Mercurial > hg > orthanc
annotate Core/DicomParsing/ParsedDicomFile.cpp @ 3838:95083d2f6819
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author | Sebastien Jodogne <s.jodogne@gmail.com> |
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date | Wed, 15 Apr 2020 17:58:30 +0200 |
parents | 113a7b994a12 |
children | ba53d51ffa9a |
rev | line source |
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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) 2017-2020 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" | |
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85 #include "Internals/DicomFrameIndex.h" |
790 | 86 #include "ToDcmtkBridge.h" |
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87 |
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88 #include "../Images/PamReader.h" |
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89 #include "../Logging.h" |
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90 #include "../OrthancException.h" |
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91 #include "../Toolbox.h" |
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92 |
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93 #if ORTHANC_SANDBOXED == 0 |
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94 # include "../SystemToolbox.h" |
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95 #endif |
790 | 96 |
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97 #if ORTHANC_ENABLE_JPEG == 1 |
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98 # include "../Images/JpegReader.h" |
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99 #endif |
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100 |
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101 #if ORTHANC_ENABLE_PNG == 1 |
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102 # include "../Images/PngReader.h" |
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103 #endif |
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104 |
790 | 105 #include <list> |
106 #include <limits> | |
107 | |
108 #include <boost/lexical_cast.hpp> | |
109 | |
110 #include <dcmtk/dcmdata/dcchrstr.h> | |
111 #include <dcmtk/dcmdata/dcdicent.h> | |
112 #include <dcmtk/dcmdata/dcdict.h> | |
113 #include <dcmtk/dcmdata/dcfilefo.h> | |
114 #include <dcmtk/dcmdata/dcuid.h> | |
115 #include <dcmtk/dcmdata/dcmetinf.h> | |
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116 #include <dcmtk/dcmdata/dcdeftag.h> |
790 | 117 |
118 #include <dcmtk/dcmdata/dcvrae.h> | |
119 #include <dcmtk/dcmdata/dcvras.h> | |
120 #include <dcmtk/dcmdata/dcvrcs.h> | |
121 #include <dcmtk/dcmdata/dcvrda.h> | |
122 #include <dcmtk/dcmdata/dcvrds.h> | |
123 #include <dcmtk/dcmdata/dcvrdt.h> | |
124 #include <dcmtk/dcmdata/dcvrfd.h> | |
125 #include <dcmtk/dcmdata/dcvrfl.h> | |
126 #include <dcmtk/dcmdata/dcvris.h> | |
127 #include <dcmtk/dcmdata/dcvrlo.h> | |
128 #include <dcmtk/dcmdata/dcvrlt.h> | |
129 #include <dcmtk/dcmdata/dcvrpn.h> | |
130 #include <dcmtk/dcmdata/dcvrsh.h> | |
131 #include <dcmtk/dcmdata/dcvrsl.h> | |
132 #include <dcmtk/dcmdata/dcvrss.h> | |
133 #include <dcmtk/dcmdata/dcvrst.h> | |
134 #include <dcmtk/dcmdata/dcvrtm.h> | |
135 #include <dcmtk/dcmdata/dcvrui.h> | |
136 #include <dcmtk/dcmdata/dcvrul.h> | |
137 #include <dcmtk/dcmdata/dcvrus.h> | |
138 #include <dcmtk/dcmdata/dcvrut.h> | |
139 #include <dcmtk/dcmdata/dcpixel.h> | |
140 #include <dcmtk/dcmdata/dcpixseq.h> | |
141 #include <dcmtk/dcmdata/dcpxitem.h> | |
142 | |
143 | |
144 #include <boost/math/special_functions/round.hpp> | |
145 #include <dcmtk/dcmdata/dcostrmb.h> | |
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146 #include <boost/algorithm/string/predicate.hpp> |
790 | 147 |
148 | |
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149 #if DCMTK_VERSION_NUMBER <= 360 |
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150 # define EXS_JPEGProcess1 EXS_JPEGProcess1TransferSyntax |
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151 #endif |
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152 |
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153 |
790 | 154 |
155 namespace Orthanc | |
156 { | |
794 | 157 struct ParsedDicomFile::PImpl |
158 { | |
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159 std::unique_ptr<DcmFileFormat> file_; |
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160 std::unique_ptr<DicomFrameIndex> frameIndex_; |
794 | 161 }; |
162 | |
163 | |
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164 #if ORTHANC_ENABLE_CIVETWEB == 1 || ORTHANC_ENABLE_MONGOOSE == 1 |
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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 |
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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 ORTHANC_OVERRIDE |
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250 { |
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251 // No support for compression |
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252 return HttpCompression_None; |
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253 } |
790 | 254 |
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255 virtual bool HasContentFilename(std::string& filename) ORTHANC_OVERRIDE |
790 | 256 { |
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257 return false; |
790 | 258 } |
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259 |
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260 virtual std::string GetContentType() ORTHANC_OVERRIDE |
790 | 261 { |
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262 return EnumerationToString(MimeType_Binary); |
790 | 263 } |
264 | |
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265 virtual uint64_t GetContentLength() ORTHANC_OVERRIDE |
790 | 266 { |
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267 return length_; |
790 | 268 } |
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269 |
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270 virtual bool ReadNextChunk() ORTHANC_OVERRIDE |
790 | 271 { |
1520 | 272 assert(offset_ <= length_); |
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273 |
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274 if (offset_ == length_) |
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275 { |
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276 return false; |
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277 } |
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278 else |
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279 { |
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280 if (length_ - offset_ < chunk_.size()) |
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281 { |
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282 chunkSize_ = length_ - offset_; |
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283 } |
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284 else |
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285 { |
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286 chunkSize_ = chunk_.size(); |
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287 } |
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288 |
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289 OFCondition cond = element_.getPartialValue(&chunk_[0], offset_, chunkSize_); |
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290 |
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291 offset_ += chunkSize_; |
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292 |
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293 if (!cond.good()) |
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294 { |
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295 throw OrthancException(ErrorCode_InternalError, |
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296 "Error while sending a DICOM field: " + |
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297 std::string(cond.text())); |
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298 } |
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299 |
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300 return true; |
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301 } |
790 | 302 } |
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303 |
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304 virtual const char *GetChunkContent() ORTHANC_OVERRIDE |
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305 { |
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306 return chunk_.c_str(); |
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307 } |
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308 |
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309 virtual size_t GetChunkSize() ORTHANC_OVERRIDE |
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310 { |
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311 return chunkSize_; |
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312 } |
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313 }; |
790 | 314 } |
315 | |
316 | |
317 static bool AnswerPixelData(RestApiOutput& output, | |
318 DcmItem& dicom, | |
319 E_TransferSyntax transferSyntax, | |
320 const std::string* blockUri) | |
321 { | |
322 DcmTag k(DICOM_TAG_PIXEL_DATA.GetGroup(), | |
323 DICOM_TAG_PIXEL_DATA.GetElement()); | |
324 | |
325 DcmElement *element = NULL; | |
326 if (!dicom.findAndGetElement(k, element).good() || | |
327 element == NULL) | |
328 { | |
329 return false; | |
330 } | |
331 | |
332 try | |
333 { | |
334 DcmPixelData& pixelData = dynamic_cast<DcmPixelData&>(*element); | |
335 if (blockUri == NULL) | |
336 { | |
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337 // The user asks how many blocks are present in this pixel data |
790 | 338 unsigned int blocks = GetPixelDataBlockCount(pixelData, transferSyntax); |
339 | |
340 Json::Value result(Json::arrayValue); | |
341 for (unsigned int i = 0; i < blocks; i++) | |
342 { | |
343 result.append(boost::lexical_cast<std::string>(i)); | |
344 } | |
345 | |
346 output.AnswerJson(result); | |
347 return true; | |
348 } | |
349 | |
350 | |
351 unsigned int block = boost::lexical_cast<unsigned int>(*blockUri); | |
352 | |
353 if (block < GetPixelDataBlockCount(pixelData, transferSyntax)) | |
354 { | |
355 DcmPixelSequence* pixelSequence = NULL; | |
356 if (pixelData.getEncapsulatedRepresentation | |
357 (transferSyntax, NULL, pixelSequence).good() && pixelSequence) | |
358 { | |
359 // This is the case for JPEG transfer syntaxes | |
360 if (block < pixelSequence->card()) | |
361 { | |
362 DcmPixelItem* pixelItem = NULL; | |
363 if (pixelSequence->getItem(pixelItem, block).good() && pixelItem) | |
364 { | |
365 if (pixelItem->getLength() == 0) | |
366 { | |
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367 output.AnswerBuffer(NULL, 0, MimeType_Binary); |
790 | 368 return true; |
369 } | |
370 | |
371 Uint8* buffer = NULL; | |
372 if (pixelItem->getUint8Array(buffer).good() && buffer) | |
373 { | |
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374 output.AnswerBuffer(buffer, pixelItem->getLength(), MimeType_Binary); |
790 | 375 return true; |
376 } | |
377 } | |
378 } | |
379 } | |
380 else | |
381 { | |
382 // This is the case for raw, uncompressed image buffers | |
383 assert(*blockUri == "0"); | |
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384 DicomFieldStream stream(*element, transferSyntax); |
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385 output.AnswerStream(stream); |
790 | 386 } |
387 } | |
388 } | |
389 catch (boost::bad_lexical_cast&) | |
390 { | |
391 // The URI entered by the user is not a number | |
392 } | |
393 catch (std::bad_cast&) | |
394 { | |
395 // This should never happen | |
396 } | |
397 | |
398 return false; | |
399 } | |
400 | |
401 | |
402 static void SendPathValueForLeaf(RestApiOutput& output, | |
403 const std::string& tag, | |
404 DcmItem& dicom, | |
405 E_TransferSyntax transferSyntax) | |
406 { | |
407 DcmTagKey k; | |
408 ParseTagAndGroup(k, tag); | |
409 | |
410 DcmSequenceOfItems* sequence = NULL; | |
411 if (dicom.findAndGetSequence(k, sequence).good() && | |
412 sequence != NULL && | |
413 sequence->getVR() == EVR_SQ) | |
414 { | |
415 SendSequence(output, *sequence); | |
416 return; | |
417 } | |
418 | |
419 DcmElement* element = NULL; | |
420 if (dicom.findAndGetElement(k, element).good() && | |
421 element != NULL && | |
422 //element->getVR() != EVR_UNKNOWN && // This would forbid private tags | |
423 element->getVR() != EVR_SQ) | |
424 { | |
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425 DicomFieldStream stream(*element, transferSyntax); |
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426 output.AnswerStream(stream); |
790 | 427 } |
428 } | |
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429 #endif |
790 | 430 |
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431 |
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432 static inline uint16_t GetCharValue(char c) |
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433 { |
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434 if (c >= '0' && c <= '9') |
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435 return c - '0'; |
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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 if (c >= 'A' && c <= 'F') |
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439 return c - 'A' + 10; |
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440 else |
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441 return 0; |
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442 } |
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443 |
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444 |
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445 static inline uint16_t GetTagValue(const char* c) |
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446 { |
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447 return ((GetCharValue(c[0]) << 12) + |
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448 (GetCharValue(c[1]) << 8) + |
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449 (GetCharValue(c[2]) << 4) + |
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450 GetCharValue(c[3])); |
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451 } |
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452 |
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453 |
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454 #if ORTHANC_ENABLE_CIVETWEB == 1 || ORTHANC_ENABLE_MONGOOSE == 1 |
790 | 455 void ParsedDicomFile::SendPathValue(RestApiOutput& output, |
456 const UriComponents& uri) | |
457 { | |
794 | 458 DcmItem* dicom = pimpl_->file_->getDataset(); |
459 E_TransferSyntax transferSyntax = pimpl_->file_->getDataset()->getOriginalXfer(); | |
790 | 460 |
461 // Special case: Accessing the pixel data | |
462 if (uri.size() == 1 || | |
463 uri.size() == 2) | |
464 { | |
465 DcmTagKey tag; | |
466 ParseTagAndGroup(tag, uri[0]); | |
467 | |
468 if (tag.getGroup() == DICOM_TAG_PIXEL_DATA.GetGroup() && | |
469 tag.getElement() == DICOM_TAG_PIXEL_DATA.GetElement()) | |
470 { | |
471 AnswerPixelData(output, *dicom, transferSyntax, uri.size() == 1 ? NULL : &uri[1]); | |
472 return; | |
473 } | |
474 } | |
475 | |
476 // Go down in the tag hierarchy according to the URI | |
477 for (size_t pos = 0; pos < uri.size() / 2; pos++) | |
478 { | |
479 size_t index; | |
480 try | |
481 { | |
482 index = boost::lexical_cast<size_t>(uri[2 * pos + 1]); | |
483 } | |
484 catch (boost::bad_lexical_cast&) | |
485 { | |
486 return; | |
487 } | |
488 | |
489 DcmTagKey k; | |
490 DcmItem *child = NULL; | |
491 ParseTagAndGroup(k, uri[2 * pos]); | |
492 if (!dicom->findAndGetSequenceItem(k, child, index).good() || | |
493 child == NULL) | |
494 { | |
495 return; | |
496 } | |
497 | |
498 dicom = child; | |
499 } | |
500 | |
501 // We have reached the end of the URI | |
502 if (uri.size() % 2 == 0) | |
503 { | |
504 SendPathValueForDictionary(output, *dicom); | |
505 } | |
506 else | |
507 { | |
508 SendPathValueForLeaf(output, uri.back(), *dicom, transferSyntax); | |
509 } | |
510 } | |
2394
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511 #endif |
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512 |
790 | 513 |
514 void ParsedDicomFile::Remove(const DicomTag& tag) | |
515 { | |
1924
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516 InvalidateCache(); |
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517 |
790 | 518 DcmTagKey key(tag.GetGroup(), tag.GetElement()); |
794 | 519 DcmElement* element = pimpl_->file_->getDataset()->remove(key); |
790 | 520 if (element != NULL) |
521 { | |
522 delete element; | |
523 } | |
524 } | |
525 | |
526 | |
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527 void ParsedDicomFile::Clear(const DicomTag& tag, |
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528 bool onlyIfExists) |
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529 { |
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530 if (tag.GetElement() == 0x0000) |
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531 { |
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532 // Prevent manually modifying generic group length tags: This is |
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533 // handled by DCMTK serialization |
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534 return; |
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535 } |
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536 |
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537 InvalidateCache(); |
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538 |
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539 DcmItem* dicom = pimpl_->file_->getDataset(); |
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540 DcmTagKey key(tag.GetGroup(), tag.GetElement()); |
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541 |
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542 if (onlyIfExists && |
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543 !dicom->tagExists(key)) |
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544 { |
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545 // The tag is non-existing, do not clear it |
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546 } |
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547 else |
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548 { |
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549 if (!dicom->insertEmptyElement(key, OFTrue /* replace old value */).good()) |
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550 { |
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551 throw OrthancException(ErrorCode_InternalError); |
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552 } |
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553 } |
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554 } |
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555 |
790 | 556 |
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557 void ParsedDicomFile::RemovePrivateTagsInternal(const std::set<DicomTag>* toKeep) |
790 | 558 { |
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559 InvalidateCache(); |
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560 |
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561 DcmDataset& dataset = *pimpl_->file_->getDataset(); |
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562 |
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563 // Loop over the dataset to detect its private tags |
790 | 564 typedef std::list<DcmElement*> Tags; |
565 Tags privateTags; | |
566 | |
567 for (unsigned long i = 0; i < dataset.card(); i++) | |
568 { | |
569 DcmElement* element = dataset.getElement(i); | |
570 DcmTag tag(element->getTag()); | |
991
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571 |
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572 // Is this a private tag? |
1694 | 573 if (tag.isPrivate()) |
790 | 574 { |
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575 bool remove = true; |
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576 |
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577 // Check whether this private tag is to be kept |
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578 if (toKeep != NULL) |
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579 { |
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580 DicomTag tmp = FromDcmtkBridge::Convert(tag); |
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581 if (toKeep->find(tmp) != toKeep->end()) |
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582 { |
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583 remove = false; // Keep it |
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584 } |
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585 } |
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586 |
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587 if (remove) |
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588 { |
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589 privateTags.push_back(element); |
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590 } |
790 | 591 } |
592 } | |
593 | |
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594 // Loop over the detected private tags to remove them |
790 | 595 for (Tags::iterator it = privateTags.begin(); |
596 it != privateTags.end(); ++it) | |
597 { | |
598 DcmElement* tmp = dataset.remove(*it); | |
599 if (tmp != NULL) | |
600 { | |
601 delete tmp; | |
602 } | |
603 } | |
604 } | |
605 | |
606 | |
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607 static void InsertInternal(DcmDataset& dicom, |
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608 DcmElement* element) |
790 | 609 { |
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610 OFCondition cond = dicom.insert(element, false, false); |
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611 if (!cond.good()) |
790 | 612 { |
613 // This field already exists | |
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614 delete element; |
790 | 615 throw OrthancException(ErrorCode_InternalError); |
616 } | |
617 } | |
618 | |
619 | |
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620 void ParsedDicomFile::Insert(const DicomTag& tag, |
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621 const Json::Value& value, |
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622 bool decodeDataUriScheme, |
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623 const std::string& privateCreator) |
790 | 624 { |
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625 if (tag.GetElement() == 0x0000) |
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626 { |
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627 // Prevent manually modifying generic group length tags: This is |
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628 // handled by DCMTK serialization |
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629 return; |
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630 } |
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631 |
1980
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632 if (pimpl_->file_->getDataset()->tagExists(ToDcmtkBridge::Convert(tag))) |
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633 { |
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634 throw OrthancException(ErrorCode_AlreadyExistingTag); |
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635 } |
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636 |
1982
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637 if (decodeDataUriScheme && |
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638 value.type() == Json::stringValue && |
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639 (tag == DICOM_TAG_ENCAPSULATED_DOCUMENT || |
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640 tag == DICOM_TAG_PIXEL_DATA)) |
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641 { |
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642 if (EmbedContentInternal(value.asString())) |
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643 { |
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644 return; |
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645 } |
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646 } |
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647 |
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648 InvalidateCache(); |
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649 |
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650 bool hasCodeExtensions; |
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651 Encoding encoding = DetectEncoding(hasCodeExtensions); |
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652 std::unique_ptr<DcmElement> element(FromDcmtkBridge::FromJson(tag, value, decodeDataUriScheme, encoding, privateCreator)); |
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653 InsertInternal(*pimpl_->file_->getDataset(), element.release()); |
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654 } |
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655 |
790 | 656 |
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657 void ParsedDicomFile::ReplacePlainString(const DicomTag& tag, |
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658 const std::string& utf8Value) |
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659 { |
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660 if (tag.IsPrivate()) |
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661 { |
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662 throw OrthancException(ErrorCode_InternalError, |
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663 "Cannot apply this function to private tags: " + tag.Format()); |
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664 } |
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665 else |
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666 { |
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667 Replace(tag, utf8Value, false, DicomReplaceMode_InsertIfAbsent, |
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668 "" /* not a private tag, so no private creator */); |
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669 } |
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670 } |
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671 |
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672 |
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673 void ParsedDicomFile::SetIfAbsent(const DicomTag& tag, |
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674 const std::string& utf8Value) |
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675 { |
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676 std::string currentValue; |
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677 if (!GetTagValue(currentValue, tag)) |
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678 { |
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679 ReplacePlainString(tag, utf8Value); |
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680 } |
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681 } |
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682 |
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683 |
1982
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684 static bool CanReplaceProceed(DcmDataset& dicom, |
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|
685 const DcmTagKey& tag, |
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686 DicomReplaceMode mode) |
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687 { |
1979 | 688 if (dicom.findAndDeleteElement(tag).good()) |
790 | 689 { |
1979 | 690 // This tag was existing, it has been deleted |
691 return true; | |
692 } | |
693 else | |
694 { | |
695 // This tag was absent, act wrt. the specified "mode" | |
790 | 696 switch (mode) |
697 { | |
698 case DicomReplaceMode_InsertIfAbsent: | |
1979 | 699 return true; |
790 | 700 |
701 case DicomReplaceMode_ThrowIfAbsent: | |
702 throw OrthancException(ErrorCode_InexistentItem); | |
703 | |
704 case DicomReplaceMode_IgnoreIfAbsent: | |
1979 | 705 return false; |
706 | |
707 default: | |
708 throw OrthancException(ErrorCode_ParameterOutOfRange); | |
790 | 709 } |
710 } | |
1693
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711 } |
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712 |
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|
713 |
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changeset
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714 void ParsedDicomFile::UpdateStorageUid(const DicomTag& tag, |
1695 | 715 const std::string& utf8Value, |
1818
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diff
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716 bool decodeDataUriScheme) |
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717 { |
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|
718 if (tag != DICOM_TAG_SOP_CLASS_UID && |
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diff
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|
719 tag != DICOM_TAG_SOP_INSTANCE_UID) |
790 | 720 { |
1693
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|
721 return; |
790 | 722 } |
723 | |
1693
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creation of tag hierarchy from json
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diff
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|
724 std::string binary; |
1695 | 725 const std::string* decoded = &utf8Value; |
1693
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diff
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|
726 |
1818
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ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
727 if (decodeDataUriScheme && |
2905
ae20fccdd867
refactoring mime types
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parents:
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diff
changeset
|
728 boost::starts_with(utf8Value, URI_SCHEME_PREFIX_BINARY)) |
1693
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diff
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|
729 { |
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changeset
|
730 std::string mime; |
1981
4b545a8b1f95
return code in Toolbox::DecodeDataUriScheme
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1980
diff
changeset
|
731 if (!Toolbox::DecodeDataUriScheme(mime, binary, utf8Value)) |
4b545a8b1f95
return code in Toolbox::DecodeDataUriScheme
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parents:
1980
diff
changeset
|
732 { |
4b545a8b1f95
return code in Toolbox::DecodeDataUriScheme
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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diff
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|
733 throw OrthancException(ErrorCode_BadFileFormat); |
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Sebastien Jodogne <s.jodogne@gmail.com>
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diff
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|
734 } |
4b545a8b1f95
return code in Toolbox::DecodeDataUriScheme
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diff
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|
735 |
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|
736 decoded = &binary; |
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|
737 } |
1695 | 738 else |
739 { | |
3217
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|
740 bool hasCodeExtensions; |
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741 Encoding encoding = DetectEncoding(hasCodeExtensions); |
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changeset
|
742 if (encoding != Encoding_Utf8) |
1695 | 743 { |
744 binary = Toolbox::ConvertFromUtf8(utf8Value, encoding); | |
745 decoded = &binary; | |
746 } | |
747 } | |
790 | 748 |
749 /** | |
750 * dcmodify will automatically correct 'Media Storage SOP Class | |
751 * UID' and 'Media Storage SOP Instance UID' in the metaheader, if | |
752 * you make changes to the related tags in the dataset ('SOP Class | |
753 * UID' and 'SOP Instance UID') via insert or modify mode | |
754 * options. You can disable this behaviour by using the -nmu | |
755 * option. | |
756 **/ | |
757 | |
758 if (tag == DICOM_TAG_SOP_CLASS_UID) | |
759 { | |
1982
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Modification of instances can now replace PixelData
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diff
changeset
|
760 ReplacePlainString(DICOM_TAG_MEDIA_STORAGE_SOP_CLASS_UID, *decoded); |
790 | 761 } |
762 | |
763 if (tag == DICOM_TAG_SOP_INSTANCE_UID) | |
764 { | |
1982
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diff
changeset
|
765 ReplacePlainString(DICOM_TAG_MEDIA_STORAGE_SOP_INSTANCE_UID, *decoded); |
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|
766 } |
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|
767 } |
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diff
changeset
|
768 |
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|
769 |
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diff
changeset
|
770 void ParsedDicomFile::Replace(const DicomTag& tag, |
1695 | 771 const std::string& utf8Value, |
1982
b5d4f9c156ad
Modification of instances can now replace PixelData
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changeset
|
772 bool decodeDataUriScheme, |
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|
773 DicomReplaceMode mode, |
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changeset
|
774 const std::string& privateCreator) |
1693
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|
775 { |
2797
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Fix handling of incoming C-FIND queries containing Generic Group Length (*, 0x0000)
Sebastien Jodogne <s.jodogne@gmail.com>
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2521
diff
changeset
|
776 if (tag.GetElement() == 0x0000) |
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|
777 { |
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2521
diff
changeset
|
778 // Prevent manually modifying generic group length tags: This is |
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diff
changeset
|
779 // handled by DCMTK serialization |
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2521
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|
780 return; |
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parents:
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|
781 } |
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parents:
2521
diff
changeset
|
782 |
1924
6c73df12ca51
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1913
diff
changeset
|
783 InvalidateCache(); |
6c73df12ca51
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diff
changeset
|
784 |
1982
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Modification of instances can now replace PixelData
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diff
changeset
|
785 DcmDataset& dicom = *pimpl_->file_->getDataset(); |
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parents:
1981
diff
changeset
|
786 if (CanReplaceProceed(dicom, ToDcmtkBridge::Convert(tag), mode)) |
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diff
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|
787 { |
b5d4f9c156ad
Modification of instances can now replace PixelData
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diff
changeset
|
788 // Either the tag was previously existing (and now removed), or |
b5d4f9c156ad
Modification of instances can now replace PixelData
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parents:
1981
diff
changeset
|
789 // the replace mode was set to "InsertIfAbsent" |
1979 | 790 |
1982
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Modification of instances can now replace PixelData
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diff
changeset
|
791 if (decodeDataUriScheme && |
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Modification of instances can now replace PixelData
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parents:
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diff
changeset
|
792 (tag == DICOM_TAG_ENCAPSULATED_DOCUMENT || |
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
793 tag == DICOM_TAG_PIXEL_DATA)) |
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
794 { |
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
795 if (EmbedContentInternal(utf8Value)) |
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
796 { |
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
797 return; |
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
798 } |
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
799 } |
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
800 |
3712
2a170a8f1faf
replacing std::auto_ptr by std::unique_ptr
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3691
diff
changeset
|
801 std::unique_ptr<DcmElement> element(FromDcmtkBridge::CreateElementForTag(tag, privateCreator)); |
3217
cf8cbeb35f33
preliminary support of Korean character set
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3060
diff
changeset
|
802 |
3368
3cd94bc66731
allow creating ParsedDicomFile with empty DICOM elements
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3342
diff
changeset
|
803 if (!utf8Value.empty()) |
3cd94bc66731
allow creating ParsedDicomFile with empty DICOM elements
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3342
diff
changeset
|
804 { |
3cd94bc66731
allow creating ParsedDicomFile with empty DICOM elements
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3342
diff
changeset
|
805 bool hasCodeExtensions; |
3cd94bc66731
allow creating ParsedDicomFile with empty DICOM elements
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3342
diff
changeset
|
806 Encoding encoding = DetectEncoding(hasCodeExtensions); |
3691
4922bdd046dd
Fix issue #140 (Modifying private tags with REST API changes VR from LO to UN) - DANGEROUS COMMIT
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3651
diff
changeset
|
807 FromDcmtkBridge::FillElementWithString(*element, utf8Value, decodeDataUriScheme, encoding); |
3368
3cd94bc66731
allow creating ParsedDicomFile with empty DICOM elements
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3342
diff
changeset
|
808 } |
1982
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
809 |
1979 | 810 InsertInternal(dicom, element.release()); |
811 UpdateStorageUid(tag, utf8Value, false); | |
812 } | |
1693
558b25228a23
creation of tag hierarchy from json
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1689
diff
changeset
|
813 } |
558b25228a23
creation of tag hierarchy from json
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1689
diff
changeset
|
814 |
558b25228a23
creation of tag hierarchy from json
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1689
diff
changeset
|
815 |
558b25228a23
creation of tag hierarchy from json
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1689
diff
changeset
|
816 void ParsedDicomFile::Replace(const DicomTag& tag, |
558b25228a23
creation of tag hierarchy from json
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1689
diff
changeset
|
817 const Json::Value& value, |
1818
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
818 bool decodeDataUriScheme, |
3691
4922bdd046dd
Fix issue #140 (Modifying private tags with REST API changes VR from LO to UN) - DANGEROUS COMMIT
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3651
diff
changeset
|
819 DicomReplaceMode mode, |
4922bdd046dd
Fix issue #140 (Modifying private tags with REST API changes VR from LO to UN) - DANGEROUS COMMIT
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3651
diff
changeset
|
820 const std::string& privateCreator) |
1693
558b25228a23
creation of tag hierarchy from json
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1689
diff
changeset
|
821 { |
2797
9a0c6a046cc2
Fix handling of incoming C-FIND queries containing Generic Group Length (*, 0x0000)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2521
diff
changeset
|
822 if (tag.GetElement() == 0x0000) |
9a0c6a046cc2
Fix handling of incoming C-FIND queries containing Generic Group Length (*, 0x0000)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2521
diff
changeset
|
823 { |
9a0c6a046cc2
Fix handling of incoming C-FIND queries containing Generic Group Length (*, 0x0000)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2521
diff
changeset
|
824 // Prevent manually modifying generic group length tags: This is |
9a0c6a046cc2
Fix handling of incoming C-FIND queries containing Generic Group Length (*, 0x0000)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2521
diff
changeset
|
825 // handled by DCMTK serialization |
9a0c6a046cc2
Fix handling of incoming C-FIND queries containing Generic Group Length (*, 0x0000)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2521
diff
changeset
|
826 return; |
9a0c6a046cc2
Fix handling of incoming C-FIND queries containing Generic Group Length (*, 0x0000)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2521
diff
changeset
|
827 } |
9a0c6a046cc2
Fix handling of incoming C-FIND queries containing Generic Group Length (*, 0x0000)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2521
diff
changeset
|
828 |
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
|
829 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
|
830 |
1982
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
831 DcmDataset& dicom = *pimpl_->file_->getDataset(); |
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
832 if (CanReplaceProceed(dicom, ToDcmtkBridge::Convert(tag), mode)) |
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
833 { |
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
834 // Either the tag was previously existing (and now removed), or |
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
835 // the replace mode was set to "InsertIfAbsent" |
1693
558b25228a23
creation of tag hierarchy from json
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1689
diff
changeset
|
836 |
1982
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
837 if (decodeDataUriScheme && |
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
838 value.type() == Json::stringValue && |
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
839 (tag == DICOM_TAG_ENCAPSULATED_DOCUMENT || |
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
840 tag == DICOM_TAG_PIXEL_DATA)) |
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
841 { |
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
842 if (EmbedContentInternal(value.asString())) |
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
843 { |
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
844 return; |
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
845 } |
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
846 } |
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
847 |
3217
cf8cbeb35f33
preliminary support of Korean character set
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3060
diff
changeset
|
848 bool hasCodeExtensions; |
cf8cbeb35f33
preliminary support of Korean character set
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3060
diff
changeset
|
849 Encoding encoding = DetectEncoding(hasCodeExtensions); |
3691
4922bdd046dd
Fix issue #140 (Modifying private tags with REST API changes VR from LO to UN) - DANGEROUS COMMIT
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3651
diff
changeset
|
850 InsertInternal(dicom, FromDcmtkBridge::FromJson(tag, value, decodeDataUriScheme, encoding, privateCreator)); |
1979 | 851 |
852 if (tag == DICOM_TAG_SOP_CLASS_UID || | |
853 tag == DICOM_TAG_SOP_INSTANCE_UID) | |
1693
558b25228a23
creation of tag hierarchy from json
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1689
diff
changeset
|
854 { |
1979 | 855 if (value.type() != Json::stringValue) |
856 { | |
857 throw OrthancException(ErrorCode_BadParameterType); | |
858 } | |
859 | |
860 UpdateStorageUid(tag, value.asString(), decodeDataUriScheme); | |
1693
558b25228a23
creation of tag hierarchy from json
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1689
diff
changeset
|
861 } |
790 | 862 } |
863 } | |
864 | |
865 | |
2394
75c779ca948c
fix compilation without Web server
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2382
diff
changeset
|
866 #if ORTHANC_ENABLE_CIVETWEB == 1 || ORTHANC_ENABLE_MONGOOSE == 1 |
790 | 867 void ParsedDicomFile::Answer(RestApiOutput& output) |
868 { | |
869 std::string serialized; | |
1004
a226e0959d8b
DicomInstanceToStore
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
991
diff
changeset
|
870 if (FromDcmtkBridge::SaveToMemoryBuffer(serialized, *pimpl_->file_->getDataset())) |
790 | 871 { |
2908
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
872 output.AnswerBuffer(serialized, MimeType_Binary); |
790 | 873 } |
874 } | |
2394
75c779ca948c
fix compilation without Web server
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2382
diff
changeset
|
875 #endif |
790 | 876 |
877 | |
878 bool ParsedDicomFile::GetTagValue(std::string& value, | |
879 const DicomTag& tag) | |
880 { | |
881 DcmTagKey k(tag.GetGroup(), tag.GetElement()); | |
794 | 882 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
|
883 |
1818
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
884 if (tag.IsPrivate() || |
1655
e40fd0d925c5
/tools/create-dicom can create tags with unknown VR
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1641
diff
changeset
|
885 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
|
886 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
|
887 tag == DICOM_TAG_ENCAPSULATED_DOCUMENT) |
790 | 888 { |
1307
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
889 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
|
890 long unsigned int count = 0; |
790 | 891 |
1307
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
892 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
|
893 { |
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
894 if (count > 0) |
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
895 { |
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
896 assert(data != NULL); |
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
897 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
|
898 } |
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
899 else |
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
900 { |
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
901 value.clear(); |
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
902 } |
790 | 903 |
1307
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
904 return true; |
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
905 } |
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
906 else |
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
907 { |
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
908 return false; |
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
909 } |
790 | 910 } |
911 else | |
912 { | |
1307
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
913 DcmElement* element = NULL; |
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
914 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
|
915 element == NULL) |
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
916 { |
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
917 return false; |
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
918 } |
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
919 |
3217
cf8cbeb35f33
preliminary support of Korean character set
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3060
diff
changeset
|
920 bool hasCodeExtensions; |
cf8cbeb35f33
preliminary support of Korean character set
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3060
diff
changeset
|
921 Encoding encoding = DetectEncoding(hasCodeExtensions); |
cf8cbeb35f33
preliminary support of Korean character set
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3060
diff
changeset
|
922 |
2409
e4045b3c9772
ignore-length argument if retrieving DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2394
diff
changeset
|
923 std::set<DicomTag> tmp; |
3712
2a170a8f1faf
replacing std::auto_ptr by std::unique_ptr
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3691
diff
changeset
|
924 std::unique_ptr<DicomValue> v(FromDcmtkBridge::ConvertLeafElement |
2a170a8f1faf
replacing std::auto_ptr by std::unique_ptr
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3691
diff
changeset
|
925 (*element, DicomToJsonFlags_Default, |
2a170a8f1faf
replacing std::auto_ptr by std::unique_ptr
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3691
diff
changeset
|
926 0, encoding, hasCodeExtensions, tmp)); |
1556
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
927 |
1737
ec66a16aa398
removal of DicomStringValue and DicomNullValue
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1736
diff
changeset
|
928 if (v.get() == NULL || |
ec66a16aa398
removal of DicomStringValue and DicomNullValue
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1736
diff
changeset
|
929 v->IsNull()) |
1307
f796207e3df1
Fix replacement and insertion of private DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1288
diff
changeset
|
930 { |
f796207e3df1
Fix replacement and insertion of private DICOM tags
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931 value = ""; |
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932 } |
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Fix replacement and insertion of private DICOM tags
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933 else |
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Fix replacement and insertion of private DICOM tags
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934 { |
1737
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935 // TODO v->IsBinary() |
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936 value = v->GetContent(); |
1307
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937 } |
1556
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938 |
1307
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Fix replacement and insertion of private DICOM tags
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939 return true; |
790 | 940 } |
941 } | |
942 | |
943 | |
944 DicomInstanceHasher ParsedDicomFile::GetHasher() | |
945 { | |
946 std::string patientId, studyUid, seriesUid, instanceUid; | |
947 | |
3446
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948 if (!GetTagValue(patientId, DICOM_TAG_PATIENT_ID)) |
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Allow anonymizing/modifying instances without the PatientID tag
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949 { |
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Allow anonymizing/modifying instances without the PatientID tag
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950 /** |
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Allow anonymizing/modifying instances without the PatientID tag
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951 * If "PatientID" is absent, be tolerant by considering it |
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952 * equals the empty string, then proceed. In Orthanc <= 1.5.6, |
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|
953 * an exception "Bad file format" was generated. |
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|
954 * https://groups.google.com/d/msg/orthanc-users/aphG_h1AHVg/rfOTtTPTAgAJ |
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955 * https://bitbucket.org/sjodogne/orthanc/commits/4c45e018bd3de3cfa21d6efc6734673aaaee4435 |
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956 **/ |
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|
957 patientId.clear(); |
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Allow anonymizing/modifying instances without the PatientID tag
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958 } |
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Allow anonymizing/modifying instances without the PatientID tag
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|
959 |
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Allow anonymizing/modifying instances without the PatientID tag
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changeset
|
960 if (!GetTagValue(studyUid, DICOM_TAG_STUDY_INSTANCE_UID) || |
790 | 961 !GetTagValue(seriesUid, DICOM_TAG_SERIES_INSTANCE_UID) || |
962 !GetTagValue(instanceUid, DICOM_TAG_SOP_INSTANCE_UID)) | |
963 { | |
3446
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964 throw OrthancException(ErrorCode_BadFileFormat, "missing StudyInstanceUID, SeriesInstanceUID or SOPInstanceUID"); |
790 | 965 } |
966 | |
967 return DicomInstanceHasher(patientId, studyUid, seriesUid, instanceUid); | |
968 } | |
969 | |
970 | |
971 void ParsedDicomFile::SaveToMemoryBuffer(std::string& buffer) | |
972 { | |
1004
a226e0959d8b
DicomInstanceToStore
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diff
changeset
|
973 FromDcmtkBridge::SaveToMemoryBuffer(buffer, *pimpl_->file_->getDataset()); |
790 | 974 } |
975 | |
976 | |
2512
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diff
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|
977 #if ORTHANC_SANDBOXED == 0 |
790 | 978 void ParsedDicomFile::SaveToFile(const std::string& path) |
979 { | |
980 // TODO Avoid using a temporary memory buffer, write directly on disk | |
981 std::string content; | |
982 SaveToMemoryBuffer(content); | |
2140 | 983 SystemToolbox::WriteFile(content, path); |
790 | 984 } |
2512
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SystemToolbox::GenerateUuid moved to Toolbox::GenerateUuid
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|
985 #endif |
790 | 986 |
987 | |
1805
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988 ParsedDicomFile::ParsedDicomFile(bool createIdentifiers) : pimpl_(new PImpl) |
790 | 989 { |
794 | 990 pimpl_->file_.reset(new DcmFileFormat); |
1805
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diff
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|
991 |
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diff
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|
992 if (createIdentifiers) |
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diff
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|
993 { |
1982
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
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|
994 ReplacePlainString(DICOM_TAG_PATIENT_ID, FromDcmtkBridge::GenerateUniqueIdentifier(ResourceType_Patient)); |
b5d4f9c156ad
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changeset
|
995 ReplacePlainString(DICOM_TAG_STUDY_INSTANCE_UID, FromDcmtkBridge::GenerateUniqueIdentifier(ResourceType_Study)); |
b5d4f9c156ad
Modification of instances can now replace PixelData
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diff
changeset
|
996 ReplacePlainString(DICOM_TAG_SERIES_INSTANCE_UID, FromDcmtkBridge::GenerateUniqueIdentifier(ResourceType_Series)); |
b5d4f9c156ad
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diff
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|
997 ReplacePlainString(DICOM_TAG_SOP_INSTANCE_UID, FromDcmtkBridge::GenerateUniqueIdentifier(ResourceType_Instance)); |
1805
f08978b1f45b
c-find scu for modality worklists
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diff
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|
998 } |
790 | 999 } |
1000 | |
791 | 1001 |
2202
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Fix handling of encodings in C-FIND requests
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diff
changeset
|
1002 void ParsedDicomFile::CreateFromDicomMap(const DicomMap& source, |
3276
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More tolerance wrt. invalid DICOM files that must be returned by Orthanc C-FIND SCP
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changeset
|
1003 Encoding defaultEncoding, |
9b0e67161600
More tolerance wrt. invalid DICOM files that must be returned by Orthanc C-FIND SCP
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changeset
|
1004 bool permissive) |
1786
164d78911382
primitives to handle dicom worklists
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1781
diff
changeset
|
1005 { |
2846
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|
1006 pimpl_->file_.reset(new DcmFileFormat); |
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|
1007 |
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|
1008 const DicomValue* tmp = source.TestAndGetValue(DICOM_TAG_SPECIFIC_CHARACTER_SET); |
2445
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Fix to allow creating DICOM instances with empty Specific Character Set (0008,0005)
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2409
diff
changeset
|
1009 |
2846
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|
1010 if (tmp == NULL) |
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simplification in SplitStudyJob, fix possible memory leak
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changeset
|
1011 { |
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simplification in SplitStudyJob, fix possible memory leak
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parents:
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diff
changeset
|
1012 SetEncoding(defaultEncoding); |
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simplification in SplitStudyJob, fix possible memory leak
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|
1013 } |
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|
1014 else if (tmp->IsBinary()) |
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simplification in SplitStudyJob, fix possible memory leak
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changeset
|
1015 { |
2954
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taking advantage of details in OrthancException
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diff
changeset
|
1016 throw OrthancException(ErrorCode_ParameterOutOfRange, |
d924f9bb61cc
taking advantage of details in OrthancException
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diff
changeset
|
1017 "Invalid binary string in the SpecificCharacterSet (0008,0005) tag"); |
2846
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simplification in SplitStudyJob, fix possible memory leak
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|
1018 } |
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simplification in SplitStudyJob, fix possible memory leak
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|
1019 else if (tmp->IsNull() || |
d386abc18133
simplification in SplitStudyJob, fix possible memory leak
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parents:
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changeset
|
1020 tmp->GetContent().empty()) |
d386abc18133
simplification in SplitStudyJob, fix possible memory leak
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parents:
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diff
changeset
|
1021 { |
d386abc18133
simplification in SplitStudyJob, fix possible memory leak
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parents:
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diff
changeset
|
1022 SetEncoding(defaultEncoding); |
d386abc18133
simplification in SplitStudyJob, fix possible memory leak
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parents:
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diff
changeset
|
1023 } |
d386abc18133
simplification in SplitStudyJob, fix possible memory leak
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parents:
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diff
changeset
|
1024 else |
d386abc18133
simplification in SplitStudyJob, fix possible memory leak
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parents:
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diff
changeset
|
1025 { |
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simplification in SplitStudyJob, fix possible memory leak
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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diff
changeset
|
1026 Encoding encoding; |
2445
6e5bc5c6d1a4
Fix to allow creating DICOM instances with empty Specific Character Set (0008,0005)
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parents:
2409
diff
changeset
|
1027 |
2846
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simplification in SplitStudyJob, fix possible memory leak
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parents:
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diff
changeset
|
1028 if (GetDicomEncoding(encoding, tmp->GetContent().c_str())) |
2202
9b373b7d6713
Fix handling of encodings in C-FIND requests
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diff
changeset
|
1029 { |
2846
d386abc18133
simplification in SplitStudyJob, fix possible memory leak
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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diff
changeset
|
1030 SetEncoding(encoding); |
2445
6e5bc5c6d1a4
Fix to allow creating DICOM instances with empty Specific Character Set (0008,0005)
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parents:
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diff
changeset
|
1031 } |
2202
9b373b7d6713
Fix handling of encodings in C-FIND requests
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parents:
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diff
changeset
|
1032 else |
9b373b7d6713
Fix handling of encodings in C-FIND requests
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2142
diff
changeset
|
1033 { |
2954
d924f9bb61cc
taking advantage of details in OrthancException
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
1034 throw OrthancException(ErrorCode_ParameterOutOfRange, |
d924f9bb61cc
taking advantage of details in OrthancException
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
1035 "Unsupported value for the SpecificCharacterSet (0008,0005) tag: \"" + |
d924f9bb61cc
taking advantage of details in OrthancException
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
1036 tmp->GetContent() + "\""); |
2202
9b373b7d6713
Fix handling of encodings in C-FIND requests
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2142
diff
changeset
|
1037 } |
9b373b7d6713
Fix handling of encodings in C-FIND requests
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parents:
2142
diff
changeset
|
1038 } |
2846
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simplification in SplitStudyJob, fix possible memory leak
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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diff
changeset
|
1039 |
3651
46cb00e4adbb
DicomMap::DumpMainDicomTags() and DicomMap::ParseMainDicomTags()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3640
diff
changeset
|
1040 for (DicomMap::Content::const_iterator |
46cb00e4adbb
DicomMap::DumpMainDicomTags() and DicomMap::ParseMainDicomTags()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3640
diff
changeset
|
1041 it = source.content_.begin(); it != source.content_.end(); ++it) |
2202
9b373b7d6713
Fix handling of encodings in C-FIND requests
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parents:
2142
diff
changeset
|
1042 { |
2846
d386abc18133
simplification in SplitStudyJob, fix possible memory leak
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2797
diff
changeset
|
1043 if (it->first != DICOM_TAG_SPECIFIC_CHARACTER_SET && |
d386abc18133
simplification in SplitStudyJob, fix possible memory leak
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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diff
changeset
|
1044 !it->second->IsNull()) |
d386abc18133
simplification in SplitStudyJob, fix possible memory leak
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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diff
changeset
|
1045 { |
3276
9b0e67161600
More tolerance wrt. invalid DICOM files that must be returned by Orthanc C-FIND SCP
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3217
diff
changeset
|
1046 try |
9b0e67161600
More tolerance wrt. invalid DICOM files that must be returned by Orthanc C-FIND SCP
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3217
diff
changeset
|
1047 { |
9b0e67161600
More tolerance wrt. invalid DICOM files that must be returned by Orthanc C-FIND SCP
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3217
diff
changeset
|
1048 ReplacePlainString(it->first, it->second->GetContent()); |
9b0e67161600
More tolerance wrt. invalid DICOM files that must be returned by Orthanc C-FIND SCP
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parents:
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diff
changeset
|
1049 } |
9b0e67161600
More tolerance wrt. invalid DICOM files that must be returned by Orthanc C-FIND SCP
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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diff
changeset
|
1050 catch (OrthancException&) |
9b0e67161600
More tolerance wrt. invalid DICOM files that must be returned by Orthanc C-FIND SCP
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parents:
3217
diff
changeset
|
1051 { |
9b0e67161600
More tolerance wrt. invalid DICOM files that must be returned by Orthanc C-FIND SCP
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3217
diff
changeset
|
1052 if (!permissive) |
9b0e67161600
More tolerance wrt. invalid DICOM files that must be returned by Orthanc C-FIND SCP
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3217
diff
changeset
|
1053 { |
9b0e67161600
More tolerance wrt. invalid DICOM files that must be returned by Orthanc C-FIND SCP
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parents:
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diff
changeset
|
1054 throw; |
9b0e67161600
More tolerance wrt. invalid DICOM files that must be returned by Orthanc C-FIND SCP
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parents:
3217
diff
changeset
|
1055 } |
9b0e67161600
More tolerance wrt. invalid DICOM files that must be returned by Orthanc C-FIND SCP
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parents:
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diff
changeset
|
1056 } |
2846
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simplification in SplitStudyJob, fix possible memory leak
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diff
changeset
|
1057 } |
2202
9b373b7d6713
Fix handling of encodings in C-FIND requests
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2142
diff
changeset
|
1058 } |
9b373b7d6713
Fix handling of encodings in C-FIND requests
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diff
changeset
|
1059 } |
9b373b7d6713
Fix handling of encodings in C-FIND requests
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2142
diff
changeset
|
1060 |
1787
1b1d5470233f
refactoring of DicomFindAnswers
Sebastien Jodogne <s.jodogne@gmail.com>
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1786
diff
changeset
|
1061 |
2202
9b373b7d6713
Fix handling of encodings in C-FIND requests
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parents:
2142
diff
changeset
|
1062 ParsedDicomFile::ParsedDicomFile(const DicomMap& map, |
3276
9b0e67161600
More tolerance wrt. invalid DICOM files that must be returned by Orthanc C-FIND SCP
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parents:
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diff
changeset
|
1063 Encoding defaultEncoding, |
9b0e67161600
More tolerance wrt. invalid DICOM files that must be returned by Orthanc C-FIND SCP
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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diff
changeset
|
1064 bool permissive) : |
2202
9b373b7d6713
Fix handling of encodings in C-FIND requests
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2142
diff
changeset
|
1065 pimpl_(new PImpl) |
9b373b7d6713
Fix handling of encodings in C-FIND requests
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2142
diff
changeset
|
1066 { |
3276
9b0e67161600
More tolerance wrt. invalid DICOM files that must be returned by Orthanc C-FIND SCP
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3217
diff
changeset
|
1067 CreateFromDicomMap(map, defaultEncoding, permissive); |
2202
9b373b7d6713
Fix handling of encodings in C-FIND requests
Sebastien Jodogne <s.jodogne@gmail.com>
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2142
diff
changeset
|
1068 } |
9b373b7d6713
Fix handling of encodings in C-FIND requests
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2142
diff
changeset
|
1069 |
9b373b7d6713
Fix handling of encodings in C-FIND requests
Sebastien Jodogne <s.jodogne@gmail.com>
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2142
diff
changeset
|
1070 |
1800
30e97a1f4093
callback for handling worklists with plugins
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1788
diff
changeset
|
1071 ParsedDicomFile::ParsedDicomFile(const void* content, |
30e97a1f4093
callback for handling worklists with plugins
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
1072 size_t size) : pimpl_(new PImpl) |
791 | 1073 { |
1935
e251606c1433
FromDcmtkBridge::LoadFromMemoryBuffer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1934
diff
changeset
|
1074 pimpl_->file_.reset(FromDcmtkBridge::LoadFromMemoryBuffer(content, size)); |
791 | 1075 } |
1076 | |
794 | 1077 ParsedDicomFile::ParsedDicomFile(const std::string& content) : pimpl_(new PImpl) |
791 | 1078 { |
1079 if (content.size() == 0) | |
1080 { | |
1935
e251606c1433
FromDcmtkBridge::LoadFromMemoryBuffer
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parents:
1934
diff
changeset
|
1081 pimpl_->file_.reset(FromDcmtkBridge::LoadFromMemoryBuffer(NULL, 0)); |
791 | 1082 } |
1083 else | |
1084 { | |
1935
e251606c1433
FromDcmtkBridge::LoadFromMemoryBuffer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1934
diff
changeset
|
1085 pimpl_->file_.reset(FromDcmtkBridge::LoadFromMemoryBuffer(&content[0], content.size())); |
791 | 1086 } |
1087 } | |
792 | 1088 |
1089 | |
2521
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support anonymization of CurrentRequestedProcedureEvidenceSequence
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
1090 ParsedDicomFile::ParsedDicomFile(ParsedDicomFile& other, |
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diff
changeset
|
1091 bool keepSopInstanceUid) : |
794 | 1092 pimpl_(new PImpl) |
792 | 1093 { |
794 | 1094 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
|
1095 |
2521
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support anonymization of CurrentRequestedProcedureEvidenceSequence
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
1096 if (!keepSopInstanceUid) |
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diff
changeset
|
1097 { |
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parents:
2512
diff
changeset
|
1098 // Create a new instance-level identifier |
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support anonymization of CurrentRequestedProcedureEvidenceSequence
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diff
changeset
|
1099 ReplacePlainString(DICOM_TAG_SOP_INSTANCE_UID, FromDcmtkBridge::GenerateUniqueIdentifier(ResourceType_Instance)); |
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diff
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|
1100 } |
792 | 1101 } |
1102 | |
1103 | |
1788
6a2d507ef064
getting rid of opaque data structures
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1787
diff
changeset
|
1104 ParsedDicomFile::ParsedDicomFile(DcmDataset& dicom) : pimpl_(new PImpl) |
6a2d507ef064
getting rid of opaque data structures
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parents:
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diff
changeset
|
1105 { |
6a2d507ef064
getting rid of opaque data structures
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1787
diff
changeset
|
1106 pimpl_->file_.reset(new DcmFileFormat(&dicom)); |
6a2d507ef064
getting rid of opaque data structures
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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diff
changeset
|
1107 } |
6a2d507ef064
getting rid of opaque data structures
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1787
diff
changeset
|
1108 |
6a2d507ef064
getting rid of opaque data structures
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1787
diff
changeset
|
1109 |
6a2d507ef064
getting rid of opaque data structures
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1787
diff
changeset
|
1110 ParsedDicomFile::ParsedDicomFile(DcmFileFormat& dicom) : pimpl_(new PImpl) |
6a2d507ef064
getting rid of opaque data structures
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parents:
1787
diff
changeset
|
1111 { |
6a2d507ef064
getting rid of opaque data structures
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1787
diff
changeset
|
1112 pimpl_->file_.reset(new DcmFileFormat(dicom)); |
6a2d507ef064
getting rid of opaque data structures
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1787
diff
changeset
|
1113 } |
6a2d507ef064
getting rid of opaque data structures
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1787
diff
changeset
|
1114 |
6a2d507ef064
getting rid of opaque data structures
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1787
diff
changeset
|
1115 |
1824
b530c3dfe2a6
refactoring image decoding
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1818
diff
changeset
|
1116 DcmFileFormat& ParsedDicomFile::GetDcmtkObject() const |
793 | 1117 { |
1788
6a2d507ef064
getting rid of opaque data structures
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1787
diff
changeset
|
1118 return *pimpl_->file_.get(); |
793 | 1119 } |
1120 | |
1121 | |
2521
6db878376018
support anonymization of CurrentRequestedProcedureEvidenceSequence
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2512
diff
changeset
|
1122 ParsedDicomFile* ParsedDicomFile::Clone(bool keepSopInstanceUid) |
793 | 1123 { |
2521
6db878376018
support anonymization of CurrentRequestedProcedureEvidenceSequence
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2512
diff
changeset
|
1124 return new ParsedDicomFile(*this, keepSopInstanceUid); |
793 | 1125 } |
800
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1126 |
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1127 |
1982
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1128 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
|
1129 { |
2908
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1130 std::string mimeString, content; |
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1131 if (!Toolbox::DecodeDataUriScheme(mimeString, content, dataUriScheme)) |
1981
4b545a8b1f95
return code in Toolbox::DecodeDataUriScheme
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1980
diff
changeset
|
1132 { |
1982
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1133 return false; |
1981
4b545a8b1f95
return code in Toolbox::DecodeDataUriScheme
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1980
diff
changeset
|
1134 } |
4b545a8b1f95
return code in Toolbox::DecodeDataUriScheme
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1980
diff
changeset
|
1135 |
2908
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1136 Toolbox::ToLowerCase(mimeString); |
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1137 MimeType mime = StringToMimeType(mimeString); |
1555
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1138 |
2908
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1139 switch (mime) |
1562 | 1140 { |
2908
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1141 case MimeType_Png: |
2380
96b3ec054b69
reorganization in macros
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2310
diff
changeset
|
1142 #if ORTHANC_ENABLE_PNG == 1 |
2908
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1143 EmbedImage(mime, content); |
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1144 break; |
2380
96b3ec054b69
reorganization in macros
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2310
diff
changeset
|
1145 #else |
2954
d924f9bb61cc
taking advantage of details in OrthancException
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2924
diff
changeset
|
1146 throw OrthancException(ErrorCode_NotImplemented, |
d924f9bb61cc
taking advantage of details in OrthancException
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2924
diff
changeset
|
1147 "Orthanc was compiled without support of PNG"); |
2908
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1148 #endif |
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1149 |
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1150 case MimeType_Jpeg: |
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1151 #if ORTHANC_ENABLE_JPEG == 1 |
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1152 EmbedImage(mime, content); |
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1153 break; |
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1154 #else |
2954
d924f9bb61cc
taking advantage of details in OrthancException
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2924
diff
changeset
|
1155 throw OrthancException(ErrorCode_NotImplemented, |
d924f9bb61cc
taking advantage of details in OrthancException
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2924
diff
changeset
|
1156 "Orthanc was compiled without support of JPEG"); |
2380
96b3ec054b69
reorganization in macros
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2310
diff
changeset
|
1157 #endif |
2908
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1158 |
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1159 case MimeType_Pam: |
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1160 EmbedImage(mime, content); |
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1161 break; |
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1162 |
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1163 case MimeType_Pdf: |
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1164 EmbedPdf(content); |
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1165 break; |
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1166 |
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1167 default: |
2954
d924f9bb61cc
taking advantage of details in OrthancException
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2924
diff
changeset
|
1168 throw OrthancException(ErrorCode_NotImplemented, |
2989 | 1169 "Unsupported MIME type for the content of a new DICOM file: " + |
1170 std::string(EnumerationToString(mime))); | |
1562 | 1171 } |
1982
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1172 |
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1173 return true; |
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1174 } |
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1175 |
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1176 |
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1177 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
|
1178 { |
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1179 if (!EmbedContentInternal(dataUriScheme)) |
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1180 { |
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1181 throw OrthancException(ErrorCode_BadFileFormat); |
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1182 } |
1555
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1183 } |
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1184 |
800
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1185 |
2908
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1186 void ParsedDicomFile::EmbedImage(MimeType mime, |
1555
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1187 const std::string& content) |
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1188 { |
2908
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1189 switch (mime) |
2905
ae20fccdd867
refactoring mime types
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2889
diff
changeset
|
1190 { |
2908
9d277f8ad698
new enumeration: MimeType
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parents:
2905
diff
changeset
|
1191 |
9d277f8ad698
new enumeration: MimeType
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parents:
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diff
changeset
|
1192 #if ORTHANC_ENABLE_JPEG == 1 |
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1193 case MimeType_Jpeg: |
9d277f8ad698
new enumeration: MimeType
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parents:
2905
diff
changeset
|
1194 { |
9d277f8ad698
new enumeration: MimeType
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parents:
2905
diff
changeset
|
1195 JpegReader reader; |
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1196 reader.ReadFromMemory(content); |
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1197 EmbedImage(reader); |
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1198 break; |
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1199 } |
2905
ae20fccdd867
refactoring mime types
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parents:
2889
diff
changeset
|
1200 #endif |
ae20fccdd867
refactoring mime types
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2889
diff
changeset
|
1201 |
ae20fccdd867
refactoring mime types
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2889
diff
changeset
|
1202 #if ORTHANC_ENABLE_PNG == 1 |
2908
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1203 case MimeType_Png: |
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1204 { |
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1205 PngReader reader; |
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1206 reader.ReadFromMemory(content); |
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1207 EmbedImage(reader); |
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1208 break; |
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1209 } |
2905
ae20fccdd867
refactoring mime types
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2889
diff
changeset
|
1210 #endif |
ae20fccdd867
refactoring mime types
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2889
diff
changeset
|
1211 |
2908
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1212 case MimeType_Pam: |
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1213 { |
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1214 PamReader reader; |
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1215 reader.ReadFromMemory(content); |
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1216 EmbedImage(reader); |
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1217 break; |
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1218 } |
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1219 |
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1220 default: |
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1221 throw OrthancException(ErrorCode_NotImplemented); |
800
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1222 } |
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1223 } |
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 void ParsedDicomFile::EmbedImage(const ImageAccessor& accessor) |
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 if (accessor.GetFormat() != PixelFormat_Grayscale8 && |
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1229 accessor.GetFormat() != PixelFormat_Grayscale16 && |
1941
d7b176f7dd1b
test dicom patterns
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1935
diff
changeset
|
1230 accessor.GetFormat() != PixelFormat_SignedGrayscale16 && |
800
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1231 accessor.GetFormat() != PixelFormat_RGB24 && |
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1232 accessor.GetFormat() != PixelFormat_RGBA32) |
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1233 { |
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1234 throw OrthancException(ErrorCode_NotImplemented); |
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 |
1982
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1237 InvalidateCache(); |
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1238 |
800
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1239 if (accessor.GetFormat() == PixelFormat_RGBA32) |
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1240 { |
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1241 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
|
1242 } |
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1243 |
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1244 // 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
|
1245 |
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1246 Remove(DICOM_TAG_PIXEL_DATA); |
1982
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1247 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
|
1248 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
|
1249 ReplacePlainString(DICOM_TAG_SAMPLES_PER_PIXEL, "1"); |
2910
83133583183d
minor fixes if embedding images within DICOM
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2908
diff
changeset
|
1250 |
83133583183d
minor fixes if embedding images within DICOM
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2908
diff
changeset
|
1251 // The "Number of frames" must only be present in multi-frame images |
83133583183d
minor fixes if embedding images within DICOM
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2908
diff
changeset
|
1252 //ReplacePlainString(DICOM_TAG_NUMBER_OF_FRAMES, "1"); |
1941
d7b176f7dd1b
test dicom patterns
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1935
diff
changeset
|
1253 |
d7b176f7dd1b
test dicom patterns
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1935
diff
changeset
|
1254 if (accessor.GetFormat() == PixelFormat_SignedGrayscale16) |
d7b176f7dd1b
test dicom patterns
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1935
diff
changeset
|
1255 { |
1982
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1256 ReplacePlainString(DICOM_TAG_PIXEL_REPRESENTATION, "1"); |
1941
d7b176f7dd1b
test dicom patterns
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1935
diff
changeset
|
1257 } |
d7b176f7dd1b
test dicom patterns
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1935
diff
changeset
|
1258 else |
d7b176f7dd1b
test dicom patterns
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1935
diff
changeset
|
1259 { |
1982
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1260 ReplacePlainString(DICOM_TAG_PIXEL_REPRESENTATION, "0"); // Unsigned pixels |
1941
d7b176f7dd1b
test dicom patterns
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1935
diff
changeset
|
1261 } |
d7b176f7dd1b
test dicom patterns
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1935
diff
changeset
|
1262 |
d7b176f7dd1b
test dicom patterns
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1935
diff
changeset
|
1263 unsigned int bytesPerPixel = 0; |
800
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1264 |
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1265 switch (accessor.GetFormat()) |
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1266 { |
1941
d7b176f7dd1b
test dicom patterns
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1935
diff
changeset
|
1267 case PixelFormat_Grayscale8: |
2910
83133583183d
minor fixes if embedding images within DICOM
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2908
diff
changeset
|
1268 // By default, grayscale images are MONOCHROME2 |
83133583183d
minor fixes if embedding images within DICOM
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2908
diff
changeset
|
1269 SetIfAbsent(DICOM_TAG_PHOTOMETRIC_INTERPRETATION, "MONOCHROME2"); |
83133583183d
minor fixes if embedding images within DICOM
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2908
diff
changeset
|
1270 |
1982
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1271 ReplacePlainString(DICOM_TAG_BITS_ALLOCATED, "8"); |
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1272 ReplacePlainString(DICOM_TAG_BITS_STORED, "8"); |
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1273 ReplacePlainString(DICOM_TAG_HIGH_BIT, "7"); |
1941
d7b176f7dd1b
test dicom patterns
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1935
diff
changeset
|
1274 bytesPerPixel = 1; |
d7b176f7dd1b
test dicom patterns
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1935
diff
changeset
|
1275 break; |
d7b176f7dd1b
test dicom patterns
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1935
diff
changeset
|
1276 |
800
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1277 case PixelFormat_RGB24: |
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1278 case PixelFormat_RGBA32: |
1982
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1279 ReplacePlainString(DICOM_TAG_PHOTOMETRIC_INTERPRETATION, "RGB"); |
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1280 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
|
1281 ReplacePlainString(DICOM_TAG_BITS_ALLOCATED, "8"); |
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1282 ReplacePlainString(DICOM_TAG_BITS_STORED, "8"); |
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1283 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
|
1284 bytesPerPixel = 3; |
2910
83133583183d
minor fixes if embedding images within DICOM
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2908
diff
changeset
|
1285 |
83133583183d
minor fixes if embedding images within DICOM
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2908
diff
changeset
|
1286 // "Planar configuration" must only present if "Samples per |
83133583183d
minor fixes if embedding images within DICOM
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2908
diff
changeset
|
1287 // Pixel" is greater than 1 |
83133583183d
minor fixes if embedding images within DICOM
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2908
diff
changeset
|
1288 ReplacePlainString(DICOM_TAG_PLANAR_CONFIGURATION, "0"); // Color channels are interleaved |
83133583183d
minor fixes if embedding images within DICOM
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2908
diff
changeset
|
1289 |
800
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1290 break; |
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1291 |
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1292 case PixelFormat_Grayscale16: |
1941
d7b176f7dd1b
test dicom patterns
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1935
diff
changeset
|
1293 case PixelFormat_SignedGrayscale16: |
2910
83133583183d
minor fixes if embedding images within DICOM
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2908
diff
changeset
|
1294 // By default, grayscale images are MONOCHROME2 |
83133583183d
minor fixes if embedding images within DICOM
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2908
diff
changeset
|
1295 SetIfAbsent(DICOM_TAG_PHOTOMETRIC_INTERPRETATION, "MONOCHROME2"); |
83133583183d
minor fixes if embedding images within DICOM
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2908
diff
changeset
|
1296 |
1982
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1297 ReplacePlainString(DICOM_TAG_BITS_ALLOCATED, "16"); |
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1298 ReplacePlainString(DICOM_TAG_BITS_STORED, "16"); |
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1299 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
|
1300 bytesPerPixel = 2; |
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1301 break; |
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1302 |
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1303 default: |
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1304 throw OrthancException(ErrorCode_NotImplemented); |
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1305 } |
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1306 |
1941
d7b176f7dd1b
test dicom patterns
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1935
diff
changeset
|
1307 assert(bytesPerPixel != 0); |
d7b176f7dd1b
test dicom patterns
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1935
diff
changeset
|
1308 |
800
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1309 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
|
1310 DICOM_TAG_PIXEL_DATA.GetElement()); |
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1311 |
3712
2a170a8f1faf
replacing std::auto_ptr by std::unique_ptr
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3691
diff
changeset
|
1312 std::unique_ptr<DcmPixelData> pixels(new DcmPixelData(key)); |
800
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1313 |
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1314 unsigned int pitch = accessor.GetWidth() * bytesPerPixel; |
ecedd89055db
generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
799
diff
changeset
|
1315 Uint8* target = NULL; |
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generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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diff
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|
1316 pixels->createUint8Array(accessor.GetHeight() * pitch, target); |
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generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
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|
1317 |
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Sebastien Jodogne <s.jodogne@gmail.com>
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diff
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|
1318 for (unsigned int y = 0; y < accessor.GetHeight(); y++) |
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generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
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|
1319 { |
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generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
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|
1320 switch (accessor.GetFormat()) |
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generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
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|
1321 { |
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generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
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|
1322 case PixelFormat_RGB24: |
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generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
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|
1323 case PixelFormat_Grayscale8: |
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generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
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|
1324 case PixelFormat_Grayscale16: |
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Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
1325 case PixelFormat_SignedGrayscale16: |
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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diff
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|
1326 { |
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generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
1327 memcpy(target, reinterpret_cast<const Uint8*>(accessor.GetConstRow(y)), pitch); |
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generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
1328 target += pitch; |
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Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
1329 break; |
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generation of DICOM images from PNG files
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diff
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|
1330 } |
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generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
1331 |
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generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
1332 case PixelFormat_RGBA32: |
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generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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diff
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|
1333 { |
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generation of DICOM images from PNG files
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
1334 // The alpha channel is not supported by the DICOM standard |
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Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
1335 const Uint8* source = reinterpret_cast<const Uint8*>(accessor.GetConstRow(y)); |
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diff
changeset
|
1336 for (unsigned int x = 0; x < accessor.GetWidth(); x++, target += 3, source += 4) |
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diff
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|
1337 { |
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Sebastien Jodogne <s.jodogne@gmail.com>
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diff
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|
1338 target[0] = source[0]; |
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diff
changeset
|
1339 target[1] = source[1]; |
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Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
1340 target[2] = source[2]; |
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diff
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|
1341 } |
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diff
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|
1342 |
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diff
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|
1343 break; |
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diff
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|
1344 } |
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|
1345 |
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Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
1346 default: |
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Sebastien Jodogne <s.jodogne@gmail.com>
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|
1347 throw OrthancException(ErrorCode_NotImplemented); |
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|
1348 } |
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|
1349 } |
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|
1350 |
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|
1351 if (!pimpl_->file_->getDataset()->insert(pixels.release(), false, false).good()) |
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|
1352 { |
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|
1353 throw OrthancException(ErrorCode_InternalError); |
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1354 } |
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|
1355 } |
874
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diff
changeset
|
1356 |
87791ebc1f50
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Sebastien Jodogne <s.jodogne@gmail.com>
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1357 |
3217
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1358 Encoding ParsedDicomFile::DetectEncoding(bool& hasCodeExtensions) const |
956
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diff
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1359 { |
3217
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|
1360 return FromDcmtkBridge::DetectEncoding(hasCodeExtensions, |
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|
1361 *pimpl_->file_->getDataset(), |
2381
b8969010b534
uncoupling DCMTK primitives from Orthanc::Configuration
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
1362 GetDefaultDicomEncoding()); |
956
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diff
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|
1363 } |
1090
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1364 |
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1365 |
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1366 void ParsedDicomFile::SetEncoding(Encoding encoding) |
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1367 { |
1558
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1368 if (encoding == Encoding_Windows1251) |
1090
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1369 { |
1558
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1370 // This Cyrillic codepage is not officially supported by the |
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1371 // DICOM standard. Do not set the SpecificCharacterSet tag. |
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1372 return; |
1090
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1373 } |
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1374 |
1565
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diff
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1375 std::string s = GetDicomSpecificCharacterSet(encoding); |
1982
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Modification of instances can now replace PixelData
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1376 ReplacePlainString(DICOM_TAG_SPECIFIC_CHARACTER_SET, s); |
1090
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1377 } |
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1378 |
2128
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Possibility to DELETE "dicom-as-json" attachments to reconstruct them
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diff
changeset
|
1379 void ParsedDicomFile::DatasetToJson(Json::Value& target, |
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|
1380 DicomToJsonFormat format, |
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|
1381 DicomToJsonFlags flags, |
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|
1382 unsigned int maxStringLength) |
1160
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diff
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|
1383 { |
2409
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diff
changeset
|
1384 std::set<DicomTag> ignoreTagLength; |
2126 | 1385 FromDcmtkBridge::ExtractDicomAsJson(target, *pimpl_->file_->getDataset(), |
2409
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changeset
|
1386 format, flags, maxStringLength, |
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1387 GetDefaultDicomEncoding(), ignoreTagLength); |
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1388 } |
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1389 |
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1390 |
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changeset
|
1391 void ParsedDicomFile::DatasetToJson(Json::Value& target, |
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1392 DicomToJsonFormat format, |
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changeset
|
1393 DicomToJsonFlags flags, |
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|
1394 unsigned int maxStringLength, |
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|
1395 const std::set<DicomTag>& ignoreTagLength) |
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1396 { |
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|
1397 FromDcmtkBridge::ExtractDicomAsJson(target, *pimpl_->file_->getDataset(), |
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1398 format, flags, maxStringLength, |
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|
1399 GetDefaultDicomEncoding(), ignoreTagLength); |
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1400 } |
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1401 |
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1402 |
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|
1403 void ParsedDicomFile::DatasetToJson(Json::Value& target, |
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|
1404 const std::set<DicomTag>& ignoreTagLength) |
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1405 { |
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|
1406 FromDcmtkBridge::ExtractDicomAsJson(target, *pimpl_->file_->getDataset(), ignoreTagLength); |
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1407 } |
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1408 |
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1409 |
2128
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|
1410 void ParsedDicomFile::DatasetToJson(Json::Value& target) |
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1411 { |
2409
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changeset
|
1412 const std::set<DicomTag> ignoreTagLength; |
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|
1413 FromDcmtkBridge::ExtractDicomAsJson(target, *pimpl_->file_->getDataset(), ignoreTagLength); |
2128
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1414 } |
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1415 |
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Possibility to DELETE "dicom-as-json" attachments to reconstruct them
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diff
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|
1416 |
1831
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"/instances/.../header" to get the meta information (header) of the DICOM instance
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diff
changeset
|
1417 void ParsedDicomFile::HeaderToJson(Json::Value& target, |
3ae2ff249675
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changeset
|
1418 DicomToJsonFormat format) |
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"/instances/.../header" to get the meta information (header) of the DICOM instance
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changeset
|
1419 { |
2126 | 1420 FromDcmtkBridge::ExtractHeaderAsJson(target, *pimpl_->file_->getMetaInfo(), format, DicomToJsonFlags_None, 0); |
1831
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1421 } |
3ae2ff249675
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1422 |
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|
1423 |
1555
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diff
changeset
|
1424 bool ParsedDicomFile::HasTag(const DicomTag& tag) const |
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diff
changeset
|
1425 { |
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diff
changeset
|
1426 DcmTag key(tag.GetGroup(), tag.GetElement()); |
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1427 return pimpl_->file_->getDataset()->tagExists(key); |
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1428 } |
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1429 |
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1430 |
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1431 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
|
1432 { |
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1433 if (pdf.size() < 5 || // (*) |
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1434 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
|
1435 { |
2954
d924f9bb61cc
taking advantage of details in OrthancException
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2924
diff
changeset
|
1436 throw OrthancException(ErrorCode_BadFileFormat, "Not a PDF file"); |
1555
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1437 } |
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1438 |
1982
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1439 InvalidateCache(); |
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1440 |
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1441 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
|
1442 ReplacePlainString(FromDcmtkBridge::Convert(DCM_Modality), "OT"); |
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1443 ReplacePlainString(FromDcmtkBridge::Convert(DCM_ConversionType), "WSD"); |
2905
ae20fccdd867
refactoring mime types
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2889
diff
changeset
|
1444 ReplacePlainString(FromDcmtkBridge::Convert(DCM_MIMETypeOfEncapsulatedDocument), MIME_PDF); |
1982
b5d4f9c156ad
Modification of instances can now replace PixelData
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1981
diff
changeset
|
1445 //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
|
1446 |
3712
2a170a8f1faf
replacing std::auto_ptr by std::unique_ptr
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3691
diff
changeset
|
1447 std::unique_ptr<DcmPolymorphOBOW> element(new DcmPolymorphOBOW(DCM_EncapsulatedDocument)); |
1555
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1448 |
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1449 size_t s = pdf.size(); |
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1450 if (s & 1) |
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1451 { |
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1452 // 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
|
1453 s += 1; |
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1454 } |
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1455 |
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1456 Uint8* bytes = NULL; |
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1457 OFCondition result = element->createUint8Array(s, bytes); |
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1458 if (!result.good() || bytes == NULL) |
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1459 { |
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1460 throw OrthancException(ErrorCode_NotEnoughMemory); |
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1461 } |
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1462 |
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1463 // 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
|
1464 bytes[s - 1] = 0; |
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1465 |
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1466 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
|
1467 |
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1468 DcmPolymorphOBOW* obj = element.release(); |
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1469 result = pimpl_->file_->getDataset()->insert(obj); |
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1470 |
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1471 if (!result.good()) |
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1472 { |
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1473 delete obj; |
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1474 throw OrthancException(ErrorCode_NotEnoughMemory); |
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1475 } |
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1476 } |
d6a93e12b1c1
Creation of DICOM files with encapsulated PDF
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1523
diff
changeset
|
1477 |
1556
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1478 |
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1479 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
|
1480 { |
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1481 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
|
1482 |
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1483 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
|
1484 !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
|
1485 sop != UID_EncapsulatedPDFStorage || |
2905
ae20fccdd867
refactoring mime types
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2889
diff
changeset
|
1486 mime != MIME_PDF) |
1556
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1487 { |
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1488 return false; |
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1489 } |
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1490 |
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1491 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
|
1492 { |
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1493 return false; |
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1494 } |
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1495 |
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1496 // 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
|
1497 // 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
|
1498 // 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
|
1499 // 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
|
1500 // 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
|
1501 if (pdf.size() > 0) |
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1502 { |
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1503 char last = *pdf.rbegin(); |
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1504 |
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1505 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
|
1506 { |
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1507 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
|
1508 } |
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1509 } |
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1510 |
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1511 return true; |
b8dc2f855a83
Preview of PDF files encapsulated in DICOM from Orthanc Explorer
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1555
diff
changeset
|
1512 } |
1662
09be34b2f30e
ParsedDicomFile::Convert()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1655
diff
changeset
|
1513 |
09be34b2f30e
ParsedDicomFile::Convert()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1655
diff
changeset
|
1514 |
1818
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1515 ParsedDicomFile* ParsedDicomFile::CreateFromJson(const Json::Value& json, |
3691
4922bdd046dd
Fix issue #140 (Modifying private tags with REST API changes VR from LO to UN) - DANGEROUS COMMIT
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3651
diff
changeset
|
1516 DicomFromJsonFlags flags, |
4922bdd046dd
Fix issue #140 (Modifying private tags with REST API changes VR from LO to UN) - DANGEROUS COMMIT
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3651
diff
changeset
|
1517 const std::string& privateCreator) |
1818
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1518 { |
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
|
1519 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
|
1520 const bool decodeDataUriScheme = (flags & DicomFromJsonFlags_DecodeDataUriScheme) ? true : false; |
1818
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1521 |
3712
2a170a8f1faf
replacing std::auto_ptr by std::unique_ptr
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3691
diff
changeset
|
1522 std::unique_ptr<ParsedDicomFile> result(new ParsedDicomFile(generateIdentifiers)); |
2381
b8969010b534
uncoupling DCMTK primitives from Orthanc::Configuration
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2380
diff
changeset
|
1523 result->SetEncoding(FromDcmtkBridge::ExtractEncoding(json, GetDefaultDicomEncoding())); |
1818
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1524 |
1934
72a2fd7fed8b
FromDcmtkBridge::FromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1929
diff
changeset
|
1525 const Json::Value::Members tags = json.getMemberNames(); |
72a2fd7fed8b
FromDcmtkBridge::FromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1929
diff
changeset
|
1526 |
1818
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1527 for (size_t i = 0; i < tags.size(); i++) |
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1528 { |
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1529 DicomTag tag = FromDcmtkBridge::ParseTag(tags[i]); |
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1530 const Json::Value& value = json[tags[i]]; |
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1531 |
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1532 if (tag == DICOM_TAG_PIXEL_DATA || |
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1533 tag == DICOM_TAG_ENCAPSULATED_DOCUMENT) |
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1534 { |
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1535 if (value.type() != Json::stringValue) |
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1536 { |
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1537 throw OrthancException(ErrorCode_BadRequest); |
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1538 } |
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1539 else |
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1540 { |
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1541 result->EmbedContent(value.asString()); |
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1542 } |
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1543 } |
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1544 else if (tag != DICOM_TAG_SPECIFIC_CHARACTER_SET) |
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1545 { |
3691
4922bdd046dd
Fix issue #140 (Modifying private tags with REST API changes VR from LO to UN) - DANGEROUS COMMIT
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3651
diff
changeset
|
1546 result->Replace(tag, value, decodeDataUriScheme, DicomReplaceMode_InsertIfAbsent, privateCreator); |
1818
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1547 } |
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1548 } |
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1549 |
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1550 return result.release(); |
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1805
diff
changeset
|
1551 } |
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
|
1552 |
6c73df12ca51
New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1913
diff
changeset
|
1553 |
6c73df12ca51
New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1913
diff
changeset
|
1554 void ParsedDicomFile::GetRawFrame(std::string& target, |
2908
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1555 MimeType& mime, |
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
|
1556 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
|
1557 { |
6c73df12ca51
New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1913
diff
changeset
|
1558 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
|
1559 { |
3745
113a7b994a12
extracting the raw frame in the transcoder
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3712
diff
changeset
|
1560 assert(pimpl_->file_ != NULL && |
113a7b994a12
extracting the raw frame in the transcoder
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3712
diff
changeset
|
1561 pimpl_->file_->getDataset() != NULL); |
113a7b994a12
extracting the raw frame in the transcoder
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3712
diff
changeset
|
1562 pimpl_->frameIndex_.reset(new DicomFrameIndex(*pimpl_->file_->getDataset())); |
1924
6c73df12ca51
New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1913
diff
changeset
|
1563 } |
6c73df12ca51
New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1913
diff
changeset
|
1564 |
6c73df12ca51
New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1913
diff
changeset
|
1565 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
|
1566 |
6c73df12ca51
New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1913
diff
changeset
|
1567 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
|
1568 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
|
1569 { |
1946
40b7a0176305
fix compilation against DCMTK 3.6.1
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1945
diff
changeset
|
1570 case EXS_JPEGProcess1: |
2908
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1571 mime = MimeType_Jpeg; |
1924
6c73df12ca51
New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1913
diff
changeset
|
1572 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
|
1573 |
6c73df12ca51
New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1913
diff
changeset
|
1574 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
|
1575 case EXS_JPEG2000: |
2908
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1576 mime = MimeType_Jpeg2000; |
2016 | 1577 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
|
1578 |
6c73df12ca51
New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1913
diff
changeset
|
1579 default: |
2908
9d277f8ad698
new enumeration: MimeType
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2905
diff
changeset
|
1580 mime = MimeType_Binary; |
1924
6c73df12ca51
New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1913
diff
changeset
|
1581 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
|
1582 } |
6c73df12ca51
New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1913
diff
changeset
|
1583 } |
6c73df12ca51
New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1913
diff
changeset
|
1584 |
6c73df12ca51
New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1913
diff
changeset
|
1585 |
6c73df12ca51
New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1913
diff
changeset
|
1586 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
|
1587 { |
6c73df12ca51
New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1913
diff
changeset
|
1588 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
|
1589 } |
1950
533ff46e944b
return a single raw frame from DICOM videos
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1946
diff
changeset
|
1590 |
533ff46e944b
return a single raw frame from DICOM videos
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1946
diff
changeset
|
1591 |
533ff46e944b
return a single raw frame from DICOM videos
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1946
diff
changeset
|
1592 unsigned int ParsedDicomFile::GetFramesCount() const |
533ff46e944b
return a single raw frame from DICOM videos
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1946
diff
changeset
|
1593 { |
3745
113a7b994a12
extracting the raw frame in the transcoder
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3712
diff
changeset
|
1594 assert(pimpl_->file_ != NULL && |
113a7b994a12
extracting the raw frame in the transcoder
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3712
diff
changeset
|
1595 pimpl_->file_->getDataset() != NULL); |
113a7b994a12
extracting the raw frame in the transcoder
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3712
diff
changeset
|
1596 return DicomFrameIndex::GetFramesCount(*pimpl_->file_->getDataset()); |
1950
533ff46e944b
return a single raw frame from DICOM videos
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1946
diff
changeset
|
1597 } |
2207
6dc3bdb4088b
Fix handling of encodings in C-FIND for worklists
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2202
diff
changeset
|
1598 |
6dc3bdb4088b
Fix handling of encodings in C-FIND for worklists
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2202
diff
changeset
|
1599 |
6dc3bdb4088b
Fix handling of encodings in C-FIND for worklists
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2202
diff
changeset
|
1600 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
|
1601 { |
3217
cf8cbeb35f33
preliminary support of Korean character set
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3060
diff
changeset
|
1602 bool hasCodeExtensions; |
cf8cbeb35f33
preliminary support of Korean character set
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3060
diff
changeset
|
1603 Encoding source = DetectEncoding(hasCodeExtensions); |
2207
6dc3bdb4088b
Fix handling of encodings in C-FIND for worklists
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2202
diff
changeset
|
1604 |
6dc3bdb4088b
Fix handling of encodings in C-FIND for worklists
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2202
diff
changeset
|
1605 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
|
1606 { |
6dc3bdb4088b
Fix handling of encodings in C-FIND for worklists
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2202
diff
changeset
|
1607 ReplacePlainString(DICOM_TAG_SPECIFIC_CHARACTER_SET, GetDicomSpecificCharacterSet(target)); |
3217
cf8cbeb35f33
preliminary support of Korean character set
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3060
diff
changeset
|
1608 FromDcmtkBridge::ChangeStringEncoding(*pimpl_->file_->getDataset(), source, hasCodeExtensions, target); |
2207
6dc3bdb4088b
Fix handling of encodings in C-FIND for worklists
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2202
diff
changeset
|
1609 } |
6dc3bdb4088b
Fix handling of encodings in C-FIND for worklists
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2202
diff
changeset
|
1610 } |
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
|
1611 |
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2207
diff
changeset
|
1612 |
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2207
diff
changeset
|
1613 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
|
1614 { |
2381
b8969010b534
uncoupling DCMTK primitives from Orthanc::Configuration
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2380
diff
changeset
|
1615 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
|
1616 } |
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2207
diff
changeset
|
1617 |
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2207
diff
changeset
|
1618 |
3577
33cfcc74d1b1
argument "ignoreTagLength" to ParsedDicomFile::ExtractDicomSummary()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3446
diff
changeset
|
1619 void ParsedDicomFile::ExtractDicomSummary(DicomMap& target, |
33cfcc74d1b1
argument "ignoreTagLength" to ParsedDicomFile::ExtractDicomSummary()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3446
diff
changeset
|
1620 const std::set<DicomTag>& ignoreTagLength) const |
33cfcc74d1b1
argument "ignoreTagLength" to ParsedDicomFile::ExtractDicomSummary()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3446
diff
changeset
|
1621 { |
33cfcc74d1b1
argument "ignoreTagLength" to ParsedDicomFile::ExtractDicomSummary()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3446
diff
changeset
|
1622 FromDcmtkBridge::ExtractDicomSummary(target, *pimpl_->file_->getDataset(), ignoreTagLength); |
33cfcc74d1b1
argument "ignoreTagLength" to ParsedDicomFile::ExtractDicomSummary()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3446
diff
changeset
|
1623 } |
33cfcc74d1b1
argument "ignoreTagLength" to ParsedDicomFile::ExtractDicomSummary()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3446
diff
changeset
|
1624 |
33cfcc74d1b1
argument "ignoreTagLength" to ParsedDicomFile::ExtractDicomSummary()
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
3446
diff
changeset
|
1625 |
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
|
1626 bool ParsedDicomFile::LookupTransferSyntax(std::string& result) |
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2207
diff
changeset
|
1627 { |
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2207
diff
changeset
|
1628 return FromDcmtkBridge::LookupTransferSyntax(result, *pimpl_->file_); |
e3fd5bc429a2
URI to reconstruct the main DICOM tags, the JSON summary and the metadata
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2207
diff
changeset
|
1629 } |
2281
e002430baa41
Fix issue #44 (Bad interpretation of photometric interpretation MONOCHROME1)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2244
diff
changeset
|
1630 |
e002430baa41
Fix issue #44 (Bad interpretation of photometric interpretation MONOCHROME1)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2244
diff
changeset
|
1631 |
e002430baa41
Fix issue #44 (Bad interpretation of photometric interpretation MONOCHROME1)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2244
diff
changeset
|
1632 bool ParsedDicomFile::LookupPhotometricInterpretation(PhotometricInterpretation& result) const |
e002430baa41
Fix issue #44 (Bad interpretation of photometric interpretation MONOCHROME1)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2244
diff
changeset
|
1633 { |
e002430baa41
Fix issue #44 (Bad interpretation of photometric interpretation MONOCHROME1)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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1634 DcmTagKey k(DICOM_TAG_PHOTOMETRIC_INTERPRETATION.GetGroup(), |
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1635 DICOM_TAG_PHOTOMETRIC_INTERPRETATION.GetElement()); |
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1636 |
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1637 DcmDataset& dataset = *pimpl_->file_->getDataset(); |
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1638 |
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1639 const char *c = NULL; |
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1640 if (dataset.findAndGetString(k, c).good() && |
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1641 c != NULL) |
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1642 { |
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1643 result = StringToPhotometricInterpretation(c); |
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1644 return true; |
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1645 } |
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1646 else |
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1647 { |
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1648 return false; |
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1649 } |
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1650 } |
2499
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1651 |
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1652 |
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1653 void ParsedDicomFile::Apply(ITagVisitor& visitor) |
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1654 { |
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1655 FromDcmtkBridge::Apply(*pimpl_->file_->getDataset(), visitor, GetDefaultDicomEncoding()); |
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1656 } |
790 | 1657 } |