |
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93 # include "../Images/JpegReader.h" |
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94 #endif |
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95 |
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96 #if ORTHANC_ENABLE_PNG == 1 |
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97 # include "../Images/PngReader.h" |
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98 #endif |
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99 |
| 790 | 100 #include <list> |
| 101 #include <limits> | |
| 102 | |
| 103 #include <boost/lexical_cast.hpp> | |
| 104 | |
| 105 #include <dcmtk/dcmdata/dcchrstr.h> | |
| 106 #include <dcmtk/dcmdata/dcdicent.h> | |
| 107 #include <dcmtk/dcmdata/dcdict.h> | |
| 108 #include <dcmtk/dcmdata/dcfilefo.h> | |
| 109 #include <dcmtk/dcmdata/dcuid.h> | |
| 110 #include <dcmtk/dcmdata/dcmetinf.h> | |
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111 #include <dcmtk/dcmdata/dcdeftag.h> |
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112 #include <dcmtk/dcmdata/dcswap.h> |
| 790 | 113 |
| 114 #include <dcmtk/dcmdata/dcvrae.h> | |
| 115 #include <dcmtk/dcmdata/dcvras.h> | |
| 116 #include <dcmtk/dcmdata/dcvrcs.h> | |
| 117 #include <dcmtk/dcmdata/dcvrda.h> | |
| 118 #include <dcmtk/dcmdata/dcvrds.h> | |
| 119 #include <dcmtk/dcmdata/dcvrdt.h> | |
| 120 #include <dcmtk/dcmdata/dcvrfd.h> | |
| 121 #include <dcmtk/dcmdata/dcvrfl.h> | |
| 122 #include <dcmtk/dcmdata/dcvris.h> | |
| 123 #include <dcmtk/dcmdata/dcvrlo.h> | |
| 124 #include <dcmtk/dcmdata/dcvrlt.h> | |
| 125 #include <dcmtk/dcmdata/dcvrpn.h> | |
| 126 #include <dcmtk/dcmdata/dcvrsh.h> | |
| 127 #include <dcmtk/dcmdata/dcvrsl.h> | |
| 128 #include <dcmtk/dcmdata/dcvrss.h> | |
| 129 #include <dcmtk/dcmdata/dcvrst.h> | |
| 130 #include <dcmtk/dcmdata/dcvrtm.h> | |
| 131 #include <dcmtk/dcmdata/dcvrui.h> | |
| 132 #include <dcmtk/dcmdata/dcvrul.h> | |
| 133 #include <dcmtk/dcmdata/dcvrus.h> | |
| 134 #include <dcmtk/dcmdata/dcvrut.h> | |
| 135 #include <dcmtk/dcmdata/dcpixel.h> | |
| 136 #include <dcmtk/dcmdata/dcpixseq.h> | |
| 137 #include <dcmtk/dcmdata/dcpxitem.h> | |
| 138 | |
| 139 | |
| 140 #include <boost/math/special_functions/round.hpp> | |
| 141 #include <dcmtk/dcmdata/dcostrmb.h> | |
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142 #include <boost/algorithm/string/predicate.hpp> |
| 790 | 143 |
| 144 | |
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145 #if DCMTK_VERSION_NUMBER <= 360 |
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146 # define EXS_JPEGProcess1 EXS_JPEGProcess1TransferSyntax |
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147 #endif |
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148 |
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149 |
| 790 | 150 |
| 151 namespace Orthanc | |
| 152 { | |
| 794 | 153 struct ParsedDicomFile::PImpl |
| 154 { | |
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155 std::unique_ptr<DcmFileFormat> file_; |
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156 std::unique_ptr<DicomFrameIndex> frameIndex_; |
| 794 | 157 }; |
| 158 | |
| 159 | |
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160 #if ORTHANC_ENABLE_CIVETWEB == 1 || ORTHANC_ENABLE_MONGOOSE == 1 |
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161 static void ParseTagAndGroup(DcmTagKey& key, |
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162 const std::string& tag) |
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163 { |
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164 DicomTag t = FromDcmtkBridge::ParseTag(tag); |
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165 key = DcmTagKey(t.GetGroup(), t.GetElement()); |
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166 } |
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167 |
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168 |
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169 static unsigned int GetPixelDataBlockCount(DcmPixelData& pixelData, |
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170 E_TransferSyntax transferSyntax) |
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171 { |
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172 DcmPixelSequence* pixelSequence = NULL; |
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173 if (pixelData.getEncapsulatedRepresentation |
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174 (transferSyntax, NULL, pixelSequence).good() && pixelSequence) |
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175 { |
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176 return pixelSequence->card(); |
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177 } |
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178 else |
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179 { |
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180 return 1; |
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181 } |
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182 } |
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183 |
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184 |
| 790 | 185 static void SendPathValueForDictionary(RestApiOutput& output, |
| 186 DcmItem& dicom) | |
| 187 { | |
| 188 Json::Value v = Json::arrayValue; | |
| 189 | |
| 190 for (unsigned long i = 0; i < dicom.card(); i++) | |
| 191 { | |
| 192 DcmElement* element = dicom.getElement(i); | |
| 193 if (element) | |
| 194 { | |
| 195 char buf[16]; | |
| 196 sprintf(buf, "%04x-%04x", element->getTag().getGTag(), element->getTag().getETag()); | |
| 197 v.append(buf); | |
| 198 } | |
| 199 } | |
| 200 | |
| 201 output.AnswerJson(v); | |
| 202 } | |
| 203 | |
| 204 | |
| 205 static void SendSequence(RestApiOutput& output, | |
| 206 DcmSequenceOfItems& sequence) | |
| 207 { | |
| 208 // This element is a sequence | |
| 209 Json::Value v = Json::arrayValue; | |
| 210 | |
| 211 for (unsigned long i = 0; i < sequence.card(); i++) | |
| 212 { | |
| 213 v.append(boost::lexical_cast<std::string>(i)); | |
| 214 } | |
| 215 | |
| 216 output.AnswerJson(v); | |
| 217 } | |
| 218 | |
| 219 | |
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220 namespace |
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222 class DicomFieldStream : public IHttpStreamAnswer |
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223 { |
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224 private: |
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225 DcmElement& element_; |
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226 uint32_t length_; |
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227 uint32_t offset_; |
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228 std::string chunk_; |
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229 size_t chunkSize_; |
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230 |
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231 public: |
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232 DicomFieldStream(DcmElement& element, |
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233 E_TransferSyntax transferSyntax) : |
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234 element_(element), |
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235 length_(element.getLength(transferSyntax)), |
| 1616 | 236 offset_(0), |
| 237 chunkSize_(0) | |
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238 { |
| 1521 | 239 static const size_t CHUNK_SIZE = 64 * 1024; // Use chunks of max 64KB |
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240 chunk_.resize(CHUNK_SIZE); |
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241 } |
| 790 | 242 |
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243 virtual HttpCompression SetupHttpCompression(bool /*gzipAllowed*/, |
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244 bool /*deflateAllowed*/) |
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245 ORTHANC_OVERRIDE |
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246 { |
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247 // No support for compression |
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248 return HttpCompression_None; |
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249 } |
| 790 | 250 |
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251 virtual bool HasContentFilename(std::string& filename) ORTHANC_OVERRIDE |
| 790 | 252 { |
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253 return false; |
| 790 | 254 } |
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255 |
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256 virtual std::string GetContentType() ORTHANC_OVERRIDE |
| 790 | 257 { |
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258 return EnumerationToString(MimeType_Binary); |
| 790 | 259 } |
| 260 | |
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261 virtual uint64_t GetContentLength() ORTHANC_OVERRIDE |
| 790 | 262 { |
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263 return length_; |
| 790 | 264 } |
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265 |
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266 virtual bool ReadNextChunk() ORTHANC_OVERRIDE |
| 790 | 267 { |
| 1520 | 268 assert(offset_ <= length_); |
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269 |
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270 if (offset_ == length_) |
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271 { |
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272 return false; |
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273 } |
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274 else |
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275 { |
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276 if (length_ - offset_ < chunk_.size()) |
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277 { |
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278 chunkSize_ = length_ - offset_; |
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279 } |
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280 else |
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281 { |
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282 chunkSize_ = chunk_.size(); |
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283 } |
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284 |
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285 OFCondition cond = element_.getPartialValue(&chunk_[0], offset_, chunkSize_); |
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286 |
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287 offset_ += chunkSize_; |
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288 |
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289 if (!cond.good()) |
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290 { |
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291 throw OrthancException(ErrorCode_InternalError, |
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292 "Error while sending a DICOM field: " + |
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293 std::string(cond.text())); |
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294 } |
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295 |
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296 return true; |
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297 } |
| 790 | 298 } |
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299 |
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300 virtual const char *GetChunkContent() ORTHANC_OVERRIDE |
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301 { |
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302 return chunk_.c_str(); |
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303 } |
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304 |
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305 virtual size_t GetChunkSize() ORTHANC_OVERRIDE |
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306 { |
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307 return chunkSize_; |
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308 } |
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309 }; |
| 790 | 310 } |
| 311 | |
| 312 | |
| 313 static bool AnswerPixelData(RestApiOutput& output, | |
| 314 DcmItem& dicom, | |
| 315 E_TransferSyntax transferSyntax, | |
| 316 const std::string* blockUri) | |
| 317 { | |
| 318 DcmTag k(DICOM_TAG_PIXEL_DATA.GetGroup(), | |
| 319 DICOM_TAG_PIXEL_DATA.GetElement()); | |
| 320 | |
| 321 DcmElement *element = NULL; | |
| 322 if (!dicom.findAndGetElement(k, element).good() || | |
| 323 element == NULL) | |
| 324 { | |
| 325 return false; | |
| 326 } | |
| 327 | |
| 328 try | |
| 329 { | |
| 330 DcmPixelData& pixelData = dynamic_cast<DcmPixelData&>(*element); | |
| 331 if (blockUri == NULL) | |
| 332 { | |
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333 // The user asks how many blocks are present in this pixel data |
| 790 | 334 unsigned int blocks = GetPixelDataBlockCount(pixelData, transferSyntax); |
| 335 | |
| 336 Json::Value result(Json::arrayValue); | |
| 337 for (unsigned int i = 0; i < blocks; i++) | |
| 338 { | |
| 339 result.append(boost::lexical_cast<std::string>(i)); | |
| 340 } | |
| 341 | |
| 342 output.AnswerJson(result); | |
| 343 return true; | |
| 344 } | |
| 345 | |
| 346 | |
| 347 unsigned int block = boost::lexical_cast<unsigned int>(*blockUri); | |
| 348 | |
| 349 if (block < GetPixelDataBlockCount(pixelData, transferSyntax)) | |
| 350 { | |
| 351 DcmPixelSequence* pixelSequence = NULL; | |
| 352 if (pixelData.getEncapsulatedRepresentation | |
| 353 (transferSyntax, NULL, pixelSequence).good() && pixelSequence) | |
| 354 { | |
| 355 // This is the case for JPEG transfer syntaxes | |
| 356 if (block < pixelSequence->card()) | |
| 357 { | |
| 358 DcmPixelItem* pixelItem = NULL; | |
| 359 if (pixelSequence->getItem(pixelItem, block).good() && pixelItem) | |
| 360 { | |
| 361 if (pixelItem->getLength() == 0) | |
| 362 { | |
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363 output.AnswerBuffer(NULL, 0, MimeType_Binary); |
| 790 | 364 return true; |
| 365 } | |
| 366 | |
| 367 Uint8* buffer = NULL; | |
| 368 if (pixelItem->getUint8Array(buffer).good() && buffer) | |
| 369 { | |
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370 output.AnswerBuffer(buffer, pixelItem->getLength(), MimeType_Binary); |
| 790 | 371 return true; |
| 372 } | |
| 373 } | |
| 374 } | |
| 375 } | |
| 376 else | |
| 377 { | |
| 378 // This is the case for raw, uncompressed image buffers | |
| 379 assert(*blockUri == "0"); | |
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380 DicomFieldStream stream(*element, transferSyntax); |
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381 output.AnswerStream(stream); |
| 790 | 382 } |
| 383 } | |
| 384 } | |
| 385 catch (boost::bad_lexical_cast&) | |
| 386 { | |
| 387 // The URI entered by the user is not a number | |
| 388 } | |
| 389 catch (std::bad_cast&) | |
| 390 { | |
| 391 // This should never happen | |
| 392 } | |
| 393 | |
| 394 return false; | |
| 395 } | |
| 396 | |
| 397 | |
| 398 static void SendPathValueForLeaf(RestApiOutput& output, | |
| 399 const std::string& tag, | |
| 400 DcmItem& dicom, | |
| 401 E_TransferSyntax transferSyntax) | |
| 402 { | |
| 403 DcmTagKey k; | |
| 404 ParseTagAndGroup(k, tag); | |
| 405 | |
| 406 DcmSequenceOfItems* sequence = NULL; | |
| 407 if (dicom.findAndGetSequence(k, sequence).good() && | |
| 408 sequence != NULL && | |
| 409 sequence->getVR() == EVR_SQ) | |
| 410 { | |
| 411 SendSequence(output, *sequence); | |
| 412 return; | |
| 413 } | |
| 414 | |
| 415 DcmElement* element = NULL; | |
| 416 if (dicom.findAndGetElement(k, element).good() && | |
| 417 element != NULL && | |
| 418 //element->getVR() != EVR_UNKNOWN && // This would forbid private tags | |
| 419 element->getVR() != EVR_SQ) | |
| 420 { | |
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421 DicomFieldStream stream(*element, transferSyntax); |
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422 output.AnswerStream(stream); |
| 790 | 423 } |
| 424 } | |
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425 #endif |
| 790 | 426 |
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427 |
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428 #if ORTHANC_ENABLE_CIVETWEB == 1 || ORTHANC_ENABLE_MONGOOSE == 1 |
| 790 | 429 void ParsedDicomFile::SendPathValue(RestApiOutput& output, |
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430 const UriComponents& uri) const |
| 790 | 431 { |
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432 DcmItem* dicom = GetDcmtkObjectConst().getDataset(); |
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433 E_TransferSyntax transferSyntax = GetDcmtkObjectConst().getDataset()->getCurrentXfer(); |
| 790 | 434 |
| 435 // Special case: Accessing the pixel data | |
| 436 if (uri.size() == 1 || | |
| 437 uri.size() == 2) | |
| 438 { | |
| 439 DcmTagKey tag; | |
| 440 ParseTagAndGroup(tag, uri[0]); | |
| 441 | |
| 442 if (tag.getGroup() == DICOM_TAG_PIXEL_DATA.GetGroup() && | |
| 443 tag.getElement() == DICOM_TAG_PIXEL_DATA.GetElement()) | |
| 444 { | |
| 445 AnswerPixelData(output, *dicom, transferSyntax, uri.size() == 1 ? NULL : &uri[1]); | |
| 446 return; | |
| 447 } | |
| 448 } | |
| 449 | |
| 450 // Go down in the tag hierarchy according to the URI | |
| 451 for (size_t pos = 0; pos < uri.size() / 2; pos++) | |
| 452 { | |
| 453 size_t index; | |
| 454 try | |
| 455 { | |
| 456 index = boost::lexical_cast<size_t>(uri[2 * pos + 1]); | |
| 457 } | |
| 458 catch (boost::bad_lexical_cast&) | |
| 459 { | |
| 460 return; | |
| 461 } | |
| 462 | |
| 463 DcmTagKey k; | |
| 464 DcmItem *child = NULL; | |
| 465 ParseTagAndGroup(k, uri[2 * pos]); | |
| 466 if (!dicom->findAndGetSequenceItem(k, child, index).good() || | |
| 467 child == NULL) | |
| 468 { | |
| 469 return; | |
| 470 } | |
| 471 | |
| 472 dicom = child; | |
| 473 } | |
| 474 | |
| 475 // We have reached the end of the URI | |
| 476 if (uri.size() % 2 == 0) | |
| 477 { | |
| 478 SendPathValueForDictionary(output, *dicom); | |
| 479 } | |
| 480 else | |
| 481 { | |
| 482 SendPathValueForLeaf(output, uri.back(), *dicom, transferSyntax); | |
| 483 } | |
| 484 } | |
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485 #endif |
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486 |
| 790 | 487 |
| 488 void ParsedDicomFile::Remove(const DicomTag& tag) | |
| 489 { | |
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490 RemovePath(DicomPath(tag)); |
| 790 | 491 } |
| 492 | |
| 493 | |
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494 void ParsedDicomFile::Clear(const DicomTag& tag, |
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495 bool onlyIfExists) |
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496 { |
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497 ClearPath(DicomPath(tag), onlyIfExists); |
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498 } |
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499 |
| 790 | 500 |
|
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501 void ParsedDicomFile::RemovePrivateTagsInternal(const std::set<DicomTag>* toKeep) |
| 790 | 502 { |
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503 InvalidateCache(); |
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504 |
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505 DcmDataset& dataset = *GetDcmtkObject().getDataset(); |
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506 |
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507 // Loop over the dataset to detect its private tags |
| 790 | 508 typedef std::list<DcmElement*> Tags; |
| 509 Tags privateTags; | |
| 510 | |
| 511 for (unsigned long i = 0; i < dataset.card(); i++) | |
| 512 { | |
| 513 DcmElement* element = dataset.getElement(i); | |
| 514 DcmTag tag(element->getTag()); | |
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515 |
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516 // Is this a private tag? |
| 1694 | 517 if (tag.isPrivate()) |
| 790 | 518 { |
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519 bool remove = true; |
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520 |
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521 // Check whether this private tag is to be kept |
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522 if (toKeep != NULL) |
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523 { |
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524 DicomTag tmp = FromDcmtkBridge::Convert(tag); |
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525 if (toKeep->find(tmp) != toKeep->end()) |
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526 { |
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527 remove = false; // Keep it |
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528 } |
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529 } |
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530 |
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531 if (remove) |
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532 { |
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533 privateTags.push_back(element); |
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534 } |
| 790 | 535 } |
| 536 } | |
| 537 | |
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538 // Loop over the detected private tags to remove them |
| 790 | 539 for (Tags::iterator it = privateTags.begin(); |
| 540 it != privateTags.end(); ++it) | |
| 541 { | |
| 542 DcmElement* tmp = dataset.remove(*it); | |
| 543 if (tmp != NULL) | |
| 544 { | |
| 545 delete tmp; | |
| 546 } | |
| 547 } | |
| 548 } | |
| 549 | |
| 550 | |
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551 static void InsertInternal(DcmDataset& dicom, |
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552 DcmElement* element) |
| 790 | 553 { |
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554 OFCondition cond = dicom.insert(element, false, false); |
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555 if (!cond.good()) |
| 790 | 556 { |
| 557 // This field already exists | |
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558 delete element; |
| 790 | 559 throw OrthancException(ErrorCode_InternalError); |
| 560 } | |
| 561 } | |
| 562 | |
| 563 | |
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564 void ParsedDicomFile::Insert(const DicomTag& tag, |
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565 const Json::Value& value, |
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566 bool decodeDataUriScheme, |
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567 const std::string& privateCreator) |
| 790 | 568 { |
|
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569 if (tag.GetElement() == 0x0000) |
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570 { |
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571 // Prevent manually modifying generic group length tags: This is |
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572 // handled by DCMTK serialization |
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573 return; |
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574 } |
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575 |
|
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576 if (GetDcmtkObject().getDataset()->tagExists(ToDcmtkBridge::Convert(tag))) |
|
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577 { |
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578 throw OrthancException(ErrorCode_AlreadyExistingTag); |
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579 } |
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580 |
|
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581 if (decodeDataUriScheme && |
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582 value.type() == Json::stringValue && |
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583 (tag == DICOM_TAG_ENCAPSULATED_DOCUMENT || |
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584 tag == DICOM_TAG_PIXEL_DATA)) |
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585 { |
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586 if (EmbedContentInternal(value.asString())) |
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587 { |
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588 return; |
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589 } |
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590 } |
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591 |
|
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592 InvalidateCache(); |
|
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593 |
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594 bool hasCodeExtensions; |
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595 Encoding encoding = DetectEncoding(hasCodeExtensions); |
|
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596 std::unique_ptr<DcmElement> element(FromDcmtkBridge::FromJson(tag, value, decodeDataUriScheme, encoding, privateCreator)); |
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597 InsertInternal(*GetDcmtkObject().getDataset(), element.release()); |
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598 } |
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599 |
| 790 | 600 |
|
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601 void ParsedDicomFile::ReplacePlainString(const DicomTag& tag, |
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602 const std::string& utf8Value) |
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603 { |
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604 if (tag.IsPrivate()) |
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605 { |
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606 throw OrthancException(ErrorCode_InternalError, |
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607 "Cannot apply this function to private tags: " + tag.Format()); |
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608 } |
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609 else |
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610 { |
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611 Replace(tag, utf8Value, false, DicomReplaceMode_InsertIfAbsent, |
|
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612 "" /* not a private tag, so no private creator */); |
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613 } |
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614 } |
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615 |
|
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616 |
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617 void ParsedDicomFile::SetIfAbsent(const DicomTag& tag, |
|
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618 const std::string& utf8Value) |
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619 { |
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620 std::string currentValue; |
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621 if (!GetTagValue(currentValue, tag)) |
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622 { |
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623 ReplacePlainString(tag, utf8Value); |
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624 } |
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625 } |
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626 |
|
4296
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627 void ParsedDicomFile::RemovePrivateTags() |
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628 { |
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629 RemovePrivateTagsInternal(NULL); |
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630 } |
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631 |
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632 void ParsedDicomFile::RemovePrivateTags(const std::set<DicomTag> &toKeep) |
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633 { |
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634 RemovePrivateTagsInternal(&toKeep); |
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635 } |
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636 |
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637 |
|
1982
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638 static bool CanReplaceProceed(DcmDataset& dicom, |
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639 const DcmTagKey& tag, |
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640 DicomReplaceMode mode) |
|
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641 { |
| 1979 | 642 if (dicom.findAndDeleteElement(tag).good()) |
| 790 | 643 { |
| 1979 | 644 // This tag was existing, it has been deleted |
| 645 return true; | |
| 646 } | |
| 647 else | |
| 648 { | |
| 649 // This tag was absent, act wrt. the specified "mode" | |
| 790 | 650 switch (mode) |
| 651 { | |
| 652 case DicomReplaceMode_InsertIfAbsent: | |
| 1979 | 653 return true; |
| 790 | 654 |
| 655 case DicomReplaceMode_ThrowIfAbsent: | |
|
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656 throw OrthancException(ErrorCode_InexistentItem, "Cannot replace inexistent tag: " + |
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657 FromDcmtkBridge::GetTagName(DicomTag(tag.getGroup(), tag.getElement()), "")); |
| 790 | 658 |
| 659 case DicomReplaceMode_IgnoreIfAbsent: | |
| 1979 | 660 return false; |
| 661 | |
| 662 default: | |
| 663 throw OrthancException(ErrorCode_ParameterOutOfRange); | |
| 790 | 664 } |
| 665 } | |
|
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666 } |
|
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667 |
|
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668 |
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669 void ParsedDicomFile::UpdateStorageUid(const DicomTag& tag, |
| 1695 | 670 const std::string& utf8Value, |
|
1818
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671 bool decodeDataUriScheme) |
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672 { |
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673 if (tag != DICOM_TAG_SOP_CLASS_UID && |
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674 tag != DICOM_TAG_SOP_INSTANCE_UID) |
| 790 | 675 { |
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676 return; |
| 790 | 677 } |
| 678 | |
|
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679 std::string binary; |
| 1695 | 680 const std::string* decoded = &utf8Value; |
|
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681 |
|
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682 if (decodeDataUriScheme && |
|
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683 boost::starts_with(utf8Value, URI_SCHEME_PREFIX_BINARY)) |
|
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684 { |
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685 std::string mime; |
|
1981
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686 if (!Toolbox::DecodeDataUriScheme(mime, binary, utf8Value)) |
|
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687 { |
|
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688 throw OrthancException(ErrorCode_BadFileFormat); |
|
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689 } |
|
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|
690 |
|
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691 decoded = &binary; |
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|
692 } |
| 1695 | 693 else |
| 694 { | |
|
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|
695 bool hasCodeExtensions; |
|
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|
696 Encoding encoding = DetectEncoding(hasCodeExtensions); |
|
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697 if (encoding != Encoding_Utf8) |
| 1695 | 698 { |
| 699 binary = Toolbox::ConvertFromUtf8(utf8Value, encoding); | |
| 700 decoded = &binary; | |
| 701 } | |
| 702 } | |
| 790 | 703 |
| 704 /** | |
| 705 * dcmodify will automatically correct 'Media Storage SOP Class | |
| 706 * UID' and 'Media Storage SOP Instance UID' in the metaheader, if | |
| 707 * you make changes to the related tags in the dataset ('SOP Class | |
| 708 * UID' and 'SOP Instance UID') via insert or modify mode | |
| 709 * options. You can disable this behaviour by using the -nmu | |
| 710 * option. | |
| 711 **/ | |
| 712 | |
| 713 if (tag == DICOM_TAG_SOP_CLASS_UID) | |
| 714 { | |
|
1982
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|
715 ReplacePlainString(DICOM_TAG_MEDIA_STORAGE_SOP_CLASS_UID, *decoded); |
| 790 | 716 } |
| 717 | |
| 718 if (tag == DICOM_TAG_SOP_INSTANCE_UID) | |
| 719 { | |
|
1982
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|
720 ReplacePlainString(DICOM_TAG_MEDIA_STORAGE_SOP_INSTANCE_UID, *decoded); |
|
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|
721 } |
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|
722 } |
|
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|
723 |
|
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|
724 |
|
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|
725 void ParsedDicomFile::Replace(const DicomTag& tag, |
| 1695 | 726 const std::string& utf8Value, |
|
1982
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Modification of instances can now replace PixelData
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diff
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|
727 bool decodeDataUriScheme, |
|
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|
728 DicomReplaceMode mode, |
|
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|
729 const std::string& privateCreator) |
|
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|
730 { |
|
2797
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Fix handling of incoming C-FIND queries containing Generic Group Length (*, 0x0000)
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2521
diff
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|
731 if (tag.GetElement() == 0x0000) |
|
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|
732 { |
|
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2521
diff
changeset
|
733 // Prevent manually modifying generic group length tags: This is |
|
9a0c6a046cc2
Fix handling of incoming C-FIND queries containing Generic Group Length (*, 0x0000)
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diff
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|
734 // handled by DCMTK serialization |
|
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|
735 return; |
|
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diff
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|
736 } |
|
4683
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|
737 else |
|
1982
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Modification of instances can now replace PixelData
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|
738 { |
|
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|
739 InvalidateCache(); |
|
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|
740 |
|
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|
741 DcmDataset& dicom = *GetDcmtkObject().getDataset(); |
|
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|
742 if (CanReplaceProceed(dicom, ToDcmtkBridge::Convert(tag), mode)) |
|
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|
743 { |
|
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744 // Either the tag was previously existing (and now removed), or |
|
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745 // the replace mode was set to "InsertIfAbsent" |
|
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746 |
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747 if (decodeDataUriScheme && |
|
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748 (tag == DICOM_TAG_ENCAPSULATED_DOCUMENT || |
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749 tag == DICOM_TAG_PIXEL_DATA)) |
|
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750 { |
|
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|
751 if (EmbedContentInternal(utf8Value)) |
|
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|
752 { |
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753 return; |
|
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754 } |
|
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use of DicomPath in ParsedDicomFile
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755 } |
|
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changeset
|
756 |
|
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parents:
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diff
changeset
|
757 std::unique_ptr<DcmElement> element(FromDcmtkBridge::CreateElementForTag(tag, privateCreator)); |
| 1979 | 758 |
|
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759 if (!utf8Value.empty()) |
|
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760 { |
|
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761 bool hasCodeExtensions; |
|
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762 Encoding encoding = DetectEncoding(hasCodeExtensions); |
|
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763 FromDcmtkBridge::FillElementWithString(*element, utf8Value, decodeDataUriScheme, encoding); |
|
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764 } |
|
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765 |
|
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changeset
|
766 InsertInternal(dicom, element.release()); |
|
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changeset
|
767 |
|
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768 if (tag == DICOM_TAG_SOP_CLASS_UID || |
|
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769 tag == DICOM_TAG_SOP_INSTANCE_UID) |
|
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770 { |
|
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|
771 if (decodeDataUriScheme && |
|
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772 boost::starts_with(utf8Value, URI_SCHEME_PREFIX_BINARY)) |
|
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|
773 { |
|
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changeset
|
774 std::string mime, decoded; |
|
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775 if (!Toolbox::DecodeDataUriScheme(mime, decoded, utf8Value)) |
|
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776 { |
|
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|
777 throw OrthancException(ErrorCode_BadFileFormat); |
|
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778 } |
|
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779 else |
|
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780 { |
|
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|
781 UpdateStorageUid(tag, decoded, false); |
|
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782 } |
|
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|
783 } |
|
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784 else |
|
7182f5732480
use of DicomPath in ParsedDicomFile
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|
785 { |
|
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786 UpdateStorageUid(tag, utf8Value, false); |
|
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787 } |
|
1982
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Modification of instances can now replace PixelData
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788 } |
|
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changeset
|
789 } |
| 1979 | 790 } |
|
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791 } |
|
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|
792 |
|
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changeset
|
793 |
|
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|
794 void ParsedDicomFile::Replace(const DicomTag& tag, |
|
558b25228a23
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|
795 const Json::Value& value, |
|
1818
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796 bool decodeDataUriScheme, |
|
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|
797 DicomReplaceMode mode, |
|
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798 const std::string& privateCreator) |
|
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799 { |
|
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diff
changeset
|
800 if (tag.GetElement() == 0x0000) |
|
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801 { |
|
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802 // Prevent manually modifying generic group length tags: This is |
|
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|
803 // handled by DCMTK serialization |
|
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804 return; |
|
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parents:
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|
805 } |
|
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diff
changeset
|
806 else if (value.type() == Json::stringValue) |
|
1982
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parents:
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diff
changeset
|
807 { |
|
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changeset
|
808 Replace(tag, value.asString(), decodeDataUriScheme, mode, privateCreator); |
|
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changeset
|
809 } |
|
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|
810 else |
|
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changeset
|
811 { |
| 1979 | 812 if (tag == DICOM_TAG_SOP_CLASS_UID || |
| 813 tag == DICOM_TAG_SOP_INSTANCE_UID) | |
|
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diff
changeset
|
814 { |
|
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|
815 // Must be a string |
|
7182f5732480
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816 throw OrthancException(ErrorCode_BadParameterType); |
|
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817 } |
|
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changeset
|
818 |
|
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819 InvalidateCache(); |
| 1979 | 820 |
|
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821 DcmDataset& dicom = *GetDcmtkObject().getDataset(); |
|
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822 if (CanReplaceProceed(dicom, ToDcmtkBridge::Convert(tag), mode)) |
|
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823 { |
|
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824 // Either the tag was previously existing (and now removed), or |
|
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|
825 // the replace mode was set to "InsertIfAbsent" |
|
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826 |
|
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827 bool hasCodeExtensions; |
|
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828 Encoding encoding = DetectEncoding(hasCodeExtensions); |
|
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829 InsertInternal(dicom, FromDcmtkBridge::FromJson(tag, value, decodeDataUriScheme, encoding, privateCreator)); |
|
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830 } |
| 790 | 831 } |
| 832 } | |
| 833 | |
| 834 | |
|
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|
835 #if ORTHANC_ENABLE_CIVETWEB == 1 || ORTHANC_ENABLE_MONGOOSE == 1 |
|
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836 void ParsedDicomFile::Answer(RestApiOutput& output) const |
| 790 | 837 { |
| 838 std::string serialized; | |
|
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839 if (FromDcmtkBridge::SaveToMemoryBuffer(serialized, *GetDcmtkObjectConst().getDataset())) |
| 790 | 840 { |
|
3901
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|
841 output.AnswerBuffer(serialized, MimeType_Dicom); |
| 790 | 842 } |
| 843 } | |
|
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|
844 #endif |
| 790 | 845 |
| 846 | |
| 847 bool ParsedDicomFile::GetTagValue(std::string& value, | |
|
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|
848 const DicomTag& tag) const |
| 790 | 849 { |
| 850 DcmTagKey k(tag.GetGroup(), tag.GetElement()); | |
|
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|
851 DcmDataset& dataset = *GetDcmtkObjectConst().getDataset(); |
|
1307
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Fix replacement and insertion of private DICOM tags
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changeset
|
852 |
|
1818
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diff
changeset
|
853 if (tag.IsPrivate() || |
|
1655
e40fd0d925c5
/tools/create-dicom can create tags with unknown VR
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diff
changeset
|
854 FromDcmtkBridge::IsUnknownTag(tag) || |
|
1556
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
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diff
changeset
|
855 tag == DICOM_TAG_PIXEL_DATA || |
|
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
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diff
changeset
|
856 tag == DICOM_TAG_ENCAPSULATED_DOCUMENT) |
| 790 | 857 { |
|
1307
f796207e3df1
Fix replacement and insertion of private DICOM tags
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diff
changeset
|
858 const Uint8* data = NULL; // This is freed in the destructor of the dataset |
|
f796207e3df1
Fix replacement and insertion of private DICOM tags
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diff
changeset
|
859 long unsigned int count = 0; |
| 790 | 860 |
|
1307
f796207e3df1
Fix replacement and insertion of private DICOM tags
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diff
changeset
|
861 if (dataset.findAndGetUint8Array(k, data, &count).good()) |
|
f796207e3df1
Fix replacement and insertion of private DICOM tags
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diff
changeset
|
862 { |
|
f796207e3df1
Fix replacement and insertion of private DICOM tags
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changeset
|
863 if (count > 0) |
|
f796207e3df1
Fix replacement and insertion of private DICOM tags
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diff
changeset
|
864 { |
|
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
865 assert(data != NULL); |
|
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
866 value.assign(reinterpret_cast<const char*>(data), count); |
|
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
867 } |
|
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
868 else |
|
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
869 { |
|
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
870 value.clear(); |
|
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
871 } |
| 790 | 872 |
|
1307
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
873 return true; |
|
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
874 } |
|
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
875 else |
|
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
876 { |
|
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
877 return false; |
|
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
878 } |
| 790 | 879 } |
| 880 else | |
| 881 { | |
|
1307
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
882 DcmElement* element = NULL; |
|
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
883 if (!dataset.findAndGetElement(k, element).good() || |
|
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
884 element == NULL) |
|
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
885 { |
|
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
886 return false; |
|
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
887 } |
|
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
888 |
|
3217
cf8cbeb35f33
preliminary support of Korean character set
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3060
diff
changeset
|
889 bool hasCodeExtensions; |
|
cf8cbeb35f33
preliminary support of Korean character set
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3060
diff
changeset
|
890 Encoding encoding = DetectEncoding(hasCodeExtensions); |
|
cf8cbeb35f33
preliminary support of Korean character set
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3060
diff
changeset
|
891 |
|
2409
e4045b3c9772
ignore-length argument if retrieving DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2394
diff
changeset
|
892 std::set<DicomTag> tmp; |
|
3712
2a170a8f1faf
replacing std::auto_ptr by std::unique_ptr
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3691
diff
changeset
|
893 std::unique_ptr<DicomValue> v(FromDcmtkBridge::ConvertLeafElement |
|
2a170a8f1faf
replacing std::auto_ptr by std::unique_ptr
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3691
diff
changeset
|
894 (*element, DicomToJsonFlags_Default, |
|
2a170a8f1faf
replacing std::auto_ptr by std::unique_ptr
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3691
diff
changeset
|
895 0, encoding, hasCodeExtensions, tmp)); |
|
1556
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
896 |
|
1737
ec66a16aa398
removal of DicomStringValue and DicomNullValue
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1736
diff
changeset
|
897 if (v.get() == NULL || |
|
ec66a16aa398
removal of DicomStringValue and DicomNullValue
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1736
diff
changeset
|
898 v->IsNull()) |
|
1307
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
899 { |
|
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
900 value = ""; |
|
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
901 } |
|
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
902 else |
|
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
903 { |
|
1737
ec66a16aa398
removal of DicomStringValue and DicomNullValue
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1736
diff
changeset
|
904 // TODO v->IsBinary() |
|
ec66a16aa398
removal of DicomStringValue and DicomNullValue
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1736
diff
changeset
|
905 value = v->GetContent(); |
|
1307
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
906 } |
|
1556
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
907 |
|
1307
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
908 return true; |
| 790 | 909 } |
| 910 } | |
| 911 | |
| 912 | |
|
4203
4d42408da117
improving const-correctness in ParsedDicomFile
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4200
diff
changeset
|
913 DicomInstanceHasher ParsedDicomFile::GetHasher() const |
| 790 | 914 { |
| 915 std::string patientId, studyUid, seriesUid, instanceUid; | |
| 916 | |
|
3446
52da6e9335dd
Allow anonymizing/modifying instances without the PatientID tag
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3430
diff
changeset
|
917 if (!GetTagValue(patientId, DICOM_TAG_PATIENT_ID)) |
|
52da6e9335dd
Allow anonymizing/modifying instances without the PatientID tag
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3430
diff
changeset
|
918 { |
|
52da6e9335dd
Allow anonymizing/modifying instances without the PatientID tag
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3430
diff
changeset
|
919 /** |
|
52da6e9335dd
Allow anonymizing/modifying instances without the PatientID tag
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3430
diff
changeset
|
920 * If "PatientID" is absent, be tolerant by considering it |
|
52da6e9335dd
Allow anonymizing/modifying instances without the PatientID tag
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3430
diff
changeset
|
921 * equals the empty string, then proceed. In Orthanc <= 1.5.6, |
|
52da6e9335dd
Allow anonymizing/modifying instances without the PatientID tag
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3430
diff
changeset
|
922 * an exception "Bad file format" was generated. |
|
52da6e9335dd
Allow anonymizing/modifying instances without the PatientID tag
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3430
diff
changeset
|
923 * https://groups.google.com/d/msg/orthanc-users/aphG_h1AHVg/rfOTtTPTAgAJ |
| 3853 | 924 * https://hg.orthanc-server.com/orthanc/rev/4c45e018bd3de3cfa21d6efc6734673aaaee4435 |
|
3446
52da6e9335dd
Allow anonymizing/modifying instances without the PatientID tag
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3430
diff
changeset
|
925 **/ |
|
52da6e9335dd
Allow anonymizing/modifying instances without the PatientID tag
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3430
diff
changeset
|
926 patientId.clear(); |
|
52da6e9335dd
Allow anonymizing/modifying instances without the PatientID tag
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3430
diff
changeset
|
927 } |
|
52da6e9335dd
Allow anonymizing/modifying instances without the PatientID tag
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3430
diff
changeset
|
928 |
|
52da6e9335dd
Allow anonymizing/modifying instances without the PatientID tag
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3430
diff
changeset
|
929 if (!GetTagValue(studyUid, DICOM_TAG_STUDY_INSTANCE_UID) || |
| 790 | 930 !GetTagValue(seriesUid, DICOM_TAG_SERIES_INSTANCE_UID) || |
| 931 !GetTagValue(instanceUid, DICOM_TAG_SOP_INSTANCE_UID)) | |
| 932 { | |
|
3446
52da6e9335dd
Allow anonymizing/modifying instances without the PatientID tag
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3430
diff
changeset
|
933 throw OrthancException(ErrorCode_BadFileFormat, "missing StudyInstanceUID, SeriesInstanceUID or SOPInstanceUID"); |
| 790 | 934 } |
| 935 | |
| 936 return DicomInstanceHasher(patientId, studyUid, seriesUid, instanceUid); | |
| 937 } | |
| 938 | |
| 939 | |
| 940 void ParsedDicomFile::SaveToMemoryBuffer(std::string& buffer) | |
| 941 { | |
|
4508
8f9090b137f1
Optimization in C-STORE SCP by avoiding an unnecessary DICOM parsing
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4507
diff
changeset
|
942 if (!FromDcmtkBridge::SaveToMemoryBuffer(buffer, *GetDcmtkObject().getDataset())) |
|
8f9090b137f1
Optimization in C-STORE SCP by avoiding an unnecessary DICOM parsing
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4507
diff
changeset
|
943 { |
|
8f9090b137f1
Optimization in C-STORE SCP by avoiding an unnecessary DICOM parsing
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4507
diff
changeset
|
944 throw OrthancException(ErrorCode_InternalError, "Cannot write DICOM file to memory"); |
|
8f9090b137f1
Optimization in C-STORE SCP by avoiding an unnecessary DICOM parsing
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4507
diff
changeset
|
945 } |
| 790 | 946 } |
| 947 | |
| 948 | |
|
2512
4dcafa8d6633
SystemToolbox::GenerateUuid moved to Toolbox::GenerateUuid
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2499
diff
changeset
|
949 #if ORTHANC_SANDBOXED == 0 |
| 790 | 950 void ParsedDicomFile::SaveToFile(const std::string& path) |
| 951 { | |
| 952 // TODO Avoid using a temporary memory buffer, write directly on disk | |
| 953 std::string content; | |
| 954 SaveToMemoryBuffer(content); | |
| 2140 | 955 SystemToolbox::WriteFile(content, path); |
| 790 | 956 } |
|
2512
4dcafa8d6633
SystemToolbox::GenerateUuid moved to Toolbox::GenerateUuid
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2499
diff
changeset
|
957 #endif |
| 790 | 958 |
| 959 | |
|
1805
f08978b1f45b
c-find scu for modality worklists
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1800
diff
changeset
|
960 ParsedDicomFile::ParsedDicomFile(bool createIdentifiers) : pimpl_(new PImpl) |
| 790 | 961 { |
| 794 | 962 pimpl_->file_.reset(new DcmFileFormat); |
|
1805
f08978b1f45b
c-find scu for modality worklists
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1800
diff
changeset
|
963 |
|
f08978b1f45b
c-find scu for modality worklists
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1800
diff
changeset
|
964 if (createIdentifiers) |
|
f08978b1f45b
c-find scu for modality worklists
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1800
diff
changeset
|
965 { |
|
1982
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
966 ReplacePlainString(DICOM_TAG_PATIENT_ID, FromDcmtkBridge::GenerateUniqueIdentifier(ResourceType_Patient)); |
|
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
967 ReplacePlainString(DICOM_TAG_STUDY_INSTANCE_UID, FromDcmtkBridge::GenerateUniqueIdentifier(ResourceType_Study)); |
|
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
968 ReplacePlainString(DICOM_TAG_SERIES_INSTANCE_UID, FromDcmtkBridge::GenerateUniqueIdentifier(ResourceType_Series)); |
|
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
969 ReplacePlainString(DICOM_TAG_SOP_INSTANCE_UID, FromDcmtkBridge::GenerateUniqueIdentifier(ResourceType_Instance)); |
|
1805
f08978b1f45b
c-find scu for modality worklists
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1800
diff
changeset
|
970 } |
| 790 | 971 } |
| 972 | |
| 791 | 973 |
|
2202
9b373b7d6713
Fix handling of encodings in C-FIND requests
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2142
diff
changeset
|
974 void ParsedDicomFile::CreateFromDicomMap(const DicomMap& source, |
|
3276
9b0e67161600
More tolerance wrt. invalid DICOM files that must be returned by Orthanc C-FIND SCP
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3217
diff
changeset
|
975 Encoding defaultEncoding, |
|
4007
884b55ce01f6
Private tags returned by C-FIND SCP
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3948
diff
changeset
|
976 bool permissive, |
|
4035
cc6ed76bba27
added contextual privateCreators dico to ParsedDicomFile -> this allows you not to have to define a DefaultPrivateCreator. This was tested only in the scope of C-Find requests but should not have impact on other parts since it is not used out of C-Find right now
Alain Mazy <alain@mazy.be>
parents:
4013
diff
changeset
|
977 const std::string& defaultPrivateCreator, |
|
cc6ed76bba27
added contextual privateCreators dico to ParsedDicomFile -> this allows you not to have to define a DefaultPrivateCreator. This was tested only in the scope of C-Find requests but should not have impact on other parts since it is not used out of C-Find right now
Alain Mazy <alain@mazy.be>
parents:
4013
diff
changeset
|
978 const std::map<uint16_t, std::string>& privateCreators) |
|
1786
164d78911382
primitives to handle dicom worklists
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1781
diff
changeset
|
979 { |
|
2846
d386abc18133
simplification in SplitStudyJob, fix possible memory leak
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2797
diff
changeset
|
980 pimpl_->file_.reset(new DcmFileFormat); |
|
4007
884b55ce01f6
Private tags returned by C-FIND SCP
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3948
diff
changeset
|
981 InvalidateCache(); |
|
2846
d386abc18133
simplification in SplitStudyJob, fix possible memory leak
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2797
diff
changeset
|
982 |
|
d386abc18133
simplification in SplitStudyJob, fix possible memory leak
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2797
diff
changeset
|
983 const DicomValue* tmp = source.TestAndGetValue(DICOM_TAG_SPECIFIC_CHARACTER_SET); |
|
2445
6e5bc5c6d1a4
Fix to allow creating DICOM instances with empty Specific Character Set (0008,0005)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2409
diff
changeset
|
984 |
|
2846
d386abc18133
simplification in SplitStudyJob, fix possible memory leak
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2797
diff
changeset
|
985 if (tmp == NULL) |
|
d386abc18133
simplification in SplitStudyJob, fix possible memory leak
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2797
diff
changeset
|
986 { |
|
d386abc18133
simplification in SplitStudyJob, fix possible memory leak
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2797
diff
changeset
|
987 SetEncoding(defaultEncoding); |
|
d386abc18133
simplification in SplitStudyJob, fix possible memory leak
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2797
diff
changeset
|
988 } |
|
d386abc18133
simplification in SplitStudyJob, fix possible memory leak
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2797
diff
changeset
|
989 else if (tmp->IsBinary()) |
|
d386abc18133
simplification in SplitStudyJob, fix possible memory leak
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2797
diff
changeset
|
990 { |
|
2954
d924f9bb61cc
taking advantage of details in OrthancException
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2924
diff
changeset
|
991 throw OrthancException(ErrorCode_ParameterOutOfRange, |
|
d924f9bb61cc
taking advantage of details in OrthancException
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2924
diff
changeset
|
992 "Invalid binary string in the SpecificCharacterSet (0008,0005) tag"); |
|
2846
d386abc18133
simplification in SplitStudyJob, fix possible memory leak
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2797
diff
changeset
|
993 } |
|
d386abc18133
simplification in SplitStudyJob, fix possible memory leak
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2797
diff
changeset
|
994 else if (tmp->IsNull() || |
|
d386abc18133
simplification in SplitStudyJob, fix possible memory leak
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2797
diff
changeset
|
995 tmp->GetContent().empty()) |
|
d386abc18133
simplification in SplitStudyJob, fix possible memory leak
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2797
diff
changeset
|
996 { |
|
d386abc18133
simplification in SplitStudyJob, fix possible memory leak
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2797
diff
changeset
|
997 SetEncoding(defaultEncoding); |
|
d386abc18133
simplification in SplitStudyJob, fix possible memory leak
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2797
diff
changeset
|
998 } |
|
d386abc18133
simplification in SplitStudyJob, fix possible memory leak
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2797
diff
changeset
|
999 else |
|
d386abc18133
simplification in SplitStudyJob, fix possible memory leak
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|
1000 { |
|
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|
1001 Encoding encoding; |
|
2445
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|
1002 |
|
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|
1003 if (GetDicomEncoding(encoding, tmp->GetContent().c_str())) |
|
2202
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1004 { |
|
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|
1005 SetEncoding(encoding); |
|
2445
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|
1006 } |
|
2202
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|
1007 else |
|
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1008 { |
|
2954
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diff
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|
1009 throw OrthancException(ErrorCode_ParameterOutOfRange, |
|
d924f9bb61cc
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|
1010 "Unsupported value for the SpecificCharacterSet (0008,0005) tag: \"" + |
|
d924f9bb61cc
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|
1011 tmp->GetContent() + "\""); |
|
2202
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1012 } |
|
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1013 } |
|
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1014 |
|
3651
46cb00e4adbb
DicomMap::DumpMainDicomTags() and DicomMap::ParseMainDicomTags()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3640
diff
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|
1015 for (DicomMap::Content::const_iterator |
|
46cb00e4adbb
DicomMap::DumpMainDicomTags() and DicomMap::ParseMainDicomTags()
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|
1016 it = source.content_.begin(); it != source.content_.end(); ++it) |
|
2202
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1017 { |
|
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1018 if (it->first != DICOM_TAG_SPECIFIC_CHARACTER_SET && |
|
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|
1019 !it->second->IsNull()) |
|
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|
1020 { |
|
3276
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More tolerance wrt. invalid DICOM files that must be returned by Orthanc C-FIND SCP
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1021 try |
|
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More tolerance wrt. invalid DICOM files that must be returned by Orthanc C-FIND SCP
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changeset
|
1022 { |
|
4007
884b55ce01f6
Private tags returned by C-FIND SCP
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diff
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|
1023 // Same as "ReplacePlainString()", but with support for private creator |
|
884b55ce01f6
Private tags returned by C-FIND SCP
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|
1024 const std::string& utf8Value = it->second->GetContent(); |
|
4035
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added contextual privateCreators dico to ParsedDicomFile -> this allows you not to have to define a DefaultPrivateCreator. This was tested only in the scope of C-Find requests but should not have impact on other parts since it is not used out of C-Find right now
Alain Mazy <alain@mazy.be>
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|
1025 |
| 4039 | 1026 std::map<uint16_t, std::string>::const_iterator found = privateCreators.find(it->first.GetGroup()); |
| 1027 | |
| 1028 if (it->first.IsPrivate() && | |
| 1029 found != privateCreators.end()) | |
|
4035
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added contextual privateCreators dico to ParsedDicomFile -> this allows you not to have to define a DefaultPrivateCreator. This was tested only in the scope of C-Find requests but should not have impact on other parts since it is not used out of C-Find right now
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|
1030 { |
| 4039 | 1031 Replace(it->first, utf8Value, false, DicomReplaceMode_InsertIfAbsent, found->second); |
|
4035
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added contextual privateCreators dico to ParsedDicomFile -> this allows you not to have to define a DefaultPrivateCreator. This was tested only in the scope of C-Find requests but should not have impact on other parts since it is not used out of C-Find right now
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|
1032 } |
|
cc6ed76bba27
added contextual privateCreators dico to ParsedDicomFile -> this allows you not to have to define a DefaultPrivateCreator. This was tested only in the scope of C-Find requests but should not have impact on other parts since it is not used out of C-Find right now
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|
1033 else |
|
cc6ed76bba27
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parents:
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|
1034 { |
|
cc6ed76bba27
added contextual privateCreators dico to ParsedDicomFile -> this allows you not to have to define a DefaultPrivateCreator. This was tested only in the scope of C-Find requests but should not have impact on other parts since it is not used out of C-Find right now
Alain Mazy <alain@mazy.be>
parents:
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diff
changeset
|
1035 Replace(it->first, utf8Value, false, DicomReplaceMode_InsertIfAbsent, defaultPrivateCreator); |
|
cc6ed76bba27
added contextual privateCreators dico to ParsedDicomFile -> this allows you not to have to define a DefaultPrivateCreator. This was tested only in the scope of C-Find requests but should not have impact on other parts since it is not used out of C-Find right now
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diff
changeset
|
1036 } |
|
3276
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More tolerance wrt. invalid DICOM files that must be returned by Orthanc C-FIND SCP
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|
1037 } |
|
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|
1038 catch (OrthancException&) |
|
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|
1039 { |
|
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|
1040 if (!permissive) |
|
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|
1041 { |
|
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|
1042 throw; |
|
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More tolerance wrt. invalid DICOM files that must be returned by Orthanc C-FIND SCP
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|
1043 } |
|
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More tolerance wrt. invalid DICOM files that must be returned by Orthanc C-FIND SCP
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|
1044 } |
|
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|
1045 } |
|
2202
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Fix handling of encodings in C-FIND requests
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|
1046 } |
|
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|
1047 } |
|
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Fix handling of encodings in C-FIND requests
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|
1048 |
|
4035
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Alain Mazy <alain@mazy.be>
parents:
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changeset
|
1049 ParsedDicomFile::ParsedDicomFile(const DicomMap& map, |
|
cc6ed76bba27
added contextual privateCreators dico to ParsedDicomFile -> this allows you not to have to define a DefaultPrivateCreator. This was tested only in the scope of C-Find requests but should not have impact on other parts since it is not used out of C-Find right now
Alain Mazy <alain@mazy.be>
parents:
4013
diff
changeset
|
1050 Encoding defaultEncoding, |
|
cc6ed76bba27
added contextual privateCreators dico to ParsedDicomFile -> this allows you not to have to define a DefaultPrivateCreator. This was tested only in the scope of C-Find requests but should not have impact on other parts since it is not used out of C-Find right now
Alain Mazy <alain@mazy.be>
parents:
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diff
changeset
|
1051 bool permissive) : |
|
cc6ed76bba27
added contextual privateCreators dico to ParsedDicomFile -> this allows you not to have to define a DefaultPrivateCreator. This was tested only in the scope of C-Find requests but should not have impact on other parts since it is not used out of C-Find right now
Alain Mazy <alain@mazy.be>
parents:
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changeset
|
1052 pimpl_(new PImpl) |
|
cc6ed76bba27
added contextual privateCreators dico to ParsedDicomFile -> this allows you not to have to define a DefaultPrivateCreator. This was tested only in the scope of C-Find requests but should not have impact on other parts since it is not used out of C-Find right now
Alain Mazy <alain@mazy.be>
parents:
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changeset
|
1053 { |
|
cc6ed76bba27
added contextual privateCreators dico to ParsedDicomFile -> this allows you not to have to define a DefaultPrivateCreator. This was tested only in the scope of C-Find requests but should not have impact on other parts since it is not used out of C-Find right now
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parents:
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changeset
|
1054 std::map<uint16_t, std::string> noPrivateCreators; |
|
cc6ed76bba27
added contextual privateCreators dico to ParsedDicomFile -> this allows you not to have to define a DefaultPrivateCreator. This was tested only in the scope of C-Find requests but should not have impact on other parts since it is not used out of C-Find right now
Alain Mazy <alain@mazy.be>
parents:
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diff
changeset
|
1055 CreateFromDicomMap(map, defaultEncoding, permissive, "" /* no default private creator */, noPrivateCreators); |
|
cc6ed76bba27
added contextual privateCreators dico to ParsedDicomFile -> this allows you not to have to define a DefaultPrivateCreator. This was tested only in the scope of C-Find requests but should not have impact on other parts since it is not used out of C-Find right now
Alain Mazy <alain@mazy.be>
parents:
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changeset
|
1056 } |
|
cc6ed76bba27
added contextual privateCreators dico to ParsedDicomFile -> this allows you not to have to define a DefaultPrivateCreator. This was tested only in the scope of C-Find requests but should not have impact on other parts since it is not used out of C-Find right now
Alain Mazy <alain@mazy.be>
parents:
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changeset
|
1057 |
|
1787
1b1d5470233f
refactoring of DicomFindAnswers
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parents:
1786
diff
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|
1058 |
|
2202
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Fix handling of encodings in C-FIND requests
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changeset
|
1059 ParsedDicomFile::ParsedDicomFile(const DicomMap& map, |
|
3276
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More tolerance wrt. invalid DICOM files that must be returned by Orthanc C-FIND SCP
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changeset
|
1060 Encoding defaultEncoding, |
|
4007
884b55ce01f6
Private tags returned by C-FIND SCP
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|
1061 bool permissive, |
|
4035
cc6ed76bba27
added contextual privateCreators dico to ParsedDicomFile -> this allows you not to have to define a DefaultPrivateCreator. This was tested only in the scope of C-Find requests but should not have impact on other parts since it is not used out of C-Find right now
Alain Mazy <alain@mazy.be>
parents:
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changeset
|
1062 const std::string& defaultPrivateCreator, |
|
cc6ed76bba27
added contextual privateCreators dico to ParsedDicomFile -> this allows you not to have to define a DefaultPrivateCreator. This was tested only in the scope of C-Find requests but should not have impact on other parts since it is not used out of C-Find right now
Alain Mazy <alain@mazy.be>
parents:
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changeset
|
1063 const std::map<uint16_t, std::string>& privateCreators) : |
|
2202
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Fix handling of encodings in C-FIND requests
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|
1064 pimpl_(new PImpl) |
|
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|
1065 { |
|
4035
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added contextual privateCreators dico to ParsedDicomFile -> this allows you not to have to define a DefaultPrivateCreator. This was tested only in the scope of C-Find requests but should not have impact on other parts since it is not used out of C-Find right now
Alain Mazy <alain@mazy.be>
parents:
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diff
changeset
|
1066 CreateFromDicomMap(map, defaultEncoding, permissive, defaultPrivateCreator, privateCreators); |
|
2202
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Fix handling of encodings in C-FIND requests
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|
1067 } |
|
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|
1068 |
|
9b373b7d6713
Fix handling of encodings in C-FIND requests
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|
1069 |
|
1800
30e97a1f4093
callback for handling worklists with plugins
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changeset
|
1070 ParsedDicomFile::ParsedDicomFile(const void* content, |
|
30e97a1f4093
callback for handling worklists with plugins
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|
1071 size_t size) : pimpl_(new PImpl) |
| 791 | 1072 { |
|
1935
e251606c1433
FromDcmtkBridge::LoadFromMemoryBuffer
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diff
changeset
|
1073 pimpl_->file_.reset(FromDcmtkBridge::LoadFromMemoryBuffer(content, size)); |
| 791 | 1074 } |
| 1075 | |
| 794 | 1076 ParsedDicomFile::ParsedDicomFile(const std::string& content) : pimpl_(new PImpl) |
| 791 | 1077 { |
| 1078 if (content.size() == 0) | |
| 1079 { | |
|
1935
e251606c1433
FromDcmtkBridge::LoadFromMemoryBuffer
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diff
changeset
|
1080 pimpl_->file_.reset(FromDcmtkBridge::LoadFromMemoryBuffer(NULL, 0)); |
| 791 | 1081 } |
| 1082 else | |
| 1083 { | |
|
1935
e251606c1433
FromDcmtkBridge::LoadFromMemoryBuffer
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parents:
1934
diff
changeset
|
1084 pimpl_->file_.reset(FromDcmtkBridge::LoadFromMemoryBuffer(&content[0], content.size())); |
| 791 | 1085 } |
| 1086 } | |
| 792 | 1087 |
| 1088 | |
| 4200 | 1089 ParsedDicomFile::ParsedDicomFile(const ParsedDicomFile& other, |
|
2521
6db878376018
support anonymization of CurrentRequestedProcedureEvidenceSequence
Sebastien Jodogne <s.jodogne@gmail.com>
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2512
diff
changeset
|
1090 bool keepSopInstanceUid) : |
| 794 | 1091 pimpl_(new PImpl) |
| 792 | 1092 { |
|
4203
4d42408da117
improving const-correctness in ParsedDicomFile
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4200
diff
changeset
|
1093 pimpl_->file_.reset(dynamic_cast<DcmFileFormat*>(other.GetDcmtkObjectConst().clone())); |
|
956
2fd5a163776d
primitives for proper encoding handling
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parents:
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diff
changeset
|
1094 |
|
2521
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support anonymization of CurrentRequestedProcedureEvidenceSequence
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|
1095 if (!keepSopInstanceUid) |
|
6db878376018
support anonymization of CurrentRequestedProcedureEvidenceSequence
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|
1096 { |
|
6db878376018
support anonymization of CurrentRequestedProcedureEvidenceSequence
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changeset
|
1097 // Create a new instance-level identifier |
|
6db878376018
support anonymization of CurrentRequestedProcedureEvidenceSequence
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changeset
|
1098 ReplacePlainString(DICOM_TAG_SOP_INSTANCE_UID, FromDcmtkBridge::GenerateUniqueIdentifier(ResourceType_Instance)); |
|
6db878376018
support anonymization of CurrentRequestedProcedureEvidenceSequence
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|
1099 } |
| 792 | 1100 } |
| 1101 | |
| 1102 | |
|
1788
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getting rid of opaque data structures
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|
1103 ParsedDicomFile::ParsedDicomFile(DcmDataset& dicom) : pimpl_(new PImpl) |
|
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getting rid of opaque data structures
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|
1104 { |
|
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changeset
|
1105 pimpl_->file_.reset(new DcmFileFormat(&dicom)); |
|
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getting rid of opaque data structures
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|
1106 } |
|
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getting rid of opaque data structures
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|
1107 |
|
6a2d507ef064
getting rid of opaque data structures
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changeset
|
1108 |
|
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getting rid of opaque data structures
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changeset
|
1109 ParsedDicomFile::ParsedDicomFile(DcmFileFormat& dicom) : pimpl_(new PImpl) |
|
6a2d507ef064
getting rid of opaque data structures
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|
1110 { |
|
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changeset
|
1111 pimpl_->file_.reset(new DcmFileFormat(dicom)); |
|
6a2d507ef064
getting rid of opaque data structures
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1787
diff
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|
1112 } |
|
6a2d507ef064
getting rid of opaque data structures
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1787
diff
changeset
|
1113 |
|
6a2d507ef064
getting rid of opaque data structures
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1787
diff
changeset
|
1114 |
|
3912
7610af1532c3
prototyping automated transcoding of incoming DICOM files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3901
diff
changeset
|
1115 ParsedDicomFile::ParsedDicomFile(DcmFileFormat* dicom) : pimpl_(new PImpl) |
|
7610af1532c3
prototyping automated transcoding of incoming DICOM files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3901
diff
changeset
|
1116 { |
|
7610af1532c3
prototyping automated transcoding of incoming DICOM files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3901
diff
changeset
|
1117 pimpl_->file_.reset(dicom); // No cloning |
|
7610af1532c3
prototyping automated transcoding of incoming DICOM files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3901
diff
changeset
|
1118 } |
|
7610af1532c3
prototyping automated transcoding of incoming DICOM files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3901
diff
changeset
|
1119 |
|
7610af1532c3
prototyping automated transcoding of incoming DICOM files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3901
diff
changeset
|
1120 |
|
4203
4d42408da117
improving const-correctness in ParsedDicomFile
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4200
diff
changeset
|
1121 DcmFileFormat& ParsedDicomFile::GetDcmtkObjectConst() const |
| 793 | 1122 { |
|
3944
aae045f802f4
preparing simplified interface for IDicomTranscoder
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3912
diff
changeset
|
1123 if (pimpl_->file_.get() == NULL) |
|
aae045f802f4
preparing simplified interface for IDicomTranscoder
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3912
diff
changeset
|
1124 { |
|
aae045f802f4
preparing simplified interface for IDicomTranscoder
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3912
diff
changeset
|
1125 throw OrthancException(ErrorCode_BadSequenceOfCalls, |
|
aae045f802f4
preparing simplified interface for IDicomTranscoder
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3912
diff
changeset
|
1126 "ReleaseDcmtkObject() was called"); |
|
aae045f802f4
preparing simplified interface for IDicomTranscoder
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3912
diff
changeset
|
1127 } |
|
aae045f802f4
preparing simplified interface for IDicomTranscoder
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3912
diff
changeset
|
1128 else |
|
aae045f802f4
preparing simplified interface for IDicomTranscoder
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3912
diff
changeset
|
1129 { |
|
aae045f802f4
preparing simplified interface for IDicomTranscoder
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3912
diff
changeset
|
1130 return *pimpl_->file_; |
|
aae045f802f4
preparing simplified interface for IDicomTranscoder
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3912
diff
changeset
|
1131 } |
|
aae045f802f4
preparing simplified interface for IDicomTranscoder
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3912
diff
changeset
|
1132 } |
|
aae045f802f4
preparing simplified interface for IDicomTranscoder
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3912
diff
changeset
|
1133 |
| 4297 | 1134 ParsedDicomFile *ParsedDicomFile::AcquireDcmtkObject(DcmFileFormat *dicom) // No clone here |
|
4296
3b70a2e6a06c
moving inline methods to source files for ABI compatibility
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4278
diff
changeset
|
1135 { |
|
3b70a2e6a06c
moving inline methods to source files for ABI compatibility
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4278
diff
changeset
|
1136 return new ParsedDicomFile(dicom); |
|
3b70a2e6a06c
moving inline methods to source files for ABI compatibility
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4278
diff
changeset
|
1137 } |
|
3b70a2e6a06c
moving inline methods to source files for ABI compatibility
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4278
diff
changeset
|
1138 |
|
3b70a2e6a06c
moving inline methods to source files for ABI compatibility
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4278
diff
changeset
|
1139 DcmFileFormat &ParsedDicomFile::GetDcmtkObject() |
|
3b70a2e6a06c
moving inline methods to source files for ABI compatibility
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4278
diff
changeset
|
1140 { |
|
3b70a2e6a06c
moving inline methods to source files for ABI compatibility
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4278
diff
changeset
|
1141 return GetDcmtkObjectConst(); |
|
3b70a2e6a06c
moving inline methods to source files for ABI compatibility
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4278
diff
changeset
|
1142 } |
|
3b70a2e6a06c
moving inline methods to source files for ABI compatibility
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4278
diff
changeset
|
1143 |
|
3944
aae045f802f4
preparing simplified interface for IDicomTranscoder
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3912
diff
changeset
|
1144 |
|
aae045f802f4
preparing simplified interface for IDicomTranscoder
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3912
diff
changeset
|
1145 DcmFileFormat* ParsedDicomFile::ReleaseDcmtkObject() |
|
aae045f802f4
preparing simplified interface for IDicomTranscoder
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3912
diff
changeset
|
1146 { |
|
aae045f802f4
preparing simplified interface for IDicomTranscoder
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3912
diff
changeset
|
1147 if (pimpl_->file_.get() == NULL) |
|
aae045f802f4
preparing simplified interface for IDicomTranscoder
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3912
diff
changeset
|
1148 { |
|
aae045f802f4
preparing simplified interface for IDicomTranscoder
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3912
diff
changeset
|
1149 throw OrthancException(ErrorCode_BadSequenceOfCalls, |
|
aae045f802f4
preparing simplified interface for IDicomTranscoder
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3912
diff
changeset
|
1150 "ReleaseDcmtkObject() was called"); |
|
aae045f802f4
preparing simplified interface for IDicomTranscoder
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3912
diff
changeset
|
1151 } |
|
aae045f802f4
preparing simplified interface for IDicomTranscoder
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3912
diff
changeset
|
1152 else |
|
aae045f802f4
preparing simplified interface for IDicomTranscoder
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3912
diff
changeset
|
1153 { |
|
aae045f802f4
preparing simplified interface for IDicomTranscoder
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3912
diff
changeset
|
1154 pimpl_->frameIndex_.reset(NULL); |
|
aae045f802f4
preparing simplified interface for IDicomTranscoder
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3912
diff
changeset
|
1155 return pimpl_->file_.release(); |
|
aae045f802f4
preparing simplified interface for IDicomTranscoder
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3912
diff
changeset
|
1156 } |
| 793 | 1157 } |
| 1158 | |
| 1159 | |
|
4203
4d42408da117
improving const-correctness in ParsedDicomFile
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4200
diff
changeset
|
1160 ParsedDicomFile* ParsedDicomFile::Clone(bool keepSopInstanceUid) const |
| 793 | 1161 { |
|
2521
6db878376018
support anonymization of CurrentRequestedProcedureEvidenceSequence
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2512
diff
changeset
|
1162 return new ParsedDicomFile(*this, keepSopInstanceUid); |
| 793 | 1163 } |
|
800
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1164 |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1165 |
|
1982
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1166 bool ParsedDicomFile::EmbedContentInternal(const std::string& dataUriScheme) |
|
800
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1167 { |
|
2908
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1168 std::string mimeString, content; |
|
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1169 if (!Toolbox::DecodeDataUriScheme(mimeString, content, dataUriScheme)) |
|
1981
4b545a8b1f95
return code in Toolbox::DecodeDataUriScheme
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1980
diff
changeset
|
1170 { |
|
1982
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1171 return false; |
|
1981
4b545a8b1f95
return code in Toolbox::DecodeDataUriScheme
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1980
diff
changeset
|
1172 } |
|
4b545a8b1f95
return code in Toolbox::DecodeDataUriScheme
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1980
diff
changeset
|
1173 |
|
2908
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1174 Toolbox::ToLowerCase(mimeString); |
|
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1175 MimeType mime = StringToMimeType(mimeString); |
|
1555
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1176 |
|
2908
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1177 switch (mime) |
| 1562 | 1178 { |
|
2908
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1179 case MimeType_Png: |
|
2380
96b3ec054b69
reorganization in macros
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2310
diff
changeset
|
1180 #if ORTHANC_ENABLE_PNG == 1 |
|
2908
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1181 EmbedImage(mime, content); |
|
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1182 break; |
|
2380
96b3ec054b69
reorganization in macros
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2310
diff
changeset
|
1183 #else |
|
2954
d924f9bb61cc
taking advantage of details in OrthancException
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2924
diff
changeset
|
1184 throw OrthancException(ErrorCode_NotImplemented, |
|
d924f9bb61cc
taking advantage of details in OrthancException
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2924
diff
changeset
|
1185 "Orthanc was compiled without support of PNG"); |
|
2908
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1186 #endif |
|
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1187 |
|
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1188 case MimeType_Jpeg: |
|
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1189 #if ORTHANC_ENABLE_JPEG == 1 |
|
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1190 EmbedImage(mime, content); |
|
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1191 break; |
|
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1192 #else |
|
2954
d924f9bb61cc
taking advantage of details in OrthancException
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2924
diff
changeset
|
1193 throw OrthancException(ErrorCode_NotImplemented, |
|
d924f9bb61cc
taking advantage of details in OrthancException
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2924
diff
changeset
|
1194 "Orthanc was compiled without support of JPEG"); |
|
2380
96b3ec054b69
reorganization in macros
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2310
diff
changeset
|
1195 #endif |
|
2908
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1196 |
|
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1197 case MimeType_Pam: |
|
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1198 EmbedImage(mime, content); |
|
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1199 break; |
|
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1200 |
|
4845
02d77189d8ba
added ReceivedInstanceCallback + sample C++ plugin
Alain Mazy <am@osimis.io>
parents:
4831
diff
changeset
|
1201 case MimeType_Binary: |
|
02d77189d8ba
added ReceivedInstanceCallback + sample C++ plugin
Alain Mazy <am@osimis.io>
parents:
4831
diff
changeset
|
1202 EmbedImage(mime, content); |
|
02d77189d8ba
added ReceivedInstanceCallback + sample C++ plugin
Alain Mazy <am@osimis.io>
parents:
4831
diff
changeset
|
1203 break; |
|
02d77189d8ba
added ReceivedInstanceCallback + sample C++ plugin
Alain Mazy <am@osimis.io>
parents:
4831
diff
changeset
|
1204 |
|
2908
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1205 case MimeType_Pdf: |
|
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1206 EmbedPdf(content); |
|
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1207 break; |
|
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1208 |
|
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1209 default: |
|
2954
d924f9bb61cc
taking advantage of details in OrthancException
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2924
diff
changeset
|
1210 throw OrthancException(ErrorCode_NotImplemented, |
| 2989 | 1211 "Unsupported MIME type for the content of a new DICOM file: " + |
| 1212 std::string(EnumerationToString(mime))); | |
| 1562 | 1213 } |
|
1982
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1214 |
|
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1215 return true; |
|
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1216 } |
|
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1217 |
|
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1218 |
|
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1219 void ParsedDicomFile::EmbedContent(const std::string& dataUriScheme) |
|
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1220 { |
|
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1221 if (!EmbedContentInternal(dataUriScheme)) |
|
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1222 { |
|
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1223 throw OrthancException(ErrorCode_BadFileFormat); |
|
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1224 } |
|
1555
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1225 } |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1226 |
|
800
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1227 |
|
2908
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1228 void ParsedDicomFile::EmbedImage(MimeType mime, |
|
1555
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1229 const std::string& content) |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
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1523
diff
changeset
|
1230 { |
|
2908
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
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2905
diff
changeset
|
1231 switch (mime) |
|
2905
ae20fccdd867
refactoring mime types
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2889
diff
changeset
|
1232 { |
|
2908
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
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2905
diff
changeset
|
1233 |
|
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1234 #if ORTHANC_ENABLE_JPEG == 1 |
|
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1235 case MimeType_Jpeg: |
|
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1236 { |
|
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1237 JpegReader reader; |
|
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1238 reader.ReadFromMemory(content); |
|
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1239 EmbedImage(reader); |
|
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1240 break; |
|
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1241 } |
|
2905
ae20fccdd867
refactoring mime types
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2889
diff
changeset
|
1242 #endif |
|
ae20fccdd867
refactoring mime types
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2889
diff
changeset
|
1243 |
|
ae20fccdd867
refactoring mime types
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2889
diff
changeset
|
1244 #if ORTHANC_ENABLE_PNG == 1 |
|
2908
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1245 case MimeType_Png: |
|
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1246 { |
|
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1247 PngReader reader; |
|
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1248 reader.ReadFromMemory(content); |
|
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1249 EmbedImage(reader); |
|
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1250 break; |
|
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1251 } |
|
2905
ae20fccdd867
refactoring mime types
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2889
diff
changeset
|
1252 #endif |
|
ae20fccdd867
refactoring mime types
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2889
diff
changeset
|
1253 |
|
2908
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1254 case MimeType_Pam: |
|
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1255 { |
|
4211
afad57ac30ef
enforcing parameter "enforceAligned" in PamReader
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4203
diff
changeset
|
1256 // "true" means "enforce memory alignment": This is slower, |
|
afad57ac30ef
enforcing parameter "enforceAligned" in PamReader
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4203
diff
changeset
|
1257 // but possibly avoids crash related to non-aligned memory access |
|
afad57ac30ef
enforcing parameter "enforceAligned" in PamReader
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4203
diff
changeset
|
1258 PamReader reader(true); |
|
2908
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1259 reader.ReadFromMemory(content); |
|
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1260 EmbedImage(reader); |
|
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1261 break; |
|
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1262 } |
|
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1263 |
|
4845
02d77189d8ba
added ReceivedInstanceCallback + sample C++ plugin
Alain Mazy <am@osimis.io>
parents:
4831
diff
changeset
|
1264 case MimeType_Binary: |
|
02d77189d8ba
added ReceivedInstanceCallback + sample C++ plugin
Alain Mazy <am@osimis.io>
parents:
4831
diff
changeset
|
1265 EmbedRawPixelData(content); |
|
02d77189d8ba
added ReceivedInstanceCallback + sample C++ plugin
Alain Mazy <am@osimis.io>
parents:
4831
diff
changeset
|
1266 break; |
|
02d77189d8ba
added ReceivedInstanceCallback + sample C++ plugin
Alain Mazy <am@osimis.io>
parents:
4831
diff
changeset
|
1267 |
|
2908
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1268 default: |
|
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1269 throw OrthancException(ErrorCode_NotImplemented); |
|
800
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1270 } |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1271 } |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1272 |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1273 |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1274 void ParsedDicomFile::EmbedImage(const ImageAccessor& accessor) |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1275 { |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1276 if (accessor.GetFormat() != PixelFormat_Grayscale8 && |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1277 accessor.GetFormat() != PixelFormat_Grayscale16 && |
|
1941
d7b176f7dd1b
test dicom patterns
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1935
diff
changeset
|
1278 accessor.GetFormat() != PixelFormat_SignedGrayscale16 && |
|
800
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1279 accessor.GetFormat() != PixelFormat_RGB24 && |
|
5054
255b02c68908
Added support for RGBA64 images in tools/create-dicom and /preview (Contribution from James Manners - Pliny)
Alain Mazy <am@osimis.io>
parents:
4956
diff
changeset
|
1280 accessor.GetFormat() != PixelFormat_RGBA32 && |
|
255b02c68908
Added support for RGBA64 images in tools/create-dicom and /preview (Contribution from James Manners - Pliny)
Alain Mazy <am@osimis.io>
parents:
4956
diff
changeset
|
1281 accessor.GetFormat() != PixelFormat_RGBA64) |
|
800
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1282 { |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1283 throw OrthancException(ErrorCode_NotImplemented); |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1284 } |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1285 |
|
1982
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1286 InvalidateCache(); |
|
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1287 |
|
5054
255b02c68908
Added support for RGBA64 images in tools/create-dicom and /preview (Contribution from James Manners - Pliny)
Alain Mazy <am@osimis.io>
parents:
4956
diff
changeset
|
1288 if (accessor.GetFormat() == PixelFormat_RGBA32 || |
|
255b02c68908
Added support for RGBA64 images in tools/create-dicom and /preview (Contribution from James Manners - Pliny)
Alain Mazy <am@osimis.io>
parents:
4956
diff
changeset
|
1289 accessor.GetFormat() == PixelFormat_RGBA64) |
|
800
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1290 { |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1291 LOG(WARNING) << "Getting rid of the alpha channel when embedding a RGBA image inside DICOM"; |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1292 } |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1293 |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1294 // http://dicomiseasy.blogspot.be/2012/08/chapter-12-pixel-data.html |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1295 |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1296 Remove(DICOM_TAG_PIXEL_DATA); |
|
1982
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1297 ReplacePlainString(DICOM_TAG_COLUMNS, boost::lexical_cast<std::string>(accessor.GetWidth())); |
|
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1298 ReplacePlainString(DICOM_TAG_ROWS, boost::lexical_cast<std::string>(accessor.GetHeight())); |
|
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1299 ReplacePlainString(DICOM_TAG_SAMPLES_PER_PIXEL, "1"); |
|
2910
83133583183d
minor fixes if embedding images within DICOM
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2908
diff
changeset
|
1300 |
|
83133583183d
minor fixes if embedding images within DICOM
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2908
diff
changeset
|
1301 // The "Number of frames" must only be present in multi-frame images |
|
83133583183d
minor fixes if embedding images within DICOM
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2908
diff
changeset
|
1302 //ReplacePlainString(DICOM_TAG_NUMBER_OF_FRAMES, "1"); |
|
1941
d7b176f7dd1b
test dicom patterns
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1935
diff
changeset
|
1303 |
|
d7b176f7dd1b
test dicom patterns
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1935
diff
changeset
|
1304 if (accessor.GetFormat() == PixelFormat_SignedGrayscale16) |
|
d7b176f7dd1b
test dicom patterns
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1935
diff
changeset
|
1305 { |
|
1982
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1306 ReplacePlainString(DICOM_TAG_PIXEL_REPRESENTATION, "1"); |
|
1941
d7b176f7dd1b
test dicom patterns
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1935
diff
changeset
|
1307 } |
|
d7b176f7dd1b
test dicom patterns
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1935
diff
changeset
|
1308 else |
|
d7b176f7dd1b
test dicom patterns
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1935
diff
changeset
|
1309 { |
|
1982
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1310 ReplacePlainString(DICOM_TAG_PIXEL_REPRESENTATION, "0"); // Unsigned pixels |
|
1941
d7b176f7dd1b
test dicom patterns
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1935
diff
changeset
|
1311 } |
|
d7b176f7dd1b
test dicom patterns
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1935
diff
changeset
|
1312 |
|
d7b176f7dd1b
test dicom patterns
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1935
diff
changeset
|
1313 unsigned int bytesPerPixel = 0; |
|
800
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1314 |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1315 switch (accessor.GetFormat()) |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1316 { |
|
1941
d7b176f7dd1b
test dicom patterns
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1935
diff
changeset
|
1317 case PixelFormat_Grayscale8: |
|
2910
83133583183d
minor fixes if embedding images within DICOM
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2908
diff
changeset
|
1318 // By default, grayscale images are MONOCHROME2 |
|
83133583183d
minor fixes if embedding images within DICOM
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2908
diff
changeset
|
1319 SetIfAbsent(DICOM_TAG_PHOTOMETRIC_INTERPRETATION, "MONOCHROME2"); |
|
83133583183d
minor fixes if embedding images within DICOM
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2908
diff
changeset
|
1320 |
|
1982
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1321 ReplacePlainString(DICOM_TAG_BITS_ALLOCATED, "8"); |
|
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1322 ReplacePlainString(DICOM_TAG_BITS_STORED, "8"); |
|
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1323 ReplacePlainString(DICOM_TAG_HIGH_BIT, "7"); |
|
1941
d7b176f7dd1b
test dicom patterns
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1935
diff
changeset
|
1324 bytesPerPixel = 1; |
|
d7b176f7dd1b
test dicom patterns
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1935
diff
changeset
|
1325 break; |
|
d7b176f7dd1b
test dicom patterns
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1935
diff
changeset
|
1326 |
|
800
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1327 case PixelFormat_RGB24: |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1328 case PixelFormat_RGBA32: |
|
1982
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1329 ReplacePlainString(DICOM_TAG_PHOTOMETRIC_INTERPRETATION, "RGB"); |
|
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1330 ReplacePlainString(DICOM_TAG_SAMPLES_PER_PIXEL, "3"); |
|
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1331 ReplacePlainString(DICOM_TAG_BITS_ALLOCATED, "8"); |
|
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1332 ReplacePlainString(DICOM_TAG_BITS_STORED, "8"); |
|
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1333 ReplacePlainString(DICOM_TAG_HIGH_BIT, "7"); |
|
800
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1334 bytesPerPixel = 3; |
|
2910
83133583183d
minor fixes if embedding images within DICOM
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2908
diff
changeset
|
1335 |
|
83133583183d
minor fixes if embedding images within DICOM
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2908
diff
changeset
|
1336 // "Planar configuration" must only present if "Samples per |
|
83133583183d
minor fixes if embedding images within DICOM
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2908
diff
changeset
|
1337 // Pixel" is greater than 1 |
|
83133583183d
minor fixes if embedding images within DICOM
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2908
diff
changeset
|
1338 ReplacePlainString(DICOM_TAG_PLANAR_CONFIGURATION, "0"); // Color channels are interleaved |
|
83133583183d
minor fixes if embedding images within DICOM
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2908
diff
changeset
|
1339 |
|
800
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1340 break; |
|
5054
255b02c68908
Added support for RGBA64 images in tools/create-dicom and /preview (Contribution from James Manners - Pliny)
Alain Mazy <am@osimis.io>
parents:
4956
diff
changeset
|
1341 |
|
255b02c68908
Added support for RGBA64 images in tools/create-dicom and /preview (Contribution from James Manners - Pliny)
Alain Mazy <am@osimis.io>
parents:
4956
diff
changeset
|
1342 case PixelFormat_RGBA64: |
|
255b02c68908
Added support for RGBA64 images in tools/create-dicom and /preview (Contribution from James Manners - Pliny)
Alain Mazy <am@osimis.io>
parents:
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diff
changeset
|
1343 ReplacePlainString(DICOM_TAG_PHOTOMETRIC_INTERPRETATION, "RGB"); |
|
255b02c68908
Added support for RGBA64 images in tools/create-dicom and /preview (Contribution from James Manners - Pliny)
Alain Mazy <am@osimis.io>
parents:
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diff
changeset
|
1344 ReplacePlainString(DICOM_TAG_SAMPLES_PER_PIXEL, "3"); |
|
255b02c68908
Added support for RGBA64 images in tools/create-dicom and /preview (Contribution from James Manners - Pliny)
Alain Mazy <am@osimis.io>
parents:
4956
diff
changeset
|
1345 ReplacePlainString(DICOM_TAG_BITS_ALLOCATED, "16"); |
|
255b02c68908
Added support for RGBA64 images in tools/create-dicom and /preview (Contribution from James Manners - Pliny)
Alain Mazy <am@osimis.io>
parents:
4956
diff
changeset
|
1346 ReplacePlainString(DICOM_TAG_BITS_STORED, "16"); |
|
255b02c68908
Added support for RGBA64 images in tools/create-dicom and /preview (Contribution from James Manners - Pliny)
Alain Mazy <am@osimis.io>
parents:
4956
diff
changeset
|
1347 ReplacePlainString(DICOM_TAG_HIGH_BIT, "15"); |
|
255b02c68908
Added support for RGBA64 images in tools/create-dicom and /preview (Contribution from James Manners - Pliny)
Alain Mazy <am@osimis.io>
parents:
4956
diff
changeset
|
1348 bytesPerPixel = 6; |
|
255b02c68908
Added support for RGBA64 images in tools/create-dicom and /preview (Contribution from James Manners - Pliny)
Alain Mazy <am@osimis.io>
parents:
4956
diff
changeset
|
1349 |
|
255b02c68908
Added support for RGBA64 images in tools/create-dicom and /preview (Contribution from James Manners - Pliny)
Alain Mazy <am@osimis.io>
parents:
4956
diff
changeset
|
1350 // "Planar configuration" must only present if "Samples per |
|
255b02c68908
Added support for RGBA64 images in tools/create-dicom and /preview (Contribution from James Manners - Pliny)
Alain Mazy <am@osimis.io>
parents:
4956
diff
changeset
|
1351 // Pixel" is greater than 1 |
|
255b02c68908
Added support for RGBA64 images in tools/create-dicom and /preview (Contribution from James Manners - Pliny)
Alain Mazy <am@osimis.io>
parents:
4956
diff
changeset
|
1352 ReplacePlainString(DICOM_TAG_PLANAR_CONFIGURATION, "0"); // Color channels are interleaved |
|
255b02c68908
Added support for RGBA64 images in tools/create-dicom and /preview (Contribution from James Manners - Pliny)
Alain Mazy <am@osimis.io>
parents:
4956
diff
changeset
|
1353 |
|
255b02c68908
Added support for RGBA64 images in tools/create-dicom and /preview (Contribution from James Manners - Pliny)
Alain Mazy <am@osimis.io>
parents:
4956
diff
changeset
|
1354 break; |
|
800
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1355 |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1356 case PixelFormat_Grayscale16: |
|
1941
d7b176f7dd1b
test dicom patterns
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1935
diff
changeset
|
1357 case PixelFormat_SignedGrayscale16: |
|
2910
83133583183d
minor fixes if embedding images within DICOM
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2908
diff
changeset
|
1358 // By default, grayscale images are MONOCHROME2 |
|
83133583183d
minor fixes if embedding images within DICOM
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2908
diff
changeset
|
1359 SetIfAbsent(DICOM_TAG_PHOTOMETRIC_INTERPRETATION, "MONOCHROME2"); |
|
83133583183d
minor fixes if embedding images within DICOM
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2908
diff
changeset
|
1360 |
|
1982
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1361 ReplacePlainString(DICOM_TAG_BITS_ALLOCATED, "16"); |
|
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1362 ReplacePlainString(DICOM_TAG_BITS_STORED, "16"); |
|
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1363 ReplacePlainString(DICOM_TAG_HIGH_BIT, "15"); |
|
800
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1364 bytesPerPixel = 2; |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1365 break; |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1366 |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1367 default: |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1368 throw OrthancException(ErrorCode_NotImplemented); |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1369 } |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1370 |
|
1941
d7b176f7dd1b
test dicom patterns
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1935
diff
changeset
|
1371 assert(bytesPerPixel != 0); |
|
d7b176f7dd1b
test dicom patterns
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1935
diff
changeset
|
1372 |
|
800
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1373 DcmTag key(DICOM_TAG_PIXEL_DATA.GetGroup(), |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1374 DICOM_TAG_PIXEL_DATA.GetElement()); |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1375 |
|
3712
2a170a8f1faf
replacing std::auto_ptr by std::unique_ptr
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3691
diff
changeset
|
1376 std::unique_ptr<DcmPixelData> pixels(new DcmPixelData(key)); |
|
800
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1377 |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1378 unsigned int pitch = accessor.GetWidth() * bytesPerPixel; |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1379 Uint8* target = NULL; |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1380 pixels->createUint8Array(accessor.GetHeight() * pitch, target); |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1381 |
|
4278
9279de56a405
avoid multiple calls to GetWidth() and GetHeight() on pixel loops
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4273
diff
changeset
|
1382 const unsigned int height = accessor.GetHeight(); |
|
9279de56a405
avoid multiple calls to GetWidth() and GetHeight() on pixel loops
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4273
diff
changeset
|
1383 const unsigned int width = accessor.GetWidth(); |
|
9279de56a405
avoid multiple calls to GetWidth() and GetHeight() on pixel loops
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4273
diff
changeset
|
1384 |
|
800
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1385 { |
|
4532
11bfea08341a
fix ParsedDicomImage::EmbedImage() on big-endian
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4508
diff
changeset
|
1386 Uint8* q = target; |
|
11bfea08341a
fix ParsedDicomImage::EmbedImage() on big-endian
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4508
diff
changeset
|
1387 for (unsigned int y = 0; y < height; y++) |
|
800
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1388 { |
|
4532
11bfea08341a
fix ParsedDicomImage::EmbedImage() on big-endian
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4508
diff
changeset
|
1389 switch (accessor.GetFormat()) |
|
800
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1390 { |
|
4532
11bfea08341a
fix ParsedDicomImage::EmbedImage() on big-endian
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4508
diff
changeset
|
1391 case PixelFormat_RGB24: |
|
11bfea08341a
fix ParsedDicomImage::EmbedImage() on big-endian
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4508
diff
changeset
|
1392 case PixelFormat_Grayscale8: |
|
11bfea08341a
fix ParsedDicomImage::EmbedImage() on big-endian
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4508
diff
changeset
|
1393 case PixelFormat_Grayscale16: |
|
11bfea08341a
fix ParsedDicomImage::EmbedImage() on big-endian
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4508
diff
changeset
|
1394 case PixelFormat_SignedGrayscale16: |
|
800
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1395 { |
|
4532
11bfea08341a
fix ParsedDicomImage::EmbedImage() on big-endian
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4508
diff
changeset
|
1396 memcpy(q, reinterpret_cast<const Uint8*>(accessor.GetConstRow(y)), pitch); |
|
11bfea08341a
fix ParsedDicomImage::EmbedImage() on big-endian
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4508
diff
changeset
|
1397 q += pitch; |
|
11bfea08341a
fix ParsedDicomImage::EmbedImage() on big-endian
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4508
diff
changeset
|
1398 break; |
|
800
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1399 } |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1400 |
|
4532
11bfea08341a
fix ParsedDicomImage::EmbedImage() on big-endian
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4508
diff
changeset
|
1401 case PixelFormat_RGBA32: |
|
11bfea08341a
fix ParsedDicomImage::EmbedImage() on big-endian
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4508
diff
changeset
|
1402 { |
|
11bfea08341a
fix ParsedDicomImage::EmbedImage() on big-endian
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4508
diff
changeset
|
1403 // The alpha channel is not supported by the DICOM standard |
|
11bfea08341a
fix ParsedDicomImage::EmbedImage() on big-endian
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4508
diff
changeset
|
1404 const Uint8* source = reinterpret_cast<const Uint8*>(accessor.GetConstRow(y)); |
|
11bfea08341a
fix ParsedDicomImage::EmbedImage() on big-endian
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4508
diff
changeset
|
1405 for (unsigned int x = 0; x < width; x++, q += 3, source += 4) |
|
11bfea08341a
fix ParsedDicomImage::EmbedImage() on big-endian
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4508
diff
changeset
|
1406 { |
|
11bfea08341a
fix ParsedDicomImage::EmbedImage() on big-endian
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4508
diff
changeset
|
1407 q[0] = source[0]; |
|
11bfea08341a
fix ParsedDicomImage::EmbedImage() on big-endian
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4508
diff
changeset
|
1408 q[1] = source[1]; |
|
11bfea08341a
fix ParsedDicomImage::EmbedImage() on big-endian
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4508
diff
changeset
|
1409 q[2] = source[2]; |
|
11bfea08341a
fix ParsedDicomImage::EmbedImage() on big-endian
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4508
diff
changeset
|
1410 } |
|
11bfea08341a
fix ParsedDicomImage::EmbedImage() on big-endian
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4508
diff
changeset
|
1411 |
|
11bfea08341a
fix ParsedDicomImage::EmbedImage() on big-endian
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4508
diff
changeset
|
1412 break; |
|
11bfea08341a
fix ParsedDicomImage::EmbedImage() on big-endian
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4508
diff
changeset
|
1413 } |
|
5054
255b02c68908
Added support for RGBA64 images in tools/create-dicom and /preview (Contribution from James Manners - Pliny)
Alain Mazy <am@osimis.io>
parents:
4956
diff
changeset
|
1414 |
|
255b02c68908
Added support for RGBA64 images in tools/create-dicom and /preview (Contribution from James Manners - Pliny)
Alain Mazy <am@osimis.io>
parents:
4956
diff
changeset
|
1415 case PixelFormat_RGBA64: |
|
255b02c68908
Added support for RGBA64 images in tools/create-dicom and /preview (Contribution from James Manners - Pliny)
Alain Mazy <am@osimis.io>
parents:
4956
diff
changeset
|
1416 { |
|
255b02c68908
Added support for RGBA64 images in tools/create-dicom and /preview (Contribution from James Manners - Pliny)
Alain Mazy <am@osimis.io>
parents:
4956
diff
changeset
|
1417 // The alpha channel is not supported by the DICOM standard |
|
255b02c68908
Added support for RGBA64 images in tools/create-dicom and /preview (Contribution from James Manners - Pliny)
Alain Mazy <am@osimis.io>
parents:
4956
diff
changeset
|
1418 const Uint8* source = reinterpret_cast<const Uint8*>(accessor.GetConstRow(y)); |
|
255b02c68908
Added support for RGBA64 images in tools/create-dicom and /preview (Contribution from James Manners - Pliny)
Alain Mazy <am@osimis.io>
parents:
4956
diff
changeset
|
1419 for (unsigned int x = 0; x < width; x++, q += 6, source += 8) |
|
255b02c68908
Added support for RGBA64 images in tools/create-dicom and /preview (Contribution from James Manners - Pliny)
Alain Mazy <am@osimis.io>
parents:
4956
diff
changeset
|
1420 { |
|
255b02c68908
Added support for RGBA64 images in tools/create-dicom and /preview (Contribution from James Manners - Pliny)
Alain Mazy <am@osimis.io>
parents:
4956
diff
changeset
|
1421 q[0] = source[0]; |
|
255b02c68908
Added support for RGBA64 images in tools/create-dicom and /preview (Contribution from James Manners - Pliny)
Alain Mazy <am@osimis.io>
parents:
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diff
changeset
|
1422 q[1] = source[1]; |
|
255b02c68908
Added support for RGBA64 images in tools/create-dicom and /preview (Contribution from James Manners - Pliny)
Alain Mazy <am@osimis.io>
parents:
4956
diff
changeset
|
1423 q[2] = source[2]; |
|
255b02c68908
Added support for RGBA64 images in tools/create-dicom and /preview (Contribution from James Manners - Pliny)
Alain Mazy <am@osimis.io>
parents:
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diff
changeset
|
1424 q[3] = source[3]; |
|
255b02c68908
Added support for RGBA64 images in tools/create-dicom and /preview (Contribution from James Manners - Pliny)
Alain Mazy <am@osimis.io>
parents:
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diff
changeset
|
1425 q[4] = source[4]; |
|
255b02c68908
Added support for RGBA64 images in tools/create-dicom and /preview (Contribution from James Manners - Pliny)
Alain Mazy <am@osimis.io>
parents:
4956
diff
changeset
|
1426 q[5] = source[5]; |
|
255b02c68908
Added support for RGBA64 images in tools/create-dicom and /preview (Contribution from James Manners - Pliny)
Alain Mazy <am@osimis.io>
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diff
changeset
|
1427 } |
|
255b02c68908
Added support for RGBA64 images in tools/create-dicom and /preview (Contribution from James Manners - Pliny)
Alain Mazy <am@osimis.io>
parents:
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diff
changeset
|
1428 |
|
255b02c68908
Added support for RGBA64 images in tools/create-dicom and /preview (Contribution from James Manners - Pliny)
Alain Mazy <am@osimis.io>
parents:
4956
diff
changeset
|
1429 break; |
|
255b02c68908
Added support for RGBA64 images in tools/create-dicom and /preview (Contribution from James Manners - Pliny)
Alain Mazy <am@osimis.io>
parents:
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diff
changeset
|
1430 } |
|
800
ecedd89055db
generation of DICOM images from PNG files
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parents:
799
diff
changeset
|
1431 |
|
4532
11bfea08341a
fix ParsedDicomImage::EmbedImage() on big-endian
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4508
diff
changeset
|
1432 default: |
|
11bfea08341a
fix ParsedDicomImage::EmbedImage() on big-endian
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4508
diff
changeset
|
1433 throw OrthancException(ErrorCode_NotImplemented); |
|
11bfea08341a
fix ParsedDicomImage::EmbedImage() on big-endian
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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diff
changeset
|
1434 } |
|
800
ecedd89055db
generation of DICOM images from PNG files
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parents:
799
diff
changeset
|
1435 } |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1436 } |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1437 |
|
4532
11bfea08341a
fix ParsedDicomImage::EmbedImage() on big-endian
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4508
diff
changeset
|
1438 static const Endianness ENDIANNESS = Toolbox::DetectEndianness(); |
|
11bfea08341a
fix ParsedDicomImage::EmbedImage() on big-endian
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4508
diff
changeset
|
1439 if (ENDIANNESS == Endianness_Big && |
|
11bfea08341a
fix ParsedDicomImage::EmbedImage() on big-endian
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4508
diff
changeset
|
1440 (accessor.GetFormat() == PixelFormat_Grayscale16 || |
|
11bfea08341a
fix ParsedDicomImage::EmbedImage() on big-endian
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4508
diff
changeset
|
1441 accessor.GetFormat() == PixelFormat_SignedGrayscale16)) |
|
11bfea08341a
fix ParsedDicomImage::EmbedImage() on big-endian
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4508
diff
changeset
|
1442 { |
|
11bfea08341a
fix ParsedDicomImage::EmbedImage() on big-endian
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4508
diff
changeset
|
1443 // New in Orthanc 1.9.1 |
|
11bfea08341a
fix ParsedDicomImage::EmbedImage() on big-endian
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4508
diff
changeset
|
1444 assert(pitch % 2 == 0); |
|
11bfea08341a
fix ParsedDicomImage::EmbedImage() on big-endian
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4508
diff
changeset
|
1445 swapBytes(target, accessor.GetHeight() * pitch, sizeof(uint16_t)); |
|
11bfea08341a
fix ParsedDicomImage::EmbedImage() on big-endian
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4508
diff
changeset
|
1446 } |
|
11bfea08341a
fix ParsedDicomImage::EmbedImage() on big-endian
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4508
diff
changeset
|
1447 |
|
3944
aae045f802f4
preparing simplified interface for IDicomTranscoder
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3912
diff
changeset
|
1448 if (!GetDcmtkObject().getDataset()->insert(pixels.release(), false, false).good()) |
|
800
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1449 { |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1450 throw OrthancException(ErrorCode_InternalError); |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1451 } |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1452 } |
|
874
87791ebc1f50
download matlab images
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
853
diff
changeset
|
1453 |
|
4845
02d77189d8ba
added ReceivedInstanceCallback + sample C++ plugin
Alain Mazy <am@osimis.io>
parents:
4831
diff
changeset
|
1454 void ParsedDicomFile::EmbedRawPixelData(const std::string& content) |
|
02d77189d8ba
added ReceivedInstanceCallback + sample C++ plugin
Alain Mazy <am@osimis.io>
parents:
4831
diff
changeset
|
1455 { |
|
02d77189d8ba
added ReceivedInstanceCallback + sample C++ plugin
Alain Mazy <am@osimis.io>
parents:
4831
diff
changeset
|
1456 DcmTag key(DICOM_TAG_PIXEL_DATA.GetGroup(), |
|
02d77189d8ba
added ReceivedInstanceCallback + sample C++ plugin
Alain Mazy <am@osimis.io>
parents:
4831
diff
changeset
|
1457 DICOM_TAG_PIXEL_DATA.GetElement()); |
|
02d77189d8ba
added ReceivedInstanceCallback + sample C++ plugin
Alain Mazy <am@osimis.io>
parents:
4831
diff
changeset
|
1458 |
|
02d77189d8ba
added ReceivedInstanceCallback + sample C++ plugin
Alain Mazy <am@osimis.io>
parents:
4831
diff
changeset
|
1459 std::unique_ptr<DcmPixelData> pixels(new DcmPixelData(key)); |
|
02d77189d8ba
added ReceivedInstanceCallback + sample C++ plugin
Alain Mazy <am@osimis.io>
parents:
4831
diff
changeset
|
1460 |
|
02d77189d8ba
added ReceivedInstanceCallback + sample C++ plugin
Alain Mazy <am@osimis.io>
parents:
4831
diff
changeset
|
1461 Uint8* target = NULL; |
|
02d77189d8ba
added ReceivedInstanceCallback + sample C++ plugin
Alain Mazy <am@osimis.io>
parents:
4831
diff
changeset
|
1462 pixels->createUint8Array(content.size(), target); |
|
02d77189d8ba
added ReceivedInstanceCallback + sample C++ plugin
Alain Mazy <am@osimis.io>
parents:
4831
diff
changeset
|
1463 memcpy(target, content.c_str(), content.size()); |
|
02d77189d8ba
added ReceivedInstanceCallback + sample C++ plugin
Alain Mazy <am@osimis.io>
parents:
4831
diff
changeset
|
1464 |
|
02d77189d8ba
added ReceivedInstanceCallback + sample C++ plugin
Alain Mazy <am@osimis.io>
parents:
4831
diff
changeset
|
1465 if (!GetDcmtkObject().getDataset()->insert(pixels.release(), false, false).good()) |
|
02d77189d8ba
added ReceivedInstanceCallback + sample C++ plugin
Alain Mazy <am@osimis.io>
parents:
4831
diff
changeset
|
1466 { |
|
02d77189d8ba
added ReceivedInstanceCallback + sample C++ plugin
Alain Mazy <am@osimis.io>
parents:
4831
diff
changeset
|
1467 throw OrthancException(ErrorCode_InternalError); |
|
02d77189d8ba
added ReceivedInstanceCallback + sample C++ plugin
Alain Mazy <am@osimis.io>
parents:
4831
diff
changeset
|
1468 } |
|
02d77189d8ba
added ReceivedInstanceCallback + sample C++ plugin
Alain Mazy <am@osimis.io>
parents:
4831
diff
changeset
|
1469 } |
|
02d77189d8ba
added ReceivedInstanceCallback + sample C++ plugin
Alain Mazy <am@osimis.io>
parents:
4831
diff
changeset
|
1470 |
|
02d77189d8ba
added ReceivedInstanceCallback + sample C++ plugin
Alain Mazy <am@osimis.io>
parents:
4831
diff
changeset
|
1471 |
|
3217
cf8cbeb35f33
preliminary support of Korean character set
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3060
diff
changeset
|
1472 Encoding ParsedDicomFile::DetectEncoding(bool& hasCodeExtensions) const |
|
956
2fd5a163776d
primitives for proper encoding handling
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
874
diff
changeset
|
1473 { |
|
3217
cf8cbeb35f33
preliminary support of Korean character set
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3060
diff
changeset
|
1474 return FromDcmtkBridge::DetectEncoding(hasCodeExtensions, |
|
4203
4d42408da117
improving const-correctness in ParsedDicomFile
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4200
diff
changeset
|
1475 *GetDcmtkObjectConst().getDataset(), |
|
2381
b8969010b534
uncoupling DCMTK primitives from Orthanc::Configuration
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2380
diff
changeset
|
1476 GetDefaultDicomEncoding()); |
|
956
2fd5a163776d
primitives for proper encoding handling
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
874
diff
changeset
|
1477 } |
|
1090
e494ceb8d763
support more encodings
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1018
diff
changeset
|
1478 |
|
e494ceb8d763
support more encodings
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1018
diff
changeset
|
1479 |
|
e494ceb8d763
support more encodings
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1018
diff
changeset
|
1480 void ParsedDicomFile::SetEncoding(Encoding encoding) |
|
e494ceb8d763
support more encodings
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1018
diff
changeset
|
1481 { |
|
1558
124de28b32ed
fix encodings of newly created dicom files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1556
diff
changeset
|
1482 if (encoding == Encoding_Windows1251) |
|
1090
e494ceb8d763
support more encodings
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1018
diff
changeset
|
1483 { |
|
1558
124de28b32ed
fix encodings of newly created dicom files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1556
diff
changeset
|
1484 // This Cyrillic codepage is not officially supported by the |
|
124de28b32ed
fix encodings of newly created dicom files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1556
diff
changeset
|
1485 // DICOM standard. Do not set the SpecificCharacterSet tag. |
|
124de28b32ed
fix encodings of newly created dicom files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1556
diff
changeset
|
1486 return; |
|
1090
e494ceb8d763
support more encodings
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1018
diff
changeset
|
1487 } |
|
e494ceb8d763
support more encodings
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1018
diff
changeset
|
1488 |
|
1565
4b23310eb7e8
add tags per instances in a series
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1564
diff
changeset
|
1489 std::string s = GetDicomSpecificCharacterSet(encoding); |
|
1982
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1490 ReplacePlainString(DICOM_TAG_SPECIFIC_CHARACTER_SET, s); |
|
1090
e494ceb8d763
support more encodings
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1018
diff
changeset
|
1491 } |
|
e494ceb8d763
support more encodings
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1018
diff
changeset
|
1492 |
|
2128
9329ba17a069
Possibility to DELETE "dicom-as-json" attachments to reconstruct them
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2126
diff
changeset
|
1493 void ParsedDicomFile::DatasetToJson(Json::Value& target, |
|
9329ba17a069
Possibility to DELETE "dicom-as-json" attachments to reconstruct them
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2126
diff
changeset
|
1494 DicomToJsonFormat format, |
|
9329ba17a069
Possibility to DELETE "dicom-as-json" attachments to reconstruct them
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2126
diff
changeset
|
1495 DicomToJsonFlags flags, |
|
4203
4d42408da117
improving const-correctness in ParsedDicomFile
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4200
diff
changeset
|
1496 unsigned int maxStringLength) const |
|
1160
80671157d051
generalization of create-dicom
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1113
diff
changeset
|
1497 { |
|
2409
e4045b3c9772
ignore-length argument if retrieving DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2394
diff
changeset
|
1498 std::set<DicomTag> ignoreTagLength; |
|
4203
4d42408da117
improving const-correctness in ParsedDicomFile
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4200
diff
changeset
|
1499 FromDcmtkBridge::ExtractDicomAsJson(target, *GetDcmtkObjectConst().getDataset(), |
|
4140
0ddc5297a8ab
centralization of default parameters for JSON/DicomMap conversions from DCMTK
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4139
diff
changeset
|
1500 format, flags, maxStringLength, ignoreTagLength); |
|
2409
e4045b3c9772
ignore-length argument if retrieving DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2394
diff
changeset
|
1501 } |
|
e4045b3c9772
ignore-length argument if retrieving DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2394
diff
changeset
|
1502 |
|
e4045b3c9772
ignore-length argument if retrieving DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2394
diff
changeset
|
1503 |
|
e4045b3c9772
ignore-length argument if retrieving DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2394
diff
changeset
|
1504 void ParsedDicomFile::DatasetToJson(Json::Value& target, |
|
e4045b3c9772
ignore-length argument if retrieving DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2394
diff
changeset
|
1505 DicomToJsonFormat format, |
|
e4045b3c9772
ignore-length argument if retrieving DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2394
diff
changeset
|
1506 DicomToJsonFlags flags, |
|
e4045b3c9772
ignore-length argument if retrieving DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2394
diff
changeset
|
1507 unsigned int maxStringLength, |
|
4203
4d42408da117
improving const-correctness in ParsedDicomFile
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4200
diff
changeset
|
1508 const std::set<DicomTag>& ignoreTagLength) const |
|
2409
e4045b3c9772
ignore-length argument if retrieving DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2394
diff
changeset
|
1509 { |
|
4203
4d42408da117
improving const-correctness in ParsedDicomFile
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4200
diff
changeset
|
1510 FromDcmtkBridge::ExtractDicomAsJson(target, *GetDcmtkObjectConst().getDataset(), |
|
4140
0ddc5297a8ab
centralization of default parameters for JSON/DicomMap conversions from DCMTK
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4139
diff
changeset
|
1511 format, flags, maxStringLength, ignoreTagLength); |
|
2128
9329ba17a069
Possibility to DELETE "dicom-as-json" attachments to reconstruct them
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2126
diff
changeset
|
1512 } |
|
9329ba17a069
Possibility to DELETE "dicom-as-json" attachments to reconstruct them
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2126
diff
changeset
|
1513 |
|
9329ba17a069
Possibility to DELETE "dicom-as-json" attachments to reconstruct them
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2126
diff
changeset
|
1514 |
|
1831
3ae2ff249675
"/instances/.../header" to get the meta information (header) of the DICOM instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1827
diff
changeset
|
1515 void ParsedDicomFile::HeaderToJson(Json::Value& target, |
|
4203
4d42408da117
improving const-correctness in ParsedDicomFile
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4200
diff
changeset
|
1516 DicomToJsonFormat format) const |
|
1831
3ae2ff249675
"/instances/.../header" to get the meta information (header) of the DICOM instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1827
diff
changeset
|
1517 { |
|
4203
4d42408da117
improving const-correctness in ParsedDicomFile
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4200
diff
changeset
|
1518 FromDcmtkBridge::ExtractHeaderAsJson(target, *GetDcmtkObjectConst().getMetaInfo(), format, DicomToJsonFlags_None, 0); |
|
1831
3ae2ff249675
"/instances/.../header" to get the meta information (header) of the DICOM instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1827
diff
changeset
|
1519 } |
|
3ae2ff249675
"/instances/.../header" to get the meta information (header) of the DICOM instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1827
diff
changeset
|
1520 |
|
3ae2ff249675
"/instances/.../header" to get the meta information (header) of the DICOM instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1827
diff
changeset
|
1521 |
|
1555
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1522 bool ParsedDicomFile::HasTag(const DicomTag& tag) const |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1523 { |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1524 DcmTag key(tag.GetGroup(), tag.GetElement()); |
|
4203
4d42408da117
improving const-correctness in ParsedDicomFile
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4200
diff
changeset
|
1525 return GetDcmtkObjectConst().getDataset()->tagExists(key); |
|
1555
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1526 } |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1527 |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1528 |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1529 void ParsedDicomFile::EmbedPdf(const std::string& pdf) |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1530 { |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1531 if (pdf.size() < 5 || // (*) |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1532 strncmp("%PDF-", pdf.c_str(), 5) != 0) |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1533 { |
|
2954
d924f9bb61cc
taking advantage of details in OrthancException
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2924
diff
changeset
|
1534 throw OrthancException(ErrorCode_BadFileFormat, "Not a PDF file"); |
|
1555
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1535 } |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1536 |
|
1982
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1537 InvalidateCache(); |
|
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1538 |
|
4884
d7d5d63985c8
allow custom value for "Modality" in /tools/create-dicom for PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4870
diff
changeset
|
1539 // In Orthanc <= 1.9.7, the "Modality" would have always be overwritten as "OT" |
|
d7d5d63985c8
allow custom value for "Modality" in /tools/create-dicom for PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4870
diff
changeset
|
1540 // https://groups.google.com/g/orthanc-users/c/eNSddNrQDtM/m/wc1HahimAAAJ |
|
d7d5d63985c8
allow custom value for "Modality" in /tools/create-dicom for PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4870
diff
changeset
|
1541 |
|
1982
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1542 ReplacePlainString(DICOM_TAG_SOP_CLASS_UID, UID_EncapsulatedPDFStorage); |
|
4884
d7d5d63985c8
allow custom value for "Modality" in /tools/create-dicom for PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4870
diff
changeset
|
1543 SetIfAbsent(FromDcmtkBridge::Convert(DCM_Modality), "OT"); |
|
d7d5d63985c8
allow custom value for "Modality" in /tools/create-dicom for PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4870
diff
changeset
|
1544 SetIfAbsent(FromDcmtkBridge::Convert(DCM_ConversionType), "WSD"); |
|
d7d5d63985c8
allow custom value for "Modality" in /tools/create-dicom for PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4870
diff
changeset
|
1545 SetIfAbsent(FromDcmtkBridge::Convert(DCM_MIMETypeOfEncapsulatedDocument), MIME_PDF); |
|
d7d5d63985c8
allow custom value for "Modality" in /tools/create-dicom for PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4870
diff
changeset
|
1546 //SetIfAbsent(FromDcmtkBridge::Convert(DCM_SeriesNumber), "1"); |
|
1555
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1547 |
|
3712
2a170a8f1faf
replacing std::auto_ptr by std::unique_ptr
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3691
diff
changeset
|
1548 std::unique_ptr<DcmPolymorphOBOW> element(new DcmPolymorphOBOW(DCM_EncapsulatedDocument)); |
|
1555
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1549 |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1550 size_t s = pdf.size(); |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1551 if (s & 1) |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1552 { |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1553 // The size of the buffer must be even |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1554 s += 1; |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1555 } |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1556 |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1557 Uint8* bytes = NULL; |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1558 OFCondition result = element->createUint8Array(s, bytes); |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1559 if (!result.good() || bytes == NULL) |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1560 { |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1561 throw OrthancException(ErrorCode_NotEnoughMemory); |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1562 } |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1563 |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1564 // Blank pad byte (no access violation, as "pdf.size() >= 5" because of (*) ) |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1565 bytes[s - 1] = 0; |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1566 |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1567 memcpy(bytes, pdf.c_str(), pdf.size()); |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1568 |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1569 DcmPolymorphOBOW* obj = element.release(); |
|
3944
aae045f802f4
preparing simplified interface for IDicomTranscoder
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3912
diff
changeset
|
1570 result = GetDcmtkObject().getDataset()->insert(obj); |
|
1555
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1571 |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1572 if (!result.good()) |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1573 { |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1574 delete obj; |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1575 throw OrthancException(ErrorCode_NotEnoughMemory); |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1576 } |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1577 } |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1578 |
|
1556
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1579 |
|
4203
4d42408da117
improving const-correctness in ParsedDicomFile
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4200
diff
changeset
|
1580 bool ParsedDicomFile::ExtractPdf(std::string& pdf) const |
|
1556
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1581 { |
|
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1582 std::string sop, mime; |
|
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1583 |
|
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1584 if (!GetTagValue(sop, DICOM_TAG_SOP_CLASS_UID) || |
|
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1585 !GetTagValue(mime, FromDcmtkBridge::Convert(DCM_MIMETypeOfEncapsulatedDocument)) || |
|
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1586 sop != UID_EncapsulatedPDFStorage || |
|
2905
ae20fccdd867
refactoring mime types
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2889
diff
changeset
|
1587 mime != MIME_PDF) |
|
1556
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1588 { |
|
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1589 return false; |
|
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1590 } |
|
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1591 |
|
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1592 if (!GetTagValue(pdf, DICOM_TAG_ENCAPSULATED_DOCUMENT)) |
|
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1593 { |
|
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1594 return false; |
|
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1595 } |
|
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1596 |
|
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1597 // Strip the possible pad byte at the end of file, because the |
|
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1598 // encapsulated documents must always have an even length. The PDF |
|
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1599 // format expects files to end with %%EOF followed by CR/LF. If |
|
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1600 // the last character of the file is not a CR or LF, we assume it |
|
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1601 // is a pad byte and remove it. |
|
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1602 if (pdf.size() > 0) |
|
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1603 { |
|
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1604 char last = *pdf.rbegin(); |
|
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1605 |
|
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1606 if (last != 10 && last != 13) |
|
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1607 { |
|
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1608 pdf.resize(pdf.size() - 1); |
|
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1609 } |
|
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1610 } |
|
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1611 |
|
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1612 return true; |
|
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1613 } |
|
1662
09be34b2f30e
ParsedDicomFile::Convert()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1655
diff
changeset
|
1614 |
|
09be34b2f30e
ParsedDicomFile::Convert()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1655
diff
changeset
|
1615 |
|
1818
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1616 ParsedDicomFile* ParsedDicomFile::CreateFromJson(const Json::Value& json, |
|
3691
4922bdd046dd
Fix issue #140 (Modifying private tags with REST API changes VR from LO to UN) - DANGEROUS COMMIT
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3651
diff
changeset
|
1617 DicomFromJsonFlags flags, |
|
4922bdd046dd
Fix issue #140 (Modifying private tags with REST API changes VR from LO to UN) - DANGEROUS COMMIT
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3651
diff
changeset
|
1618 const std::string& privateCreator) |
|
1818
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1619 { |
|
2445
6e5bc5c6d1a4
Fix to allow creating DICOM instances with empty Specific Character Set (0008,0005)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2409
diff
changeset
|
1620 const bool generateIdentifiers = (flags & DicomFromJsonFlags_GenerateIdentifiers) ? true : false; |
|
6e5bc5c6d1a4
Fix to allow creating DICOM instances with empty Specific Character Set (0008,0005)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2409
diff
changeset
|
1621 const bool decodeDataUriScheme = (flags & DicomFromJsonFlags_DecodeDataUriScheme) ? true : false; |
|
1818
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1622 |
|
3712
2a170a8f1faf
replacing std::auto_ptr by std::unique_ptr
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3691
diff
changeset
|
1623 std::unique_ptr<ParsedDicomFile> result(new ParsedDicomFile(generateIdentifiers)); |
|
2381
b8969010b534
uncoupling DCMTK primitives from Orthanc::Configuration
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2380
diff
changeset
|
1624 result->SetEncoding(FromDcmtkBridge::ExtractEncoding(json, GetDefaultDicomEncoding())); |
|
1818
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1625 |
|
1934
72a2fd7fed8b
FromDcmtkBridge::FromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1929
diff
changeset
|
1626 const Json::Value::Members tags = json.getMemberNames(); |
|
72a2fd7fed8b
FromDcmtkBridge::FromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1929
diff
changeset
|
1627 |
|
1818
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1628 for (size_t i = 0; i < tags.size(); i++) |
|
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1629 { |
|
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1630 DicomTag tag = FromDcmtkBridge::ParseTag(tags[i]); |
|
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1631 const Json::Value& value = json[tags[i]]; |
|
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1632 |
|
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1633 if (tag == DICOM_TAG_PIXEL_DATA || |
|
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1634 tag == DICOM_TAG_ENCAPSULATED_DOCUMENT) |
|
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1635 { |
|
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1636 if (value.type() != Json::stringValue) |
|
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1637 { |
|
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1638 throw OrthancException(ErrorCode_BadRequest); |
|
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1639 } |
|
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1640 else |
|
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1641 { |
|
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1642 result->EmbedContent(value.asString()); |
|
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1643 } |
|
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1644 } |
|
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1645 else if (tag != DICOM_TAG_SPECIFIC_CHARACTER_SET) |
|
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1646 { |
|
3691
4922bdd046dd
Fix issue #140 (Modifying private tags with REST API changes VR from LO to UN) - DANGEROUS COMMIT
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3651
diff
changeset
|
1647 result->Replace(tag, value, decodeDataUriScheme, DicomReplaceMode_InsertIfAbsent, privateCreator); |
|
1818
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1648 } |
|
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1649 } |
|
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1650 |
|
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1651 return result.release(); |
|
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1652 } |
|
1924
6c73df12ca51
New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1913
diff
changeset
|
1653 |
|
6c73df12ca51
New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1913
diff
changeset
|
1654 |
|
6c73df12ca51
New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1913
diff
changeset
|
1655 void ParsedDicomFile::GetRawFrame(std::string& target, |
|
2908
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1656 MimeType& mime, |
|
4203
4d42408da117
improving const-correctness in ParsedDicomFile
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4200
diff
changeset
|
1657 unsigned int frameId) const |
|
1924
6c73df12ca51
New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1913
diff
changeset
|
1658 { |
|
6c73df12ca51
New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1913
diff
changeset
|
1659 if (pimpl_->frameIndex_.get() == NULL) |
|
6c73df12ca51
New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1913
diff
changeset
|
1660 { |
|
3745
113a7b994a12
extracting the raw frame in the transcoder
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3712
diff
changeset
|
1661 assert(pimpl_->file_ != NULL && |
|
4203
4d42408da117
improving const-correctness in ParsedDicomFile
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4200
diff
changeset
|
1662 GetDcmtkObjectConst().getDataset() != NULL); |
|
4d42408da117
improving const-correctness in ParsedDicomFile
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4200
diff
changeset
|
1663 pimpl_->frameIndex_.reset(new DicomFrameIndex(*GetDcmtkObjectConst().getDataset())); |
|
1924
6c73df12ca51
New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1913
diff
changeset
|
1664 } |
|
6c73df12ca51
New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1913
diff
changeset
|
1665 |
|
6c73df12ca51
New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1913
diff
changeset
|
1666 pimpl_->frameIndex_->GetRawFrame(target, frameId); |
|
6c73df12ca51
New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1913
diff
changeset
|
1667 |
|
4203
4d42408da117
improving const-correctness in ParsedDicomFile
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4200
diff
changeset
|
1668 E_TransferSyntax transferSyntax = GetDcmtkObjectConst().getDataset()->getCurrentXfer(); |
|
1924
6c73df12ca51
New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1913
diff
changeset
|
1669 switch (transferSyntax) |
|
6c73df12ca51
New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1913
diff
changeset
|
1670 { |
|
1946
40b7a0176305
fix compilation against DCMTK 3.6.1
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1945
diff
changeset
|
1671 case EXS_JPEGProcess1: |
|
2908
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1672 mime = MimeType_Jpeg; |
|
1924
6c73df12ca51
New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1913
diff
changeset
|
1673 break; |
|
6c73df12ca51
New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1913
diff
changeset
|
1674 |
|
6c73df12ca51
New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1913
diff
changeset
|
1675 case EXS_JPEG2000LosslessOnly: |
|
6c73df12ca51
New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1913
diff
changeset
|
1676 case EXS_JPEG2000: |
|
2908
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1677 mime = MimeType_Jpeg2000; |
| 2016 | 1678 break; |
|
1924
6c73df12ca51
New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1913
diff
changeset
|
1679 |
|
6c73df12ca51
New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1913
diff
changeset
|
1680 default: |
|
2908
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1681 mime = MimeType_Binary; |
|
1924
6c73df12ca51
New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1913
diff
changeset
|
1682 break; |
|
6c73df12ca51
New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1913
diff
changeset
|
1683 } |
|
6c73df12ca51
New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1913
diff
changeset
|
1684 } |
|
6c73df12ca51
New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1913
diff
changeset
|
1685 |
|
6c73df12ca51
New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1913
diff
changeset
|
1686 |
|
6c73df12ca51
New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1913
diff
changeset
|
1687 void ParsedDicomFile::InvalidateCache() |
|
6c73df12ca51
New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1913
diff
changeset
|
1688 { |
|
6c73df12ca51
New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1913
diff
changeset
|
1689 pimpl_->frameIndex_.reset(NULL); |
|
6c73df12ca51
New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1913
diff
changeset
|
1690 } |
|
1950
533ff46e944b
return a single raw frame from DICOM videos
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1946
diff
changeset
|
1691 |
|
533ff46e944b
return a single raw frame from DICOM videos
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1946
diff
changeset
|
1692 |
|
533ff46e944b
return a single raw frame from DICOM videos
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1946
diff
changeset
|
1693 unsigned int ParsedDicomFile::GetFramesCount() const |
|
533ff46e944b
return a single raw frame from DICOM videos
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1946
diff
changeset
|
1694 { |
|
3745
113a7b994a12
extracting the raw frame in the transcoder
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3712
diff
changeset
|
1695 assert(pimpl_->file_ != NULL && |
|
4203
4d42408da117
improving const-correctness in ParsedDicomFile
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4200
diff
changeset
|
1696 GetDcmtkObjectConst().getDataset() != NULL); |
|
4d42408da117
improving const-correctness in ParsedDicomFile
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4200
diff
changeset
|
1697 return DicomFrameIndex::GetFramesCount(*GetDcmtkObjectConst().getDataset()); |
|
1950
533ff46e944b
return a single raw frame from DICOM videos
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1946
diff
changeset
|
1698 } |
|
2207
6dc3bdb4088b
Fix handling of encodings in C-FIND for worklists
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2202
diff
changeset
|
1699 |
|
6dc3bdb4088b
Fix handling of encodings in C-FIND for worklists
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2202
diff
changeset
|
1700 |
|
6dc3bdb4088b
Fix handling of encodings in C-FIND for worklists
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2202
diff
changeset
|
1701 void ParsedDicomFile::ChangeEncoding(Encoding target) |
|
6dc3bdb4088b
Fix handling of encodings in C-FIND for worklists
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2202
diff
changeset
|
1702 { |
|
3217
cf8cbeb35f33
preliminary support of Korean character set
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3060
diff
changeset
|
1703 bool hasCodeExtensions; |
|
cf8cbeb35f33
preliminary support of Korean character set
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3060
diff
changeset
|
1704 Encoding source = DetectEncoding(hasCodeExtensions); |
|
2207
6dc3bdb4088b
Fix handling of encodings in C-FIND for worklists
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2202
diff
changeset
|
1705 |
|
6dc3bdb4088b
Fix handling of encodings in C-FIND for worklists
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2202
diff
changeset
|
1706 if (source != target) // Avoid unnecessary conversion |
|
6dc3bdb4088b
Fix handling of encodings in C-FIND for worklists
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2202
diff
changeset
|
1707 { |
|
6dc3bdb4088b
Fix handling of encodings in C-FIND for worklists
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2202
diff
changeset
|
1708 ReplacePlainString(DICOM_TAG_SPECIFIC_CHARACTER_SET, GetDicomSpecificCharacterSet(target)); |
|
3944
aae045f802f4
preparing simplified interface for IDicomTranscoder
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3912
diff
changeset
|
1709 FromDcmtkBridge::ChangeStringEncoding(*GetDcmtkObject().getDataset(), source, hasCodeExtensions, target); |
|
2207
6dc3bdb4088b
Fix handling of encodings in C-FIND for worklists
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2202
diff
changeset
|
1710 } |
|
6dc3bdb4088b
Fix handling of encodings in C-FIND for worklists
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2202
diff
changeset
|
1711 } |
|
2209
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2207
diff
changeset
|
1712 |
|
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2207
diff
changeset
|
1713 |
|
4139
a4f28efdfccf
"maxTagLength" must be explicitly given to ParsedDicomFile::ExtractDicomSummary()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4137
diff
changeset
|
1714 void ParsedDicomFile::ExtractDicomSummary(DicomMap& target, |
|
a4f28efdfccf
"maxTagLength" must be explicitly given to ParsedDicomFile::ExtractDicomSummary()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4137
diff
changeset
|
1715 unsigned int maxTagLength) const |
|
2209
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2207
diff
changeset
|
1716 { |
|
4137
6774605d4341
keep only one signature for FromDcmtkBridge::ExtractDicomSummary()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4136
diff
changeset
|
1717 std::set<DicomTag> ignoreTagLength; |
|
4203
4d42408da117
improving const-correctness in ParsedDicomFile
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4200
diff
changeset
|
1718 FromDcmtkBridge::ExtractDicomSummary(target, *GetDcmtkObjectConst().getDataset(), |
|
4139
a4f28efdfccf
"maxTagLength" must be explicitly given to ParsedDicomFile::ExtractDicomSummary()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4137
diff
changeset
|
1719 maxTagLength, ignoreTagLength); |
|
2209
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2207
diff
changeset
|
1720 } |
|
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2207
diff
changeset
|
1721 |
|
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2207
diff
changeset
|
1722 |
|
3577
33cfcc74d1b1
argument "ignoreTagLength" to ParsedDicomFile::ExtractDicomSummary()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3446
diff
changeset
|
1723 void ParsedDicomFile::ExtractDicomSummary(DicomMap& target, |
|
4139
a4f28efdfccf
"maxTagLength" must be explicitly given to ParsedDicomFile::ExtractDicomSummary()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4137
diff
changeset
|
1724 unsigned int maxTagLength, |
|
3577
33cfcc74d1b1
argument "ignoreTagLength" to ParsedDicomFile::ExtractDicomSummary()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3446
diff
changeset
|
1725 const std::set<DicomTag>& ignoreTagLength) const |
|
33cfcc74d1b1
argument "ignoreTagLength" to ParsedDicomFile::ExtractDicomSummary()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3446
diff
changeset
|
1726 { |
|
4203
4d42408da117
improving const-correctness in ParsedDicomFile
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4200
diff
changeset
|
1727 FromDcmtkBridge::ExtractDicomSummary(target, *GetDcmtkObjectConst().getDataset(), |
|
4139
a4f28efdfccf
"maxTagLength" must be explicitly given to ParsedDicomFile::ExtractDicomSummary()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4137
diff
changeset
|
1728 maxTagLength, ignoreTagLength); |
|
3577
33cfcc74d1b1
argument "ignoreTagLength" to ParsedDicomFile::ExtractDicomSummary()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3446
diff
changeset
|
1729 } |
|
33cfcc74d1b1
argument "ignoreTagLength" to ParsedDicomFile::ExtractDicomSummary()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3446
diff
changeset
|
1730 |
|
33cfcc74d1b1
argument "ignoreTagLength" to ParsedDicomFile::ExtractDicomSummary()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3446
diff
changeset
|
1731 |
|
4507
b4c58795f3a8
widening the use of DicomTransferSyntax enum
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4437
diff
changeset
|
1732 bool ParsedDicomFile::LookupTransferSyntax(DicomTransferSyntax& result) const |
|
2209
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2207
diff
changeset
|
1733 { |
|
4507
b4c58795f3a8
widening the use of DicomTransferSyntax enum
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4437
diff
changeset
|
1734 return FromDcmtkBridge::LookupOrthancTransferSyntax(result, GetDcmtkObjectConst()); |
|
2209
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2207
diff
changeset
|
1735 } |
|
2281
e002430baa41
Fix issue #44 (Bad interpretation of photometric interpretation MONOCHROME1)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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diff
changeset
|
1736 |
|
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Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
1737 |
|
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Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
1738 bool ParsedDicomFile::LookupPhotometricInterpretation(PhotometricInterpretation& result) const |
|
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Fix issue #44 (Bad interpretation of photometric interpretation MONOCHROME1)
Sebastien Jodogne <s.jodogne@gmail.com>
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|
1739 { |
|
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Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
1740 DcmTagKey k(DICOM_TAG_PHOTOMETRIC_INTERPRETATION.GetGroup(), |
|
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Fix issue #44 (Bad interpretation of photometric interpretation MONOCHROME1)
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
1741 DICOM_TAG_PHOTOMETRIC_INTERPRETATION.GetElement()); |
|
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Fix issue #44 (Bad interpretation of photometric interpretation MONOCHROME1)
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diff
changeset
|
1742 |
|
4203
4d42408da117
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diff
changeset
|
1743 DcmDataset& dataset = *GetDcmtkObjectConst().getDataset(); |
|
2281
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Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
1744 |
|
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Fix issue #44 (Bad interpretation of photometric interpretation MONOCHROME1)
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
1745 const char *c = NULL; |
|
e002430baa41
Fix issue #44 (Bad interpretation of photometric interpretation MONOCHROME1)
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
1746 if (dataset.findAndGetString(k, c).good() && |
|
e002430baa41
Fix issue #44 (Bad interpretation of photometric interpretation MONOCHROME1)
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
1747 c != NULL) |
|
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Sebastien Jodogne <s.jodogne@gmail.com>
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|
1748 { |
|
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Fix issue #44 (Bad interpretation of photometric interpretation MONOCHROME1)
Sebastien Jodogne <s.jodogne@gmail.com>
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|
1749 result = StringToPhotometricInterpretation(c); |
|
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Sebastien Jodogne <s.jodogne@gmail.com>
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|
1750 return true; |
|
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|
1751 } |
|
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Sebastien Jodogne <s.jodogne@gmail.com>
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diff
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|
1752 else |
|
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changeset
|
1753 { |
|
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Sebastien Jodogne <s.jodogne@gmail.com>
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|
1754 return false; |
|
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Sebastien Jodogne <s.jodogne@gmail.com>
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|
1755 } |
|
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|
1756 } |
|
2499
83b8b6743531
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Sebastien Jodogne <s.jodogne@gmail.com>
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|
1757 |
|
83b8b6743531
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Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
1758 |
|
4203
4d42408da117
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Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
1759 void ParsedDicomFile::Apply(ITagVisitor& visitor) const |
|
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|
1760 { |
|
4d42408da117
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|
1761 FromDcmtkBridge::Apply(*GetDcmtkObjectConst().getDataset(), visitor, GetDefaultDicomEncoding()); |
|
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|
1762 } |
|
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|
1763 |
|
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|
1764 |
|
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|
1765 ImageAccessor* ParsedDicomFile::DecodeFrame(unsigned int frame) const |
|
2499
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|
1766 { |
|
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|
1767 if (GetDcmtkObjectConst().getDataset() == NULL) |
|
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|
1768 { |
|
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|
1769 throw OrthancException(ErrorCode_InternalError); |
|
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1770 } |
|
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1771 else |
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|
1772 { |
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|
1773 return DicomImageDecoder::Decode(*GetDcmtkObjectConst().getDataset(), frame); |
|
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|
1774 } |
|
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diff
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|
1775 } |
|
4273
0034f855c023
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Sebastien Jodogne <s.jodogne@gmail.com>
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diff
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1776 |
|
0034f855c023
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|
1777 |
|
4683
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|
1778 static bool HasGenericGroupLength(const DicomPath& path) |
|
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|
1779 { |
|
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|
1780 for (size_t i = 0; i < path.GetPrefixLength(); i++) |
|
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|
1781 { |
|
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|
1782 if (path.GetPrefixTag(i).GetElement() == 0x0000) |
|
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|
1783 { |
|
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|
1784 return true; |
|
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|
1785 } |
|
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|
1786 } |
|
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|
1787 |
|
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1788 return (path.GetFinalTag().GetElement() == 0x0000); |
|
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|
1789 } |
|
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1790 |
|
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|
1791 |
|
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|
1792 void ParsedDicomFile::ReplacePath(const DicomPath& path, |
|
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|
1793 const Json::Value& value, |
|
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1794 bool decodeDataUriScheme, |
|
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|
1795 DicomReplaceMode mode, |
|
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|
1796 const std::string& privateCreator) |
|
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|
1797 { |
|
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|
1798 if (HasGenericGroupLength(path)) |
|
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|
1799 { |
|
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|
1800 // Prevent manually modifying generic group length tags: This is |
|
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|
1801 // handled by DCMTK serialization |
|
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|
1802 return; |
|
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1803 } |
|
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|
1804 else if (path.GetPrefixLength() == 0) |
|
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1805 { |
|
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|
1806 Replace(path.GetFinalTag(), value, decodeDataUriScheme, mode, privateCreator); |
|
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1807 } |
|
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1808 else |
|
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1809 { |
|
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|
1810 InvalidateCache(); |
|
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1811 |
|
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|
1812 bool hasCodeExtensions; |
|
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|
1813 Encoding encoding = DetectEncoding(hasCodeExtensions); |
|
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1814 std::unique_ptr<DcmElement> element( |
|
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|
1815 FromDcmtkBridge::FromJson(path.GetFinalTag(), value, decodeDataUriScheme, encoding, privateCreator)); |
|
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1816 |
|
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1817 FromDcmtkBridge::ReplacePath(*GetDcmtkObject().getDataset(), path, *element, mode); |
|
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1818 } |
|
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1819 } |
|
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1820 |
|
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1821 |
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1822 void ParsedDicomFile::RemovePath(const DicomPath& path) |
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1823 { |
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|
1824 InvalidateCache(); |
|
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1825 FromDcmtkBridge::RemovePath(*GetDcmtkObject().getDataset(), path); |
|
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1826 } |
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1827 |
|
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1828 |
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1829 void ParsedDicomFile::ClearPath(const DicomPath& path, |
|
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1830 bool onlyIfExists) |
|
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1831 { |
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1832 if (HasGenericGroupLength(path)) |
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1833 { |
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1834 // Prevent manually modifying generic group length tags: This is |
|
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|
1835 // handled by DCMTK serialization |
|
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1836 return; |
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1837 } |
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1838 else |
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1839 { |
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1840 InvalidateCache(); |
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1841 FromDcmtkBridge::ClearPath(*GetDcmtkObject().getDataset(), path, onlyIfExists); |
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1842 } |
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1843 } |
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1844 |
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1845 |
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1846 bool ParsedDicomFile::LookupSequenceItem(DicomMap& target, |
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1847 const DicomPath& path, |
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1848 size_t sequenceIndex) const |
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1849 { |
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1850 DcmDataset& dataset = *const_cast<ParsedDicomFile&>(*this).GetDcmtkObject().getDataset(); |
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1851 return FromDcmtkBridge::LookupSequenceItem(target, dataset, path, sequenceIndex); |
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1852 } |
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1853 |
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1854 |
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1855 void ParsedDicomFile::GetDefaultWindowing(double& windowCenter, |
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1856 double& windowWidth, |
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1857 unsigned int frame) const |
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1858 { |
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1859 DcmDataset& dataset = *const_cast<ParsedDicomFile&>(*this).GetDcmtkObject().getDataset(); |
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1860 |
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1861 const char* wc = NULL; |
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1862 const char* ww = NULL; |
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1863 DcmItem *item1 = NULL; |
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1864 DcmItem *item2 = NULL; |
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1865 |
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1866 if (dataset.findAndGetString(DCM_WindowCenter, wc).good() && |
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1867 dataset.findAndGetString(DCM_WindowWidth, ww).good() && |
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1868 wc != NULL && |
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1869 ww != NULL && |
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1870 SerializationToolbox::ParseFirstDouble(windowCenter, wc) && |
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1871 SerializationToolbox::ParseFirstDouble(windowWidth, ww)) |
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1872 { |
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1873 return; // OK |
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1874 } |
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1875 else if (dataset.findAndGetSequenceItem(DCM_PerFrameFunctionalGroupsSequence, item1, frame).good() && |
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1876 item1 != NULL && |
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1877 item1->findAndGetSequenceItem(DCM_FrameVOILUTSequence, item2, 0).good() && |
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1878 item2 != NULL && |
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1879 item2->findAndGetString(DCM_WindowCenter, wc).good() && |
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1880 item2->findAndGetString(DCM_WindowWidth, ww).good() && |
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1881 wc != NULL && |
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1882 ww != NULL && |
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1883 SerializationToolbox::ParseFirstDouble(windowCenter, wc) && |
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1884 SerializationToolbox::ParseFirstDouble(windowWidth, ww)) |
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1885 { |
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1886 // New in Orthanc 1.9.7, to deal with Philips multiframe images |
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1887 // (cf. private mail from Tomas Kenda on 2021-08-17) |
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1888 return; // OK |
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1889 } |
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1890 else |
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1891 { |
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1892 Uint16 bitsStored = 0; |
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1893 if (!dataset.findAndGetUint16(DCM_BitsStored, bitsStored).good() || |
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1894 bitsStored == 0) |
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1895 { |
|
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1896 bitsStored = 8; // Rough assumption |
|
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1897 } |
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1898 |
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1899 windowWidth = static_cast<double>(1 << bitsStored); |
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1900 windowCenter = windowWidth / 2.0f; |
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1901 } |
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1902 } |
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1903 |
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1904 |
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1905 void ParsedDicomFile::GetRescale(double& rescaleIntercept, |
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1906 double& rescaleSlope, |
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1907 unsigned int frame) const |
|
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1908 { |
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1909 DcmDataset& dataset = *const_cast<ParsedDicomFile&>(*this).GetDcmtkObject().getDataset(); |
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1910 |
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1911 const char* sopClassUid = NULL; |
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1912 const char* intercept = NULL; |
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1913 const char* slope = NULL; |
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1914 DcmItem *item1 = NULL; |
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1915 DcmItem *item2 = NULL; |
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1916 |
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1917 if (dataset.findAndGetString(DCM_SOPClassUID, sopClassUid).good() && |
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1918 sopClassUid != NULL && |
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1919 std::string(sopClassUid) == std::string(UID_RTDoseStorage)) |
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1920 { |
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1921 // We must not take the rescale value into account in the case of doses |
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1922 rescaleIntercept = 0; |
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1923 rescaleSlope = 1; |
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1924 } |
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1925 else if (dataset.findAndGetString(DCM_RescaleIntercept, intercept).good() && |
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1926 dataset.findAndGetString(DCM_RescaleSlope, slope).good() && |
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1927 intercept != NULL && |
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1928 slope != NULL && |
| 4781 | 1929 SerializationToolbox::ParseDouble(rescaleIntercept, intercept) && |
| 1930 SerializationToolbox::ParseDouble(rescaleSlope, slope)) | |
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1931 { |
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1932 return; // OK |
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1933 } |
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1934 else if (dataset.findAndGetSequenceItem(DCM_PerFrameFunctionalGroupsSequence, item1, frame).good() && |
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1935 item1 != NULL && |
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1936 item1->findAndGetSequenceItem(DCM_PixelValueTransformationSequence, item2, 0).good() && |
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1937 item2 != NULL && |
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1938 item2->findAndGetString(DCM_RescaleIntercept, intercept).good() && |
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1939 item2->findAndGetString(DCM_RescaleSlope, slope).good() && |
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|
1940 intercept != NULL && |
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|
1941 slope != NULL && |
| 4781 | 1942 SerializationToolbox::ParseDouble(rescaleIntercept, intercept) && |
| 1943 SerializationToolbox::ParseDouble(rescaleSlope, slope)) | |
|
4777
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1944 { |
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1945 // New in Orthanc 1.9.7, to deal with Philips multiframe images |
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1946 // (cf. private mail from Tomas Kenda on 2021-08-17) |
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1947 return; // OK |
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1948 } |
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1949 else |
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1950 { |
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1951 rescaleIntercept = 0; |
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1952 rescaleSlope = 1; |
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1953 } |
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1954 } |
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1955 |
|
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1956 |
|
4947
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1957 void ParsedDicomFile::ListOverlays(std::set<uint16_t>& groups) const |
|
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1958 { |
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1959 DcmDataset& dataset = *const_cast<ParsedDicomFile&>(*this).GetDcmtkObject().getDataset(); |
|
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1960 |
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1961 // "Repeating Groups shall only be allowed in the even Groups (6000-601E,eeee)" |
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1962 // https://dicom.nema.org/medical/dicom/2021e/output/chtml/part05/sect_7.6.html |
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1963 |
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1964 for (uint16_t group = 0x6000; group <= 0x601e; group += 2) |
|
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1965 { |
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1966 if (dataset.tagExists(DcmTagKey(group, 0x0010))) |
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1967 { |
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1968 groups.insert(group); |
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1969 } |
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1970 } |
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1971 } |
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1972 |
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1973 |
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1974 static unsigned int Ceiling(unsigned int a, |
|
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1975 unsigned int b) |
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1976 { |
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1977 if (a % b == 0) |
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1978 { |
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1979 return a / b; |
|
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1980 } |
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1981 else |
|
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1982 { |
|
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1983 return a / b + 1; |
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1984 } |
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1985 } |
|
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1986 |
|
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1987 |
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1988 ImageAccessor* ParsedDicomFile::DecodeOverlay(int& originX, |
|
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|
1989 int& originY, |
|
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changeset
|
1990 uint16_t group) const |
|
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|
1991 { |
|
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added ParsedDicomFile::DecodeOverlay()
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changeset
|
1992 // https://dicom.nema.org/medical/dicom/current/output/chtml/part03/sect_C.9.2.html |
|
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changeset
|
1993 |
|
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added ParsedDicomFile::DecodeOverlay()
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changeset
|
1994 DcmDataset& dataset = *const_cast<ParsedDicomFile&>(*this).GetDcmtkObject().getDataset(); |
|
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changeset
|
1995 |
|
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|
1996 Uint16 rows, columns, bitsAllocated, bitPosition; |
|
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|
1997 const Sint16* origin = NULL; |
|
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|
1998 unsigned long originSize = 0; |
| 4956 | 1999 DcmElement* overlayElement = NULL; |
|
4955
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changeset
|
2000 Uint8* overlayData = NULL; |
|
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|
2001 |
|
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added ParsedDicomFile::DecodeOverlay()
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changeset
|
2002 if (dataset.findAndGetUint16(DcmTagKey(group, 0x0010), rows).good() && |
|
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|
2003 dataset.findAndGetUint16(DcmTagKey(group, 0x0011), columns).good() && |
|
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changeset
|
2004 dataset.findAndGetSint16Array(DcmTagKey(group, 0x0050), origin, &originSize).good() && |
|
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added ParsedDicomFile::DecodeOverlay()
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|
2005 origin != NULL && |
|
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changeset
|
2006 originSize == 2 && |
|
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|
2007 dataset.findAndGetUint16(DcmTagKey(group, 0x0100), bitsAllocated).good() && |
|
6a59dc426f93
added ParsedDicomFile::DecodeOverlay()
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changeset
|
2008 bitsAllocated == 1 && |
|
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|
2009 dataset.findAndGetUint16(DcmTagKey(group, 0x0102), bitPosition).good() && |
|
6a59dc426f93
added ParsedDicomFile::DecodeOverlay()
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changeset
|
2010 bitPosition == 0 && |
| 4956 | 2011 dataset.findAndGetElement(DcmTagKey(group, 0x3000), overlayElement).good() && |
| 2012 overlayElement != NULL && | |
| 2013 overlayElement->getUint8Array(overlayData).good() && | |
|
4945
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|
2014 overlayData != NULL) |
|
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|
2015 { |
|
4955
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|
2016 /** |
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|
2017 * WARNING - It might seem easier to use |
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|
2018 * "dataset.findAndGetUint8Array()" that directly gives the size |
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|
2019 * of the overlay data (using the "count" parameter), instead of |
|
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|
2020 * "dataset.findAndGetElement()". Unfortunately, this does *not* |
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2021 * work with Emscripten/WebAssembly, that reports a "count" that |
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|
2022 * is half the number of bytes, presumably because of |
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|
2023 * discrepancies in the way sizeof are computed inside DCMTK. |
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|
2024 * The method "getLengthField()" reports the correct number of |
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changeset
|
2025 * bytes, even if targeting WebAssembly. |
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|
2026 **/ |
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|
2027 |
|
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|
2028 unsigned int expectedSize = Ceiling(rows * columns, 8); |
| 4956 | 2029 if (overlayElement->getLengthField() < expectedSize) |
|
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|
2030 { |
|
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|
2031 throw OrthancException(ErrorCode_CorruptedFile, "Overlay doesn't have a valid number of bits"); |
|
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2032 } |
|
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2033 |
|
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|
2034 originX = origin[1]; |
|
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|
2035 originY = origin[0]; |
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2036 |
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|
2037 std::unique_ptr<ImageAccessor> overlay(new Image(Orthanc::PixelFormat_Grayscale8, columns, rows, false)); |
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2038 |
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changeset
|
2039 unsigned int posBit = 0; |
|
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|
2040 for (int y = 0; y < rows; y++) |
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2041 { |
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|
2042 uint8_t* target = reinterpret_cast<uint8_t*>(overlay->GetRow(y)); |
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2043 |
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2044 for (int x = 0; x < columns; x++) |
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2045 { |
|
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2046 uint8_t source = overlayData[posBit / 8]; |
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|
2047 uint8_t mask = 1 << (posBit % 8); |
|
6a59dc426f93
added ParsedDicomFile::DecodeOverlay()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4912
diff
changeset
|
2048 |
|
6a59dc426f93
added ParsedDicomFile::DecodeOverlay()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4912
diff
changeset
|
2049 *target = ((source & mask) ? 255 : 0); |
|
6a59dc426f93
added ParsedDicomFile::DecodeOverlay()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4912
diff
changeset
|
2050 |
|
6a59dc426f93
added ParsedDicomFile::DecodeOverlay()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4912
diff
changeset
|
2051 target++; |
|
6a59dc426f93
added ParsedDicomFile::DecodeOverlay()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4912
diff
changeset
|
2052 posBit++; |
|
6a59dc426f93
added ParsedDicomFile::DecodeOverlay()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4912
diff
changeset
|
2053 } |
|
6a59dc426f93
added ParsedDicomFile::DecodeOverlay()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4912
diff
changeset
|
2054 } |
|
6a59dc426f93
added ParsedDicomFile::DecodeOverlay()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4912
diff
changeset
|
2055 |
|
6a59dc426f93
added ParsedDicomFile::DecodeOverlay()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4912
diff
changeset
|
2056 return overlay.release(); |
|
6a59dc426f93
added ParsedDicomFile::DecodeOverlay()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4912
diff
changeset
|
2057 } |
|
6a59dc426f93
added ParsedDicomFile::DecodeOverlay()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4912
diff
changeset
|
2058 else |
|
6a59dc426f93
added ParsedDicomFile::DecodeOverlay()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4912
diff
changeset
|
2059 { |
|
6a59dc426f93
added ParsedDicomFile::DecodeOverlay()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4912
diff
changeset
|
2060 throw OrthancException(ErrorCode_CorruptedFile, "Invalid overlay"); |
|
6a59dc426f93
added ParsedDicomFile::DecodeOverlay()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4912
diff
changeset
|
2061 } |
|
6a59dc426f93
added ParsedDicomFile::DecodeOverlay()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4912
diff
changeset
|
2062 } |
|
6a59dc426f93
added ParsedDicomFile::DecodeOverlay()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4912
diff
changeset
|
2063 |
|
6a59dc426f93
added ParsedDicomFile::DecodeOverlay()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4912
diff
changeset
|
2064 |
|
4947
dfbe764995cf
added ParsedDicomFile::DecodeAllOverlays()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4945
diff
changeset
|
2065 ImageAccessor* ParsedDicomFile::DecodeAllOverlays(int& originX, |
|
dfbe764995cf
added ParsedDicomFile::DecodeAllOverlays()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4945
diff
changeset
|
2066 int& originY) const |
|
dfbe764995cf
added ParsedDicomFile::DecodeAllOverlays()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4945
diff
changeset
|
2067 { |
|
dfbe764995cf
added ParsedDicomFile::DecodeAllOverlays()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4945
diff
changeset
|
2068 std::set<uint16_t> groups; |
|
dfbe764995cf
added ParsedDicomFile::DecodeAllOverlays()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4945
diff
changeset
|
2069 ListOverlays(groups); |
|
dfbe764995cf
added ParsedDicomFile::DecodeAllOverlays()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4945
diff
changeset
|
2070 |
|
dfbe764995cf
added ParsedDicomFile::DecodeAllOverlays()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4945
diff
changeset
|
2071 if (groups.empty()) |
|
dfbe764995cf
added ParsedDicomFile::DecodeAllOverlays()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4945
diff
changeset
|
2072 { |
|
dfbe764995cf
added ParsedDicomFile::DecodeAllOverlays()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4945
diff
changeset
|
2073 originX = 0; |
|
dfbe764995cf
added ParsedDicomFile::DecodeAllOverlays()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4945
diff
changeset
|
2074 originY = 0; |
|
dfbe764995cf
added ParsedDicomFile::DecodeAllOverlays()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4945
diff
changeset
|
2075 return new Image(PixelFormat_Grayscale8, 0, 0, false); |
|
dfbe764995cf
added ParsedDicomFile::DecodeAllOverlays()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4945
diff
changeset
|
2076 } |
|
dfbe764995cf
added ParsedDicomFile::DecodeAllOverlays()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4945
diff
changeset
|
2077 else |
|
dfbe764995cf
added ParsedDicomFile::DecodeAllOverlays()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4945
diff
changeset
|
2078 { |
|
dfbe764995cf
added ParsedDicomFile::DecodeAllOverlays()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4945
diff
changeset
|
2079 std::set<uint16_t>::const_iterator it = groups.begin(); |
|
dfbe764995cf
added ParsedDicomFile::DecodeAllOverlays()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4945
diff
changeset
|
2080 assert(it != groups.end()); |
|
dfbe764995cf
added ParsedDicomFile::DecodeAllOverlays()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4945
diff
changeset
|
2081 |
|
dfbe764995cf
added ParsedDicomFile::DecodeAllOverlays()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4945
diff
changeset
|
2082 std::unique_ptr<ImageAccessor> result(DecodeOverlay(originX, originY, *it)); |
|
dfbe764995cf
added ParsedDicomFile::DecodeAllOverlays()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4945
diff
changeset
|
2083 assert(result.get() != NULL); |
|
dfbe764995cf
added ParsedDicomFile::DecodeAllOverlays()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4945
diff
changeset
|
2084 ++it; |
|
dfbe764995cf
added ParsedDicomFile::DecodeAllOverlays()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4945
diff
changeset
|
2085 |
|
dfbe764995cf
added ParsedDicomFile::DecodeAllOverlays()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4945
diff
changeset
|
2086 int right = originX + static_cast<int>(result->GetWidth()); |
|
dfbe764995cf
added ParsedDicomFile::DecodeAllOverlays()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4945
diff
changeset
|
2087 int bottom = originY + static_cast<int>(result->GetHeight()); |
|
dfbe764995cf
added ParsedDicomFile::DecodeAllOverlays()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4945
diff
changeset
|
2088 |
|
dfbe764995cf
added ParsedDicomFile::DecodeAllOverlays()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4945
diff
changeset
|
2089 while (it != groups.end()) |
|
dfbe764995cf
added ParsedDicomFile::DecodeAllOverlays()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4945
diff
changeset
|
2090 { |
|
dfbe764995cf
added ParsedDicomFile::DecodeAllOverlays()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4945
diff
changeset
|
2091 int ox, oy; |
|
dfbe764995cf
added ParsedDicomFile::DecodeAllOverlays()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4945
diff
changeset
|
2092 std::unique_ptr<ImageAccessor> overlay(DecodeOverlay(ox, oy, *it)); |
|
dfbe764995cf
added ParsedDicomFile::DecodeAllOverlays()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4945
diff
changeset
|
2093 assert(overlay.get() != NULL); |
|
dfbe764995cf
added ParsedDicomFile::DecodeAllOverlays()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4945
diff
changeset
|
2094 |
|
dfbe764995cf
added ParsedDicomFile::DecodeAllOverlays()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4945
diff
changeset
|
2095 int mergedX = std::min(originX, ox); |
|
dfbe764995cf
added ParsedDicomFile::DecodeAllOverlays()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4945
diff
changeset
|
2096 int mergedY = std::min(originY, oy); |
|
dfbe764995cf
added ParsedDicomFile::DecodeAllOverlays()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4945
diff
changeset
|
2097 right = std::max(right, ox + static_cast<int>(overlay->GetWidth())); |
|
dfbe764995cf
added ParsedDicomFile::DecodeAllOverlays()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4945
diff
changeset
|
2098 bottom = std::max(bottom, oy + static_cast<int>(overlay->GetHeight())); |
|
dfbe764995cf
added ParsedDicomFile::DecodeAllOverlays()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4945
diff
changeset
|
2099 |
|
dfbe764995cf
added ParsedDicomFile::DecodeAllOverlays()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4945
diff
changeset
|
2100 assert(right >= mergedX && bottom >= mergedY); |
|
dfbe764995cf
added ParsedDicomFile::DecodeAllOverlays()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4945
diff
changeset
|
2101 unsigned int width = static_cast<unsigned int>(right - mergedX); |
|
dfbe764995cf
added ParsedDicomFile::DecodeAllOverlays()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4945
diff
changeset
|
2102 unsigned int height = static_cast<unsigned int>(bottom - mergedY); |
|
dfbe764995cf
added ParsedDicomFile::DecodeAllOverlays()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4945
diff
changeset
|
2103 |
|
dfbe764995cf
added ParsedDicomFile::DecodeAllOverlays()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4945
diff
changeset
|
2104 std::unique_ptr<ImageAccessor> merged(new Image(PixelFormat_Grayscale8, width, height, false)); |
|
dfbe764995cf
added ParsedDicomFile::DecodeAllOverlays()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4945
diff
changeset
|
2105 ImageProcessing::Set(*merged, 0); |
|
dfbe764995cf
added ParsedDicomFile::DecodeAllOverlays()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4945
diff
changeset
|
2106 |
|
dfbe764995cf
added ParsedDicomFile::DecodeAllOverlays()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4945
diff
changeset
|
2107 ImageAccessor a; |
|
dfbe764995cf
added ParsedDicomFile::DecodeAllOverlays()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4945
diff
changeset
|
2108 merged->GetRegion(a, originX - mergedX, originY - mergedY, result->GetWidth(), result->GetHeight()); |
|
dfbe764995cf
added ParsedDicomFile::DecodeAllOverlays()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4945
diff
changeset
|
2109 ImageProcessing::Maximum(a, *result); |
|
dfbe764995cf
added ParsedDicomFile::DecodeAllOverlays()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4945
diff
changeset
|
2110 |
|
dfbe764995cf
added ParsedDicomFile::DecodeAllOverlays()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4945
diff
changeset
|
2111 merged->GetRegion(a, ox - mergedX, oy - mergedY, overlay->GetWidth(), overlay->GetHeight()); |
|
dfbe764995cf
added ParsedDicomFile::DecodeAllOverlays()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4945
diff
changeset
|
2112 ImageProcessing::Maximum(a, *overlay); |
|
dfbe764995cf
added ParsedDicomFile::DecodeAllOverlays()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4945
diff
changeset
|
2113 |
|
dfbe764995cf
added ParsedDicomFile::DecodeAllOverlays()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4945
diff
changeset
|
2114 originX = mergedX; |
|
dfbe764995cf
added ParsedDicomFile::DecodeAllOverlays()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4945
diff
changeset
|
2115 originY = mergedY; |
|
dfbe764995cf
added ParsedDicomFile::DecodeAllOverlays()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4945
diff
changeset
|
2116 result.reset(merged.release()); |
|
dfbe764995cf
added ParsedDicomFile::DecodeAllOverlays()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4945
diff
changeset
|
2117 |
|
dfbe764995cf
added ParsedDicomFile::DecodeAllOverlays()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4945
diff
changeset
|
2118 ++it; |
|
dfbe764995cf
added ParsedDicomFile::DecodeAllOverlays()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4945
diff
changeset
|
2119 } |
|
dfbe764995cf
added ParsedDicomFile::DecodeAllOverlays()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4945
diff
changeset
|
2120 |
|
dfbe764995cf
added ParsedDicomFile::DecodeAllOverlays()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4945
diff
changeset
|
2121 return result.release(); |
|
dfbe764995cf
added ParsedDicomFile::DecodeAllOverlays()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4945
diff
changeset
|
2122 } |
|
dfbe764995cf
added ParsedDicomFile::DecodeAllOverlays()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4945
diff
changeset
|
2123 } |
|
dfbe764995cf
added ParsedDicomFile::DecodeAllOverlays()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4945
diff
changeset
|
2124 |
|
5318
68e15471b408
added ParsedDicomFile::InjectEmptyPixelData()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5185
diff
changeset
|
2125 |
|
68e15471b408
added ParsedDicomFile::InjectEmptyPixelData()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5185
diff
changeset
|
2126 void ParsedDicomFile::InjectEmptyPixelData(ValueRepresentation vr) |
|
68e15471b408
added ParsedDicomFile::InjectEmptyPixelData()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5185
diff
changeset
|
2127 { |
|
5319
f2e1ad71e49c
added "OrthancPluginLoadDicomInstance()" to load DICOM instances from the database
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5318
diff
changeset
|
2128 DcmItem& dataset = *GetDcmtkObject().getDataset(); |
|
5318
68e15471b408
added ParsedDicomFile::InjectEmptyPixelData()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5185
diff
changeset
|
2129 |
|
68e15471b408
added ParsedDicomFile::InjectEmptyPixelData()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5185
diff
changeset
|
2130 DcmElement *element = NULL; |
|
5319
f2e1ad71e49c
added "OrthancPluginLoadDicomInstance()" to load DICOM instances from the database
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5318
diff
changeset
|
2131 if (!dataset.findAndGetElement(DCM_PixelData, element).good() || |
|
5318
68e15471b408
added ParsedDicomFile::InjectEmptyPixelData()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5185
diff
changeset
|
2132 element == NULL) |
|
68e15471b408
added ParsedDicomFile::InjectEmptyPixelData()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5185
diff
changeset
|
2133 { |
|
68e15471b408
added ParsedDicomFile::InjectEmptyPixelData()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5185
diff
changeset
|
2134 // The pixel data is indeed nonexistent, insert it now |
|
68e15471b408
added ParsedDicomFile::InjectEmptyPixelData()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5185
diff
changeset
|
2135 switch (vr) |
|
68e15471b408
added ParsedDicomFile::InjectEmptyPixelData()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5185
diff
changeset
|
2136 { |
|
68e15471b408
added ParsedDicomFile::InjectEmptyPixelData()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5185
diff
changeset
|
2137 case ValueRepresentation_OtherByte: |
|
5319
f2e1ad71e49c
added "OrthancPluginLoadDicomInstance()" to load DICOM instances from the database
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5318
diff
changeset
|
2138 if (!dataset.putAndInsertUint8Array(DCM_PixelData, NULL, 0).good()) |
|
5318
68e15471b408
added ParsedDicomFile::InjectEmptyPixelData()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5185
diff
changeset
|
2139 { |
|
68e15471b408
added ParsedDicomFile::InjectEmptyPixelData()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5185
diff
changeset
|
2140 throw OrthancException(ErrorCode_InternalError); |
|
68e15471b408
added ParsedDicomFile::InjectEmptyPixelData()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5185
diff
changeset
|
2141 } |
|
68e15471b408
added ParsedDicomFile::InjectEmptyPixelData()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5185
diff
changeset
|
2142 break; |
|
68e15471b408
added ParsedDicomFile::InjectEmptyPixelData()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5185
diff
changeset
|
2143 |
|
68e15471b408
added ParsedDicomFile::InjectEmptyPixelData()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5185
diff
changeset
|
2144 case ValueRepresentation_OtherWord: |
|
5319
f2e1ad71e49c
added "OrthancPluginLoadDicomInstance()" to load DICOM instances from the database
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5318
diff
changeset
|
2145 if (!dataset.putAndInsertUint16Array(DCM_PixelData, NULL, 0).good()) |
|
5318
68e15471b408
added ParsedDicomFile::InjectEmptyPixelData()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5185
diff
changeset
|
2146 { |
|
68e15471b408
added ParsedDicomFile::InjectEmptyPixelData()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5185
diff
changeset
|
2147 throw OrthancException(ErrorCode_InternalError); |
|
68e15471b408
added ParsedDicomFile::InjectEmptyPixelData()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5185
diff
changeset
|
2148 } |
|
68e15471b408
added ParsedDicomFile::InjectEmptyPixelData()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5185
diff
changeset
|
2149 break; |
|
68e15471b408
added ParsedDicomFile::InjectEmptyPixelData()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5185
diff
changeset
|
2150 |
|
68e15471b408
added ParsedDicomFile::InjectEmptyPixelData()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5185
diff
changeset
|
2151 default: |
|
68e15471b408
added ParsedDicomFile::InjectEmptyPixelData()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5185
diff
changeset
|
2152 throw OrthancException(ErrorCode_ParameterOutOfRange); |
|
68e15471b408
added ParsedDicomFile::InjectEmptyPixelData()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5185
diff
changeset
|
2153 } |
|
68e15471b408
added ParsedDicomFile::InjectEmptyPixelData()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5185
diff
changeset
|
2154 } |
|
68e15471b408
added ParsedDicomFile::InjectEmptyPixelData()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5185
diff
changeset
|
2155 } |
|
68e15471b408
added ParsedDicomFile::InjectEmptyPixelData()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5185
diff
changeset
|
2156 |
|
4947
dfbe764995cf
added ParsedDicomFile::DecodeAllOverlays()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4945
diff
changeset
|
2157 |
|
5319
f2e1ad71e49c
added "OrthancPluginLoadDicomInstance()" to load DICOM instances from the database
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5318
diff
changeset
|
2158 void ParsedDicomFile::RemoveFromPixelData() |
|
f2e1ad71e49c
added "OrthancPluginLoadDicomInstance()" to load DICOM instances from the database
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5318
diff
changeset
|
2159 { |
|
f2e1ad71e49c
added "OrthancPluginLoadDicomInstance()" to load DICOM instances from the database
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5318
diff
changeset
|
2160 DcmItem& dataset = *GetDcmtkObject().getDataset(); |
|
f2e1ad71e49c
added "OrthancPluginLoadDicomInstance()" to load DICOM instances from the database
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5318
diff
changeset
|
2161 |
|
f2e1ad71e49c
added "OrthancPluginLoadDicomInstance()" to load DICOM instances from the database
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5318
diff
changeset
|
2162 // We need to go backward, otherwise "dataset.card()" is invalidated |
|
f2e1ad71e49c
added "OrthancPluginLoadDicomInstance()" to load DICOM instances from the database
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5318
diff
changeset
|
2163 for (unsigned long i = dataset.card(); i > 0; i--) |
|
f2e1ad71e49c
added "OrthancPluginLoadDicomInstance()" to load DICOM instances from the database
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5318
diff
changeset
|
2164 { |
|
f2e1ad71e49c
added "OrthancPluginLoadDicomInstance()" to load DICOM instances from the database
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5318
diff
changeset
|
2165 DcmElement* element = dataset.getElement(i - 1); |
|
f2e1ad71e49c
added "OrthancPluginLoadDicomInstance()" to load DICOM instances from the database
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5318
diff
changeset
|
2166 if (element == NULL) |
|
f2e1ad71e49c
added "OrthancPluginLoadDicomInstance()" to load DICOM instances from the database
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5318
diff
changeset
|
2167 { |
|
f2e1ad71e49c
added "OrthancPluginLoadDicomInstance()" to load DICOM instances from the database
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5318
diff
changeset
|
2168 throw OrthancException(ErrorCode_InternalError); |
|
f2e1ad71e49c
added "OrthancPluginLoadDicomInstance()" to load DICOM instances from the database
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5318
diff
changeset
|
2169 } |
|
f2e1ad71e49c
added "OrthancPluginLoadDicomInstance()" to load DICOM instances from the database
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5318
diff
changeset
|
2170 |
|
f2e1ad71e49c
added "OrthancPluginLoadDicomInstance()" to load DICOM instances from the database
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5318
diff
changeset
|
2171 if (element->getTag().getGroup() > DCM_PixelData.getGroup() || |
|
f2e1ad71e49c
added "OrthancPluginLoadDicomInstance()" to load DICOM instances from the database
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5318
diff
changeset
|
2172 (element->getTag().getGroup() == DCM_PixelData.getGroup() && |
|
f2e1ad71e49c
added "OrthancPluginLoadDicomInstance()" to load DICOM instances from the database
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5318
diff
changeset
|
2173 element->getTag().getElement() >= DCM_PixelData.getElement())) |
|
f2e1ad71e49c
added "OrthancPluginLoadDicomInstance()" to load DICOM instances from the database
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5318
diff
changeset
|
2174 { |
|
f2e1ad71e49c
added "OrthancPluginLoadDicomInstance()" to load DICOM instances from the database
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5318
diff
changeset
|
2175 std::unique_ptr<DcmElement> removal(dataset.remove(i - 1)); |
|
f2e1ad71e49c
added "OrthancPluginLoadDicomInstance()" to load DICOM instances from the database
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5318
diff
changeset
|
2176 } |
|
f2e1ad71e49c
added "OrthancPluginLoadDicomInstance()" to load DICOM instances from the database
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5318
diff
changeset
|
2177 } |
|
f2e1ad71e49c
added "OrthancPluginLoadDicomInstance()" to load DICOM instances from the database
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5318
diff
changeset
|
2178 } |
|
f2e1ad71e49c
added "OrthancPluginLoadDicomInstance()" to load DICOM instances from the database
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5318
diff
changeset
|
2179 |
|
f2e1ad71e49c
added "OrthancPluginLoadDicomInstance()" to load DICOM instances from the database
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5318
diff
changeset
|
2180 |
|
f2e1ad71e49c
added "OrthancPluginLoadDicomInstance()" to load DICOM instances from the database
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5318
diff
changeset
|
2181 ValueRepresentation ParsedDicomFile::GuessPixelDataValueRepresentation() const |
|
f2e1ad71e49c
added "OrthancPluginLoadDicomInstance()" to load DICOM instances from the database
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5318
diff
changeset
|
2182 { |
|
f2e1ad71e49c
added "OrthancPluginLoadDicomInstance()" to load DICOM instances from the database
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5318
diff
changeset
|
2183 DicomTransferSyntax ts; |
|
f2e1ad71e49c
added "OrthancPluginLoadDicomInstance()" to load DICOM instances from the database
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5318
diff
changeset
|
2184 if (LookupTransferSyntax(ts)) |
|
f2e1ad71e49c
added "OrthancPluginLoadDicomInstance()" to load DICOM instances from the database
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5318
diff
changeset
|
2185 { |
|
5323
138e9d0c08c1
added DicomMap::GuessPixelDataValueRepresentation()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5322
diff
changeset
|
2186 DcmItem& dataset = *GetDcmtkObjectConst().getDataset(); |
|
138e9d0c08c1
added DicomMap::GuessPixelDataValueRepresentation()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5322
diff
changeset
|
2187 |
|
138e9d0c08c1
added DicomMap::GuessPixelDataValueRepresentation()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5322
diff
changeset
|
2188 uint16_t bitsAllocated; |
|
138e9d0c08c1
added DicomMap::GuessPixelDataValueRepresentation()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5322
diff
changeset
|
2189 if (!dataset.findAndGetUint16(DCM_BitsAllocated, bitsAllocated).good()) |
|
5319
f2e1ad71e49c
added "OrthancPluginLoadDicomInstance()" to load DICOM instances from the database
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5318
diff
changeset
|
2190 { |
|
5323
138e9d0c08c1
added DicomMap::GuessPixelDataValueRepresentation()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5322
diff
changeset
|
2191 bitsAllocated = 8; |
|
5319
f2e1ad71e49c
added "OrthancPluginLoadDicomInstance()" to load DICOM instances from the database
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5318
diff
changeset
|
2192 } |
|
5323
138e9d0c08c1
added DicomMap::GuessPixelDataValueRepresentation()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5322
diff
changeset
|
2193 |
|
138e9d0c08c1
added DicomMap::GuessPixelDataValueRepresentation()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5322
diff
changeset
|
2194 return DicomImageInformation::GuessPixelDataValueRepresentation(ts, bitsAllocated); |
|
5319
f2e1ad71e49c
added "OrthancPluginLoadDicomInstance()" to load DICOM instances from the database
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5318
diff
changeset
|
2195 } |
|
f2e1ad71e49c
added "OrthancPluginLoadDicomInstance()" to load DICOM instances from the database
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5318
diff
changeset
|
2196 else |
|
f2e1ad71e49c
added "OrthancPluginLoadDicomInstance()" to load DICOM instances from the database
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5318
diff
changeset
|
2197 { |
|
5322
a904a4caf5b7
unit testing ParsedDicomFile::GuessPixelDataValueRepresentation()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5319
diff
changeset
|
2198 // Assume "OB" if the transfer syntax is unknown |
|
5319
f2e1ad71e49c
added "OrthancPluginLoadDicomInstance()" to load DICOM instances from the database
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5318
diff
changeset
|
2199 return ValueRepresentation_OtherByte; |
|
f2e1ad71e49c
added "OrthancPluginLoadDicomInstance()" to load DICOM instances from the database
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5318
diff
changeset
|
2200 } |
|
f2e1ad71e49c
added "OrthancPluginLoadDicomInstance()" to load DICOM instances from the database
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5318
diff
changeset
|
2201 } |
|
f2e1ad71e49c
added "OrthancPluginLoadDicomInstance()" to load DICOM instances from the database
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5318
diff
changeset
|
2202 |
|
f2e1ad71e49c
added "OrthancPluginLoadDicomInstance()" to load DICOM instances from the database
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
5318
diff
changeset
|
2203 |
|
4273
0034f855c023
tuning log categories from command-line, and binary compat with orthanc framework 1.7.2
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4211
diff
changeset
|
2204 #if ORTHANC_BUILDING_FRAMEWORK_LIBRARY == 1 |
|
0034f855c023
tuning log categories from command-line, and binary compat with orthanc framework 1.7.2
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4211
diff
changeset
|
2205 // Alias for binary compatibility with Orthanc Framework 1.7.2 => don't use it anymore |
|
4296
3b70a2e6a06c
moving inline methods to source files for ABI compatibility
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4278
diff
changeset
|
2206 void ParsedDicomFile::DatasetToJson(Json::Value& target, |
|
4273
0034f855c023
tuning log categories from command-line, and binary compat with orthanc framework 1.7.2
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4211
diff
changeset
|
2207 DicomToJsonFormat format, |
|
0034f855c023
tuning log categories from command-line, and binary compat with orthanc framework 1.7.2
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4211
diff
changeset
|
2208 DicomToJsonFlags flags, |
|
0034f855c023
tuning log categories from command-line, and binary compat with orthanc framework 1.7.2
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4211
diff
changeset
|
2209 unsigned int maxStringLength) |
|
0034f855c023
tuning log categories from command-line, and binary compat with orthanc framework 1.7.2
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4211
diff
changeset
|
2210 { |
|
0034f855c023
tuning log categories from command-line, and binary compat with orthanc framework 1.7.2
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4211
diff
changeset
|
2211 return const_cast<const ParsedDicomFile&>(*this).DatasetToJson(target, format, flags, maxStringLength); |
|
0034f855c023
tuning log categories from command-line, and binary compat with orthanc framework 1.7.2
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4211
diff
changeset
|
2212 } |
|
0034f855c023
tuning log categories from command-line, and binary compat with orthanc framework 1.7.2
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4211
diff
changeset
|
2213 |
|
0034f855c023
tuning log categories from command-line, and binary compat with orthanc framework 1.7.2
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4211
diff
changeset
|
2214 DcmFileFormat& ParsedDicomFile::GetDcmtkObject() const |
|
0034f855c023
tuning log categories from command-line, and binary compat with orthanc framework 1.7.2
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4211
diff
changeset
|
2215 { |
|
0034f855c023
tuning log categories from command-line, and binary compat with orthanc framework 1.7.2
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4211
diff
changeset
|
2216 return const_cast<ParsedDicomFile&>(*this).GetDcmtkObject(); |
|
0034f855c023
tuning log categories from command-line, and binary compat with orthanc framework 1.7.2
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4211
diff
changeset
|
2217 } |
|
0034f855c023
tuning log categories from command-line, and binary compat with orthanc framework 1.7.2
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4211
diff
changeset
|
2218 |
|
0034f855c023
tuning log categories from command-line, and binary compat with orthanc framework 1.7.2
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4211
diff
changeset
|
2219 void ParsedDicomFile::Apply(ITagVisitor& visitor) |
|
0034f855c023
tuning log categories from command-line, and binary compat with orthanc framework 1.7.2
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4211
diff
changeset
|
2220 { |
|
0034f855c023
tuning log categories from command-line, and binary compat with orthanc framework 1.7.2
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4211
diff
changeset
|
2221 const_cast<const ParsedDicomFile&>(*this).Apply(visitor); |
|
0034f855c023
tuning log categories from command-line, and binary compat with orthanc framework 1.7.2
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4211
diff
changeset
|
2222 } |
|
0034f855c023
tuning log categories from command-line, and binary compat with orthanc framework 1.7.2
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4211
diff
changeset
|
2223 |
|
0034f855c023
tuning log categories from command-line, and binary compat with orthanc framework 1.7.2
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4211
diff
changeset
|
2224 ParsedDicomFile* ParsedDicomFile::Clone(bool keepSopInstanceUid) |
|
0034f855c023
tuning log categories from command-line, and binary compat with orthanc framework 1.7.2
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4211
diff
changeset
|
2225 { |
|
0034f855c023
tuning log categories from command-line, and binary compat with orthanc framework 1.7.2
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4211
diff
changeset
|
2226 return const_cast<const ParsedDicomFile&>(*this).Clone(keepSopInstanceUid); |
|
0034f855c023
tuning log categories from command-line, and binary compat with orthanc framework 1.7.2
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4211
diff
changeset
|
2227 } |
|
0034f855c023
tuning log categories from command-line, and binary compat with orthanc framework 1.7.2
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4211
diff
changeset
|
2228 |
|
0034f855c023
tuning log categories from command-line, and binary compat with orthanc framework 1.7.2
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4211
diff
changeset
|
2229 bool ParsedDicomFile::LookupTransferSyntax(std::string& result) |
|
0034f855c023
tuning log categories from command-line, and binary compat with orthanc framework 1.7.2
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4211
diff
changeset
|
2230 { |
|
0034f855c023
tuning log categories from command-line, and binary compat with orthanc framework 1.7.2
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4211
diff
changeset
|
2231 return const_cast<const ParsedDicomFile&>(*this).LookupTransferSyntax(result); |
|
0034f855c023
tuning log categories from command-line, and binary compat with orthanc framework 1.7.2
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4211
diff
changeset
|
2232 } |
|
4507
b4c58795f3a8
widening the use of DicomTransferSyntax enum
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4437
diff
changeset
|
2233 |
|
b4c58795f3a8
widening the use of DicomTransferSyntax enum
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4437
diff
changeset
|
2234 bool ParsedDicomFile::LookupTransferSyntax(std::string& result) const |
|
b4c58795f3a8
widening the use of DicomTransferSyntax enum
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4437
diff
changeset
|
2235 { |
|
b4c58795f3a8
widening the use of DicomTransferSyntax enum
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4437
diff
changeset
|
2236 DicomTransferSyntax s; |
|
b4c58795f3a8
widening the use of DicomTransferSyntax enum
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4437
diff
changeset
|
2237 if (LookupTransferSyntax(s)) |
|
b4c58795f3a8
widening the use of DicomTransferSyntax enum
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4437
diff
changeset
|
2238 { |
|
b4c58795f3a8
widening the use of DicomTransferSyntax enum
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4437
diff
changeset
|
2239 result = GetTransferSyntaxUid(s); |
|
b4c58795f3a8
widening the use of DicomTransferSyntax enum
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4437
diff
changeset
|
2240 return true; |
|
b4c58795f3a8
widening the use of DicomTransferSyntax enum
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4437
diff
changeset
|
2241 } |
|
b4c58795f3a8
widening the use of DicomTransferSyntax enum
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4437
diff
changeset
|
2242 else |
|
b4c58795f3a8
widening the use of DicomTransferSyntax enum
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4437
diff
changeset
|
2243 { |
|
b4c58795f3a8
widening the use of DicomTransferSyntax enum
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4437
diff
changeset
|
2244 return false; |
|
b4c58795f3a8
widening the use of DicomTransferSyntax enum
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4437
diff
changeset
|
2245 } |
|
b4c58795f3a8
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Sebastien Jodogne <s.jodogne@gmail.com>
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2246 } |
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4273
0034f855c023
tuning log categories from command-line, and binary compat with orthanc framework 1.7.2
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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2247 |
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0034f855c023
tuning log categories from command-line, and binary compat with orthanc framework 1.7.2
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4211
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2248 bool ParsedDicomFile::GetTagValue(std::string& value, |
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0034f855c023
tuning log categories from command-line, and binary compat with orthanc framework 1.7.2
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4211
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2249 const DicomTag& tag) |
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0034f855c023
tuning log categories from command-line, and binary compat with orthanc framework 1.7.2
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4211
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2250 { |
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0034f855c023
tuning log categories from command-line, and binary compat with orthanc framework 1.7.2
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4211
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2251 return const_cast<const ParsedDicomFile&>(*this).GetTagValue(value, tag); |
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0034f855c023
tuning log categories from command-line, and binary compat with orthanc framework 1.7.2
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4211
diff
changeset
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2252 } |
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0034f855c023
tuning log categories from command-line, and binary compat with orthanc framework 1.7.2
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
4211
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2253 #endif |
| 790 | 2254 } |