Mercurial > hg > orthanc
annotate OrthancServer/FromDcmtkBridge.cpp @ 1830:2921384cc352
Upgrade to Boost 1.59.0 for static builds
author | Sebastien Jodogne <s.jodogne@gmail.com> |
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date | Thu, 26 Nov 2015 15:56:32 +0100 |
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children | 3ae2ff249675 |
rev | line source |
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0 | 1 /** |
62 | 2 * Orthanc - A Lightweight, RESTful DICOM Store |
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3 * Copyright (C) 2012-2015 Sebastien Jodogne, Medical Physics |
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4 * Department, University Hospital of Liege, Belgium |
0 | 5 * |
6 * This program is free software: you can redistribute it and/or | |
7 * modify it under the terms of the GNU General Public License as | |
8 * published by the Free Software Foundation, either version 3 of the | |
9 * License, or (at your option) any later version. | |
136 | 10 * |
11 * In addition, as a special exception, the copyright holders of this | |
12 * program give permission to link the code of its release with the | |
13 * OpenSSL project's "OpenSSL" library (or with modified versions of it | |
14 * that use the same license as the "OpenSSL" library), and distribute | |
15 * the linked executables. You must obey the GNU General Public License | |
16 * in all respects for all of the code used other than "OpenSSL". If you | |
17 * modify file(s) with this exception, you may extend this exception to | |
18 * your version of the file(s), but you are not obligated to do so. If | |
19 * you do not wish to do so, delete this exception statement from your | |
20 * version. If you delete this exception statement from all source files | |
21 * in the program, then also delete it here. | |
0 | 22 * |
23 * This program is distributed in the hope that it will be useful, but | |
24 * WITHOUT ANY WARRANTY; without even the implied warranty of | |
25 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU | |
26 * General Public License for more details. | |
27 * | |
28 * You should have received a copy of the GNU General Public License | |
29 * along with this program. If not, see <http://www.gnu.org/licenses/>. | |
30 **/ | |
31 | |
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32 |
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33 |
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34 #include "PrecompiledHeadersServer.h" |
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35 |
71 | 36 #ifndef NOMINMAX |
37 #define NOMINMAX | |
38 #endif | |
0 | 39 |
846 | 40 #include "Internals/DicomImageDecoder.h" |
41 | |
0 | 42 #include "FromDcmtkBridge.h" |
43 #include "ToDcmtkBridge.h" | |
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44 #include "OrthancInitialization.h" |
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45 #include "../Core/Logging.h" |
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46 #include "../Core/Toolbox.h" |
62 | 47 #include "../Core/OrthancException.h" |
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48 #include "../Core/Images/PngWriter.h" |
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49 #include "../Core/Uuid.h" |
79 | 50 #include "../Core/DicomFormat/DicomIntegerPixelAccessor.h" |
0 | 51 |
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52 #include <list> |
71 | 53 #include <limits> |
54 | |
0 | 55 #include <boost/lexical_cast.hpp> |
1656 | 56 #include <boost/filesystem.hpp> |
0 | 57 |
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58 #include <dcmtk/dcmdata/dcchrstr.h> |
0 | 59 #include <dcmtk/dcmdata/dcdicent.h> |
60 #include <dcmtk/dcmdata/dcdict.h> | |
61 #include <dcmtk/dcmdata/dcfilefo.h> | |
62 #include <dcmtk/dcmdata/dcistrmb.h> | |
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63 #include <dcmtk/dcmdata/dcuid.h> |
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64 #include <dcmtk/dcmdata/dcmetinf.h> |
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65 #include <dcmtk/dcmdata/dcdeftag.h> |
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66 |
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67 #include <dcmtk/dcmdata/dcvrae.h> |
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68 #include <dcmtk/dcmdata/dcvras.h> |
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69 #include <dcmtk/dcmdata/dcvrcs.h> |
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70 #include <dcmtk/dcmdata/dcvrda.h> |
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71 #include <dcmtk/dcmdata/dcvrds.h> |
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72 #include <dcmtk/dcmdata/dcvrdt.h> |
0 | 73 #include <dcmtk/dcmdata/dcvrfd.h> |
74 #include <dcmtk/dcmdata/dcvrfl.h> | |
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75 #include <dcmtk/dcmdata/dcvris.h> |
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76 #include <dcmtk/dcmdata/dcvrlo.h> |
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77 #include <dcmtk/dcmdata/dcvrlt.h> |
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78 #include <dcmtk/dcmdata/dcvrpn.h> |
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79 #include <dcmtk/dcmdata/dcvrsh.h> |
0 | 80 #include <dcmtk/dcmdata/dcvrsl.h> |
81 #include <dcmtk/dcmdata/dcvrss.h> | |
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82 #include <dcmtk/dcmdata/dcvrst.h> |
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83 #include <dcmtk/dcmdata/dcvrtm.h> |
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84 #include <dcmtk/dcmdata/dcvrui.h> |
0 | 85 #include <dcmtk/dcmdata/dcvrul.h> |
86 #include <dcmtk/dcmdata/dcvrus.h> | |
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87 #include <dcmtk/dcmdata/dcvrut.h> |
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88 #include <dcmtk/dcmdata/dcpixel.h> |
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89 #include <dcmtk/dcmdata/dcpixseq.h> |
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90 #include <dcmtk/dcmdata/dcpxitem.h> |
1131 | 91 #include <dcmtk/dcmdata/dcvrat.h> |
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92 |
1656 | 93 #include <dcmtk/dcmnet/dul.h> |
0 | 94 |
2 | 95 #include <boost/math/special_functions/round.hpp> |
1689 | 96 #include <boost/algorithm/string/predicate.hpp> |
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97 #include <dcmtk/dcmdata/dcostrmb.h> |
0 | 98 |
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99 |
62 | 100 namespace Orthanc |
0 | 101 { |
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102 static inline uint16_t GetCharValue(char c) |
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103 { |
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104 if (c >= '0' && c <= '9') |
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105 return c - '0'; |
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106 else if (c >= 'a' && c <= 'f') |
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107 return c - 'a' + 10; |
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108 else if (c >= 'A' && c <= 'F') |
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109 return c - 'A' + 10; |
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110 else |
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111 return 0; |
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112 } |
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113 |
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114 static inline uint16_t GetTagValue(const char* c) |
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115 { |
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116 return ((GetCharValue(c[0]) << 12) + |
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117 (GetCharValue(c[1]) << 8) + |
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118 (GetCharValue(c[2]) << 4) + |
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119 GetCharValue(c[3])); |
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120 } |
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121 |
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122 |
1656 | 123 #if DCMTK_USE_EMBEDDED_DICTIONARIES == 1 |
124 static void LoadEmbeddedDictionary(DcmDataDictionary& dictionary, | |
125 EmbeddedResources::FileResourceId resource) | |
126 { | |
127 Toolbox::TemporaryFile tmp; | |
128 | |
129 FILE* fp = fopen(tmp.GetPath().c_str(), "wb"); | |
130 fwrite(EmbeddedResources::GetFileResourceBuffer(resource), | |
131 EmbeddedResources::GetFileResourceSize(resource), 1, fp); | |
132 fclose(fp); | |
133 | |
134 if (!dictionary.loadDictionary(tmp.GetPath().c_str())) | |
135 { | |
136 throw OrthancException(ErrorCode_InternalError); | |
137 } | |
138 } | |
139 | |
140 #else | |
141 static void LoadExternalDictionary(DcmDataDictionary& dictionary, | |
142 const std::string& directory, | |
143 const std::string& filename) | |
144 { | |
145 boost::filesystem::path p = directory; | |
146 p = p / filename; | |
147 | |
148 LOG(WARNING) << "Loading the external DICOM dictionary " << p; | |
149 | |
150 if (!dictionary.loadDictionary(p.string().c_str())) | |
151 { | |
152 throw OrthancException(ErrorCode_InternalError); | |
153 } | |
154 } | |
155 | |
156 #endif | |
157 | |
158 | |
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159 namespace |
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160 { |
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161 class DictionaryLocker |
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162 { |
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163 private: |
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164 DcmDataDictionary& dictionary_; |
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165 |
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166 public: |
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167 DictionaryLocker() : dictionary_(dcmDataDict.wrlock()) |
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168 { |
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169 } |
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170 |
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171 ~DictionaryLocker() |
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172 { |
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173 dcmDataDict.unlock(); |
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174 } |
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175 |
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176 DcmDataDictionary& operator*() |
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177 { |
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178 return dictionary_; |
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179 } |
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180 |
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181 DcmDataDictionary* operator->() |
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182 { |
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183 return &dictionary_; |
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184 } |
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185 }; |
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186 } |
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187 |
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188 |
1656 | 189 void FromDcmtkBridge::InitializeDictionary() |
190 { | |
191 /* Disable "gethostbyaddr" (which results in memory leaks) and use raw IP addresses */ | |
192 dcmDisableGethostbyaddr.set(OFTrue); | |
193 | |
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194 { |
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195 DictionaryLocker locker; |
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196 |
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197 locker->clear(); |
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199 #if DCMTK_USE_EMBEDDED_DICTIONARIES == 1 | |
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200 LOG(WARNING) << "Loading the embedded dictionaries"; |
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201 /** |
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202 * Do not load DICONDE dictionary, it breaks the other tags. The |
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203 * command "strace storescu 2>&1 |grep dic" shows that DICONDE |
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204 * dictionary is not loaded by storescu. |
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205 **/ |
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206 //LoadEmbeddedDictionary(*locker, EmbeddedResources::DICTIONARY_DICONDE); |
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208 LoadEmbeddedDictionary(*locker, EmbeddedResources::DICTIONARY_DICOM); |
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209 LoadEmbeddedDictionary(*locker, EmbeddedResources::DICTIONARY_PRIVATE); |
1656 | 210 |
211 #elif defined(__linux) || defined(__FreeBSD_kernel__) | |
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212 std::string path = DCMTK_DICTIONARY_DIR; |
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214 const char* env = std::getenv(DCM_DICT_ENVIRONMENT_VARIABLE); |
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215 if (env != NULL) |
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216 { |
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217 path = std::string(env); |
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218 } |
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220 LoadExternalDictionary(*locker, path, "dicom.dic"); |
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221 LoadExternalDictionary(*locker, path, "private.dic"); |
1656 | 222 |
223 #else | |
224 #error Support your platform here | |
225 #endif | |
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226 } |
1656 | 227 |
228 /* make sure data dictionary is loaded */ | |
229 if (!dcmDataDict.isDictionaryLoaded()) | |
230 { | |
231 LOG(ERROR) << "No DICOM dictionary loaded, check environment variable: " << DCM_DICT_ENVIRONMENT_VARIABLE; | |
232 throw OrthancException(ErrorCode_InternalError); | |
233 } | |
234 | |
235 { | |
236 // Test the dictionary with a simple DICOM tag | |
237 DcmTag key(0x0010, 0x1030); // This is PatientWeight | |
238 if (key.getEVR() != EVR_DS) | |
239 { | |
240 LOG(ERROR) << "The DICOM dictionary has not been correctly read"; | |
241 throw OrthancException(ErrorCode_InternalError); | |
242 } | |
243 } | |
244 } | |
245 | |
246 | |
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247 void FromDcmtkBridge::RegisterDictionaryTag(const DicomTag& tag, |
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248 const DcmEVR& vr, |
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249 const std::string& name, |
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250 unsigned int minMultiplicity, |
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251 unsigned int maxMultiplicity) |
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252 { |
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253 if (minMultiplicity < 1) |
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254 { |
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255 throw OrthancException(ErrorCode_ParameterOutOfRange); |
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256 } |
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257 |
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258 bool arbitrary = false; |
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259 if (maxMultiplicity == 0) |
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260 { |
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261 maxMultiplicity = DcmVariableVM; |
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262 arbitrary = true; |
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263 } |
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264 else if (maxMultiplicity < minMultiplicity) |
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265 { |
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266 throw OrthancException(ErrorCode_ParameterOutOfRange); |
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267 } |
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268 |
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269 LOG(INFO) << "Registering tag in dictionary: " << tag << " " << (DcmVR(vr).getValidVRName()) << " " |
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270 << name << " (multiplicity: " << minMultiplicity << "-" |
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271 << (arbitrary ? "n" : boost::lexical_cast<std::string>(maxMultiplicity)) << ")"; |
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272 |
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273 std::auto_ptr<DcmDictEntry> entry(new DcmDictEntry(tag.GetGroup(), |
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274 tag.GetElement(), |
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275 vr, name.c_str(), |
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276 static_cast<int>(minMultiplicity), |
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277 static_cast<int>(maxMultiplicity), |
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278 NULL /* version */, |
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279 OFTrue /* doCopyString */, |
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280 NULL /* private creator */)); |
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281 |
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282 entry->setGroupRangeRestriction(DcmDictRange_Unspecified); |
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283 entry->setElementRangeRestriction(DcmDictRange_Unspecified); |
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284 |
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285 { |
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286 DictionaryLocker locker; |
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287 locker->addEntry(entry.release()); |
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288 } |
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289 } |
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290 |
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291 |
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292 Encoding FromDcmtkBridge::DetectEncoding(DcmDataset& dataset) |
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293 { |
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294 // By default, Latin1 encoding is assumed |
1557 | 295 std::string s = Configuration::GetGlobalStringParameter("DefaultEncoding", "Latin1"); |
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296 Encoding encoding = s.empty() ? Encoding_Latin1 : StringToEncoding(s.c_str()); |
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297 |
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298 OFString tmp; |
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299 if (dataset.findAndGetOFString(DCM_SpecificCharacterSet, tmp).good()) |
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300 { |
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301 std::string characterSet = Toolbox::StripSpaces(std::string(tmp.c_str())); |
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302 |
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303 if (characterSet.empty()) |
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304 { |
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305 // Empty specific character set tag: Use the default encoding |
1087 | 306 } |
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307 else if (GetDicomEncoding(encoding, characterSet.c_str())) |
1087 | 308 { |
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309 // The specific character set is supported by the Orthanc core |
1087 | 310 } |
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311 else |
1087 | 312 { |
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313 LOG(WARNING) << "Value of Specific Character Set (0008,0005) is not supported: " << characterSet |
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314 << ", fallback to ASCII (remove all special characters)"; |
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315 encoding = Encoding_Ascii; |
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316 } |
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317 } |
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318 else |
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319 { |
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320 // No specific character set tag: Use the default encoding |
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321 } |
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322 |
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323 return encoding; |
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324 } |
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325 |
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326 |
0 | 327 void FromDcmtkBridge::Convert(DicomMap& target, DcmDataset& dataset) |
328 { | |
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329 Encoding encoding = DetectEncoding(dataset); |
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330 |
0 | 331 target.Clear(); |
332 for (unsigned long i = 0; i < dataset.card(); i++) | |
333 { | |
334 DcmElement* element = dataset.getElement(i); | |
335 if (element && element->isLeaf()) | |
336 { | |
337 target.SetValue(element->getTag().getGTag(), | |
338 element->getTag().getETag(), | |
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339 ConvertLeafElement(*element, DicomToJsonFlags_Default, encoding)); |
0 | 340 } |
341 } | |
342 } | |
343 | |
344 | |
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345 DicomTag FromDcmtkBridge::Convert(const DcmTag& tag) |
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346 { |
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347 return DicomTag(tag.getGTag(), tag.getETag()); |
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348 } |
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349 |
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350 |
0 | 351 DicomTag FromDcmtkBridge::GetTag(const DcmElement& element) |
352 { | |
353 return DicomTag(element.getGTag(), element.getETag()); | |
354 } | |
355 | |
356 | |
956
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357 DicomValue* FromDcmtkBridge::ConvertLeafElement(DcmElement& element, |
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358 DicomToJsonFlags flags, |
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359 Encoding encoding) |
0 | 360 { |
361 if (!element.isLeaf()) | |
362 { | |
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363 // This function is only applicable to leaf elements |
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364 throw OrthancException(ErrorCode_BadParameterType); |
0 | 365 } |
366 | |
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367 char *c = NULL; |
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368 if (element.isaString() && |
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369 element.getString(c).good()) |
0 | 370 { |
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371 if (c == NULL) // This case corresponds to the empty string |
0 | 372 { |
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373 return new DicomValue("", false); |
0 | 374 } |
375 else | |
376 { | |
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377 std::string s(c); |
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378 std::string utf8 = Toolbox::ConvertToUtf8(s, encoding); |
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379 return new DicomValue(utf8, false); |
0 | 380 } |
381 } | |
382 | |
383 try | |
384 { | |
385 // http://support.dcmtk.org/docs/dcvr_8h-source.html | |
386 switch (element.getVR()) | |
387 { | |
388 | |
389 /** | |
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390 * Deal with binary data (including PixelData). |
0 | 391 **/ |
306
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392 |
302
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393 case EVR_OB: // other byte |
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394 case EVR_OF: // other float |
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395 case EVR_OW: // other word |
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396 case EVR_UN: // unknown value representation |
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397 case EVR_ox: // OB or OW depending on context |
306
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398 case EVR_DS: // decimal string |
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399 case EVR_IS: // integer string |
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400 case EVR_AS: // age string |
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401 case EVR_DA: // date string |
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402 case EVR_DT: // date time string |
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403 case EVR_TM: // time string |
302
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404 case EVR_AE: // application entity title |
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405 case EVR_CS: // code string |
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406 case EVR_SH: // short string |
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407 case EVR_LO: // long string |
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408 case EVR_ST: // short text |
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409 case EVR_LT: // long text |
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410 case EVR_UT: // unlimited text |
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411 case EVR_PN: // person name |
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412 case EVR_UI: // unique identifier |
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413 case EVR_UNKNOWN: // used internally for elements with unknown VR (encoded with 4-byte length field in explicit VR) |
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414 case EVR_UNKNOWN2B: // used internally for elements with unknown VR with 2-byte length field in explicit VR |
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415 { |
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416 if (!(flags & DicomToJsonFlags_ConvertBinaryToNull)) |
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417 { |
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418 Uint8* data = NULL; |
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419 if (element.getUint8Array(data) == EC_Normal) |
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420 { |
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421 return new DicomValue(reinterpret_cast<const char*>(data), element.getLength(), true); |
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422 } |
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423 } |
0 | 424 |
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425 return new DicomValue; |
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426 } |
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427 |
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428 /** |
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429 * Numberic types |
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430 **/ |
0 | 431 |
302
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432 case EVR_SL: // signed long |
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433 { |
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434 Sint32 f; |
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435 if (dynamic_cast<DcmSignedLong&>(element).getSint32(f).good()) |
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436 return new DicomValue(boost::lexical_cast<std::string>(f), false); |
302
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437 else |
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438 return new DicomValue; |
302
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439 } |
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440 |
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441 case EVR_SS: // signed short |
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442 { |
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443 Sint16 f; |
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444 if (dynamic_cast<DcmSignedShort&>(element).getSint16(f).good()) |
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445 return new DicomValue(boost::lexical_cast<std::string>(f), false); |
302
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446 else |
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447 return new DicomValue; |
302
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448 } |
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449 |
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450 case EVR_UL: // unsigned long |
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451 { |
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452 Uint32 f; |
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453 if (dynamic_cast<DcmUnsignedLong&>(element).getUint32(f).good()) |
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454 return new DicomValue(boost::lexical_cast<std::string>(f), false); |
302
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455 else |
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456 return new DicomValue; |
302
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457 } |
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458 |
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459 case EVR_US: // unsigned short |
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460 { |
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461 Uint16 f; |
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462 if (dynamic_cast<DcmUnsignedShort&>(element).getUint16(f).good()) |
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463 return new DicomValue(boost::lexical_cast<std::string>(f), false); |
302
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464 else |
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465 return new DicomValue; |
302
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466 } |
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467 |
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468 case EVR_FL: // float single-precision |
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469 { |
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470 Float32 f; |
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471 if (dynamic_cast<DcmFloatingPointSingle&>(element).getFloat32(f).good()) |
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472 return new DicomValue(boost::lexical_cast<std::string>(f), false); |
302
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473 else |
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474 return new DicomValue; |
302
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475 } |
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476 |
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477 case EVR_FD: // float double-precision |
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478 { |
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479 Float64 f; |
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480 if (dynamic_cast<DcmFloatingPointDouble&>(element).getFloat64(f).good()) |
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481 return new DicomValue(boost::lexical_cast<std::string>(f), false); |
302
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482 else |
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483 return new DicomValue; |
1131 | 484 } |
485 | |
486 | |
487 /** | |
488 * Attribute tag. | |
489 **/ | |
490 | |
491 case EVR_AT: | |
492 { | |
1147 | 493 DcmTagKey tag; |
494 if (dynamic_cast<DcmAttributeTag&>(element).getTagVal(tag, 0).good()) | |
495 { | |
496 DicomTag t(tag.getGroup(), tag.getElement()); | |
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497 return new DicomValue(t.Format(), false); |
1147 | 498 } |
1131 | 499 else |
1147 | 500 { |
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501 return new DicomValue; |
1147 | 502 } |
302
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503 } |
0 | 504 |
505 | |
506 /** | |
302
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507 * Sequence types, should never occur at this point because of |
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508 * "element.isLeaf()". |
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509 **/ |
0 | 510 |
302
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511 case EVR_SQ: // sequence of items |
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512 return new DicomValue; |
0 | 513 |
514 | |
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515 /** |
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516 * Internal to DCMTK. |
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517 **/ |
0 | 518 |
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519 case EVR_xs: // SS or US depending on context |
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520 case EVR_lt: // US, SS or OW depending on context, used for LUT Data (thus the name) |
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521 case EVR_na: // na="not applicable", for data which has no VR |
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522 case EVR_up: // up="unsigned pointer", used internally for DICOMDIR suppor |
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523 case EVR_item: // used internally for items |
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524 case EVR_metainfo: // used internally for meta info datasets |
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525 case EVR_dataset: // used internally for datasets |
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526 case EVR_fileFormat: // used internally for DICOM files |
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527 case EVR_dicomDir: // used internally for DICOMDIR objects |
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528 case EVR_dirRecord: // used internally for DICOMDIR records |
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529 case EVR_pixelSQ: // used internally for pixel sequences in a compressed image |
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530 case EVR_pixelItem: // used internally for pixel items in a compressed image |
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531 case EVR_PixelData: // used internally for uncompressed pixeld data |
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532 case EVR_OverlayData: // used internally for overlay data |
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533 return new DicomValue; |
0 | 534 |
535 | |
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536 /** |
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537 * Default case. |
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538 **/ |
0 | 539 |
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540 default: |
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541 return new DicomValue; |
0 | 542 } |
543 } | |
544 catch (boost::bad_lexical_cast) | |
545 { | |
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546 return new DicomValue; |
0 | 547 } |
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548 catch (std::bad_cast) |
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549 { |
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550 return new DicomValue; |
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551 } |
0 | 552 } |
553 | |
554 | |
1687 | 555 static Json::Value& PrepareNode(Json::Value& parent, |
556 DcmElement& element, | |
557 DicomToJsonFormat format) | |
0 | 558 { |
1687 | 559 assert(parent.type() == Json::objectValue); |
0 | 560 |
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561 DicomTag tag(FromDcmtkBridge::GetTag(element)); |
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562 const std::string formattedTag = tag.Format(); |
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563 |
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564 if (format == DicomToJsonFormat_Short) |
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565 { |
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566 parent[formattedTag] = Json::nullValue; |
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567 return parent[formattedTag]; |
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568 } |
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569 |
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570 // This code gives access to the name of the private tags |
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571 DcmTag tagbis(element.getTag()); |
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572 const std::string tagName(tagbis.getTagName()); |
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573 |
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574 switch (format) |
0 | 575 { |
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576 case DicomToJsonFormat_Simple: |
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577 parent[tagName] = Json::nullValue; |
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578 return parent[tagName]; |
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579 |
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580 case DicomToJsonFormat_Full: |
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581 { |
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582 parent[formattedTag] = Json::objectValue; |
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583 Json::Value& node = parent[formattedTag]; |
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584 |
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585 if (element.isLeaf()) |
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586 { |
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587 node["Name"] = tagName; |
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588 |
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589 if (tagbis.getPrivateCreator() != NULL) |
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590 { |
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591 node["PrivateCreator"] = tagbis.getPrivateCreator(); |
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592 } |
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593 |
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594 return node; |
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595 } |
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596 else |
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597 { |
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598 node["Name"] = tagName; |
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599 node["Type"] = "Sequence"; |
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600 node["Value"] = Json::nullValue; |
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601 return node["Value"]; |
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602 } |
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603 } |
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604 |
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605 default: |
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606 throw OrthancException(ErrorCode_ParameterOutOfRange); |
1687 | 607 } |
608 } | |
609 | |
610 | |
611 static void LeafValueToJson(Json::Value& target, | |
612 const DicomValue& value, | |
613 DicomToJsonFormat format, | |
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614 DicomToJsonFlags flags, |
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615 unsigned int maxStringLength) |
1687 | 616 { |
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617 Json::Value* targetValue = NULL; |
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618 Json::Value* targetType = NULL; |
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619 |
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620 switch (format) |
1687 | 621 { |
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622 case DicomToJsonFormat_Short: |
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623 case DicomToJsonFormat_Simple: |
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624 { |
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625 assert(target.type() == Json::nullValue); |
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626 targetValue = ⌖ |
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627 break; |
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628 } |
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629 |
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630 case DicomToJsonFormat_Full: |
0 | 631 { |
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632 assert(target.type() == Json::objectValue); |
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633 target["Value"] = Json::nullValue; |
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634 target["Type"] = Json::nullValue; |
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635 targetType = &target["Type"]; |
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636 targetValue = &target["Value"]; |
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637 break; |
0 | 638 } |
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639 |
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640 default: |
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641 throw OrthancException(ErrorCode_ParameterOutOfRange); |
1687 | 642 } |
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643 |
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644 assert(targetValue != NULL); |
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645 assert(targetValue->type() == Json::nullValue); |
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646 assert(targetType == NULL || targetType->type() == Json::nullValue); |
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647 |
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648 if (value.IsNull()) |
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649 { |
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650 if (targetType != NULL) |
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651 { |
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652 *targetType = "Null"; |
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653 } |
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654 } |
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655 else if (value.IsBinary()) |
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656 { |
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657 if (flags & DicomToJsonFlags_ConvertBinaryToAscii) |
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658 { |
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659 *targetValue = Toolbox::ConvertToAscii(value.GetContent()); |
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660 } |
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661 else |
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662 { |
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663 std::string s; |
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664 value.FormatDataUriScheme(s); |
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665 *targetValue = s; |
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666 } |
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667 |
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668 if (targetType != NULL) |
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669 { |
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670 *targetType = "Binary"; |
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671 } |
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672 } |
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673 else if (maxStringLength == 0 || |
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674 value.GetContent().size() <= maxStringLength) |
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|
675 { |
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676 *targetValue = value.GetContent(); |
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|
677 |
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|
678 if (targetType != NULL) |
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679 { |
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680 *targetType = "String"; |
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|
681 } |
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DicomToJsonFlags_IncludeBinary
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|
682 } |
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DicomToJsonFlags_IncludeBinary
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|
683 else |
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DicomToJsonFlags_IncludeBinary
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|
684 { |
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|
685 if (targetType != NULL) |
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|
686 { |
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687 *targetType = "TooLong"; |
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|
688 } |
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689 } |
1687 | 690 } |
35
f6d12037f886
full json vs. simplified json
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diff
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|
691 |
1687 | 692 |
693 static void DatasetToJson(Json::Value& parent, | |
694 DcmItem& item, | |
695 DicomToJsonFormat format, | |
1735
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|
696 DicomToJsonFlags flags, |
1687 | 697 unsigned int maxStringLength, |
698 Encoding encoding); | |
699 | |
700 | |
1690 | 701 void FromDcmtkBridge::ToJson(Json::Value& parent, |
702 DcmElement& element, | |
703 DicomToJsonFormat format, | |
1735
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primitives for flags in dicom-to-json conversions
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|
704 DicomToJsonFlags flags, |
1690 | 705 unsigned int maxStringLength, |
706 Encoding encoding) | |
1687 | 707 { |
1691 | 708 if (parent.type() == Json::nullValue) |
709 { | |
710 parent = Json::objectValue; | |
711 } | |
712 | |
713 assert(parent.type() == Json::objectValue); | |
1687 | 714 Json::Value& target = PrepareNode(parent, element, format); |
715 | |
716 if (element.isLeaf()) | |
717 { | |
1736
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718 std::auto_ptr<DicomValue> v(FromDcmtkBridge::ConvertLeafElement(element, flags, encoding)); |
1738
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719 LeafValueToJson(target, *v, format, flags, maxStringLength); |
0 | 720 } |
721 else | |
722 { | |
1688
27d70e9ee2e4
DicomToJsonFormat enumeration
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723 assert(target.type() == Json::nullValue); |
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|
724 target = Json::arrayValue; |
0 | 725 |
726 // "All subclasses of DcmElement except for DcmSequenceOfItems | |
727 // are leaf nodes, while DcmSequenceOfItems, DcmItem, DcmDataset | |
1687 | 728 // etc. are not." The following dynamic_cast is thus OK. |
0 | 729 DcmSequenceOfItems& sequence = dynamic_cast<DcmSequenceOfItems&>(element); |
730 | |
731 for (unsigned long i = 0; i < sequence.card(); i++) | |
732 { | |
733 DcmItem* child = sequence.getItem(i); | |
1687 | 734 Json::Value& v = target.append(Json::objectValue); |
1735
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|
735 DatasetToJson(v, *child, format, flags, maxStringLength, encoding); |
1687 | 736 } |
0 | 737 } |
738 } | |
739 | |
740 | |
1687 | 741 static void DatasetToJson(Json::Value& parent, |
1686 | 742 DcmItem& item, |
743 DicomToJsonFormat format, | |
1735
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diff
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|
744 DicomToJsonFlags flags, |
1686 | 745 unsigned int maxStringLength, |
746 Encoding encoding) | |
747 { | |
1688
27d70e9ee2e4
DicomToJsonFormat enumeration
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diff
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|
748 assert(parent.type() == Json::objectValue); |
1686 | 749 |
750 for (unsigned long i = 0; i < item.card(); i++) | |
751 { | |
752 DcmElement* element = item.getElement(i); | |
1735
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primitives for flags in dicom-to-json conversions
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753 if (element == NULL) |
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|
754 { |
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primitives for flags in dicom-to-json conversions
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|
755 throw OrthancException(ErrorCode_InternalError); |
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|
756 } |
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primitives for flags in dicom-to-json conversions
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diff
changeset
|
757 |
1818
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
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1792
diff
changeset
|
758 DicomTag tag(FromDcmtkBridge::Convert(element->getTag())); |
1065401501fb
ParsedDicomFile::CreateFromJson
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diff
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|
759 |
1065401501fb
ParsedDicomFile::CreateFromJson
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1792
diff
changeset
|
760 /*element->getTag().isPrivate()*/ |
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
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1792
diff
changeset
|
761 if (tag.IsPrivate() && |
1065401501fb
ParsedDicomFile::CreateFromJson
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diff
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|
762 !(flags & DicomToJsonFlags_IncludePrivateTags)) |
1736
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diff
changeset
|
763 { |
b953c6eef28d
ToJson: IncludePrivateTags and IncludeUnknownTags
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diff
changeset
|
764 continue; |
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diff
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|
765 } |
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diff
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|
766 |
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diff
changeset
|
767 if (!(flags & DicomToJsonFlags_IncludeUnknownTags)) |
1735
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primitives for flags in dicom-to-json conversions
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diff
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|
768 { |
1736
b953c6eef28d
ToJson: IncludePrivateTags and IncludeUnknownTags
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diff
changeset
|
769 DictionaryLocker locker; |
b953c6eef28d
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770 if (locker->findEntry(element->getTag(), NULL) == NULL) |
b953c6eef28d
ToJson: IncludePrivateTags and IncludeUnknownTags
Sebastien Jodogne <s.jodogne@gmail.com>
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|
771 { |
b953c6eef28d
ToJson: IncludePrivateTags and IncludeUnknownTags
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diff
changeset
|
772 continue; |
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1735
diff
changeset
|
773 } |
1735
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diff
changeset
|
774 } |
1736
b953c6eef28d
ToJson: IncludePrivateTags and IncludeUnknownTags
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
775 |
1739
df331354cea2
include binary in ToJson
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1738
diff
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|
776 DcmEVR evr = element->getTag().getEVR(); |
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include binary in ToJson
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diff
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|
777 if (evr == EVR_OB || |
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diff
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|
778 evr == EVR_OF || |
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diff
changeset
|
779 evr == EVR_OW || |
df331354cea2
include binary in ToJson
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|
780 evr == EVR_UN || |
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include binary in ToJson
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diff
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|
781 evr == EVR_ox) |
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include binary in ToJson
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1738
diff
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|
782 { |
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include binary in ToJson
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diff
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|
783 // This is a binary tag |
df331354cea2
include binary in ToJson
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diff
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|
784 if ((tag == DICOM_TAG_PIXEL_DATA && !(flags & DicomToJsonFlags_IncludePixelData)) || |
df331354cea2
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diff
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|
785 (tag != DICOM_TAG_PIXEL_DATA && !(flags & DicomToJsonFlags_IncludeBinary))) |
df331354cea2
include binary in ToJson
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
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|
786 { |
df331354cea2
include binary in ToJson
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diff
changeset
|
787 continue; |
df331354cea2
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diff
changeset
|
788 } |
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1738
diff
changeset
|
789 } |
df331354cea2
include binary in ToJson
Sebastien Jodogne <s.jodogne@gmail.com>
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1738
diff
changeset
|
790 |
1736
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ToJson: IncludePrivateTags and IncludeUnknownTags
Sebastien Jodogne <s.jodogne@gmail.com>
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1735
diff
changeset
|
791 FromDcmtkBridge::ToJson(parent, *element, format, flags, maxStringLength, encoding); |
1686 | 792 } |
793 } | |
794 | |
795 | |
1687 | 796 void FromDcmtkBridge::ToJson(Json::Value& target, |
0 | 797 DcmDataset& dataset, |
1686 | 798 DicomToJsonFormat format, |
1735
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primitives for flags in dicom-to-json conversions
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diff
changeset
|
799 DicomToJsonFlags flags, |
0 | 800 unsigned int maxStringLength) |
801 { | |
1688
27d70e9ee2e4
DicomToJsonFormat enumeration
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1687
diff
changeset
|
802 target = Json::objectValue; |
1735
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diff
changeset
|
803 DatasetToJson(target, dataset, format, flags, maxStringLength, DetectEncoding(dataset)); |
0 | 804 } |
805 | |
806 | |
807 std::string FromDcmtkBridge::GetName(const DicomTag& t) | |
808 { | |
106 | 809 // Some patches for important tags because of different DICOM |
810 // dictionaries between DCMTK versions | |
291
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diff
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|
811 std::string n = t.GetMainTagsName(); |
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812 if (n.size() != 0) |
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embedding of dicom dictionaries
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diff
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|
813 { |
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|
814 return n; |
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|
815 } |
106 | 816 // End of patches |
817 | |
305
86bb79522f19
name of the private tags
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304
diff
changeset
|
818 #if 0 |
0 | 819 DcmTagKey tag(t.GetGroup(), t.GetElement()); |
820 const DcmDataDictionary& dict = dcmDataDict.rdlock(); | |
821 const DcmDictEntry* entry = dict.findEntry(tag, NULL); | |
822 | |
306
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823 std::string s(DcmTag_ERROR_TagName); |
0 | 824 if (entry != NULL) |
825 { | |
826 s = std::string(entry->getTagName()); | |
827 } | |
828 | |
829 dcmDataDict.unlock(); | |
830 return s; | |
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831 #else |
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832 DcmTag tag(t.GetGroup(), t.GetElement()); |
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833 const char* name = tag.getTagName(); |
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834 if (name == NULL) |
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835 { |
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836 return DcmTag_ERROR_TagName; |
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837 } |
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838 else |
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839 { |
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840 return std::string(name); |
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841 } |
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842 #endif |
0 | 843 } |
844 | |
845 | |
304 | 846 DicomTag FromDcmtkBridge::ParseTag(const char* name) |
0 | 847 { |
304 | 848 if (strlen(name) == 9 && |
849 isxdigit(name[0]) && | |
850 isxdigit(name[1]) && | |
851 isxdigit(name[2]) && | |
852 isxdigit(name[3]) && | |
991
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853 (name[4] == '-' || name[4] == ',') && |
304 | 854 isxdigit(name[5]) && |
855 isxdigit(name[6]) && | |
856 isxdigit(name[7]) && | |
857 isxdigit(name[8])) | |
858 { | |
859 uint16_t group = GetTagValue(name); | |
860 uint16_t element = GetTagValue(name + 5); | |
861 return DicomTag(group, element); | |
862 } | |
863 | |
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864 #if 0 |
0 | 865 const DcmDataDictionary& dict = dcmDataDict.rdlock(); |
866 const DcmDictEntry* entry = dict.findEntry(name); | |
867 | |
868 if (entry == NULL) | |
869 { | |
870 dcmDataDict.unlock(); | |
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871 throw OrthancException(ErrorCode_UnknownDicomTag); |
0 | 872 } |
873 else | |
874 { | |
875 DcmTagKey key = entry->getKey(); | |
876 DicomTag tag(key.getGroup(), key.getElement()); | |
877 dcmDataDict.unlock(); | |
878 return tag; | |
879 } | |
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880 #else |
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881 DcmTag tag; |
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882 if (DcmTag::findTagFromName(name, tag).good()) |
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883 { |
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884 return DicomTag(tag.getGTag(), tag.getETag()); |
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885 } |
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886 else |
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887 { |
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888 throw OrthancException(ErrorCode_UnknownDicomTag); |
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889 } |
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890 #endif |
0 | 891 } |
892 | |
893 | |
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894 bool FromDcmtkBridge::IsUnknownTag(const DicomTag& tag) |
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895 { |
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896 DcmTag tmp(tag.GetGroup(), tag.GetElement()); |
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897 return tmp.isUnknownVR(); |
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898 } |
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899 |
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900 |
0 | 901 void FromDcmtkBridge::ToJson(Json::Value& result, |
1368 | 902 const DicomMap& values, |
903 bool simplify) | |
0 | 904 { |
905 if (result.type() != Json::objectValue) | |
906 { | |
62 | 907 throw OrthancException(ErrorCode_BadParameterType); |
0 | 908 } |
909 | |
910 result.clear(); | |
911 | |
912 for (DicomMap::Map::const_iterator | |
656 | 913 it = values.map_.begin(); it != values.map_.end(); ++it) |
0 | 914 { |
1368 | 915 if (simplify) |
916 { | |
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917 if (it->second->IsNull()) |
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918 { |
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919 result[GetName(it->first)] = Json::nullValue; |
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920 } |
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921 else |
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922 { |
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923 // TODO IsBinary |
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924 result[GetName(it->first)] = it->second->GetContent(); |
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925 } |
1368 | 926 } |
927 else | |
928 { | |
929 Json::Value value = Json::objectValue; | |
930 | |
931 value["Name"] = GetName(it->first); | |
932 | |
933 if (it->second->IsNull()) | |
934 { | |
935 value["Type"] = "Null"; | |
936 value["Value"] = Json::nullValue; | |
937 } | |
938 else | |
939 { | |
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940 // TODO IsBinary |
1368 | 941 value["Type"] = "String"; |
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942 value["Value"] = it->second->GetContent(); |
1368 | 943 } |
944 | |
945 result[it->first.Format()] = value; | |
946 } | |
0 | 947 } |
948 } | |
176 | 949 |
950 | |
788 | 951 std::string FromDcmtkBridge::GenerateUniqueIdentifier(ResourceType level) |
176 | 952 { |
953 char uid[100]; | |
954 | |
955 switch (level) | |
956 { | |
788 | 957 case ResourceType_Patient: |
311 | 958 // The "PatientID" field is of type LO (Long String), 64 |
959 // Bytes Maximum. An UUID is of length 36, thus it can be used | |
960 // as a random PatientID. | |
961 return Toolbox::GenerateUuid(); | |
306
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962 |
788 | 963 case ResourceType_Instance: |
302
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964 return dcmGenerateUniqueIdentifier(uid, SITE_INSTANCE_UID_ROOT); |
176 | 965 |
788 | 966 case ResourceType_Series: |
302
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967 return dcmGenerateUniqueIdentifier(uid, SITE_SERIES_UID_ROOT); |
176 | 968 |
788 | 969 case ResourceType_Study: |
302
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970 return dcmGenerateUniqueIdentifier(uid, SITE_STUDY_UID_ROOT); |
176 | 971 |
302
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972 default: |
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973 throw OrthancException(ErrorCode_ParameterOutOfRange); |
176 | 974 } |
975 } | |
976 | |
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977 bool FromDcmtkBridge::SaveToMemoryBuffer(std::string& buffer, |
1004
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978 DcmDataset& dataSet) |
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979 { |
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980 // Determine the transfer syntax which shall be used to write the |
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981 // information to the file. We always switch to the Little Endian |
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982 // syntax, with explicit length. |
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983 |
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984 // http://support.dcmtk.org/docs/dcxfer_8h-source.html |
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985 |
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986 |
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987 /** |
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988 * Note that up to Orthanc 0.7.1 (inclusive), the |
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989 * "EXS_LittleEndianExplicit" was always used to save the DICOM |
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990 * dataset into memory. We now keep the original transfer syntax |
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991 * (if available). |
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992 **/ |
1004
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993 E_TransferSyntax xfer = dataSet.getOriginalXfer(); |
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994 if (xfer == EXS_Unknown) |
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995 { |
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996 // No information about the original transfer syntax: This is |
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997 // most probably a DICOM dataset that was read from memory. |
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998 xfer = EXS_LittleEndianExplicit; |
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999 } |
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1000 |
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1001 E_EncodingType encodingType = /*opt_sequenceType*/ EET_ExplicitLength; |
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1002 |
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1003 // Create the meta-header information |
1004
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1004 DcmFileFormat ff(&dataSet); |
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1005 ff.validateMetaInfo(xfer); |
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1006 ff.removeInvalidGroups(); |
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1007 |
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1008 // Create a memory buffer with the proper size |
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1009 uint32_t s = ff.calcElementLength(xfer, encodingType); |
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1010 buffer.resize(s); |
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1011 DcmOutputBufferStream ob(&buffer[0], s); |
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1012 |
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1013 // Fill the memory buffer with the meta-header and the dataset |
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1014 ff.transferInit(); |
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1015 OFCondition c = ff.write(ob, xfer, encodingType, NULL, |
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1016 /*opt_groupLength*/ EGL_recalcGL, |
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1017 /*opt_paddingType*/ EPD_withoutPadding); |
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1018 ff.transferEnd(); |
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1019 |
661
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1020 // Handle errors |
291
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1021 if (c.good()) |
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1022 { |
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1023 return true; |
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1024 } |
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1025 else |
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1026 { |
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1027 buffer.clear(); |
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1028 return false; |
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1029 } |
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1030 } |
1360 | 1031 |
1032 | |
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1033 ValueRepresentation FromDcmtkBridge::GetValueRepresentation(const DicomTag& tag) |
1360 | 1034 { |
1035 DcmTag t(tag.GetGroup(), tag.GetElement()); | |
1417
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1036 switch (t.getEVR()) |
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1037 { |
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1038 case EVR_PN: |
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1039 return ValueRepresentation_PatientName; |
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1040 |
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1041 case EVR_DA: |
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1042 return ValueRepresentation_Date; |
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1043 |
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1044 case EVR_DT: |
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1045 return ValueRepresentation_DateTime; |
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1046 |
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1047 case EVR_TM: |
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1048 return ValueRepresentation_Time; |
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1049 |
1792 | 1050 case EVR_SQ: |
1051 return ValueRepresentation_Sequence; | |
1052 | |
1417
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1053 default: |
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1054 return ValueRepresentation_Other; |
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1055 } |
1360 | 1056 } |
1057 | |
1689 | 1058 |
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1059 static bool IsBinaryTag(const DcmTag& key) |
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1060 { |
1818
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1061 return (key.isUnknownVR() || |
1739
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1062 key.getEVR() == EVR_OB || |
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1063 key.getEVR() == EVR_OF || |
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1064 key.getEVR() == EVR_OW || |
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1065 key.getEVR() == EVR_UN || |
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1066 key.getEVR() == EVR_ox); |
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1067 } |
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1068 |
1689 | 1069 |
1070 DcmElement* FromDcmtkBridge::CreateElementForTag(const DicomTag& tag) | |
1071 { | |
1072 DcmTag key(tag.GetGroup(), tag.GetElement()); | |
1073 | |
1818
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1074 if (tag.IsPrivate() || |
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1075 IsBinaryTag(key)) |
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1076 { |
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1077 return new DcmOtherByteOtherWord(key); |
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1078 } |
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1079 |
1689 | 1080 switch (key.getEVR()) |
1081 { | |
1082 // http://support.dcmtk.org/docs/dcvr_8h-source.html | |
1083 | |
1084 /** | |
1739
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1085 * Binary types, handled above |
1689 | 1086 **/ |
1087 | |
1088 case EVR_OB: // other byte | |
1089 case EVR_OF: // other float | |
1090 case EVR_OW: // other word | |
1091 case EVR_UN: // unknown value representation | |
1739
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1092 case EVR_ox: // OB or OW depending on context |
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1093 throw OrthancException(ErrorCode_InternalError); |
1689 | 1094 |
1095 | |
1096 /** | |
1097 * String types. | |
1098 * http://support.dcmtk.org/docs/classDcmByteString.html | |
1099 **/ | |
1100 | |
1101 case EVR_AS: // age string | |
1102 return new DcmAgeString(key); | |
1103 | |
1104 case EVR_AE: // application entity title | |
1105 return new DcmApplicationEntity(key); | |
1106 | |
1107 case EVR_CS: // code string | |
1108 return new DcmCodeString(key); | |
1109 | |
1110 case EVR_DA: // date string | |
1111 return new DcmDate(key); | |
1112 | |
1113 case EVR_DT: // date time string | |
1114 return new DcmDateTime(key); | |
1115 | |
1116 case EVR_DS: // decimal string | |
1117 return new DcmDecimalString(key); | |
1118 | |
1119 case EVR_IS: // integer string | |
1120 return new DcmIntegerString(key); | |
1121 | |
1122 case EVR_TM: // time string | |
1123 return new DcmTime(key); | |
1124 | |
1125 case EVR_UI: // unique identifier | |
1126 return new DcmUniqueIdentifier(key); | |
1127 | |
1128 case EVR_ST: // short text | |
1129 return new DcmShortText(key); | |
1130 | |
1131 case EVR_LO: // long string | |
1132 return new DcmLongString(key); | |
1133 | |
1134 case EVR_LT: // long text | |
1135 return new DcmLongText(key); | |
1136 | |
1137 case EVR_UT: // unlimited text | |
1138 return new DcmUnlimitedText(key); | |
1139 | |
1140 case EVR_SH: // short string | |
1141 return new DcmShortString(key); | |
1142 | |
1143 case EVR_PN: // person name | |
1144 return new DcmPersonName(key); | |
1145 | |
1146 | |
1147 /** | |
1148 * Numerical types | |
1149 **/ | |
1150 | |
1151 case EVR_SL: // signed long | |
1152 return new DcmSignedLong(key); | |
1153 | |
1154 case EVR_SS: // signed short | |
1155 return new DcmSignedShort(key); | |
1156 | |
1157 case EVR_UL: // unsigned long | |
1158 return new DcmUnsignedLong(key); | |
1159 | |
1160 case EVR_US: // unsigned short | |
1161 return new DcmUnsignedShort(key); | |
1162 | |
1163 case EVR_FL: // float single-precision | |
1164 return new DcmFloatingPointSingle(key); | |
1165 | |
1166 case EVR_FD: // float double-precision | |
1167 return new DcmFloatingPointDouble(key); | |
1168 | |
1169 | |
1170 /** | |
1171 * Sequence types, should never occur at this point. | |
1172 **/ | |
1173 | |
1174 case EVR_SQ: // sequence of items | |
1175 throw OrthancException(ErrorCode_ParameterOutOfRange); | |
1176 | |
1177 | |
1178 /** | |
1739
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1179 * TODO |
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1180 **/ |
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1181 |
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1182 case EVR_AT: // attribute tag |
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1183 throw OrthancException(ErrorCode_NotImplemented); |
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1184 |
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1185 |
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1186 /** |
1689 | 1187 * Internal to DCMTK. |
1188 **/ | |
1189 | |
1190 case EVR_xs: // SS or US depending on context | |
1191 case EVR_lt: // US, SS or OW depending on context, used for LUT Data (thus the name) | |
1192 case EVR_na: // na="not applicable", for data which has no VR | |
1193 case EVR_up: // up="unsigned pointer", used internally for DICOMDIR suppor | |
1194 case EVR_item: // used internally for items | |
1195 case EVR_metainfo: // used internally for meta info datasets | |
1196 case EVR_dataset: // used internally for datasets | |
1197 case EVR_fileFormat: // used internally for DICOM files | |
1198 case EVR_dicomDir: // used internally for DICOMDIR objects | |
1199 case EVR_dirRecord: // used internally for DICOMDIR records | |
1200 case EVR_pixelSQ: // used internally for pixel sequences in a compressed image | |
1201 case EVR_pixelItem: // used internally for pixel items in a compressed image | |
1202 case EVR_UNKNOWN: // used internally for elements with unknown VR (encoded with 4-byte length field in explicit VR) | |
1203 case EVR_PixelData: // used internally for uncompressed pixeld data | |
1204 case EVR_OverlayData: // used internally for overlay data | |
1205 case EVR_UNKNOWN2B: // used internally for elements with unknown VR with 2-byte length field in explicit VR | |
1206 default: | |
1207 break; | |
1208 } | |
1209 | |
1210 throw OrthancException(ErrorCode_InternalError); | |
1211 } | |
1212 | |
1213 | |
1214 | |
1215 void FromDcmtkBridge::FillElementWithString(DcmElement& element, | |
1216 const DicomTag& tag, | |
1695 | 1217 const std::string& utf8Value, |
1818
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1218 bool decodeDataUriScheme, |
1695 | 1219 Encoding dicomEncoding) |
1689 | 1220 { |
1221 std::string binary; | |
1695 | 1222 const std::string* decoded = &utf8Value; |
1689 | 1223 |
1818
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1224 if (decodeDataUriScheme && |
1695 | 1225 boost::starts_with(utf8Value, "data:application/octet-stream;base64,")) |
1689 | 1226 { |
1227 std::string mime; | |
1695 | 1228 Toolbox::DecodeDataUriScheme(mime, binary, utf8Value); |
1229 decoded = &binary; | |
1230 } | |
1231 else if (dicomEncoding != Encoding_Utf8) | |
1232 { | |
1233 binary = Toolbox::ConvertFromUtf8(utf8Value, dicomEncoding); | |
1689 | 1234 decoded = &binary; |
1235 } | |
1236 | |
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1237 DcmTag key(tag.GetGroup(), tag.GetElement()); |
1689 | 1238 |
1818
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1239 if (tag.IsPrivate() || |
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1240 IsBinaryTag(key)) |
1689 | 1241 { |
1242 if (element.putUint8Array((const Uint8*) decoded->c_str(), decoded->size()).good()) | |
1243 { | |
1244 return; | |
1245 } | |
1246 else | |
1247 { | |
1248 throw OrthancException(ErrorCode_InternalError); | |
1249 } | |
1250 } | |
1251 | |
1252 bool ok = false; | |
1253 | |
1254 try | |
1255 { | |
1256 switch (key.getEVR()) | |
1257 { | |
1258 // http://support.dcmtk.org/docs/dcvr_8h-source.html | |
1259 | |
1260 /** | |
1261 * TODO. | |
1262 **/ | |
1263 | |
1264 case EVR_OB: // other byte | |
1265 case EVR_OF: // other float | |
1266 case EVR_OW: // other word | |
1267 case EVR_AT: // attribute tag | |
1268 throw OrthancException(ErrorCode_NotImplemented); | |
1269 | |
1270 case EVR_UN: // unknown value representation | |
1271 throw OrthancException(ErrorCode_ParameterOutOfRange); | |
1272 | |
1273 | |
1274 /** | |
1275 * String types. | |
1276 **/ | |
1277 | |
1278 case EVR_DS: // decimal string | |
1279 case EVR_IS: // integer string | |
1280 case EVR_AS: // age string | |
1281 case EVR_DA: // date string | |
1282 case EVR_DT: // date time string | |
1283 case EVR_TM: // time string | |
1284 case EVR_AE: // application entity title | |
1285 case EVR_CS: // code string | |
1286 case EVR_SH: // short string | |
1287 case EVR_LO: // long string | |
1288 case EVR_ST: // short text | |
1289 case EVR_LT: // long text | |
1290 case EVR_UT: // unlimited text | |
1291 case EVR_PN: // person name | |
1292 case EVR_UI: // unique identifier | |
1293 { | |
1294 ok = element.putString(decoded->c_str()).good(); | |
1295 break; | |
1296 } | |
1297 | |
1298 | |
1299 /** | |
1300 * Numerical types | |
1301 **/ | |
1302 | |
1303 case EVR_SL: // signed long | |
1304 { | |
1305 ok = element.putSint32(boost::lexical_cast<Sint32>(*decoded)).good(); | |
1306 break; | |
1307 } | |
1308 | |
1309 case EVR_SS: // signed short | |
1310 { | |
1311 ok = element.putSint16(boost::lexical_cast<Sint16>(*decoded)).good(); | |
1312 break; | |
1313 } | |
1314 | |
1315 case EVR_UL: // unsigned long | |
1316 { | |
1317 ok = element.putUint32(boost::lexical_cast<Uint32>(*decoded)).good(); | |
1318 break; | |
1319 } | |
1320 | |
1321 case EVR_US: // unsigned short | |
1322 { | |
1323 ok = element.putUint16(boost::lexical_cast<Uint16>(*decoded)).good(); | |
1324 break; | |
1325 } | |
1326 | |
1327 case EVR_FL: // float single-precision | |
1328 { | |
1329 ok = element.putFloat32(boost::lexical_cast<float>(*decoded)).good(); | |
1330 break; | |
1331 } | |
1332 | |
1333 case EVR_FD: // float double-precision | |
1334 { | |
1335 ok = element.putFloat64(boost::lexical_cast<double>(*decoded)).good(); | |
1336 break; | |
1337 } | |
1338 | |
1339 | |
1340 /** | |
1341 * Sequence types, should never occur at this point. | |
1342 **/ | |
1343 | |
1344 case EVR_SQ: // sequence of items | |
1345 { | |
1346 ok = false; | |
1347 break; | |
1348 } | |
1349 | |
1350 | |
1351 /** | |
1352 * Internal to DCMTK. | |
1353 **/ | |
1354 | |
1355 case EVR_ox: // OB or OW depending on context | |
1356 case EVR_xs: // SS or US depending on context | |
1357 case EVR_lt: // US, SS or OW depending on context, used for LUT Data (thus the name) | |
1358 case EVR_na: // na="not applicable", for data which has no VR | |
1359 case EVR_up: // up="unsigned pointer", used internally for DICOMDIR suppor | |
1360 case EVR_item: // used internally for items | |
1361 case EVR_metainfo: // used internally for meta info datasets | |
1362 case EVR_dataset: // used internally for datasets | |
1363 case EVR_fileFormat: // used internally for DICOM files | |
1364 case EVR_dicomDir: // used internally for DICOMDIR objects | |
1365 case EVR_dirRecord: // used internally for DICOMDIR records | |
1366 case EVR_pixelSQ: // used internally for pixel sequences in a compressed image | |
1367 case EVR_pixelItem: // used internally for pixel items in a compressed image | |
1368 case EVR_UNKNOWN: // used internally for elements with unknown VR (encoded with 4-byte length field in explicit VR) | |
1369 case EVR_PixelData: // used internally for uncompressed pixeld data | |
1370 case EVR_OverlayData: // used internally for overlay data | |
1371 case EVR_UNKNOWN2B: // used internally for elements with unknown VR with 2-byte length field in explicit VR | |
1372 default: | |
1373 break; | |
1374 } | |
1375 } | |
1376 catch (boost::bad_lexical_cast&) | |
1377 { | |
1378 ok = false; | |
1379 } | |
1380 | |
1381 if (!ok) | |
1382 { | |
1383 throw OrthancException(ErrorCode_InternalError); | |
1384 } | |
1385 } | |
1386 | |
1387 | |
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1388 DcmElement* FromDcmtkBridge::FromJson(const DicomTag& tag, |
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diff
changeset
|
1389 const Json::Value& value, |
1818
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
1390 bool decodeDataUriScheme, |
1695 | 1391 Encoding dicomEncoding) |
1689 | 1392 { |
1393 std::auto_ptr<DcmElement> element; | |
1394 | |
1690 | 1395 switch (value.type()) |
1689 | 1396 { |
1690 | 1397 case Json::stringValue: |
1398 element.reset(CreateElementForTag(tag)); | |
1818
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1792
diff
changeset
|
1399 FillElementWithString(*element, tag, value.asString(), decodeDataUriScheme, dicomEncoding); |
1690 | 1400 break; |
1401 | |
1402 case Json::arrayValue: | |
1403 { | |
1404 DcmTag key(tag.GetGroup(), tag.GetElement()); | |
1405 if (key.getEVR() != EVR_SQ) | |
1406 { | |
1407 throw OrthancException(ErrorCode_BadParameterType); | |
1408 } | |
1409 | |
1410 DcmSequenceOfItems* sequence = new DcmSequenceOfItems(key, value.size()); | |
1411 element.reset(sequence); | |
1412 | |
1413 for (Json::Value::ArrayIndex i = 0; i < value.size(); i++) | |
1414 { | |
1415 std::auto_ptr<DcmItem> item(new DcmItem); | |
1416 | |
1417 Json::Value::Members members = value[i].getMemberNames(); | |
1418 for (Json::Value::ArrayIndex j = 0; j < members.size(); j++) | |
1419 { | |
1818
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1792
diff
changeset
|
1420 item->insert(FromJson(ParseTag(members[j]), value[i][members[j]], decodeDataUriScheme, dicomEncoding)); |
1690 | 1421 } |
1422 | |
1423 sequence->append(item.release()); | |
1424 } | |
1425 | |
1426 break; | |
1427 } | |
1428 | |
1429 default: | |
1430 throw OrthancException(ErrorCode_BadParameterType); | |
1689 | 1431 } |
1432 | |
1433 return element.release(); | |
1434 } | |
1765
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
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|
1435 |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
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|
1436 |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
1437 DcmEVR FromDcmtkBridge::ParseValueRepresentation(const std::string& s) |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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diff
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|
1438 { |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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diff
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|
1439 if (s == "AE") |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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diff
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|
1440 return EVR_AE; |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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diff
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|
1441 |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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diff
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|
1442 if (s == "AS") |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
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|
1443 return EVR_AS; |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
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|
1444 |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
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|
1445 if (s == "AT") |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
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|
1446 return EVR_AT; |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
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|
1447 |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
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|
1448 if (s == "CS") |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
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|
1449 return EVR_CS; |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
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|
1450 |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
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|
1451 if (s == "DA") |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
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|
1452 return EVR_DA; |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
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|
1453 |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
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|
1454 if (s == "DS") |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
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|
1455 return EVR_DS; |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
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|
1456 |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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|
1457 if (s == "DT") |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
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|
1458 return EVR_DT; |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
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|
1459 |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
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|
1460 if (s == "FD") |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
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changeset
|
1461 return EVR_FD; |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
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|
1462 |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
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|
1463 if (s == "FL") |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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diff
changeset
|
1464 return EVR_FL; |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
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|
1465 |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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diff
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|
1466 if (s == "IS") |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
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|
1467 return EVR_IS; |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
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|
1468 |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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changeset
|
1469 if (s == "LO") |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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diff
changeset
|
1470 return EVR_LO; |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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|
1471 |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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|
1472 if (s == "LT") |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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|
1473 return EVR_LT; |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
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diff
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|
1474 |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
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|
1475 if (s == "OB") |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
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|
1476 return EVR_OB; |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
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parents:
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diff
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|
1477 |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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|
1478 if (s == "OF") |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
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changeset
|
1479 return EVR_OF; |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
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|
1480 |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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|
1481 if (s == "OW") |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
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|
1482 return EVR_OW; |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
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|
1483 |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
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|
1484 if (s == "PN") |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
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|
1485 return EVR_PN; |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
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|
1486 |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
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|
1487 if (s == "SH") |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
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|
1488 return EVR_SH; |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
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|
1489 |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
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|
1490 if (s == "SL") |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
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changeset
|
1491 return EVR_SL; |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
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|
1492 |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
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parents:
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|
1493 if (s == "SQ") |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
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changeset
|
1494 return EVR_SQ; |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
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|
1495 |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
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parents:
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changeset
|
1496 if (s == "SS") |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
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|
1497 return EVR_SS; |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
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|
1498 |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
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parents:
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changeset
|
1499 if (s == "ST") |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
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|
1500 return EVR_ST; |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
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|
1501 |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
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parents:
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changeset
|
1502 if (s == "TM") |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
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parents:
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|
1503 return EVR_TM; |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
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parents:
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|
1504 |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
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parents:
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changeset
|
1505 if (s == "UI") |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
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parents:
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changeset
|
1506 return EVR_UI; |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
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parents:
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changeset
|
1507 |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
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parents:
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changeset
|
1508 if (s == "UL") |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
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parents:
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changeset
|
1509 return EVR_UL; |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
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parents:
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|
1510 |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
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parents:
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changeset
|
1511 if (s == "UN") |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
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changeset
|
1512 return EVR_UN; |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
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|
1513 |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
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|
1514 if (s == "US") |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
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changeset
|
1515 return EVR_US; |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
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parents:
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|
1516 |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
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|
1517 if (s == "UT") |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
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parents:
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diff
changeset
|
1518 return EVR_UT; |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
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parents:
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changeset
|
1519 |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
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changeset
|
1520 throw OrthancException(ErrorCode_ParameterOutOfRange); |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
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changeset
|
1521 } |
0 | 1522 } |