Mercurial > hg > orthanc
annotate OrthancServer/FromDcmtkBridge.cpp @ 1738:15a788a63846
DicomToJsonFlags_IncludeBinary
author | Sebastien Jodogne <s.jodogne@gmail.com> |
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date | Thu, 22 Oct 2015 09:28:08 +0200 |
parents | ec66a16aa398 |
children | df331354cea2 |
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 if (maxMultiplicity == 0) |
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259 { |
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260 maxMultiplicity = DcmVariableVM; |
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261 } |
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262 else if (maxMultiplicity < minMultiplicity) |
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263 { |
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264 throw OrthancException(ErrorCode_ParameterOutOfRange); |
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265 } |
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266 |
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267 std::auto_ptr<DcmDictEntry> entry(new DcmDictEntry(tag.GetGroup(), |
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268 tag.GetElement(), |
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269 vr, name.c_str(), |
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270 static_cast<int>(minMultiplicity), |
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271 static_cast<int>(maxMultiplicity), |
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272 NULL /* version */, |
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273 OFTrue /* doCopyString */, |
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274 NULL /* private creator */)); |
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275 |
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276 entry->setGroupRangeRestriction(DcmDictRange_Unspecified); |
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277 entry->setElementRangeRestriction(DcmDictRange_Unspecified); |
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278 |
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279 { |
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280 DictionaryLocker locker; |
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281 locker->addEntry(entry.release()); |
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282 } |
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283 } |
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284 |
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285 |
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286 Encoding FromDcmtkBridge::DetectEncoding(DcmDataset& dataset) |
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287 { |
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288 // By default, Latin1 encoding is assumed |
1557 | 289 std::string s = Configuration::GetGlobalStringParameter("DefaultEncoding", "Latin1"); |
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290 Encoding encoding = s.empty() ? Encoding_Latin1 : StringToEncoding(s.c_str()); |
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291 |
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292 OFString tmp; |
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293 if (dataset.findAndGetOFString(DCM_SpecificCharacterSet, tmp).good()) |
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294 { |
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295 std::string characterSet = Toolbox::StripSpaces(std::string(tmp.c_str())); |
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296 |
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297 if (characterSet.empty()) |
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298 { |
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299 // Empty specific character set tag: Use the default encoding |
1087 | 300 } |
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301 else if (GetDicomEncoding(encoding, characterSet.c_str())) |
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303 // The specific character set is supported by the Orthanc core |
1087 | 304 } |
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305 else |
1087 | 306 { |
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307 LOG(WARNING) << "Value of Specific Character Set (0008,0005) is not supported: " << characterSet |
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308 << ", fallback to ASCII (remove all special characters)"; |
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309 encoding = Encoding_Ascii; |
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310 } |
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311 } |
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312 else |
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313 { |
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314 // No specific character set tag: Use the default encoding |
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315 } |
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316 |
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317 return encoding; |
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318 } |
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319 |
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320 |
0 | 321 void FromDcmtkBridge::Convert(DicomMap& target, DcmDataset& dataset) |
322 { | |
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323 Encoding encoding = DetectEncoding(dataset); |
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324 |
0 | 325 target.Clear(); |
326 for (unsigned long i = 0; i < dataset.card(); i++) | |
327 { | |
328 DcmElement* element = dataset.getElement(i); | |
329 if (element && element->isLeaf()) | |
330 { | |
331 target.SetValue(element->getTag().getGTag(), | |
332 element->getTag().getETag(), | |
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333 ConvertLeafElement(*element, DicomToJsonFlags_Default, encoding)); |
0 | 334 } |
335 } | |
336 } | |
337 | |
338 | |
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339 DicomTag FromDcmtkBridge::Convert(const DcmTag& tag) |
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340 { |
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341 return DicomTag(tag.getGTag(), tag.getETag()); |
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342 } |
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343 |
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344 |
0 | 345 DicomTag FromDcmtkBridge::GetTag(const DcmElement& element) |
346 { | |
347 return DicomTag(element.getGTag(), element.getETag()); | |
348 } | |
349 | |
350 | |
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351 bool FromDcmtkBridge::IsPrivateTag(const DicomTag& tag) |
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352 { |
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353 #if 1 |
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354 DcmTagKey tmp(tag.GetGroup(), tag.GetElement()); |
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355 return tmp.isPrivate(); |
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356 #else |
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357 // Implementation for Orthanc versions <= 0.8.5 |
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358 DcmTag tmp(tag.GetGroup(), tag.GetElement()); |
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359 return IsPrivateTag(tmp); |
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360 #endif |
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361 } |
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362 |
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363 |
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364 DicomValue* FromDcmtkBridge::ConvertLeafElement(DcmElement& element, |
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365 DicomToJsonFlags flags, |
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366 Encoding encoding) |
0 | 367 { |
368 if (!element.isLeaf()) | |
369 { | |
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370 // This function is only applicable to leaf elements |
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371 throw OrthancException(ErrorCode_BadParameterType); |
0 | 372 } |
373 | |
374 if (element.isaString()) | |
375 { | |
376 char *c; | |
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377 if (element.getString(c).good()) |
0 | 378 { |
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379 if (c == NULL) // This case corresponds to the empty string |
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380 { |
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381 return new DicomValue("", false); |
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382 } |
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383 else |
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384 { |
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385 std::string s(c); |
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386 std::string utf8 = Toolbox::ConvertToUtf8(s, encoding); |
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387 return new DicomValue(utf8, false); |
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388 } |
0 | 389 } |
390 else | |
391 { | |
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392 return new DicomValue; |
0 | 393 } |
394 } | |
395 | |
396 try | |
397 { | |
398 // http://support.dcmtk.org/docs/dcvr_8h-source.html | |
399 switch (element.getVR()) | |
400 { | |
401 | |
402 /** | |
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403 * Deal with binary data (including PixelData). |
0 | 404 **/ |
306
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405 |
302
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406 case EVR_OB: // other byte |
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407 case EVR_OF: // other float |
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408 case EVR_OW: // other word |
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409 case EVR_UN: // unknown value representation |
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410 { |
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411 DicomTag tag(Convert(element.getTag())); |
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412 |
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413 if ((tag == DICOM_TAG_PIXEL_DATA && flags & DicomToJsonFlags_IncludePixelData) || |
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414 (tag != DICOM_TAG_PIXEL_DATA && flags & DicomToJsonFlags_IncludeBinary)) |
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415 { |
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416 Uint8* data = NULL; |
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417 if (element.getUint8Array(data) == EC_Normal) |
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418 { |
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419 return new DicomValue(reinterpret_cast<const char*>(data), element.getLength(), true); |
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420 } |
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421 } |
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422 |
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423 return new DicomValue; |
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424 } |
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425 |
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426 /** |
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427 * String types, should never happen at this point because of |
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428 * "element.isaString()". |
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429 **/ |
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430 |
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431 case EVR_DS: // decimal string |
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432 case EVR_IS: // integer string |
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433 case EVR_AS: // age string |
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434 case EVR_DA: // date string |
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435 case EVR_DT: // date time string |
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436 case EVR_TM: // time string |
302
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437 case EVR_AE: // application entity title |
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438 case EVR_CS: // code string |
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439 case EVR_SH: // short string |
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440 case EVR_LO: // long string |
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441 case EVR_ST: // short text |
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442 case EVR_LT: // long text |
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443 case EVR_UT: // unlimited text |
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444 case EVR_PN: // person name |
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445 case EVR_UI: // unique identifier |
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446 return new DicomValue; |
0 | 447 |
448 | |
302
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449 /** |
1131 | 450 * Numberic types |
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451 **/ |
0 | 452 |
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453 case EVR_SL: // signed long |
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454 { |
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455 Sint32 f; |
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456 if (dynamic_cast<DcmSignedLong&>(element).getSint32(f).good()) |
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457 return new DicomValue(boost::lexical_cast<std::string>(f), false); |
302
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458 else |
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459 return new DicomValue; |
302
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460 } |
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461 |
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462 case EVR_SS: // signed short |
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463 { |
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464 Sint16 f; |
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465 if (dynamic_cast<DcmSignedShort&>(element).getSint16(f).good()) |
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466 return new DicomValue(boost::lexical_cast<std::string>(f), false); |
302
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467 else |
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468 return new DicomValue; |
302
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469 } |
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470 |
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471 case EVR_UL: // unsigned long |
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472 { |
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473 Uint32 f; |
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474 if (dynamic_cast<DcmUnsignedLong&>(element).getUint32(f).good()) |
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475 return new DicomValue(boost::lexical_cast<std::string>(f), false); |
302
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476 else |
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477 return new DicomValue; |
302
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478 } |
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479 |
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480 case EVR_US: // unsigned short |
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481 { |
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482 Uint16 f; |
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483 if (dynamic_cast<DcmUnsignedShort&>(element).getUint16(f).good()) |
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484 return new DicomValue(boost::lexical_cast<std::string>(f), false); |
302
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485 else |
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486 return new DicomValue; |
302
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487 } |
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488 |
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489 case EVR_FL: // float single-precision |
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490 { |
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491 Float32 f; |
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492 if (dynamic_cast<DcmFloatingPointSingle&>(element).getFloat32(f).good()) |
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493 return new DicomValue(boost::lexical_cast<std::string>(f), false); |
302
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494 else |
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495 return new DicomValue; |
302
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496 } |
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497 |
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498 case EVR_FD: // float double-precision |
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499 { |
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500 Float64 f; |
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501 if (dynamic_cast<DcmFloatingPointDouble&>(element).getFloat64(f).good()) |
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502 return new DicomValue(boost::lexical_cast<std::string>(f), false); |
302
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503 else |
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504 return new DicomValue; |
1131 | 505 } |
506 | |
507 | |
508 /** | |
509 * Attribute tag. | |
510 **/ | |
511 | |
512 case EVR_AT: | |
513 { | |
1147 | 514 DcmTagKey tag; |
515 if (dynamic_cast<DcmAttributeTag&>(element).getTagVal(tag, 0).good()) | |
516 { | |
517 DicomTag t(tag.getGroup(), tag.getElement()); | |
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518 return new DicomValue(t.Format(), false); |
1147 | 519 } |
1131 | 520 else |
1147 | 521 { |
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522 return new DicomValue; |
1147 | 523 } |
302
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524 } |
0 | 525 |
526 | |
527 /** | |
302
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528 * Sequence types, should never occur at this point because of |
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529 * "element.isLeaf()". |
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530 **/ |
0 | 531 |
302
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532 case EVR_SQ: // sequence of items |
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533 return new DicomValue; |
0 | 534 |
535 | |
302
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536 /** |
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537 * Internal to DCMTK. |
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538 **/ |
0 | 539 |
302
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540 case EVR_ox: // OB or OW depending on context |
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541 case EVR_xs: // SS or US depending on context |
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542 case EVR_lt: // US, SS or OW depending on context, used for LUT Data (thus the name) |
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543 case EVR_na: // na="not applicable", for data which has no VR |
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544 case EVR_up: // up="unsigned pointer", used internally for DICOMDIR suppor |
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545 case EVR_item: // used internally for items |
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546 case EVR_metainfo: // used internally for meta info datasets |
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547 case EVR_dataset: // used internally for datasets |
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548 case EVR_fileFormat: // used internally for DICOM files |
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549 case EVR_dicomDir: // used internally for DICOMDIR objects |
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550 case EVR_dirRecord: // used internally for DICOMDIR records |
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551 case EVR_pixelSQ: // used internally for pixel sequences in a compressed image |
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552 case EVR_pixelItem: // used internally for pixel items in a compressed image |
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553 case EVR_UNKNOWN: // used internally for elements with unknown VR (encoded with 4-byte length field in explicit VR) |
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554 case EVR_PixelData: // used internally for uncompressed pixeld data |
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555 case EVR_OverlayData: // used internally for overlay data |
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556 case EVR_UNKNOWN2B: // used internally for elements with unknown VR with 2-byte length field in explicit VR |
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557 return new DicomValue; |
0 | 558 |
559 | |
302
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560 /** |
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561 * Default case. |
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562 **/ |
0 | 563 |
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564 default: |
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565 return new DicomValue; |
0 | 566 } |
567 } | |
568 catch (boost::bad_lexical_cast) | |
569 { | |
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570 return new DicomValue; |
0 | 571 } |
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572 catch (std::bad_cast) |
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573 { |
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574 return new DicomValue; |
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575 } |
0 | 576 } |
577 | |
578 | |
1687 | 579 static Json::Value& PrepareNode(Json::Value& parent, |
580 DcmElement& element, | |
581 DicomToJsonFormat format) | |
0 | 582 { |
1687 | 583 assert(parent.type() == Json::objectValue); |
0 | 584 |
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585 DicomTag tag(FromDcmtkBridge::GetTag(element)); |
305
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586 const std::string formattedTag = tag.Format(); |
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587 |
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588 if (format == DicomToJsonFormat_Short) |
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589 { |
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590 parent[formattedTag] = Json::nullValue; |
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591 return parent[formattedTag]; |
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592 } |
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593 |
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594 // This code gives access to the name of the private tags |
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595 DcmTag tagbis(element.getTag()); |
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596 const std::string tagName(tagbis.getTagName()); |
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597 |
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598 switch (format) |
0 | 599 { |
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600 case DicomToJsonFormat_Simple: |
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601 parent[tagName] = Json::nullValue; |
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602 return parent[tagName]; |
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603 |
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604 case DicomToJsonFormat_Full: |
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605 { |
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606 parent[formattedTag] = Json::objectValue; |
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607 Json::Value& node = parent[formattedTag]; |
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608 |
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609 if (element.isLeaf()) |
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610 { |
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611 node["Name"] = tagName; |
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612 |
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613 if (tagbis.getPrivateCreator() != NULL) |
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614 { |
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615 node["PrivateCreator"] = tagbis.getPrivateCreator(); |
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616 } |
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617 |
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618 return node; |
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619 } |
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620 else |
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621 { |
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622 node["Name"] = tagName; |
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623 node["Type"] = "Sequence"; |
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624 node["Value"] = Json::nullValue; |
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625 return node["Value"]; |
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626 } |
306
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627 } |
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628 |
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629 default: |
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630 throw OrthancException(ErrorCode_ParameterOutOfRange); |
1687 | 631 } |
632 } | |
633 | |
634 | |
635 static void LeafValueToJson(Json::Value& target, | |
636 const DicomValue& value, | |
637 DicomToJsonFormat format, | |
1738
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638 DicomToJsonFlags flags, |
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639 unsigned int maxStringLength) |
1687 | 640 { |
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641 Json::Value* targetValue = NULL; |
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642 Json::Value* targetType = NULL; |
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643 |
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644 switch (format) |
1687 | 645 { |
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646 case DicomToJsonFormat_Short: |
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647 case DicomToJsonFormat_Simple: |
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648 { |
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|
649 assert(target.type() == Json::nullValue); |
1738
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|
650 targetValue = ⌖ |
1688
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DicomToJsonFormat enumeration
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|
651 break; |
27d70e9ee2e4
DicomToJsonFormat enumeration
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diff
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|
652 } |
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DicomToJsonFormat enumeration
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diff
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|
653 |
27d70e9ee2e4
DicomToJsonFormat enumeration
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diff
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|
654 case DicomToJsonFormat_Full: |
0 | 655 { |
1688
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DicomToJsonFormat enumeration
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656 assert(target.type() == Json::objectValue); |
1738
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657 target["Value"] = Json::nullValue; |
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658 target["Type"] = Json::nullValue; |
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DicomToJsonFlags_IncludeBinary
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659 targetType = &target["Type"]; |
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DicomToJsonFlags_IncludeBinary
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660 targetValue = &target["Value"]; |
1688
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DicomToJsonFormat enumeration
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|
661 break; |
0 | 662 } |
1688
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DicomToJsonFormat enumeration
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|
663 |
27d70e9ee2e4
DicomToJsonFormat enumeration
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diff
changeset
|
664 default: |
27d70e9ee2e4
DicomToJsonFormat enumeration
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diff
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|
665 throw OrthancException(ErrorCode_ParameterOutOfRange); |
1687 | 666 } |
1738
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|
667 |
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668 assert(targetValue != NULL); |
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669 assert(targetValue->type() == Json::nullValue); |
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DicomToJsonFlags_IncludeBinary
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670 assert(targetType == NULL || targetType->type() == Json::nullValue); |
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DicomToJsonFlags_IncludeBinary
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|
671 |
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|
672 if (value.IsNull()) |
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673 { |
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|
674 if (targetType != NULL) |
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|
675 { |
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676 *targetType = "Null"; |
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677 } |
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678 } |
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679 else if (value.IsBinary()) |
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680 { |
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681 if (flags & DicomToJsonFlags_ConvertBinaryToAscii) |
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DicomToJsonFlags_IncludeBinary
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682 { |
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683 *targetValue = Toolbox::ConvertToAscii(value.GetContent()); |
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684 } |
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DicomToJsonFlags_IncludeBinary
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685 else |
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686 { |
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DicomToJsonFlags_IncludeBinary
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|
687 std::string s; |
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688 value.FormatDataUriScheme(s); |
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DicomToJsonFlags_IncludeBinary
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689 *targetValue = s; |
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|
690 } |
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|
691 |
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|
692 if (targetType != NULL) |
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DicomToJsonFlags_IncludeBinary
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|
693 { |
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DicomToJsonFlags_IncludeBinary
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694 *targetType = "Binary"; |
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diff
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|
695 } |
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DicomToJsonFlags_IncludeBinary
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|
696 } |
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DicomToJsonFlags_IncludeBinary
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697 else if (maxStringLength == 0 || |
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DicomToJsonFlags_IncludeBinary
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|
698 value.GetContent().size() <= maxStringLength) |
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|
699 { |
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|
700 *targetValue = value.GetContent(); |
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DicomToJsonFlags_IncludeBinary
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diff
changeset
|
701 |
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DicomToJsonFlags_IncludeBinary
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diff
changeset
|
702 if (targetType != NULL) |
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DicomToJsonFlags_IncludeBinary
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diff
changeset
|
703 { |
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DicomToJsonFlags_IncludeBinary
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diff
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|
704 *targetType = "String"; |
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DicomToJsonFlags_IncludeBinary
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diff
changeset
|
705 } |
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DicomToJsonFlags_IncludeBinary
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parents:
1737
diff
changeset
|
706 } |
15a788a63846
DicomToJsonFlags_IncludeBinary
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diff
changeset
|
707 else |
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DicomToJsonFlags_IncludeBinary
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diff
changeset
|
708 { |
15a788a63846
DicomToJsonFlags_IncludeBinary
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diff
changeset
|
709 if (targetType != NULL) |
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DicomToJsonFlags_IncludeBinary
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diff
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|
710 { |
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DicomToJsonFlags_IncludeBinary
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diff
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|
711 *targetType = "TooLong"; |
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DicomToJsonFlags_IncludeBinary
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diff
changeset
|
712 } |
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DicomToJsonFlags_IncludeBinary
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parents:
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diff
changeset
|
713 } |
1687 | 714 } |
35
f6d12037f886
full json vs. simplified json
Sebastien Jodogne <s.jodogne@gmail.com>
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2
diff
changeset
|
715 |
1687 | 716 |
717 static void DatasetToJson(Json::Value& parent, | |
718 DcmItem& item, | |
719 DicomToJsonFormat format, | |
1735
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primitives for flags in dicom-to-json conversions
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diff
changeset
|
720 DicomToJsonFlags flags, |
1687 | 721 unsigned int maxStringLength, |
722 Encoding encoding); | |
723 | |
724 | |
1690 | 725 void FromDcmtkBridge::ToJson(Json::Value& parent, |
726 DcmElement& element, | |
727 DicomToJsonFormat format, | |
1735
a001f6226c7c
primitives for flags in dicom-to-json conversions
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1695
diff
changeset
|
728 DicomToJsonFlags flags, |
1690 | 729 unsigned int maxStringLength, |
730 Encoding encoding) | |
1687 | 731 { |
1691 | 732 if (parent.type() == Json::nullValue) |
733 { | |
734 parent = Json::objectValue; | |
735 } | |
736 | |
737 assert(parent.type() == Json::objectValue); | |
1687 | 738 Json::Value& target = PrepareNode(parent, element, format); |
739 | |
740 if (element.isLeaf()) | |
741 { | |
1736
b953c6eef28d
ToJson: IncludePrivateTags and IncludeUnknownTags
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1735
diff
changeset
|
742 std::auto_ptr<DicomValue> v(FromDcmtkBridge::ConvertLeafElement(element, flags, encoding)); |
1738
15a788a63846
DicomToJsonFlags_IncludeBinary
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diff
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|
743 LeafValueToJson(target, *v, format, flags, maxStringLength); |
0 | 744 } |
745 else | |
746 { | |
1688
27d70e9ee2e4
DicomToJsonFormat enumeration
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diff
changeset
|
747 assert(target.type() == Json::nullValue); |
27d70e9ee2e4
DicomToJsonFormat enumeration
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1687
diff
changeset
|
748 target = Json::arrayValue; |
0 | 749 |
750 // "All subclasses of DcmElement except for DcmSequenceOfItems | |
751 // are leaf nodes, while DcmSequenceOfItems, DcmItem, DcmDataset | |
1687 | 752 // etc. are not." The following dynamic_cast is thus OK. |
0 | 753 DcmSequenceOfItems& sequence = dynamic_cast<DcmSequenceOfItems&>(element); |
754 | |
755 for (unsigned long i = 0; i < sequence.card(); i++) | |
756 { | |
757 DcmItem* child = sequence.getItem(i); | |
1687 | 758 Json::Value& v = target.append(Json::objectValue); |
1735
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primitives for flags in dicom-to-json conversions
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diff
changeset
|
759 DatasetToJson(v, *child, format, flags, maxStringLength, encoding); |
1687 | 760 } |
0 | 761 } |
762 } | |
763 | |
764 | |
1687 | 765 static void DatasetToJson(Json::Value& parent, |
1686 | 766 DcmItem& item, |
767 DicomToJsonFormat format, | |
1735
a001f6226c7c
primitives for flags in dicom-to-json conversions
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diff
changeset
|
768 DicomToJsonFlags flags, |
1686 | 769 unsigned int maxStringLength, |
770 Encoding encoding) | |
771 { | |
1688
27d70e9ee2e4
DicomToJsonFormat enumeration
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diff
changeset
|
772 assert(parent.type() == Json::objectValue); |
1686 | 773 |
774 for (unsigned long i = 0; i < item.card(); i++) | |
775 { | |
776 DcmElement* element = item.getElement(i); | |
1735
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primitives for flags in dicom-to-json conversions
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|
777 if (element == NULL) |
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primitives for flags in dicom-to-json conversions
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diff
changeset
|
778 { |
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primitives for flags in dicom-to-json conversions
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diff
changeset
|
779 throw OrthancException(ErrorCode_InternalError); |
a001f6226c7c
primitives for flags in dicom-to-json conversions
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diff
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|
780 } |
a001f6226c7c
primitives for flags in dicom-to-json conversions
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1695
diff
changeset
|
781 |
1736
b953c6eef28d
ToJson: IncludePrivateTags and IncludeUnknownTags
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diff
changeset
|
782 if (!(flags & DicomToJsonFlags_IncludePrivateTags) && |
b953c6eef28d
ToJson: IncludePrivateTags and IncludeUnknownTags
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diff
changeset
|
783 element->getTag().isPrivate()) |
b953c6eef28d
ToJson: IncludePrivateTags and IncludeUnknownTags
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diff
changeset
|
784 { |
b953c6eef28d
ToJson: IncludePrivateTags and IncludeUnknownTags
Sebastien Jodogne <s.jodogne@gmail.com>
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1735
diff
changeset
|
785 continue; |
b953c6eef28d
ToJson: IncludePrivateTags and IncludeUnknownTags
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parents:
1735
diff
changeset
|
786 } |
b953c6eef28d
ToJson: IncludePrivateTags and IncludeUnknownTags
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diff
changeset
|
787 |
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ToJson: IncludePrivateTags and IncludeUnknownTags
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1735
diff
changeset
|
788 if (!(flags & DicomToJsonFlags_IncludeUnknownTags)) |
1735
a001f6226c7c
primitives for flags in dicom-to-json conversions
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diff
changeset
|
789 { |
1736
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ToJson: IncludePrivateTags and IncludeUnknownTags
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diff
changeset
|
790 DictionaryLocker locker; |
b953c6eef28d
ToJson: IncludePrivateTags and IncludeUnknownTags
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diff
changeset
|
791 if (locker->findEntry(element->getTag(), NULL) == NULL) |
b953c6eef28d
ToJson: IncludePrivateTags and IncludeUnknownTags
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
792 { |
b953c6eef28d
ToJson: IncludePrivateTags and IncludeUnknownTags
Sebastien Jodogne <s.jodogne@gmail.com>
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1735
diff
changeset
|
793 continue; |
b953c6eef28d
ToJson: IncludePrivateTags and IncludeUnknownTags
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1735
diff
changeset
|
794 } |
1735
a001f6226c7c
primitives for flags in dicom-to-json conversions
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1695
diff
changeset
|
795 } |
1736
b953c6eef28d
ToJson: IncludePrivateTags and IncludeUnknownTags
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
796 |
b953c6eef28d
ToJson: IncludePrivateTags and IncludeUnknownTags
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parents:
1735
diff
changeset
|
797 FromDcmtkBridge::ToJson(parent, *element, format, flags, maxStringLength, encoding); |
1686 | 798 } |
799 } | |
800 | |
801 | |
1687 | 802 void FromDcmtkBridge::ToJson(Json::Value& target, |
0 | 803 DcmDataset& dataset, |
1686 | 804 DicomToJsonFormat format, |
1735
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primitives for flags in dicom-to-json conversions
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
805 DicomToJsonFlags flags, |
0 | 806 unsigned int maxStringLength) |
807 { | |
1688
27d70e9ee2e4
DicomToJsonFormat enumeration
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1687
diff
changeset
|
808 target = Json::objectValue; |
1735
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primitives for flags in dicom-to-json conversions
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diff
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|
809 DatasetToJson(target, dataset, format, flags, maxStringLength, DetectEncoding(dataset)); |
0 | 810 } |
811 | |
812 | |
813 std::string FromDcmtkBridge::GetName(const DicomTag& t) | |
814 { | |
106 | 815 // Some patches for important tags because of different DICOM |
816 // dictionaries between DCMTK versions | |
291
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embedding of dicom dictionaries
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diff
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|
817 std::string n = t.GetMainTagsName(); |
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diff
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|
818 if (n.size() != 0) |
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embedding of dicom dictionaries
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diff
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819 { |
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diff
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|
820 return n; |
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embedding of dicom dictionaries
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|
821 } |
106 | 822 // End of patches |
823 | |
305
86bb79522f19
name of the private tags
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824 #if 0 |
0 | 825 DcmTagKey tag(t.GetGroup(), t.GetElement()); |
826 const DcmDataDictionary& dict = dcmDataDict.rdlock(); | |
827 const DcmDictEntry* entry = dict.findEntry(tag, NULL); | |
828 | |
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829 std::string s(DcmTag_ERROR_TagName); |
0 | 830 if (entry != NULL) |
831 { | |
832 s = std::string(entry->getTagName()); | |
833 } | |
834 | |
835 dcmDataDict.unlock(); | |
836 return s; | |
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837 #else |
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838 DcmTag tag(t.GetGroup(), t.GetElement()); |
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839 const char* name = tag.getTagName(); |
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840 if (name == NULL) |
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841 { |
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842 return DcmTag_ERROR_TagName; |
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843 } |
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844 else |
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845 { |
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846 return std::string(name); |
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847 } |
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848 #endif |
0 | 849 } |
850 | |
851 | |
304 | 852 DicomTag FromDcmtkBridge::ParseTag(const char* name) |
0 | 853 { |
304 | 854 if (strlen(name) == 9 && |
855 isxdigit(name[0]) && | |
856 isxdigit(name[1]) && | |
857 isxdigit(name[2]) && | |
858 isxdigit(name[3]) && | |
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859 (name[4] == '-' || name[4] == ',') && |
304 | 860 isxdigit(name[5]) && |
861 isxdigit(name[6]) && | |
862 isxdigit(name[7]) && | |
863 isxdigit(name[8])) | |
864 { | |
865 uint16_t group = GetTagValue(name); | |
866 uint16_t element = GetTagValue(name + 5); | |
867 return DicomTag(group, element); | |
868 } | |
869 | |
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870 #if 0 |
0 | 871 const DcmDataDictionary& dict = dcmDataDict.rdlock(); |
872 const DcmDictEntry* entry = dict.findEntry(name); | |
873 | |
874 if (entry == NULL) | |
875 { | |
876 dcmDataDict.unlock(); | |
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877 throw OrthancException(ErrorCode_UnknownDicomTag); |
0 | 878 } |
879 else | |
880 { | |
881 DcmTagKey key = entry->getKey(); | |
882 DicomTag tag(key.getGroup(), key.getElement()); | |
883 dcmDataDict.unlock(); | |
884 return tag; | |
885 } | |
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886 #else |
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887 DcmTag tag; |
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888 if (DcmTag::findTagFromName(name, tag).good()) |
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889 { |
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890 return DicomTag(tag.getGTag(), tag.getETag()); |
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891 } |
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892 else |
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893 { |
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894 throw OrthancException(ErrorCode_UnknownDicomTag); |
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895 } |
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896 #endif |
0 | 897 } |
898 | |
899 | |
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900 bool FromDcmtkBridge::IsUnknownTag(const DicomTag& tag) |
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901 { |
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902 DcmTag tmp(tag.GetGroup(), tag.GetElement()); |
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903 return tmp.isUnknownVR(); |
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904 } |
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905 |
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906 |
0 | 907 void FromDcmtkBridge::ToJson(Json::Value& result, |
1368 | 908 const DicomMap& values, |
909 bool simplify) | |
0 | 910 { |
911 if (result.type() != Json::objectValue) | |
912 { | |
62 | 913 throw OrthancException(ErrorCode_BadParameterType); |
0 | 914 } |
915 | |
916 result.clear(); | |
917 | |
918 for (DicomMap::Map::const_iterator | |
656 | 919 it = values.map_.begin(); it != values.map_.end(); ++it) |
0 | 920 { |
1368 | 921 if (simplify) |
922 { | |
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923 if (it->second->IsNull()) |
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924 { |
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925 result[GetName(it->first)] = Json::nullValue; |
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926 } |
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927 else |
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928 { |
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929 // TODO IsBinary |
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930 result[GetName(it->first)] = it->second->GetContent(); |
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931 } |
1368 | 932 } |
933 else | |
934 { | |
935 Json::Value value = Json::objectValue; | |
936 | |
937 value["Name"] = GetName(it->first); | |
938 | |
939 if (it->second->IsNull()) | |
940 { | |
941 value["Type"] = "Null"; | |
942 value["Value"] = Json::nullValue; | |
943 } | |
944 else | |
945 { | |
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946 // TODO IsBinary |
1368 | 947 value["Type"] = "String"; |
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948 value["Value"] = it->second->GetContent(); |
1368 | 949 } |
950 | |
951 result[it->first.Format()] = value; | |
952 } | |
0 | 953 } |
954 } | |
176 | 955 |
956 | |
788 | 957 std::string FromDcmtkBridge::GenerateUniqueIdentifier(ResourceType level) |
176 | 958 { |
959 char uid[100]; | |
960 | |
961 switch (level) | |
962 { | |
788 | 963 case ResourceType_Patient: |
311 | 964 // The "PatientID" field is of type LO (Long String), 64 |
965 // Bytes Maximum. An UUID is of length 36, thus it can be used | |
966 // as a random PatientID. | |
967 return Toolbox::GenerateUuid(); | |
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968 |
788 | 969 case ResourceType_Instance: |
302
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970 return dcmGenerateUniqueIdentifier(uid, SITE_INSTANCE_UID_ROOT); |
176 | 971 |
788 | 972 case ResourceType_Series: |
302
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973 return dcmGenerateUniqueIdentifier(uid, SITE_SERIES_UID_ROOT); |
176 | 974 |
788 | 975 case ResourceType_Study: |
302
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976 return dcmGenerateUniqueIdentifier(uid, SITE_STUDY_UID_ROOT); |
176 | 977 |
302
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978 default: |
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979 throw OrthancException(ErrorCode_ParameterOutOfRange); |
176 | 980 } |
981 } | |
982 | |
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983 bool FromDcmtkBridge::SaveToMemoryBuffer(std::string& buffer, |
1004
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984 DcmDataset& dataSet) |
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985 { |
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986 // Determine the transfer syntax which shall be used to write the |
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987 // information to the file. We always switch to the Little Endian |
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988 // syntax, with explicit length. |
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989 |
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990 // http://support.dcmtk.org/docs/dcxfer_8h-source.html |
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991 |
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992 |
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993 /** |
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994 * Note that up to Orthanc 0.7.1 (inclusive), the |
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995 * "EXS_LittleEndianExplicit" was always used to save the DICOM |
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996 * dataset into memory. We now keep the original transfer syntax |
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997 * (if available). |
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998 **/ |
1004
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999 E_TransferSyntax xfer = dataSet.getOriginalXfer(); |
661
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1000 if (xfer == EXS_Unknown) |
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1001 { |
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1002 // No information about the original transfer syntax: This is |
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1003 // most probably a DICOM dataset that was read from memory. |
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1004 xfer = EXS_LittleEndianExplicit; |
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1005 } |
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1006 |
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1007 E_EncodingType encodingType = /*opt_sequenceType*/ EET_ExplicitLength; |
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1008 |
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1009 // Create the meta-header information |
1004
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1010 DcmFileFormat ff(&dataSet); |
661
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1011 ff.validateMetaInfo(xfer); |
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1012 ff.removeInvalidGroups(); |
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1013 |
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1014 // Create a memory buffer with the proper size |
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1015 uint32_t s = ff.calcElementLength(xfer, encodingType); |
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1016 buffer.resize(s); |
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1017 DcmOutputBufferStream ob(&buffer[0], s); |
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1018 |
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1019 // Fill the memory buffer with the meta-header and the dataset |
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1020 ff.transferInit(); |
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1021 OFCondition c = ff.write(ob, xfer, encodingType, NULL, |
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1022 /*opt_groupLength*/ EGL_recalcGL, |
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1023 /*opt_paddingType*/ EPD_withoutPadding); |
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1024 ff.transferEnd(); |
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1025 |
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1026 // Handle errors |
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1027 if (c.good()) |
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1028 { |
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1029 return true; |
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1030 } |
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1031 else |
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1032 { |
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1033 buffer.clear(); |
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1034 return false; |
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1035 } |
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1036 } |
1360 | 1037 |
1038 | |
1417
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1039 ValueRepresentation FromDcmtkBridge::GetValueRepresentation(const DicomTag& tag) |
1360 | 1040 { |
1041 DcmTag t(tag.GetGroup(), tag.GetElement()); | |
1417
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1042 switch (t.getEVR()) |
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1043 { |
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1044 case EVR_PN: |
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1045 return ValueRepresentation_PatientName; |
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1046 |
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1047 case EVR_DA: |
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1048 return ValueRepresentation_Date; |
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1049 |
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1050 case EVR_DT: |
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1051 return ValueRepresentation_DateTime; |
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1052 |
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1053 case EVR_TM: |
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1054 return ValueRepresentation_Time; |
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1055 |
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1056 default: |
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1057 return ValueRepresentation_Other; |
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1058 } |
1360 | 1059 } |
1060 | |
1689 | 1061 |
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1062 static bool IsBinaryTag(const DcmTag& key) |
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1063 { |
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1064 return key.isPrivate() || key.isUnknownVR(); |
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1065 } |
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1066 |
1689 | 1067 |
1068 DcmElement* FromDcmtkBridge::CreateElementForTag(const DicomTag& tag) | |
1069 { | |
1070 DcmTag key(tag.GetGroup(), tag.GetElement()); | |
1071 | |
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1072 if (IsBinaryTag(key)) |
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1073 { |
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1074 return new DcmOtherByteOtherWord(key); |
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1075 } |
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1076 |
1689 | 1077 switch (key.getEVR()) |
1078 { | |
1079 // http://support.dcmtk.org/docs/dcvr_8h-source.html | |
1080 | |
1081 /** | |
1082 * TODO. | |
1083 **/ | |
1084 | |
1085 case EVR_OB: // other byte | |
1086 case EVR_OF: // other float | |
1087 case EVR_OW: // other word | |
1088 case EVR_AT: // attribute tag | |
1089 throw OrthancException(ErrorCode_NotImplemented); | |
1090 | |
1091 case EVR_UN: // unknown value representation | |
1092 throw OrthancException(ErrorCode_ParameterOutOfRange); | |
1093 | |
1094 | |
1095 /** | |
1096 * String types. | |
1097 * http://support.dcmtk.org/docs/classDcmByteString.html | |
1098 **/ | |
1099 | |
1100 case EVR_AS: // age string | |
1101 return new DcmAgeString(key); | |
1102 | |
1103 case EVR_AE: // application entity title | |
1104 return new DcmApplicationEntity(key); | |
1105 | |
1106 case EVR_CS: // code string | |
1107 return new DcmCodeString(key); | |
1108 | |
1109 case EVR_DA: // date string | |
1110 return new DcmDate(key); | |
1111 | |
1112 case EVR_DT: // date time string | |
1113 return new DcmDateTime(key); | |
1114 | |
1115 case EVR_DS: // decimal string | |
1116 return new DcmDecimalString(key); | |
1117 | |
1118 case EVR_IS: // integer string | |
1119 return new DcmIntegerString(key); | |
1120 | |
1121 case EVR_TM: // time string | |
1122 return new DcmTime(key); | |
1123 | |
1124 case EVR_UI: // unique identifier | |
1125 return new DcmUniqueIdentifier(key); | |
1126 | |
1127 case EVR_ST: // short text | |
1128 return new DcmShortText(key); | |
1129 | |
1130 case EVR_LO: // long string | |
1131 return new DcmLongString(key); | |
1132 | |
1133 case EVR_LT: // long text | |
1134 return new DcmLongText(key); | |
1135 | |
1136 case EVR_UT: // unlimited text | |
1137 return new DcmUnlimitedText(key); | |
1138 | |
1139 case EVR_SH: // short string | |
1140 return new DcmShortString(key); | |
1141 | |
1142 case EVR_PN: // person name | |
1143 return new DcmPersonName(key); | |
1144 | |
1145 | |
1146 /** | |
1147 * Numerical types | |
1148 **/ | |
1149 | |
1150 case EVR_SL: // signed long | |
1151 return new DcmSignedLong(key); | |
1152 | |
1153 case EVR_SS: // signed short | |
1154 return new DcmSignedShort(key); | |
1155 | |
1156 case EVR_UL: // unsigned long | |
1157 return new DcmUnsignedLong(key); | |
1158 | |
1159 case EVR_US: // unsigned short | |
1160 return new DcmUnsignedShort(key); | |
1161 | |
1162 case EVR_FL: // float single-precision | |
1163 return new DcmFloatingPointSingle(key); | |
1164 | |
1165 case EVR_FD: // float double-precision | |
1166 return new DcmFloatingPointDouble(key); | |
1167 | |
1168 | |
1169 /** | |
1170 * Sequence types, should never occur at this point. | |
1171 **/ | |
1172 | |
1173 case EVR_SQ: // sequence of items | |
1174 throw OrthancException(ErrorCode_ParameterOutOfRange); | |
1175 | |
1176 | |
1177 /** | |
1178 * Internal to DCMTK. | |
1179 **/ | |
1180 | |
1181 case EVR_ox: // OB or OW depending on context | |
1182 case EVR_xs: // SS or US depending on context | |
1183 case EVR_lt: // US, SS or OW depending on context, used for LUT Data (thus the name) | |
1184 case EVR_na: // na="not applicable", for data which has no VR | |
1185 case EVR_up: // up="unsigned pointer", used internally for DICOMDIR suppor | |
1186 case EVR_item: // used internally for items | |
1187 case EVR_metainfo: // used internally for meta info datasets | |
1188 case EVR_dataset: // used internally for datasets | |
1189 case EVR_fileFormat: // used internally for DICOM files | |
1190 case EVR_dicomDir: // used internally for DICOMDIR objects | |
1191 case EVR_dirRecord: // used internally for DICOMDIR records | |
1192 case EVR_pixelSQ: // used internally for pixel sequences in a compressed image | |
1193 case EVR_pixelItem: // used internally for pixel items in a compressed image | |
1194 case EVR_UNKNOWN: // used internally for elements with unknown VR (encoded with 4-byte length field in explicit VR) | |
1195 case EVR_PixelData: // used internally for uncompressed pixeld data | |
1196 case EVR_OverlayData: // used internally for overlay data | |
1197 case EVR_UNKNOWN2B: // used internally for elements with unknown VR with 2-byte length field in explicit VR | |
1198 default: | |
1199 break; | |
1200 } | |
1201 | |
1202 throw OrthancException(ErrorCode_InternalError); | |
1203 } | |
1204 | |
1205 | |
1206 | |
1207 void FromDcmtkBridge::FillElementWithString(DcmElement& element, | |
1208 const DicomTag& tag, | |
1695 | 1209 const std::string& utf8Value, |
1210 bool decodeBinaryTags, | |
1211 Encoding dicomEncoding) | |
1689 | 1212 { |
1213 std::string binary; | |
1695 | 1214 const std::string* decoded = &utf8Value; |
1689 | 1215 |
1216 if (decodeBinaryTags && | |
1695 | 1217 boost::starts_with(utf8Value, "data:application/octet-stream;base64,")) |
1689 | 1218 { |
1219 std::string mime; | |
1695 | 1220 Toolbox::DecodeDataUriScheme(mime, binary, utf8Value); |
1221 decoded = &binary; | |
1222 } | |
1223 else if (dicomEncoding != Encoding_Utf8) | |
1224 { | |
1225 binary = Toolbox::ConvertFromUtf8(utf8Value, dicomEncoding); | |
1689 | 1226 decoded = &binary; |
1227 } | |
1228 | |
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1229 DcmTag key(tag.GetGroup(), tag.GetElement()); |
1689 | 1230 |
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1231 if (IsBinaryTag(key)) |
1689 | 1232 { |
1233 if (element.putUint8Array((const Uint8*) decoded->c_str(), decoded->size()).good()) | |
1234 { | |
1235 return; | |
1236 } | |
1237 else | |
1238 { | |
1239 throw OrthancException(ErrorCode_InternalError); | |
1240 } | |
1241 } | |
1242 | |
1243 bool ok = false; | |
1244 | |
1245 try | |
1246 { | |
1247 switch (key.getEVR()) | |
1248 { | |
1249 // http://support.dcmtk.org/docs/dcvr_8h-source.html | |
1250 | |
1251 /** | |
1252 * TODO. | |
1253 **/ | |
1254 | |
1255 case EVR_OB: // other byte | |
1256 case EVR_OF: // other float | |
1257 case EVR_OW: // other word | |
1258 case EVR_AT: // attribute tag | |
1259 throw OrthancException(ErrorCode_NotImplemented); | |
1260 | |
1261 case EVR_UN: // unknown value representation | |
1262 throw OrthancException(ErrorCode_ParameterOutOfRange); | |
1263 | |
1264 | |
1265 /** | |
1266 * String types. | |
1267 **/ | |
1268 | |
1269 case EVR_DS: // decimal string | |
1270 case EVR_IS: // integer string | |
1271 case EVR_AS: // age string | |
1272 case EVR_DA: // date string | |
1273 case EVR_DT: // date time string | |
1274 case EVR_TM: // time string | |
1275 case EVR_AE: // application entity title | |
1276 case EVR_CS: // code string | |
1277 case EVR_SH: // short string | |
1278 case EVR_LO: // long string | |
1279 case EVR_ST: // short text | |
1280 case EVR_LT: // long text | |
1281 case EVR_UT: // unlimited text | |
1282 case EVR_PN: // person name | |
1283 case EVR_UI: // unique identifier | |
1284 { | |
1285 ok = element.putString(decoded->c_str()).good(); | |
1286 break; | |
1287 } | |
1288 | |
1289 | |
1290 /** | |
1291 * Numerical types | |
1292 **/ | |
1293 | |
1294 case EVR_SL: // signed long | |
1295 { | |
1296 ok = element.putSint32(boost::lexical_cast<Sint32>(*decoded)).good(); | |
1297 break; | |
1298 } | |
1299 | |
1300 case EVR_SS: // signed short | |
1301 { | |
1302 ok = element.putSint16(boost::lexical_cast<Sint16>(*decoded)).good(); | |
1303 break; | |
1304 } | |
1305 | |
1306 case EVR_UL: // unsigned long | |
1307 { | |
1308 ok = element.putUint32(boost::lexical_cast<Uint32>(*decoded)).good(); | |
1309 break; | |
1310 } | |
1311 | |
1312 case EVR_US: // unsigned short | |
1313 { | |
1314 ok = element.putUint16(boost::lexical_cast<Uint16>(*decoded)).good(); | |
1315 break; | |
1316 } | |
1317 | |
1318 case EVR_FL: // float single-precision | |
1319 { | |
1320 ok = element.putFloat32(boost::lexical_cast<float>(*decoded)).good(); | |
1321 break; | |
1322 } | |
1323 | |
1324 case EVR_FD: // float double-precision | |
1325 { | |
1326 ok = element.putFloat64(boost::lexical_cast<double>(*decoded)).good(); | |
1327 break; | |
1328 } | |
1329 | |
1330 | |
1331 /** | |
1332 * Sequence types, should never occur at this point. | |
1333 **/ | |
1334 | |
1335 case EVR_SQ: // sequence of items | |
1336 { | |
1337 ok = false; | |
1338 break; | |
1339 } | |
1340 | |
1341 | |
1342 /** | |
1343 * Internal to DCMTK. | |
1344 **/ | |
1345 | |
1346 case EVR_ox: // OB or OW depending on context | |
1347 case EVR_xs: // SS or US depending on context | |
1348 case EVR_lt: // US, SS or OW depending on context, used for LUT Data (thus the name) | |
1349 case EVR_na: // na="not applicable", for data which has no VR | |
1350 case EVR_up: // up="unsigned pointer", used internally for DICOMDIR suppor | |
1351 case EVR_item: // used internally for items | |
1352 case EVR_metainfo: // used internally for meta info datasets | |
1353 case EVR_dataset: // used internally for datasets | |
1354 case EVR_fileFormat: // used internally for DICOM files | |
1355 case EVR_dicomDir: // used internally for DICOMDIR objects | |
1356 case EVR_dirRecord: // used internally for DICOMDIR records | |
1357 case EVR_pixelSQ: // used internally for pixel sequences in a compressed image | |
1358 case EVR_pixelItem: // used internally for pixel items in a compressed image | |
1359 case EVR_UNKNOWN: // used internally for elements with unknown VR (encoded with 4-byte length field in explicit VR) | |
1360 case EVR_PixelData: // used internally for uncompressed pixeld data | |
1361 case EVR_OverlayData: // used internally for overlay data | |
1362 case EVR_UNKNOWN2B: // used internally for elements with unknown VR with 2-byte length field in explicit VR | |
1363 default: | |
1364 break; | |
1365 } | |
1366 } | |
1367 catch (boost::bad_lexical_cast&) | |
1368 { | |
1369 ok = false; | |
1370 } | |
1371 | |
1372 if (!ok) | |
1373 { | |
1374 throw OrthancException(ErrorCode_InternalError); | |
1375 } | |
1376 } | |
1377 | |
1378 | |
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1379 DcmElement* FromDcmtkBridge::FromJson(const DicomTag& tag, |
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1380 const Json::Value& value, |
1695 | 1381 bool decodeBinaryTags, |
1382 Encoding dicomEncoding) | |
1689 | 1383 { |
1384 std::auto_ptr<DcmElement> element; | |
1385 | |
1690 | 1386 switch (value.type()) |
1689 | 1387 { |
1690 | 1388 case Json::stringValue: |
1389 element.reset(CreateElementForTag(tag)); | |
1695 | 1390 FillElementWithString(*element, tag, value.asString(), decodeBinaryTags, dicomEncoding); |
1690 | 1391 break; |
1392 | |
1393 case Json::arrayValue: | |
1394 { | |
1395 DcmTag key(tag.GetGroup(), tag.GetElement()); | |
1396 if (key.getEVR() != EVR_SQ) | |
1397 { | |
1398 throw OrthancException(ErrorCode_BadParameterType); | |
1399 } | |
1400 | |
1401 DcmSequenceOfItems* sequence = new DcmSequenceOfItems(key, value.size()); | |
1402 element.reset(sequence); | |
1403 | |
1404 for (Json::Value::ArrayIndex i = 0; i < value.size(); i++) | |
1405 { | |
1406 std::auto_ptr<DcmItem> item(new DcmItem); | |
1407 | |
1408 Json::Value::Members members = value[i].getMemberNames(); | |
1409 for (Json::Value::ArrayIndex j = 0; j < members.size(); j++) | |
1410 { | |
1695 | 1411 item->insert(FromJson(ParseTag(members[j]), value[i][members[j]], decodeBinaryTags, dicomEncoding)); |
1690 | 1412 } |
1413 | |
1414 sequence->append(item.release()); | |
1415 } | |
1416 | |
1417 break; | |
1418 } | |
1419 | |
1420 default: | |
1421 throw OrthancException(ErrorCode_BadParameterType); | |
1689 | 1422 } |
1423 | |
1424 return element.release(); | |
1425 } | |
0 | 1426 } |