Mercurial > hg > orthanc
annotate Core/DicomParsing/ParsedDicomFile.cpp @ 2793:87b426e54473
fix
| author | Sebastien Jodogne <s.jodogne@gmail.com> |
|---|---|
| date | Thu, 26 Jul 2018 22:11:36 +0200 |
| parents | 6db878376018 |
| children | 9a0c6a046cc2 |
| 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) 2017-2018 Osimis S.A., Belgium |
| 790 | 6 * |
| 7 * This program is free software: you can redistribute it and/or | |
| 8 * modify it under the terms of the GNU General Public License as | |
| 9 * published by the Free Software Foundation, either version 3 of the | |
| 10 * License, or (at your option) any later version. | |
| 11 * | |
| 12 * In addition, as a special exception, the copyright holders of this | |
| 13 * program give permission to link the code of its release with the | |
| 14 * OpenSSL project's "OpenSSL" library (or with modified versions of it | |
| 15 * that use the same license as the "OpenSSL" library), and distribute | |
| 16 * the linked executables. You must obey the GNU General Public License | |
| 17 * in all respects for all of the code used other than "OpenSSL". If you | |
| 18 * modify file(s) with this exception, you may extend this exception to | |
| 19 * your version of the file(s), but you are not obligated to do so. If | |
| 20 * you do not wish to do so, delete this exception statement from your | |
| 21 * version. If you delete this exception statement from all source files | |
| 22 * in the program, then also delete it here. | |
| 23 * | |
| 24 * This program is distributed in the hope that it will be useful, but | |
| 25 * WITHOUT ANY WARRANTY; without even the implied warranty of | |
| 26 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU | |
| 27 * General Public License for more details. | |
| 28 * | |
| 29 * You should have received a copy of the GNU General Public License | |
| 30 * along with this program. If not, see <http://www.gnu.org/licenses/>. | |
| 31 **/ | |
| 32 | |
| 33 | |
| 34 | |
| 35 /*========================================================================= | |
| 36 | |
| 37 This file is based on portions of the following project: | |
| 38 | |
| 39 Program: GDCM (Grassroots DICOM). A DICOM library | |
| 40 Module: http://gdcm.sourceforge.net/Copyright.html | |
| 41 | |
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42 Copyright (c) 2006-2011 Mathieu Malaterre |
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43 Copyright (c) 1993-2005 CREATIS |
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44 (CREATIS = Centre de Recherche et d'Applications en Traitement de l'Image) |
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45 All rights reserved. |
| 790 | 46 |
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47 Redistribution and use in source and binary forms, with or without |
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48 modification, are permitted provided that the following conditions are met: |
| 790 | 49 |
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50 * Redistributions of source code must retain the above copyright notice, |
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51 this list of conditions and the following disclaimer. |
| 790 | 52 |
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53 * Redistributions in binary form must reproduce the above copyright notice, |
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54 this list of conditions and the following disclaimer in the documentation |
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55 and/or other materials provided with the distribution. |
| 790 | 56 |
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57 * Neither name of Mathieu Malaterre, or CREATIS, nor the names of any |
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58 contributors (CNRS, INSERM, UCB, Universite Lyon I), may be used to |
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59 endorse or promote products derived from this software without specific |
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60 prior written permission. |
| 790 | 61 |
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62 THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS ``AS IS'' |
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63 AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE |
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64 IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE |
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65 ARE DISCLAIMED. IN NO EVENT SHALL THE AUTHORS OR CONTRIBUTORS BE LIABLE FOR |
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66 ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL |
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67 DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR |
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68 SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER |
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69 CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, |
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70 OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE |
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71 OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. |
| 790 | 72 |
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73 =========================================================================*/ |
| 790 | 74 |
| 75 | |
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76 #include "../PrecompiledHeaders.h" |
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77 |
| 790 | 78 #ifndef NOMINMAX |
| 79 #define NOMINMAX | |
| 80 #endif | |
| 81 | |
| 82 #include "ParsedDicomFile.h" | |
| 83 | |
| 84 #include "FromDcmtkBridge.h" | |
| 85 #include "ToDcmtkBridge.h" | |
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86 #include "Internals/DicomFrameIndex.h" |
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87 #include "../Logging.h" |
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88 #include "../OrthancException.h" |
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89 #include "../Toolbox.h" |
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90 |
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91 #if ORTHANC_SANDBOXED == 0 |
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92 # include "../SystemToolbox.h" |
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93 #endif |
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95 #if ORTHANC_ENABLE_JPEG == 1 |
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96 # include "../Images/JpegReader.h" |
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97 #endif |
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98 |
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99 #if ORTHANC_ENABLE_PNG == 1 |
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100 # include "../Images/PngReader.h" |
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101 #endif |
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102 |
| 790 | 103 #include <list> |
| 104 #include <limits> | |
| 105 | |
| 106 #include <boost/lexical_cast.hpp> | |
| 107 | |
| 108 #include <dcmtk/dcmdata/dcchrstr.h> | |
| 109 #include <dcmtk/dcmdata/dcdicent.h> | |
| 110 #include <dcmtk/dcmdata/dcdict.h> | |
| 111 #include <dcmtk/dcmdata/dcfilefo.h> | |
| 112 #include <dcmtk/dcmdata/dcuid.h> | |
| 113 #include <dcmtk/dcmdata/dcmetinf.h> | |
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114 #include <dcmtk/dcmdata/dcdeftag.h> |
| 790 | 115 |
| 116 #include <dcmtk/dcmdata/dcvrae.h> | |
| 117 #include <dcmtk/dcmdata/dcvras.h> | |
| 118 #include <dcmtk/dcmdata/dcvrcs.h> | |
| 119 #include <dcmtk/dcmdata/dcvrda.h> | |
| 120 #include <dcmtk/dcmdata/dcvrds.h> | |
| 121 #include <dcmtk/dcmdata/dcvrdt.h> | |
| 122 #include <dcmtk/dcmdata/dcvrfd.h> | |
| 123 #include <dcmtk/dcmdata/dcvrfl.h> | |
| 124 #include <dcmtk/dcmdata/dcvris.h> | |
| 125 #include <dcmtk/dcmdata/dcvrlo.h> | |
| 126 #include <dcmtk/dcmdata/dcvrlt.h> | |
| 127 #include <dcmtk/dcmdata/dcvrpn.h> | |
| 128 #include <dcmtk/dcmdata/dcvrsh.h> | |
| 129 #include <dcmtk/dcmdata/dcvrsl.h> | |
| 130 #include <dcmtk/dcmdata/dcvrss.h> | |
| 131 #include <dcmtk/dcmdata/dcvrst.h> | |
| 132 #include <dcmtk/dcmdata/dcvrtm.h> | |
| 133 #include <dcmtk/dcmdata/dcvrui.h> | |
| 134 #include <dcmtk/dcmdata/dcvrul.h> | |
| 135 #include <dcmtk/dcmdata/dcvrus.h> | |
| 136 #include <dcmtk/dcmdata/dcvrut.h> | |
| 137 #include <dcmtk/dcmdata/dcpixel.h> | |
| 138 #include <dcmtk/dcmdata/dcpixseq.h> | |
| 139 #include <dcmtk/dcmdata/dcpxitem.h> | |
| 140 | |
| 141 | |
| 142 #include <boost/math/special_functions/round.hpp> | |
| 143 #include <dcmtk/dcmdata/dcostrmb.h> | |
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144 #include <boost/algorithm/string/predicate.hpp> |
| 790 | 145 |
| 146 | |
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147 #if DCMTK_VERSION_NUMBER <= 360 |
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148 # define EXS_JPEGProcess1 EXS_JPEGProcess1TransferSyntax |
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149 #endif |
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150 |
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151 |
| 790 | 152 |
| 153 namespace Orthanc | |
| 154 { | |
| 794 | 155 struct ParsedDicomFile::PImpl |
| 156 { | |
| 157 std::auto_ptr<DcmFileFormat> file_; | |
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158 std::auto_ptr<DicomFrameIndex> frameIndex_; |
| 794 | 159 }; |
| 160 | |
| 161 | |
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162 #if ORTHANC_ENABLE_CIVETWEB == 1 || ORTHANC_ENABLE_MONGOOSE == 1 |
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163 static const char* CONTENT_TYPE_OCTET_STREAM = "application/octet-stream"; |
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164 |
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165 static void ParseTagAndGroup(DcmTagKey& key, |
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166 const std::string& tag) |
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167 { |
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168 DicomTag t = FromDcmtkBridge::ParseTag(tag); |
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169 key = DcmTagKey(t.GetGroup(), t.GetElement()); |
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170 } |
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171 |
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172 |
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173 static unsigned int GetPixelDataBlockCount(DcmPixelData& pixelData, |
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174 E_TransferSyntax transferSyntax) |
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175 { |
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176 DcmPixelSequence* pixelSequence = NULL; |
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177 if (pixelData.getEncapsulatedRepresentation |
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178 (transferSyntax, NULL, pixelSequence).good() && pixelSequence) |
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179 { |
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180 return pixelSequence->card(); |
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181 } |
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182 else |
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183 { |
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184 return 1; |
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185 } |
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186 } |
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187 |
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188 |
| 790 | 189 static void SendPathValueForDictionary(RestApiOutput& output, |
| 190 DcmItem& dicom) | |
| 191 { | |
| 192 Json::Value v = Json::arrayValue; | |
| 193 | |
| 194 for (unsigned long i = 0; i < dicom.card(); i++) | |
| 195 { | |
| 196 DcmElement* element = dicom.getElement(i); | |
| 197 if (element) | |
| 198 { | |
| 199 char buf[16]; | |
| 200 sprintf(buf, "%04x-%04x", element->getTag().getGTag(), element->getTag().getETag()); | |
| 201 v.append(buf); | |
| 202 } | |
| 203 } | |
| 204 | |
| 205 output.AnswerJson(v); | |
| 206 } | |
| 207 | |
| 208 | |
| 209 static void SendSequence(RestApiOutput& output, | |
| 210 DcmSequenceOfItems& sequence) | |
| 211 { | |
| 212 // This element is a sequence | |
| 213 Json::Value v = Json::arrayValue; | |
| 214 | |
| 215 for (unsigned long i = 0; i < sequence.card(); i++) | |
| 216 { | |
| 217 v.append(boost::lexical_cast<std::string>(i)); | |
| 218 } | |
| 219 | |
| 220 output.AnswerJson(v); | |
| 221 } | |
| 222 | |
| 223 | |
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224 namespace |
| 790 | 225 { |
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226 class DicomFieldStream : public IHttpStreamAnswer |
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227 { |
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228 private: |
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229 DcmElement& element_; |
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230 uint32_t length_; |
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231 uint32_t offset_; |
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232 std::string chunk_; |
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233 size_t chunkSize_; |
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234 |
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235 public: |
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236 DicomFieldStream(DcmElement& element, |
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237 E_TransferSyntax transferSyntax) : |
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238 element_(element), |
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239 length_(element.getLength(transferSyntax)), |
| 1616 | 240 offset_(0), |
| 241 chunkSize_(0) | |
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242 { |
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244 chunk_.resize(CHUNK_SIZE); |
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245 } |
| 790 | 246 |
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247 virtual HttpCompression SetupHttpCompression(bool /*gzipAllowed*/, |
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248 bool /*deflateAllowed*/) |
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249 { |
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250 // No support for compression |
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251 return HttpCompression_None; |
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252 } |
| 790 | 253 |
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254 virtual bool HasContentFilename(std::string& filename) |
| 790 | 255 { |
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256 return false; |
| 790 | 257 } |
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258 |
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259 virtual std::string GetContentType() |
| 790 | 260 { |
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261 return ""; |
| 790 | 262 } |
| 263 | |
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264 virtual uint64_t GetContentLength() |
| 790 | 265 { |
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266 return length_; |
| 790 | 267 } |
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268 |
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269 virtual bool ReadNextChunk() |
| 790 | 270 { |
| 1520 | 271 assert(offset_ <= length_); |
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272 |
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273 if (offset_ == length_) |
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274 { |
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275 return false; |
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276 } |
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277 else |
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278 { |
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279 if (length_ - offset_ < chunk_.size()) |
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280 { |
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281 chunkSize_ = length_ - offset_; |
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282 } |
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283 else |
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284 { |
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285 chunkSize_ = chunk_.size(); |
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286 } |
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287 |
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288 OFCondition cond = element_.getPartialValue(&chunk_[0], offset_, chunkSize_); |
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289 |
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290 offset_ += chunkSize_; |
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291 |
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292 if (!cond.good()) |
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293 { |
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294 LOG(ERROR) << "Error while sending a DICOM field: " << cond.text(); |
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295 throw OrthancException(ErrorCode_InternalError); |
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296 } |
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297 |
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298 return true; |
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299 } |
| 790 | 300 } |
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301 |
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302 virtual const char *GetChunkContent() |
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303 { |
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304 return chunk_.c_str(); |
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305 } |
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306 |
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307 virtual size_t GetChunkSize() |
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308 { |
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309 return chunkSize_; |
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310 } |
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311 }; |
| 790 | 312 } |
| 313 | |
| 314 | |
| 315 static bool AnswerPixelData(RestApiOutput& output, | |
| 316 DcmItem& dicom, | |
| 317 E_TransferSyntax transferSyntax, | |
| 318 const std::string* blockUri) | |
| 319 { | |
| 320 DcmTag k(DICOM_TAG_PIXEL_DATA.GetGroup(), | |
| 321 DICOM_TAG_PIXEL_DATA.GetElement()); | |
| 322 | |
| 323 DcmElement *element = NULL; | |
| 324 if (!dicom.findAndGetElement(k, element).good() || | |
| 325 element == NULL) | |
| 326 { | |
| 327 return false; | |
| 328 } | |
| 329 | |
| 330 try | |
| 331 { | |
| 332 DcmPixelData& pixelData = dynamic_cast<DcmPixelData&>(*element); | |
| 333 if (blockUri == NULL) | |
| 334 { | |
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335 // The user asks how many blocks are present in this pixel data |
| 790 | 336 unsigned int blocks = GetPixelDataBlockCount(pixelData, transferSyntax); |
| 337 | |
| 338 Json::Value result(Json::arrayValue); | |
| 339 for (unsigned int i = 0; i < blocks; i++) | |
| 340 { | |
| 341 result.append(boost::lexical_cast<std::string>(i)); | |
| 342 } | |
| 343 | |
| 344 output.AnswerJson(result); | |
| 345 return true; | |
| 346 } | |
| 347 | |
| 348 | |
| 349 unsigned int block = boost::lexical_cast<unsigned int>(*blockUri); | |
| 350 | |
| 351 if (block < GetPixelDataBlockCount(pixelData, transferSyntax)) | |
| 352 { | |
| 353 DcmPixelSequence* pixelSequence = NULL; | |
| 354 if (pixelData.getEncapsulatedRepresentation | |
| 355 (transferSyntax, NULL, pixelSequence).good() && pixelSequence) | |
| 356 { | |
| 357 // This is the case for JPEG transfer syntaxes | |
| 358 if (block < pixelSequence->card()) | |
| 359 { | |
| 360 DcmPixelItem* pixelItem = NULL; | |
| 361 if (pixelSequence->getItem(pixelItem, block).good() && pixelItem) | |
| 362 { | |
| 363 if (pixelItem->getLength() == 0) | |
| 364 { | |
| 365 output.AnswerBuffer(NULL, 0, CONTENT_TYPE_OCTET_STREAM); | |
| 366 return true; | |
| 367 } | |
| 368 | |
| 369 Uint8* buffer = NULL; | |
| 370 if (pixelItem->getUint8Array(buffer).good() && buffer) | |
| 371 { | |
| 372 output.AnswerBuffer(buffer, pixelItem->getLength(), CONTENT_TYPE_OCTET_STREAM); | |
| 373 return true; | |
| 374 } | |
| 375 } | |
| 376 } | |
| 377 } | |
| 378 else | |
| 379 { | |
| 380 // This is the case for raw, uncompressed image buffers | |
| 381 assert(*blockUri == "0"); | |
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382 DicomFieldStream stream(*element, transferSyntax); |
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383 output.AnswerStream(stream); |
| 790 | 384 } |
| 385 } | |
| 386 } | |
| 387 catch (boost::bad_lexical_cast&) | |
| 388 { | |
| 389 // The URI entered by the user is not a number | |
| 390 } | |
| 391 catch (std::bad_cast&) | |
| 392 { | |
| 393 // This should never happen | |
| 394 } | |
| 395 | |
| 396 return false; | |
| 397 } | |
| 398 | |
| 399 | |
| 400 static void SendPathValueForLeaf(RestApiOutput& output, | |
| 401 const std::string& tag, | |
| 402 DcmItem& dicom, | |
| 403 E_TransferSyntax transferSyntax) | |
| 404 { | |
| 405 DcmTagKey k; | |
| 406 ParseTagAndGroup(k, tag); | |
| 407 | |
| 408 DcmSequenceOfItems* sequence = NULL; | |
| 409 if (dicom.findAndGetSequence(k, sequence).good() && | |
| 410 sequence != NULL && | |
| 411 sequence->getVR() == EVR_SQ) | |
| 412 { | |
| 413 SendSequence(output, *sequence); | |
| 414 return; | |
| 415 } | |
| 416 | |
| 417 DcmElement* element = NULL; | |
| 418 if (dicom.findAndGetElement(k, element).good() && | |
| 419 element != NULL && | |
| 420 //element->getVR() != EVR_UNKNOWN && // This would forbid private tags | |
| 421 element->getVR() != EVR_SQ) | |
| 422 { | |
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423 DicomFieldStream stream(*element, transferSyntax); |
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424 output.AnswerStream(stream); |
| 790 | 425 } |
| 426 } | |
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427 #endif |
| 790 | 428 |
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429 |
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430 static inline uint16_t GetCharValue(char c) |
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431 { |
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432 if (c >= '0' && c <= '9') |
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433 return c - '0'; |
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434 else if (c >= 'a' && c <= 'f') |
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435 return c - 'a' + 10; |
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436 else if (c >= 'A' && c <= 'F') |
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437 return c - 'A' + 10; |
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438 else |
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439 return 0; |
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440 } |
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441 |
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442 |
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443 static inline uint16_t GetTagValue(const char* c) |
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444 { |
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445 return ((GetCharValue(c[0]) << 12) + |
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446 (GetCharValue(c[1]) << 8) + |
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447 (GetCharValue(c[2]) << 4) + |
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448 GetCharValue(c[3])); |
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449 } |
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450 |
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451 |
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452 #if ORTHANC_ENABLE_CIVETWEB == 1 || ORTHANC_ENABLE_MONGOOSE == 1 |
| 790 | 453 void ParsedDicomFile::SendPathValue(RestApiOutput& output, |
| 454 const UriComponents& uri) | |
| 455 { | |
| 794 | 456 DcmItem* dicom = pimpl_->file_->getDataset(); |
| 457 E_TransferSyntax transferSyntax = pimpl_->file_->getDataset()->getOriginalXfer(); | |
| 790 | 458 |
| 459 // Special case: Accessing the pixel data | |
| 460 if (uri.size() == 1 || | |
| 461 uri.size() == 2) | |
| 462 { | |
| 463 DcmTagKey tag; | |
| 464 ParseTagAndGroup(tag, uri[0]); | |
| 465 | |
| 466 if (tag.getGroup() == DICOM_TAG_PIXEL_DATA.GetGroup() && | |
| 467 tag.getElement() == DICOM_TAG_PIXEL_DATA.GetElement()) | |
| 468 { | |
| 469 AnswerPixelData(output, *dicom, transferSyntax, uri.size() == 1 ? NULL : &uri[1]); | |
| 470 return; | |
| 471 } | |
| 472 } | |
| 473 | |
| 474 // Go down in the tag hierarchy according to the URI | |
| 475 for (size_t pos = 0; pos < uri.size() / 2; pos++) | |
| 476 { | |
| 477 size_t index; | |
| 478 try | |
| 479 { | |
| 480 index = boost::lexical_cast<size_t>(uri[2 * pos + 1]); | |
| 481 } | |
| 482 catch (boost::bad_lexical_cast&) | |
| 483 { | |
| 484 return; | |
| 485 } | |
| 486 | |
| 487 DcmTagKey k; | |
| 488 DcmItem *child = NULL; | |
| 489 ParseTagAndGroup(k, uri[2 * pos]); | |
| 490 if (!dicom->findAndGetSequenceItem(k, child, index).good() || | |
| 491 child == NULL) | |
| 492 { | |
| 493 return; | |
| 494 } | |
| 495 | |
| 496 dicom = child; | |
| 497 } | |
| 498 | |
| 499 // We have reached the end of the URI | |
| 500 if (uri.size() % 2 == 0) | |
| 501 { | |
| 502 SendPathValueForDictionary(output, *dicom); | |
| 503 } | |
| 504 else | |
| 505 { | |
| 506 SendPathValueForLeaf(output, uri.back(), *dicom, transferSyntax); | |
| 507 } | |
| 508 } | |
|
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509 #endif |
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510 |
| 790 | 511 |
| 512 void ParsedDicomFile::Remove(const DicomTag& tag) | |
| 513 { | |
|
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514 InvalidateCache(); |
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515 |
| 790 | 516 DcmTagKey key(tag.GetGroup(), tag.GetElement()); |
| 794 | 517 DcmElement* element = pimpl_->file_->getDataset()->remove(key); |
| 790 | 518 if (element != NULL) |
| 519 { | |
| 520 delete element; | |
| 521 } | |
| 522 } | |
| 523 | |
| 524 | |
|
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525 void ParsedDicomFile::Clear(const DicomTag& tag, |
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526 bool onlyIfExists) |
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527 { |
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528 InvalidateCache(); |
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529 |
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530 DcmItem* dicom = pimpl_->file_->getDataset(); |
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531 DcmTagKey key(tag.GetGroup(), tag.GetElement()); |
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532 |
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533 if (onlyIfExists && |
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534 !dicom->tagExists(key)) |
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535 { |
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536 // The tag is non-existing, do not clear it |
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537 } |
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538 else |
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539 { |
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540 if (!dicom->insertEmptyElement(key, OFTrue /* replace old value */).good()) |
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541 { |
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542 throw OrthancException(ErrorCode_InternalError); |
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543 } |
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544 } |
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545 } |
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546 |
| 790 | 547 |
|
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548 void ParsedDicomFile::RemovePrivateTagsInternal(const std::set<DicomTag>* toKeep) |
| 790 | 549 { |
|
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550 InvalidateCache(); |
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551 |
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552 DcmDataset& dataset = *pimpl_->file_->getDataset(); |
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553 |
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554 // Loop over the dataset to detect its private tags |
| 790 | 555 typedef std::list<DcmElement*> Tags; |
| 556 Tags privateTags; | |
| 557 | |
| 558 for (unsigned long i = 0; i < dataset.card(); i++) | |
| 559 { | |
| 560 DcmElement* element = dataset.getElement(i); | |
| 561 DcmTag tag(element->getTag()); | |
|
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562 |
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563 // Is this a private tag? |
| 1694 | 564 if (tag.isPrivate()) |
| 790 | 565 { |
|
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566 bool remove = true; |
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567 |
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568 // Check whether this private tag is to be kept |
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569 if (toKeep != NULL) |
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570 { |
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571 DicomTag tmp = FromDcmtkBridge::Convert(tag); |
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572 if (toKeep->find(tmp) != toKeep->end()) |
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573 { |
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574 remove = false; // Keep it |
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575 } |
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576 } |
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577 |
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578 if (remove) |
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579 { |
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580 privateTags.push_back(element); |
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581 } |
| 790 | 582 } |
| 583 } | |
| 584 | |
|
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585 // Loop over the detected private tags to remove them |
| 790 | 586 for (Tags::iterator it = privateTags.begin(); |
| 587 it != privateTags.end(); ++it) | |
| 588 { | |
| 589 DcmElement* tmp = dataset.remove(*it); | |
| 590 if (tmp != NULL) | |
| 591 { | |
| 592 delete tmp; | |
| 593 } | |
| 594 } | |
| 595 } | |
| 596 | |
| 597 | |
|
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598 static void InsertInternal(DcmDataset& dicom, |
|
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599 DcmElement* element) |
| 790 | 600 { |
|
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601 OFCondition cond = dicom.insert(element, false, false); |
|
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602 if (!cond.good()) |
| 790 | 603 { |
| 604 // This field already exists | |
|
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605 delete element; |
| 790 | 606 throw OrthancException(ErrorCode_InternalError); |
| 607 } | |
| 608 } | |
| 609 | |
| 610 | |
|
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611 void ParsedDicomFile::Insert(const DicomTag& tag, |
|
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612 const Json::Value& value, |
|
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613 bool decodeDataUriScheme) |
| 790 | 614 { |
|
1980
ebce5f456b8e
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615 if (pimpl_->file_->getDataset()->tagExists(ToDcmtkBridge::Convert(tag))) |
|
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616 { |
|
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617 throw OrthancException(ErrorCode_AlreadyExistingTag); |
|
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618 } |
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619 |
|
1982
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|
620 if (decodeDataUriScheme && |
|
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|
621 value.type() == Json::stringValue && |
|
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622 (tag == DICOM_TAG_ENCAPSULATED_DOCUMENT || |
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|
623 tag == DICOM_TAG_PIXEL_DATA)) |
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624 { |
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625 if (EmbedContentInternal(value.asString())) |
|
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626 { |
|
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627 return; |
|
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628 } |
|
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629 } |
|
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630 |
|
1924
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631 InvalidateCache(); |
|
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632 std::auto_ptr<DcmElement> element(FromDcmtkBridge::FromJson(tag, value, decodeDataUriScheme, GetEncoding())); |
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633 InsertInternal(*pimpl_->file_->getDataset(), element.release()); |
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634 } |
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635 |
| 790 | 636 |
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637 static bool CanReplaceProceed(DcmDataset& dicom, |
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638 const DcmTagKey& tag, |
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639 DicomReplaceMode mode) |
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640 { |
| 1979 | 641 if (dicom.findAndDeleteElement(tag).good()) |
| 790 | 642 { |
| 1979 | 643 // This tag was existing, it has been deleted |
| 644 return true; | |
| 645 } | |
| 646 else | |
| 647 { | |
| 648 // This tag was absent, act wrt. the specified "mode" | |
| 790 | 649 switch (mode) |
| 650 { | |
| 651 case DicomReplaceMode_InsertIfAbsent: | |
| 1979 | 652 return true; |
| 790 | 653 |
| 654 case DicomReplaceMode_ThrowIfAbsent: | |
| 655 throw OrthancException(ErrorCode_InexistentItem); | |
| 656 | |
| 657 case DicomReplaceMode_IgnoreIfAbsent: | |
| 1979 | 658 return false; |
| 659 | |
| 660 default: | |
| 661 throw OrthancException(ErrorCode_ParameterOutOfRange); | |
| 790 | 662 } |
| 663 } | |
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664 } |
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665 |
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666 |
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667 void ParsedDicomFile::UpdateStorageUid(const DicomTag& tag, |
| 1695 | 668 const std::string& utf8Value, |
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669 bool decodeDataUriScheme) |
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670 { |
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671 if (tag != DICOM_TAG_SOP_CLASS_UID && |
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672 tag != DICOM_TAG_SOP_INSTANCE_UID) |
| 790 | 673 { |
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674 return; |
| 790 | 675 } |
| 676 | |
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677 std::string binary; |
| 1695 | 678 const std::string* decoded = &utf8Value; |
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679 |
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680 if (decodeDataUriScheme && |
| 1695 | 681 boost::starts_with(utf8Value, "data:application/octet-stream;base64,")) |
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682 { |
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683 std::string mime; |
|
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684 if (!Toolbox::DecodeDataUriScheme(mime, binary, utf8Value)) |
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685 { |
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686 throw OrthancException(ErrorCode_BadFileFormat); |
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687 } |
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688 |
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689 decoded = &binary; |
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690 } |
| 1695 | 691 else |
| 692 { | |
| 693 Encoding encoding = GetEncoding(); | |
| 694 if (GetEncoding() != Encoding_Utf8) | |
| 695 { | |
| 696 binary = Toolbox::ConvertFromUtf8(utf8Value, encoding); | |
| 697 decoded = &binary; | |
| 698 } | |
| 699 } | |
| 790 | 700 |
| 701 /** | |
| 702 * dcmodify will automatically correct 'Media Storage SOP Class | |
| 703 * UID' and 'Media Storage SOP Instance UID' in the metaheader, if | |
| 704 * you make changes to the related tags in the dataset ('SOP Class | |
| 705 * UID' and 'SOP Instance UID') via insert or modify mode | |
| 706 * options. You can disable this behaviour by using the -nmu | |
| 707 * option. | |
| 708 **/ | |
| 709 | |
| 710 if (tag == DICOM_TAG_SOP_CLASS_UID) | |
| 711 { | |
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712 ReplacePlainString(DICOM_TAG_MEDIA_STORAGE_SOP_CLASS_UID, *decoded); |
| 790 | 713 } |
| 714 | |
| 715 if (tag == DICOM_TAG_SOP_INSTANCE_UID) | |
| 716 { | |
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717 ReplacePlainString(DICOM_TAG_MEDIA_STORAGE_SOP_INSTANCE_UID, *decoded); |
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718 } |
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719 } |
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720 |
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721 |
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722 void ParsedDicomFile::Replace(const DicomTag& tag, |
| 1695 | 723 const std::string& utf8Value, |
|
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724 bool decodeDataUriScheme, |
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725 DicomReplaceMode mode) |
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726 { |
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727 InvalidateCache(); |
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|
728 |
|
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729 DcmDataset& dicom = *pimpl_->file_->getDataset(); |
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730 if (CanReplaceProceed(dicom, ToDcmtkBridge::Convert(tag), mode)) |
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731 { |
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732 // Either the tag was previously existing (and now removed), or |
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733 // the replace mode was set to "InsertIfAbsent" |
| 1979 | 734 |
|
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735 if (decodeDataUriScheme && |
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736 (tag == DICOM_TAG_ENCAPSULATED_DOCUMENT || |
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737 tag == DICOM_TAG_PIXEL_DATA)) |
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738 { |
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739 if (EmbedContentInternal(utf8Value)) |
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740 { |
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741 return; |
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742 } |
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743 } |
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744 |
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745 std::auto_ptr<DcmElement> element(FromDcmtkBridge::CreateElementForTag(tag)); |
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746 FromDcmtkBridge::FillElementWithString(*element, tag, utf8Value, decodeDataUriScheme, GetEncoding()); |
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747 |
| 1979 | 748 InsertInternal(dicom, element.release()); |
| 749 UpdateStorageUid(tag, utf8Value, false); | |
| 750 } | |
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751 } |
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|
752 |
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|
753 |
|
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|
754 void ParsedDicomFile::Replace(const DicomTag& tag, |
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755 const Json::Value& value, |
|
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756 bool decodeDataUriScheme, |
|
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757 DicomReplaceMode mode) |
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758 { |
|
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759 InvalidateCache(); |
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|
760 |
|
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|
761 DcmDataset& dicom = *pimpl_->file_->getDataset(); |
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762 if (CanReplaceProceed(dicom, ToDcmtkBridge::Convert(tag), mode)) |
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763 { |
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|
764 // Either the tag was previously existing (and now removed), or |
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765 // the replace mode was set to "InsertIfAbsent" |
|
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|
766 |
|
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767 if (decodeDataUriScheme && |
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768 value.type() == Json::stringValue && |
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|
769 (tag == DICOM_TAG_ENCAPSULATED_DOCUMENT || |
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770 tag == DICOM_TAG_PIXEL_DATA)) |
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771 { |
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772 if (EmbedContentInternal(value.asString())) |
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|
773 { |
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774 return; |
|
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775 } |
|
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776 } |
|
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|
777 |
|
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diff
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|
778 InsertInternal(dicom, FromDcmtkBridge::FromJson(tag, value, decodeDataUriScheme, GetEncoding())); |
| 1979 | 779 |
| 780 if (tag == DICOM_TAG_SOP_CLASS_UID || | |
| 781 tag == DICOM_TAG_SOP_INSTANCE_UID) | |
|
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782 { |
| 1979 | 783 if (value.type() != Json::stringValue) |
| 784 { | |
| 785 throw OrthancException(ErrorCode_BadParameterType); | |
| 786 } | |
| 787 | |
| 788 UpdateStorageUid(tag, value.asString(), decodeDataUriScheme); | |
|
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|
789 } |
| 790 | 790 } |
| 791 } | |
| 792 | |
| 793 | |
|
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|
794 #if ORTHANC_ENABLE_CIVETWEB == 1 || ORTHANC_ENABLE_MONGOOSE == 1 |
| 790 | 795 void ParsedDicomFile::Answer(RestApiOutput& output) |
| 796 { | |
| 797 std::string serialized; | |
|
1004
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DicomInstanceToStore
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991
diff
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|
798 if (FromDcmtkBridge::SaveToMemoryBuffer(serialized, *pimpl_->file_->getDataset())) |
| 790 | 799 { |
| 800 output.AnswerBuffer(serialized, CONTENT_TYPE_OCTET_STREAM); | |
| 801 } | |
| 802 } | |
|
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|
803 #endif |
| 790 | 804 |
| 805 | |
| 806 bool ParsedDicomFile::GetTagValue(std::string& value, | |
| 807 const DicomTag& tag) | |
| 808 { | |
| 809 DcmTagKey k(tag.GetGroup(), tag.GetElement()); | |
| 794 | 810 DcmDataset& dataset = *pimpl_->file_->getDataset(); |
|
1307
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
811 |
|
1818
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
812 if (tag.IsPrivate() || |
|
1655
e40fd0d925c5
/tools/create-dicom can create tags with unknown VR
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1641
diff
changeset
|
813 FromDcmtkBridge::IsUnknownTag(tag) || |
|
1556
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
814 tag == DICOM_TAG_PIXEL_DATA || |
|
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
815 tag == DICOM_TAG_ENCAPSULATED_DOCUMENT) |
| 790 | 816 { |
|
1307
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
817 const Uint8* data = NULL; // This is freed in the destructor of the dataset |
|
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
818 long unsigned int count = 0; |
| 790 | 819 |
|
1307
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
820 if (dataset.findAndGetUint8Array(k, data, &count).good()) |
|
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
821 { |
|
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
822 if (count > 0) |
|
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
823 { |
|
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
824 assert(data != NULL); |
|
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
825 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
|
826 } |
|
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
827 else |
|
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
828 { |
|
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
829 value.clear(); |
|
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
830 } |
| 790 | 831 |
|
1307
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
832 return true; |
|
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
833 } |
|
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
834 else |
|
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
835 { |
|
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
836 return false; |
|
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
837 } |
| 790 | 838 } |
| 839 else | |
| 840 { | |
|
1307
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
841 DcmElement* element = NULL; |
|
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
842 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
|
843 element == NULL) |
|
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
844 { |
|
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
845 return false; |
|
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
846 } |
|
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
847 |
|
2409
e4045b3c9772
ignore-length argument if retrieving DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2394
diff
changeset
|
848 std::set<DicomTag> tmp; |
|
1736
b953c6eef28d
ToJson: IncludePrivateTags and IncludeUnknownTags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1735
diff
changeset
|
849 std::auto_ptr<DicomValue> v(FromDcmtkBridge::ConvertLeafElement |
|
1929
cda5b0ab4ce5
ORTHANC_MAXIMUM_TAG_LENGTH made explicit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1928
diff
changeset
|
850 (*element, DicomToJsonFlags_Default, |
|
2409
e4045b3c9772
ignore-length argument if retrieving DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2394
diff
changeset
|
851 0, GetEncoding(), tmp)); |
|
1556
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
852 |
|
1737
ec66a16aa398
removal of DicomStringValue and DicomNullValue
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1736
diff
changeset
|
853 if (v.get() == NULL || |
|
ec66a16aa398
removal of DicomStringValue and DicomNullValue
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1736
diff
changeset
|
854 v->IsNull()) |
|
1307
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
855 { |
|
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
856 value = ""; |
|
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
857 } |
|
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
858 else |
|
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
859 { |
|
1737
ec66a16aa398
removal of DicomStringValue and DicomNullValue
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1736
diff
changeset
|
860 // TODO v->IsBinary() |
|
ec66a16aa398
removal of DicomStringValue and DicomNullValue
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1736
diff
changeset
|
861 value = v->GetContent(); |
|
1307
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
862 } |
|
1556
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
863 |
|
1307
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
864 return true; |
| 790 | 865 } |
| 866 } | |
| 867 | |
| 868 | |
| 869 DicomInstanceHasher ParsedDicomFile::GetHasher() | |
| 870 { | |
| 871 std::string patientId, studyUid, seriesUid, instanceUid; | |
| 872 | |
| 873 if (!GetTagValue(patientId, DICOM_TAG_PATIENT_ID) || | |
| 874 !GetTagValue(studyUid, DICOM_TAG_STUDY_INSTANCE_UID) || | |
| 875 !GetTagValue(seriesUid, DICOM_TAG_SERIES_INSTANCE_UID) || | |
| 876 !GetTagValue(instanceUid, DICOM_TAG_SOP_INSTANCE_UID)) | |
| 877 { | |
| 878 throw OrthancException(ErrorCode_BadFileFormat); | |
| 879 } | |
| 880 | |
| 881 return DicomInstanceHasher(patientId, studyUid, seriesUid, instanceUid); | |
| 882 } | |
| 883 | |
| 884 | |
| 885 void ParsedDicomFile::SaveToMemoryBuffer(std::string& buffer) | |
| 886 { | |
|
1004
a226e0959d8b
DicomInstanceToStore
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
991
diff
changeset
|
887 FromDcmtkBridge::SaveToMemoryBuffer(buffer, *pimpl_->file_->getDataset()); |
| 790 | 888 } |
| 889 | |
| 890 | |
|
2512
4dcafa8d6633
SystemToolbox::GenerateUuid moved to Toolbox::GenerateUuid
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2499
diff
changeset
|
891 #if ORTHANC_SANDBOXED == 0 |
| 790 | 892 void ParsedDicomFile::SaveToFile(const std::string& path) |
| 893 { | |
| 894 // TODO Avoid using a temporary memory buffer, write directly on disk | |
| 895 std::string content; | |
| 896 SaveToMemoryBuffer(content); | |
| 2140 | 897 SystemToolbox::WriteFile(content, path); |
| 790 | 898 } |
|
2512
4dcafa8d6633
SystemToolbox::GenerateUuid moved to Toolbox::GenerateUuid
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2499
diff
changeset
|
899 #endif |
| 790 | 900 |
| 901 | |
|
1805
f08978b1f45b
c-find scu for modality worklists
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1800
diff
changeset
|
902 ParsedDicomFile::ParsedDicomFile(bool createIdentifiers) : pimpl_(new PImpl) |
| 790 | 903 { |
| 794 | 904 pimpl_->file_.reset(new DcmFileFormat); |
|
1805
f08978b1f45b
c-find scu for modality worklists
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1800
diff
changeset
|
905 |
|
f08978b1f45b
c-find scu for modality worklists
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1800
diff
changeset
|
906 if (createIdentifiers) |
|
f08978b1f45b
c-find scu for modality worklists
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1800
diff
changeset
|
907 { |
|
1982
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
908 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
|
909 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
|
910 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
|
911 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
|
912 } |
| 790 | 913 } |
| 914 | |
| 791 | 915 |
|
2202
9b373b7d6713
Fix handling of encodings in C-FIND requests
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2142
diff
changeset
|
916 void ParsedDicomFile::CreateFromDicomMap(const DicomMap& source, |
|
9b373b7d6713
Fix handling of encodings in C-FIND requests
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2142
diff
changeset
|
917 Encoding defaultEncoding) |
|
1786
164d78911382
primitives to handle dicom worklists
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1781
diff
changeset
|
918 { |
|
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
|
919 try |
|
2202
9b373b7d6713
Fix handling of encodings in C-FIND requests
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2142
diff
changeset
|
920 { |
|
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
|
921 pimpl_->file_.reset(new DcmFileFormat); |
|
6e5bc5c6d1a4
Fix to allow creating DICOM instances with empty Specific Character Set (0008,0005)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2409
diff
changeset
|
922 |
|
6e5bc5c6d1a4
Fix to allow creating DICOM instances with empty Specific Character Set (0008,0005)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2409
diff
changeset
|
923 const DicomValue* tmp = source.TestAndGetValue(DICOM_TAG_SPECIFIC_CHARACTER_SET); |
|
6e5bc5c6d1a4
Fix to allow creating DICOM instances with empty Specific Character Set (0008,0005)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2409
diff
changeset
|
924 |
|
6e5bc5c6d1a4
Fix to allow creating DICOM instances with empty Specific Character Set (0008,0005)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2409
diff
changeset
|
925 if (tmp == NULL) |
|
2202
9b373b7d6713
Fix handling of encodings in C-FIND requests
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2142
diff
changeset
|
926 { |
|
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
|
927 SetEncoding(defaultEncoding); |
|
6e5bc5c6d1a4
Fix to allow creating DICOM instances with empty Specific Character Set (0008,0005)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2409
diff
changeset
|
928 } |
|
6e5bc5c6d1a4
Fix to allow creating DICOM instances with empty Specific Character Set (0008,0005)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2409
diff
changeset
|
929 else if (tmp->IsBinary()) |
|
6e5bc5c6d1a4
Fix to allow creating DICOM instances with empty Specific Character Set (0008,0005)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2409
diff
changeset
|
930 { |
|
6e5bc5c6d1a4
Fix to allow creating DICOM instances with empty Specific Character Set (0008,0005)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2409
diff
changeset
|
931 LOG(ERROR) << "Invalid binary string in the SpecificCharacterSet (0008,0005) tag"; |
|
2202
9b373b7d6713
Fix handling of encodings in C-FIND requests
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2142
diff
changeset
|
932 throw OrthancException(ErrorCode_ParameterOutOfRange); |
|
9b373b7d6713
Fix handling of encodings in C-FIND requests
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2142
diff
changeset
|
933 } |
|
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
|
934 else if (tmp->IsNull() || |
|
6e5bc5c6d1a4
Fix to allow creating DICOM instances with empty Specific Character Set (0008,0005)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2409
diff
changeset
|
935 tmp->GetContent().empty()) |
|
6e5bc5c6d1a4
Fix to allow creating DICOM instances with empty Specific Character Set (0008,0005)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2409
diff
changeset
|
936 { |
|
6e5bc5c6d1a4
Fix to allow creating DICOM instances with empty Specific Character Set (0008,0005)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2409
diff
changeset
|
937 SetEncoding(defaultEncoding); |
|
6e5bc5c6d1a4
Fix to allow creating DICOM instances with empty Specific Character Set (0008,0005)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2409
diff
changeset
|
938 } |
|
2202
9b373b7d6713
Fix handling of encodings in C-FIND requests
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2142
diff
changeset
|
939 else |
|
9b373b7d6713
Fix handling of encodings in C-FIND requests
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2142
diff
changeset
|
940 { |
|
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
|
941 Encoding encoding; |
|
6e5bc5c6d1a4
Fix to allow creating DICOM instances with empty Specific Character Set (0008,0005)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2409
diff
changeset
|
942 |
|
6e5bc5c6d1a4
Fix to allow creating DICOM instances with empty Specific Character Set (0008,0005)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2409
diff
changeset
|
943 if (GetDicomEncoding(encoding, tmp->GetContent().c_str())) |
|
6e5bc5c6d1a4
Fix to allow creating DICOM instances with empty Specific Character Set (0008,0005)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2409
diff
changeset
|
944 { |
|
6e5bc5c6d1a4
Fix to allow creating DICOM instances with empty Specific Character Set (0008,0005)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2409
diff
changeset
|
945 SetEncoding(encoding); |
|
6e5bc5c6d1a4
Fix to allow creating DICOM instances with empty Specific Character Set (0008,0005)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2409
diff
changeset
|
946 } |
|
6e5bc5c6d1a4
Fix to allow creating DICOM instances with empty Specific Character Set (0008,0005)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2409
diff
changeset
|
947 else |
|
6e5bc5c6d1a4
Fix to allow creating DICOM instances with empty Specific Character Set (0008,0005)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2409
diff
changeset
|
948 { |
|
6e5bc5c6d1a4
Fix to allow creating DICOM instances with empty Specific Character Set (0008,0005)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2409
diff
changeset
|
949 LOG(ERROR) << "Unsupported value for the SpecificCharacterSet (0008,0005) tag: \"" |
|
6e5bc5c6d1a4
Fix to allow creating DICOM instances with empty Specific Character Set (0008,0005)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2409
diff
changeset
|
950 << tmp->GetContent() << "\""; |
|
6e5bc5c6d1a4
Fix to allow creating DICOM instances with empty Specific Character Set (0008,0005)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2409
diff
changeset
|
951 throw OrthancException(ErrorCode_ParameterOutOfRange); |
|
6e5bc5c6d1a4
Fix to allow creating DICOM instances with empty Specific Character Set (0008,0005)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2409
diff
changeset
|
952 } |
|
6e5bc5c6d1a4
Fix to allow creating DICOM instances with empty Specific Character Set (0008,0005)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2409
diff
changeset
|
953 } |
|
6e5bc5c6d1a4
Fix to allow creating DICOM instances with empty Specific Character Set (0008,0005)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2409
diff
changeset
|
954 |
|
6e5bc5c6d1a4
Fix to allow creating DICOM instances with empty Specific Character Set (0008,0005)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2409
diff
changeset
|
955 for (DicomMap::Map::const_iterator |
|
6e5bc5c6d1a4
Fix to allow creating DICOM instances with empty Specific Character Set (0008,0005)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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diff
changeset
|
956 it = source.map_.begin(); it != source.map_.end(); ++it) |
|
6e5bc5c6d1a4
Fix to allow creating DICOM instances with empty Specific Character Set (0008,0005)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2409
diff
changeset
|
957 { |
|
6e5bc5c6d1a4
Fix to allow creating DICOM instances with empty Specific Character Set (0008,0005)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2409
diff
changeset
|
958 if (it->first != DICOM_TAG_SPECIFIC_CHARACTER_SET && |
|
6e5bc5c6d1a4
Fix to allow creating DICOM instances with empty Specific Character Set (0008,0005)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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diff
changeset
|
959 !it->second->IsNull()) |
|
6e5bc5c6d1a4
Fix to allow creating DICOM instances with empty Specific Character Set (0008,0005)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2409
diff
changeset
|
960 { |
|
6e5bc5c6d1a4
Fix to allow creating DICOM instances with empty Specific Character Set (0008,0005)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2409
diff
changeset
|
961 ReplacePlainString(it->first, it->second->GetContent()); |
|
6e5bc5c6d1a4
Fix to allow creating DICOM instances with empty Specific Character Set (0008,0005)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2409
diff
changeset
|
962 } |
|
2202
9b373b7d6713
Fix handling of encodings in C-FIND requests
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2142
diff
changeset
|
963 } |
|
9b373b7d6713
Fix handling of encodings in C-FIND requests
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2142
diff
changeset
|
964 } |
|
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
|
965 catch (OrthancException&) |
|
2202
9b373b7d6713
Fix handling of encodings in C-FIND requests
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2142
diff
changeset
|
966 { |
|
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
|
967 // Manually delete the PImpl to avoid a memory leak due to |
|
6e5bc5c6d1a4
Fix to allow creating DICOM instances with empty Specific Character Set (0008,0005)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2409
diff
changeset
|
968 // throwing the exception in the constructor |
|
6e5bc5c6d1a4
Fix to allow creating DICOM instances with empty Specific Character Set (0008,0005)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2409
diff
changeset
|
969 delete pimpl_; |
|
6e5bc5c6d1a4
Fix to allow creating DICOM instances with empty Specific Character Set (0008,0005)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2409
diff
changeset
|
970 pimpl_ = NULL; |
|
6e5bc5c6d1a4
Fix to allow creating DICOM instances with empty Specific Character Set (0008,0005)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2409
diff
changeset
|
971 throw; |
|
2202
9b373b7d6713
Fix handling of encodings in C-FIND requests
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2142
diff
changeset
|
972 } |
|
9b373b7d6713
Fix handling of encodings in C-FIND requests
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2142
diff
changeset
|
973 } |
|
9b373b7d6713
Fix handling of encodings in C-FIND requests
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2142
diff
changeset
|
974 |
|
1787
1b1d5470233f
refactoring of DicomFindAnswers
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1786
diff
changeset
|
975 |
|
2202
9b373b7d6713
Fix handling of encodings in C-FIND requests
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2142
diff
changeset
|
976 ParsedDicomFile::ParsedDicomFile(const DicomMap& map, |
|
9b373b7d6713
Fix handling of encodings in C-FIND requests
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2142
diff
changeset
|
977 Encoding defaultEncoding) : |
|
9b373b7d6713
Fix handling of encodings in C-FIND requests
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2142
diff
changeset
|
978 pimpl_(new PImpl) |
|
9b373b7d6713
Fix handling of encodings in C-FIND requests
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2142
diff
changeset
|
979 { |
|
9b373b7d6713
Fix handling of encodings in C-FIND requests
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2142
diff
changeset
|
980 CreateFromDicomMap(map, defaultEncoding); |
|
9b373b7d6713
Fix handling of encodings in C-FIND requests
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2142
diff
changeset
|
981 } |
|
9b373b7d6713
Fix handling of encodings in C-FIND requests
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2142
diff
changeset
|
982 |
|
9b373b7d6713
Fix handling of encodings in C-FIND requests
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2142
diff
changeset
|
983 |
|
9b373b7d6713
Fix handling of encodings in C-FIND requests
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2142
diff
changeset
|
984 ParsedDicomFile::ParsedDicomFile(const DicomMap& map) : |
|
9b373b7d6713
Fix handling of encodings in C-FIND requests
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2142
diff
changeset
|
985 pimpl_(new PImpl) |
|
9b373b7d6713
Fix handling of encodings in C-FIND requests
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2142
diff
changeset
|
986 { |
|
2381
b8969010b534
uncoupling DCMTK primitives from Orthanc::Configuration
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2380
diff
changeset
|
987 CreateFromDicomMap(map, GetDefaultDicomEncoding()); |
|
1786
164d78911382
primitives to handle dicom worklists
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1781
diff
changeset
|
988 } |
|
164d78911382
primitives to handle dicom worklists
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1781
diff
changeset
|
989 |
|
164d78911382
primitives to handle dicom worklists
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1781
diff
changeset
|
990 |
|
1800
30e97a1f4093
callback for handling worklists with plugins
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1788
diff
changeset
|
991 ParsedDicomFile::ParsedDicomFile(const void* content, |
|
30e97a1f4093
callback for handling worklists with plugins
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1788
diff
changeset
|
992 size_t size) : pimpl_(new PImpl) |
| 791 | 993 { |
|
1935
e251606c1433
FromDcmtkBridge::LoadFromMemoryBuffer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1934
diff
changeset
|
994 pimpl_->file_.reset(FromDcmtkBridge::LoadFromMemoryBuffer(content, size)); |
| 791 | 995 } |
| 996 | |
| 794 | 997 ParsedDicomFile::ParsedDicomFile(const std::string& content) : pimpl_(new PImpl) |
| 791 | 998 { |
| 999 if (content.size() == 0) | |
| 1000 { | |
|
1935
e251606c1433
FromDcmtkBridge::LoadFromMemoryBuffer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1934
diff
changeset
|
1001 pimpl_->file_.reset(FromDcmtkBridge::LoadFromMemoryBuffer(NULL, 0)); |
| 791 | 1002 } |
| 1003 else | |
| 1004 { | |
|
1935
e251606c1433
FromDcmtkBridge::LoadFromMemoryBuffer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1934
diff
changeset
|
1005 pimpl_->file_.reset(FromDcmtkBridge::LoadFromMemoryBuffer(&content[0], content.size())); |
| 791 | 1006 } |
| 1007 } | |
| 792 | 1008 |
| 1009 | |
|
2521
6db878376018
support anonymization of CurrentRequestedProcedureEvidenceSequence
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2512
diff
changeset
|
1010 ParsedDicomFile::ParsedDicomFile(ParsedDicomFile& other, |
|
6db878376018
support anonymization of CurrentRequestedProcedureEvidenceSequence
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parents:
2512
diff
changeset
|
1011 bool keepSopInstanceUid) : |
| 794 | 1012 pimpl_(new PImpl) |
| 792 | 1013 { |
| 794 | 1014 pimpl_->file_.reset(dynamic_cast<DcmFileFormat*>(other.pimpl_->file_->clone())); |
|
956
2fd5a163776d
primitives for proper encoding handling
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
874
diff
changeset
|
1015 |
|
2521
6db878376018
support anonymization of CurrentRequestedProcedureEvidenceSequence
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2512
diff
changeset
|
1016 if (!keepSopInstanceUid) |
|
6db878376018
support anonymization of CurrentRequestedProcedureEvidenceSequence
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2512
diff
changeset
|
1017 { |
|
6db878376018
support anonymization of CurrentRequestedProcedureEvidenceSequence
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2512
diff
changeset
|
1018 // Create a new instance-level identifier |
|
6db878376018
support anonymization of CurrentRequestedProcedureEvidenceSequence
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2512
diff
changeset
|
1019 ReplacePlainString(DICOM_TAG_SOP_INSTANCE_UID, FromDcmtkBridge::GenerateUniqueIdentifier(ResourceType_Instance)); |
|
6db878376018
support anonymization of CurrentRequestedProcedureEvidenceSequence
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2512
diff
changeset
|
1020 } |
| 792 | 1021 } |
| 1022 | |
| 1023 | |
|
1788
6a2d507ef064
getting rid of opaque data structures
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1787
diff
changeset
|
1024 ParsedDicomFile::ParsedDicomFile(DcmDataset& dicom) : pimpl_(new PImpl) |
|
6a2d507ef064
getting rid of opaque data structures
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1787
diff
changeset
|
1025 { |
|
6a2d507ef064
getting rid of opaque data structures
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1787
diff
changeset
|
1026 pimpl_->file_.reset(new DcmFileFormat(&dicom)); |
|
6a2d507ef064
getting rid of opaque data structures
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1787
diff
changeset
|
1027 } |
|
6a2d507ef064
getting rid of opaque data structures
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1787
diff
changeset
|
1028 |
|
6a2d507ef064
getting rid of opaque data structures
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1787
diff
changeset
|
1029 |
|
6a2d507ef064
getting rid of opaque data structures
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1787
diff
changeset
|
1030 ParsedDicomFile::ParsedDicomFile(DcmFileFormat& dicom) : pimpl_(new PImpl) |
|
6a2d507ef064
getting rid of opaque data structures
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1787
diff
changeset
|
1031 { |
|
6a2d507ef064
getting rid of opaque data structures
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1787
diff
changeset
|
1032 pimpl_->file_.reset(new DcmFileFormat(dicom)); |
|
6a2d507ef064
getting rid of opaque data structures
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1787
diff
changeset
|
1033 } |
|
6a2d507ef064
getting rid of opaque data structures
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1787
diff
changeset
|
1034 |
|
6a2d507ef064
getting rid of opaque data structures
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1787
diff
changeset
|
1035 |
| 792 | 1036 ParsedDicomFile::~ParsedDicomFile() |
| 1037 { | |
| 794 | 1038 delete pimpl_; |
| 792 | 1039 } |
| 1040 | |
| 793 | 1041 |
|
1824
b530c3dfe2a6
refactoring image decoding
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1818
diff
changeset
|
1042 DcmFileFormat& ParsedDicomFile::GetDcmtkObject() const |
| 793 | 1043 { |
|
1788
6a2d507ef064
getting rid of opaque data structures
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1787
diff
changeset
|
1044 return *pimpl_->file_.get(); |
| 793 | 1045 } |
| 1046 | |
| 1047 | |
|
2521
6db878376018
support anonymization of CurrentRequestedProcedureEvidenceSequence
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2512
diff
changeset
|
1048 ParsedDicomFile* ParsedDicomFile::Clone(bool keepSopInstanceUid) |
| 793 | 1049 { |
|
2521
6db878376018
support anonymization of CurrentRequestedProcedureEvidenceSequence
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2512
diff
changeset
|
1050 return new ParsedDicomFile(*this, keepSopInstanceUid); |
| 793 | 1051 } |
|
800
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1052 |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1053 |
|
1982
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1054 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
|
1055 { |
|
1641
4e56b5a206b7
Support of binary tags encoded using data URI scheme
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1616
diff
changeset
|
1056 std::string mime, content; |
|
1981
4b545a8b1f95
return code in Toolbox::DecodeDataUriScheme
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1980
diff
changeset
|
1057 if (!Toolbox::DecodeDataUriScheme(mime, content, dataUriScheme)) |
|
4b545a8b1f95
return code in Toolbox::DecodeDataUriScheme
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1980
diff
changeset
|
1058 { |
|
1982
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1059 return false; |
|
1981
4b545a8b1f95
return code in Toolbox::DecodeDataUriScheme
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1980
diff
changeset
|
1060 } |
|
4b545a8b1f95
return code in Toolbox::DecodeDataUriScheme
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1980
diff
changeset
|
1061 |
| 1562 | 1062 Toolbox::ToLowerCase(mime); |
|
1555
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1063 |
|
2380
96b3ec054b69
reorganization in macros
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2310
diff
changeset
|
1064 if (mime == "image/png") |
| 1562 | 1065 { |
|
2380
96b3ec054b69
reorganization in macros
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2310
diff
changeset
|
1066 #if ORTHANC_ENABLE_PNG == 1 |
| 1562 | 1067 EmbedImage(mime, content); |
|
2380
96b3ec054b69
reorganization in macros
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2310
diff
changeset
|
1068 #else |
|
96b3ec054b69
reorganization in macros
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2310
diff
changeset
|
1069 LOG(ERROR) << "Orthanc was compiled without support of PNG"; |
|
96b3ec054b69
reorganization in macros
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2310
diff
changeset
|
1070 throw OrthancException(ErrorCode_NotImplemented); |
|
96b3ec054b69
reorganization in macros
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2310
diff
changeset
|
1071 #endif |
|
96b3ec054b69
reorganization in macros
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2310
diff
changeset
|
1072 } |
|
96b3ec054b69
reorganization in macros
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2310
diff
changeset
|
1073 else if (mime == "image/jpeg") |
|
96b3ec054b69
reorganization in macros
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2310
diff
changeset
|
1074 { |
|
96b3ec054b69
reorganization in macros
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2310
diff
changeset
|
1075 #if ORTHANC_ENABLE_JPEG == 1 |
|
96b3ec054b69
reorganization in macros
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2310
diff
changeset
|
1076 EmbedImage(mime, content); |
|
96b3ec054b69
reorganization in macros
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2310
diff
changeset
|
1077 #else |
|
96b3ec054b69
reorganization in macros
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2310
diff
changeset
|
1078 LOG(ERROR) << "Orthanc was compiled without support of JPEG"; |
|
96b3ec054b69
reorganization in macros
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2310
diff
changeset
|
1079 throw OrthancException(ErrorCode_NotImplemented); |
|
96b3ec054b69
reorganization in macros
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2310
diff
changeset
|
1080 #endif |
| 1562 | 1081 } |
| 1082 else if (mime == "application/pdf") | |
| 1083 { | |
| 1084 EmbedPdf(content); | |
| 1085 } | |
| 1086 else | |
| 1087 { | |
|
1693
558b25228a23
creation of tag hierarchy from json
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1689
diff
changeset
|
1088 LOG(ERROR) << "Unsupported MIME type for the content of a new DICOM file: " << mime; |
| 1562 | 1089 throw OrthancException(ErrorCode_NotImplemented); |
| 1090 } | |
|
1982
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1091 |
|
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1092 return true; |
|
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1093 } |
|
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1094 |
|
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1095 |
|
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1096 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
|
1097 { |
|
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1098 if (!EmbedContentInternal(dataUriScheme)) |
|
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1099 { |
|
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1100 throw OrthancException(ErrorCode_BadFileFormat); |
|
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1101 } |
|
1555
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1102 } |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1103 |
|
800
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1104 |
|
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
|
1105 #if (ORTHANC_ENABLE_JPEG == 1 && \ |
|
2380
96b3ec054b69
reorganization in macros
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2310
diff
changeset
|
1106 ORTHANC_ENABLE_PNG == 1) |
|
1555
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1107 void ParsedDicomFile::EmbedImage(const std::string& mime, |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1108 const std::string& content) |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1109 { |
|
800
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1110 if (mime == "image/png") |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1111 { |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1112 PngReader reader; |
|
1555
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1113 reader.ReadFromMemory(content); |
|
800
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1114 EmbedImage(reader); |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1115 } |
|
1781
5ad4e4d92ecb
AcceptMediaDispatcher bootstrap
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1737
diff
changeset
|
1116 else if (mime == "image/jpeg") |
|
5ad4e4d92ecb
AcceptMediaDispatcher bootstrap
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1737
diff
changeset
|
1117 { |
|
5ad4e4d92ecb
AcceptMediaDispatcher bootstrap
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1737
diff
changeset
|
1118 JpegReader reader; |
|
5ad4e4d92ecb
AcceptMediaDispatcher bootstrap
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1737
diff
changeset
|
1119 reader.ReadFromMemory(content); |
|
5ad4e4d92ecb
AcceptMediaDispatcher bootstrap
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1737
diff
changeset
|
1120 EmbedImage(reader); |
|
5ad4e4d92ecb
AcceptMediaDispatcher bootstrap
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1737
diff
changeset
|
1121 } |
|
800
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1122 else |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1123 { |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1124 throw OrthancException(ErrorCode_NotImplemented); |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1125 } |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1126 } |
|
2380
96b3ec054b69
reorganization in macros
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2310
diff
changeset
|
1127 #endif |
|
800
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1128 |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1129 |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1130 void ParsedDicomFile::EmbedImage(const ImageAccessor& accessor) |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1131 { |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1132 if (accessor.GetFormat() != PixelFormat_Grayscale8 && |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1133 accessor.GetFormat() != PixelFormat_Grayscale16 && |
|
1941
d7b176f7dd1b
test dicom patterns
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1935
diff
changeset
|
1134 accessor.GetFormat() != PixelFormat_SignedGrayscale16 && |
|
800
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1135 accessor.GetFormat() != PixelFormat_RGB24 && |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1136 accessor.GetFormat() != PixelFormat_RGBA32) |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1137 { |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1138 throw OrthancException(ErrorCode_NotImplemented); |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1139 } |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1140 |
|
1982
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1141 InvalidateCache(); |
|
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1142 |
|
800
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1143 if (accessor.GetFormat() == PixelFormat_RGBA32) |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1144 { |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1145 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
|
1146 } |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1147 |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1148 // 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
|
1149 |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1150 Remove(DICOM_TAG_PIXEL_DATA); |
|
1982
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1151 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
|
1152 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
|
1153 ReplacePlainString(DICOM_TAG_SAMPLES_PER_PIXEL, "1"); |
|
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1154 ReplacePlainString(DICOM_TAG_NUMBER_OF_FRAMES, "1"); |
|
1941
d7b176f7dd1b
test dicom patterns
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1935
diff
changeset
|
1155 |
|
d7b176f7dd1b
test dicom patterns
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1935
diff
changeset
|
1156 if (accessor.GetFormat() == PixelFormat_SignedGrayscale16) |
|
d7b176f7dd1b
test dicom patterns
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1935
diff
changeset
|
1157 { |
|
1982
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1158 ReplacePlainString(DICOM_TAG_PIXEL_REPRESENTATION, "1"); |
|
1941
d7b176f7dd1b
test dicom patterns
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1935
diff
changeset
|
1159 } |
|
d7b176f7dd1b
test dicom patterns
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1935
diff
changeset
|
1160 else |
|
d7b176f7dd1b
test dicom patterns
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1935
diff
changeset
|
1161 { |
|
1982
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1162 ReplacePlainString(DICOM_TAG_PIXEL_REPRESENTATION, "0"); // Unsigned pixels |
|
1941
d7b176f7dd1b
test dicom patterns
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1935
diff
changeset
|
1163 } |
|
d7b176f7dd1b
test dicom patterns
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1935
diff
changeset
|
1164 |
|
1982
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1165 ReplacePlainString(DICOM_TAG_PLANAR_CONFIGURATION, "0"); // Color channels are interleaved |
|
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1166 ReplacePlainString(DICOM_TAG_PHOTOMETRIC_INTERPRETATION, "MONOCHROME2"); |
|
800
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1167 |
|
1941
d7b176f7dd1b
test dicom patterns
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1935
diff
changeset
|
1168 unsigned int bytesPerPixel = 0; |
|
800
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1169 |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1170 switch (accessor.GetFormat()) |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1171 { |
|
1941
d7b176f7dd1b
test dicom patterns
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1935
diff
changeset
|
1172 case PixelFormat_Grayscale8: |
|
1982
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1173 ReplacePlainString(DICOM_TAG_BITS_ALLOCATED, "8"); |
|
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1174 ReplacePlainString(DICOM_TAG_BITS_STORED, "8"); |
|
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1175 ReplacePlainString(DICOM_TAG_HIGH_BIT, "7"); |
|
1941
d7b176f7dd1b
test dicom patterns
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1935
diff
changeset
|
1176 bytesPerPixel = 1; |
|
d7b176f7dd1b
test dicom patterns
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1935
diff
changeset
|
1177 break; |
|
d7b176f7dd1b
test dicom patterns
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1935
diff
changeset
|
1178 |
|
800
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1179 case PixelFormat_RGB24: |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1180 case PixelFormat_RGBA32: |
|
1982
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1181 ReplacePlainString(DICOM_TAG_PHOTOMETRIC_INTERPRETATION, "RGB"); |
|
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1182 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
|
1183 ReplacePlainString(DICOM_TAG_BITS_ALLOCATED, "8"); |
|
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1184 ReplacePlainString(DICOM_TAG_BITS_STORED, "8"); |
|
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1185 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
|
1186 bytesPerPixel = 3; |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1187 break; |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1188 |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1189 case PixelFormat_Grayscale16: |
|
1941
d7b176f7dd1b
test dicom patterns
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1935
diff
changeset
|
1190 case PixelFormat_SignedGrayscale16: |
|
1982
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1191 ReplacePlainString(DICOM_TAG_BITS_ALLOCATED, "16"); |
|
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1192 ReplacePlainString(DICOM_TAG_BITS_STORED, "16"); |
|
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1193 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
|
1194 bytesPerPixel = 2; |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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diff
changeset
|
1195 break; |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1196 |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1197 default: |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1198 throw OrthancException(ErrorCode_NotImplemented); |
|
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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diff
changeset
|
1199 } |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1200 |
|
1941
d7b176f7dd1b
test dicom patterns
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1935
diff
changeset
|
1201 assert(bytesPerPixel != 0); |
|
d7b176f7dd1b
test dicom patterns
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1935
diff
changeset
|
1202 |
|
800
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1203 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
|
1204 DICOM_TAG_PIXEL_DATA.GetElement()); |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1205 |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1206 std::auto_ptr<DcmPixelData> pixels(new DcmPixelData(key)); |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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diff
changeset
|
1207 |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1208 unsigned int pitch = accessor.GetWidth() * bytesPerPixel; |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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diff
changeset
|
1209 Uint8* target = NULL; |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1210 pixels->createUint8Array(accessor.GetHeight() * pitch, target); |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1211 |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1212 for (unsigned int y = 0; y < accessor.GetHeight(); y++) |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1213 { |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1214 switch (accessor.GetFormat()) |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1215 { |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1216 case PixelFormat_RGB24: |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1217 case PixelFormat_Grayscale8: |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1218 case PixelFormat_Grayscale16: |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1219 case PixelFormat_SignedGrayscale16: |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1220 { |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1221 memcpy(target, reinterpret_cast<const Uint8*>(accessor.GetConstRow(y)), pitch); |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1222 target += pitch; |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1223 break; |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1224 } |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1225 |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1226 case PixelFormat_RGBA32: |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1227 { |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1228 // The alpha channel is not supported by the DICOM standard |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1229 const Uint8* source = reinterpret_cast<const Uint8*>(accessor.GetConstRow(y)); |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1230 for (unsigned int x = 0; x < accessor.GetWidth(); x++, target += 3, source += 4) |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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diff
changeset
|
1231 { |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1232 target[0] = source[0]; |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1233 target[1] = source[1]; |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1234 target[2] = source[2]; |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1235 } |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1236 |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1237 break; |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1238 } |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1239 |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1240 default: |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1241 throw OrthancException(ErrorCode_NotImplemented); |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1242 } |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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diff
changeset
|
1243 } |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1244 |
|
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generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1245 if (!pimpl_->file_->getDataset()->insert(pixels.release(), false, false).good()) |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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diff
changeset
|
1246 { |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1247 throw OrthancException(ErrorCode_InternalError); |
|
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generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1248 } |
|
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1249 } |
|
874
87791ebc1f50
download matlab images
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
853
diff
changeset
|
1250 |
|
87791ebc1f50
download matlab images
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
853
diff
changeset
|
1251 |
|
956
2fd5a163776d
primitives for proper encoding handling
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
874
diff
changeset
|
1252 Encoding ParsedDicomFile::GetEncoding() const |
|
2fd5a163776d
primitives for proper encoding handling
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
874
diff
changeset
|
1253 { |
|
1928
84c7eaeb5244
Configuration::GetDefaultEncoding
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1924
diff
changeset
|
1254 return FromDcmtkBridge::DetectEncoding(*pimpl_->file_->getDataset(), |
|
2381
b8969010b534
uncoupling DCMTK primitives from Orthanc::Configuration
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2380
diff
changeset
|
1255 GetDefaultDicomEncoding()); |
|
956
2fd5a163776d
primitives for proper encoding handling
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
874
diff
changeset
|
1256 } |
|
1090
e494ceb8d763
support more encodings
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1018
diff
changeset
|
1257 |
|
e494ceb8d763
support more encodings
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1018
diff
changeset
|
1258 |
|
e494ceb8d763
support more encodings
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1018
diff
changeset
|
1259 void ParsedDicomFile::SetEncoding(Encoding encoding) |
|
e494ceb8d763
support more encodings
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1018
diff
changeset
|
1260 { |
|
1558
124de28b32ed
fix encodings of newly created dicom files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1556
diff
changeset
|
1261 if (encoding == Encoding_Windows1251) |
|
1090
e494ceb8d763
support more encodings
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1018
diff
changeset
|
1262 { |
|
1558
124de28b32ed
fix encodings of newly created dicom files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1556
diff
changeset
|
1263 // 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
|
1264 // 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
|
1265 return; |
|
1090
e494ceb8d763
support more encodings
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1018
diff
changeset
|
1266 } |
|
e494ceb8d763
support more encodings
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1018
diff
changeset
|
1267 |
|
1565
4b23310eb7e8
add tags per instances in a series
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1564
diff
changeset
|
1268 std::string s = GetDicomSpecificCharacterSet(encoding); |
|
1982
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1269 ReplacePlainString(DICOM_TAG_SPECIFIC_CHARACTER_SET, s); |
|
1090
e494ceb8d763
support more encodings
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1018
diff
changeset
|
1270 } |
|
e494ceb8d763
support more encodings
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1018
diff
changeset
|
1271 |
|
2128
9329ba17a069
Possibility to DELETE "dicom-as-json" attachments to reconstruct them
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2126
diff
changeset
|
1272 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
|
1273 DicomToJsonFormat format, |
|
9329ba17a069
Possibility to DELETE "dicom-as-json" attachments to reconstruct them
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2126
diff
changeset
|
1274 DicomToJsonFlags flags, |
|
9329ba17a069
Possibility to DELETE "dicom-as-json" attachments to reconstruct them
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2126
diff
changeset
|
1275 unsigned int maxStringLength) |
|
1160
80671157d051
generalization of create-dicom
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1113
diff
changeset
|
1276 { |
|
2409
e4045b3c9772
ignore-length argument if retrieving DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2394
diff
changeset
|
1277 std::set<DicomTag> ignoreTagLength; |
| 2126 | 1278 FromDcmtkBridge::ExtractDicomAsJson(target, *pimpl_->file_->getDataset(), |
|
2409
e4045b3c9772
ignore-length argument if retrieving DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2394
diff
changeset
|
1279 format, flags, maxStringLength, |
|
e4045b3c9772
ignore-length argument if retrieving DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2394
diff
changeset
|
1280 GetDefaultDicomEncoding(), ignoreTagLength); |
|
e4045b3c9772
ignore-length argument if retrieving DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2394
diff
changeset
|
1281 } |
|
e4045b3c9772
ignore-length argument if retrieving DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2394
diff
changeset
|
1282 |
|
e4045b3c9772
ignore-length argument if retrieving DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2394
diff
changeset
|
1283 |
|
e4045b3c9772
ignore-length argument if retrieving DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2394
diff
changeset
|
1284 void ParsedDicomFile::DatasetToJson(Json::Value& target, |
|
e4045b3c9772
ignore-length argument if retrieving DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2394
diff
changeset
|
1285 DicomToJsonFormat format, |
|
e4045b3c9772
ignore-length argument if retrieving DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2394
diff
changeset
|
1286 DicomToJsonFlags flags, |
|
e4045b3c9772
ignore-length argument if retrieving DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2394
diff
changeset
|
1287 unsigned int maxStringLength, |
|
e4045b3c9772
ignore-length argument if retrieving DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2394
diff
changeset
|
1288 const std::set<DicomTag>& ignoreTagLength) |
|
e4045b3c9772
ignore-length argument if retrieving DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2394
diff
changeset
|
1289 { |
|
e4045b3c9772
ignore-length argument if retrieving DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2394
diff
changeset
|
1290 FromDcmtkBridge::ExtractDicomAsJson(target, *pimpl_->file_->getDataset(), |
|
e4045b3c9772
ignore-length argument if retrieving DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2394
diff
changeset
|
1291 format, flags, maxStringLength, |
|
e4045b3c9772
ignore-length argument if retrieving DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2394
diff
changeset
|
1292 GetDefaultDicomEncoding(), ignoreTagLength); |
|
e4045b3c9772
ignore-length argument if retrieving DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2394
diff
changeset
|
1293 } |
|
e4045b3c9772
ignore-length argument if retrieving DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2394
diff
changeset
|
1294 |
|
e4045b3c9772
ignore-length argument if retrieving DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2394
diff
changeset
|
1295 |
|
e4045b3c9772
ignore-length argument if retrieving DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2394
diff
changeset
|
1296 void ParsedDicomFile::DatasetToJson(Json::Value& target, |
|
e4045b3c9772
ignore-length argument if retrieving DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2394
diff
changeset
|
1297 const std::set<DicomTag>& ignoreTagLength) |
|
e4045b3c9772
ignore-length argument if retrieving DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2394
diff
changeset
|
1298 { |
|
e4045b3c9772
ignore-length argument if retrieving DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2394
diff
changeset
|
1299 FromDcmtkBridge::ExtractDicomAsJson(target, *pimpl_->file_->getDataset(), ignoreTagLength); |
|
1160
80671157d051
generalization of create-dicom
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1113
diff
changeset
|
1300 } |
|
1555
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1301 |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1302 |
|
2128
9329ba17a069
Possibility to DELETE "dicom-as-json" attachments to reconstruct them
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2126
diff
changeset
|
1303 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
|
1304 { |
|
2409
e4045b3c9772
ignore-length argument if retrieving DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2394
diff
changeset
|
1305 const std::set<DicomTag> ignoreTagLength; |
|
e4045b3c9772
ignore-length argument if retrieving DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2394
diff
changeset
|
1306 FromDcmtkBridge::ExtractDicomAsJson(target, *pimpl_->file_->getDataset(), ignoreTagLength); |
|
2128
9329ba17a069
Possibility to DELETE "dicom-as-json" attachments to reconstruct them
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2126
diff
changeset
|
1307 } |
|
9329ba17a069
Possibility to DELETE "dicom-as-json" attachments to reconstruct them
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2126
diff
changeset
|
1308 |
|
9329ba17a069
Possibility to DELETE "dicom-as-json" attachments to reconstruct them
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2126
diff
changeset
|
1309 |
|
1831
3ae2ff249675
"/instances/.../header" to get the meta information (header) of the DICOM instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1827
diff
changeset
|
1310 void ParsedDicomFile::HeaderToJson(Json::Value& target, |
|
3ae2ff249675
"/instances/.../header" to get the meta information (header) of the DICOM instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1827
diff
changeset
|
1311 DicomToJsonFormat format) |
|
3ae2ff249675
"/instances/.../header" to get the meta information (header) of the DICOM instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1827
diff
changeset
|
1312 { |
| 2126 | 1313 FromDcmtkBridge::ExtractHeaderAsJson(target, *pimpl_->file_->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
|
1314 } |
|
3ae2ff249675
"/instances/.../header" to get the meta information (header) of the DICOM instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1827
diff
changeset
|
1315 |
|
3ae2ff249675
"/instances/.../header" to get the meta information (header) of the DICOM instance
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1827
diff
changeset
|
1316 |
|
1555
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1317 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
|
1318 { |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1319 DcmTag key(tag.GetGroup(), tag.GetElement()); |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1320 return pimpl_->file_->getDataset()->tagExists(key); |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1321 } |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1322 |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1323 |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1324 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
|
1325 { |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1326 if (pdf.size() < 5 || // (*) |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1327 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
|
1328 { |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1329 LOG(ERROR) << "Not a PDF file"; |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1330 throw OrthancException(ErrorCode_BadFileFormat); |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1331 } |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1332 |
|
1982
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1333 InvalidateCache(); |
|
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1334 |
|
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1335 ReplacePlainString(DICOM_TAG_SOP_CLASS_UID, UID_EncapsulatedPDFStorage); |
|
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1336 ReplacePlainString(FromDcmtkBridge::Convert(DCM_Modality), "OT"); |
|
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1337 ReplacePlainString(FromDcmtkBridge::Convert(DCM_ConversionType), "WSD"); |
|
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1338 ReplacePlainString(FromDcmtkBridge::Convert(DCM_MIMETypeOfEncapsulatedDocument), "application/pdf"); |
|
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1339 //ReplacePlainString(FromDcmtkBridge::Convert(DCM_SeriesNumber), "1"); |
|
1555
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1340 |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1341 std::auto_ptr<DcmPolymorphOBOW> element(new DcmPolymorphOBOW(DCM_EncapsulatedDocument)); |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1342 |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1343 size_t s = pdf.size(); |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1344 if (s & 1) |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1345 { |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1346 // 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
|
1347 s += 1; |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1348 } |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1349 |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1350 Uint8* bytes = NULL; |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1351 OFCondition result = element->createUint8Array(s, bytes); |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1352 if (!result.good() || bytes == NULL) |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1353 { |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1354 throw OrthancException(ErrorCode_NotEnoughMemory); |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1355 } |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1356 |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1357 // 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
|
1358 bytes[s - 1] = 0; |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1359 |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1360 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
|
1361 |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1362 DcmPolymorphOBOW* obj = element.release(); |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1363 result = pimpl_->file_->getDataset()->insert(obj); |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1364 |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1365 if (!result.good()) |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1366 { |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1367 delete obj; |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1368 throw OrthancException(ErrorCode_NotEnoughMemory); |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1369 } |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1370 } |
|
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1371 |
|
1556
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1372 |
|
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1373 bool ParsedDicomFile::ExtractPdf(std::string& pdf) |
|
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1374 { |
|
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1375 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
|
1376 |
|
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1377 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
|
1378 !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
|
1379 sop != UID_EncapsulatedPDFStorage || |
|
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1380 mime != "application/pdf") |
|
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1381 { |
|
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1382 return false; |
|
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1383 } |
|
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1384 |
|
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1385 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
|
1386 { |
|
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1387 return false; |
|
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1388 } |
|
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1389 |
|
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1390 // 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
|
1391 // 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
|
1392 // 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
|
1393 // 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
|
1394 // 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
|
1395 if (pdf.size() > 0) |
|
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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diff
changeset
|
1396 { |
|
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1397 char last = *pdf.rbegin(); |
|
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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diff
changeset
|
1398 |
|
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1399 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
|
1400 { |
|
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1401 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
|
1402 } |
|
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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diff
changeset
|
1403 } |
|
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
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parents:
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diff
changeset
|
1404 |
|
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1405 return true; |
|
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1406 } |
|
1662
09be34b2f30e
ParsedDicomFile::Convert()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1655
diff
changeset
|
1407 |
|
09be34b2f30e
ParsedDicomFile::Convert()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1655
diff
changeset
|
1408 |
|
1818
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1409 ParsedDicomFile* ParsedDicomFile::CreateFromJson(const Json::Value& json, |
|
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1410 DicomFromJsonFlags flags) |
|
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1411 { |
|
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
|
1412 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
|
1413 const bool decodeDataUriScheme = (flags & DicomFromJsonFlags_DecodeDataUriScheme) ? true : false; |
|
1818
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1414 |
|
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1415 std::auto_ptr<ParsedDicomFile> result(new ParsedDicomFile(generateIdentifiers)); |
|
2381
b8969010b534
uncoupling DCMTK primitives from Orthanc::Configuration
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2380
diff
changeset
|
1416 result->SetEncoding(FromDcmtkBridge::ExtractEncoding(json, GetDefaultDicomEncoding())); |
|
1818
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1417 |
|
1934
72a2fd7fed8b
FromDcmtkBridge::FromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1929
diff
changeset
|
1418 const Json::Value::Members tags = json.getMemberNames(); |
|
72a2fd7fed8b
FromDcmtkBridge::FromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1929
diff
changeset
|
1419 |
|
1818
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1420 for (size_t i = 0; i < tags.size(); i++) |
|
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1421 { |
|
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1422 DicomTag tag = FromDcmtkBridge::ParseTag(tags[i]); |
|
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1423 const Json::Value& value = json[tags[i]]; |
|
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1424 |
|
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1425 if (tag == DICOM_TAG_PIXEL_DATA || |
|
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1426 tag == DICOM_TAG_ENCAPSULATED_DOCUMENT) |
|
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1427 { |
|
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1428 if (value.type() != Json::stringValue) |
|
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1429 { |
|
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1430 throw OrthancException(ErrorCode_BadRequest); |
|
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1431 } |
|
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1432 else |
|
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1433 { |
|
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1434 result->EmbedContent(value.asString()); |
|
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1435 } |
|
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1436 } |
|
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1437 else if (tag != DICOM_TAG_SPECIFIC_CHARACTER_SET) |
|
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1438 { |
|
1982
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1439 result->Replace(tag, value, decodeDataUriScheme, DicomReplaceMode_InsertIfAbsent); |
|
1818
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1440 } |
|
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1441 } |
|
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1442 |
|
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1443 return result.release(); |
|
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1444 } |
|
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
|
1445 |
|
6c73df12ca51
New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1913
diff
changeset
|
1446 |
|
6c73df12ca51
New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1913
diff
changeset
|
1447 void ParsedDicomFile::GetRawFrame(std::string& target, |
|
6c73df12ca51
New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1913
diff
changeset
|
1448 std::string& mime, |
|
6c73df12ca51
New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1913
diff
changeset
|
1449 unsigned int 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
|
1450 { |
|
6c73df12ca51
New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1913
diff
changeset
|
1451 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
|
1452 { |
| 1956 | 1453 pimpl_->frameIndex_.reset(new DicomFrameIndex(*pimpl_->file_)); |
|
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
|
1454 } |
|
6c73df12ca51
New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1913
diff
changeset
|
1455 |
|
6c73df12ca51
New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1913
diff
changeset
|
1456 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
|
1457 |
|
6c73df12ca51
New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1913
diff
changeset
|
1458 E_TransferSyntax transferSyntax = pimpl_->file_->getDataset()->getOriginalXfer(); |
|
6c73df12ca51
New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1913
diff
changeset
|
1459 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
|
1460 { |
|
1946
40b7a0176305
fix compilation against DCMTK 3.6.1
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1945
diff
changeset
|
1461 case EXS_JPEGProcess1: |
|
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
|
1462 mime = "image/jpeg"; |
|
6c73df12ca51
New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1913
diff
changeset
|
1463 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
|
1464 |
|
6c73df12ca51
New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1913
diff
changeset
|
1465 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
|
1466 case EXS_JPEG2000: |
|
6c73df12ca51
New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1913
diff
changeset
|
1467 mime = "image/jp2"; |
| 2016 | 1468 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
|
1469 |
|
6c73df12ca51
New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1913
diff
changeset
|
1470 default: |
|
6c73df12ca51
New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1913
diff
changeset
|
1471 mime = "application/octet-stream"; |
|
6c73df12ca51
New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1913
diff
changeset
|
1472 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
|
1473 } |
|
6c73df12ca51
New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1913
diff
changeset
|
1474 } |
|
6c73df12ca51
New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1913
diff
changeset
|
1475 |
|
6c73df12ca51
New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1913
diff
changeset
|
1476 |
|
6c73df12ca51
New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1913
diff
changeset
|
1477 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
|
1478 { |
|
6c73df12ca51
New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1913
diff
changeset
|
1479 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
|
1480 } |
|
1950
533ff46e944b
return a single raw frame from DICOM videos
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1946
diff
changeset
|
1481 |
|
533ff46e944b
return a single raw frame from DICOM videos
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1946
diff
changeset
|
1482 |
|
533ff46e944b
return a single raw frame from DICOM videos
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1946
diff
changeset
|
1483 unsigned int ParsedDicomFile::GetFramesCount() const |
|
533ff46e944b
return a single raw frame from DICOM videos
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1946
diff
changeset
|
1484 { |
| 1956 | 1485 return DicomFrameIndex::GetFramesCount(*pimpl_->file_); |
|
1950
533ff46e944b
return a single raw frame from DICOM videos
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1946
diff
changeset
|
1486 } |
|
2207
6dc3bdb4088b
Fix handling of encodings in C-FIND for worklists
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2202
diff
changeset
|
1487 |
|
6dc3bdb4088b
Fix handling of encodings in C-FIND for worklists
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2202
diff
changeset
|
1488 |
|
6dc3bdb4088b
Fix handling of encodings in C-FIND for worklists
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2202
diff
changeset
|
1489 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
|
1490 { |
|
6dc3bdb4088b
Fix handling of encodings in C-FIND for worklists
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2202
diff
changeset
|
1491 Encoding source = GetEncoding(); |
|
6dc3bdb4088b
Fix handling of encodings in C-FIND for worklists
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2202
diff
changeset
|
1492 |
|
6dc3bdb4088b
Fix handling of encodings in C-FIND for worklists
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2202
diff
changeset
|
1493 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
|
1494 { |
|
6dc3bdb4088b
Fix handling of encodings in C-FIND for worklists
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2202
diff
changeset
|
1495 ReplacePlainString(DICOM_TAG_SPECIFIC_CHARACTER_SET, GetDicomSpecificCharacterSet(target)); |
|
6dc3bdb4088b
Fix handling of encodings in C-FIND for worklists
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2202
diff
changeset
|
1496 FromDcmtkBridge::ChangeStringEncoding(*pimpl_->file_->getDataset(), source, target); |
|
6dc3bdb4088b
Fix handling of encodings in C-FIND for worklists
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2202
diff
changeset
|
1497 } |
|
6dc3bdb4088b
Fix handling of encodings in C-FIND for worklists
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2202
diff
changeset
|
1498 } |
|
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
|
1499 |
|
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2207
diff
changeset
|
1500 |
|
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2207
diff
changeset
|
1501 void ParsedDicomFile::ExtractDicomSummary(DicomMap& target) const |
|
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2207
diff
changeset
|
1502 { |
|
2381
b8969010b534
uncoupling DCMTK primitives from Orthanc::Configuration
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2380
diff
changeset
|
1503 FromDcmtkBridge::ExtractDicomSummary(target, *pimpl_->file_->getDataset()); |
|
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
|
1504 } |
|
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2207
diff
changeset
|
1505 |
|
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
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1506 |
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1507 bool ParsedDicomFile::LookupTransferSyntax(std::string& result) |
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1508 { |
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1509 return FromDcmtkBridge::LookupTransferSyntax(result, *pimpl_->file_); |
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1510 } |
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2281
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1511 |
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1512 |
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1513 bool ParsedDicomFile::LookupPhotometricInterpretation(PhotometricInterpretation& result) const |
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1514 { |
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1515 DcmTagKey k(DICOM_TAG_PHOTOMETRIC_INTERPRETATION.GetGroup(), |
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1516 DICOM_TAG_PHOTOMETRIC_INTERPRETATION.GetElement()); |
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1517 |
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1518 DcmDataset& dataset = *pimpl_->file_->getDataset(); |
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1519 |
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1520 const char *c = NULL; |
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1521 if (dataset.findAndGetString(k, c).good() && |
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1522 c != NULL) |
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1523 { |
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1524 result = StringToPhotometricInterpretation(c); |
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1525 return true; |
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1526 } |
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1527 else |
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1528 { |
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1529 return false; |
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1530 } |
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1531 } |
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2499
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1532 |
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1533 |
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1534 void ParsedDicomFile::Apply(ITagVisitor& visitor) |
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1535 { |
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1536 FromDcmtkBridge::Apply(*pimpl_->file_->getDataset(), visitor, GetDefaultDicomEncoding()); |
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1537 } |
| 790 | 1538 } |