Mercurial > hg > orthanc
annotate OrthancServer/FromDcmtkBridge.cpp @ 1861:a7bea843a7bc
"OrthancPluginLookupDictionary()" to get information about some DICOM tag
author | Sebastien Jodogne <s.jodogne@gmail.com> |
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date | Wed, 02 Dec 2015 13:00:18 +0100 |
parents | c7d70f659190 |
children | 9b458e4484a1 |
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 | |
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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 |
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380 if (utf8.size() > ORTHANC_MAXIMUM_TAG_LENGTH) |
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381 { |
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382 return new DicomValue; // Create a NULL value |
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383 } |
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384 else |
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385 { |
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386 return new DicomValue(utf8, false); |
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387 } |
0 | 388 } |
389 } | |
390 | |
391 try | |
392 { | |
393 // http://support.dcmtk.org/docs/dcvr_8h-source.html | |
394 switch (element.getVR()) | |
395 { | |
396 | |
397 /** | |
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398 * Deal with binary data (including PixelData). |
0 | 399 **/ |
306
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400 |
302
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401 case EVR_OB: // other byte |
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402 case EVR_OF: // other float |
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403 case EVR_OW: // other word |
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404 case EVR_UN: // unknown value representation |
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405 case EVR_ox: // OB or OW depending on context |
306
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406 case EVR_DS: // decimal string |
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407 case EVR_IS: // integer string |
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408 case EVR_AS: // age string |
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409 case EVR_DA: // date string |
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410 case EVR_DT: // date time string |
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411 case EVR_TM: // time string |
302
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412 case EVR_AE: // application entity title |
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413 case EVR_CS: // code string |
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414 case EVR_SH: // short string |
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415 case EVR_LO: // long string |
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416 case EVR_ST: // short text |
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417 case EVR_LT: // long text |
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418 case EVR_UT: // unlimited text |
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419 case EVR_PN: // person name |
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420 case EVR_UI: // unique identifier |
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421 case EVR_UNKNOWN: // used internally for elements with unknown VR (encoded with 4-byte length field in explicit VR) |
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422 case EVR_UNKNOWN2B: // used internally for elements with unknown VR with 2-byte length field in explicit VR |
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423 { |
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424 if (!(flags & DicomToJsonFlags_ConvertBinaryToNull)) |
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425 { |
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426 Uint8* data = NULL; |
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427 if (element.getUint8Array(data) == EC_Normal) |
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428 { |
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429 return new DicomValue(reinterpret_cast<const char*>(data), element.getLength(), true); |
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430 } |
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431 } |
0 | 432 |
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433 return new DicomValue; |
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434 } |
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|
435 |
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|
436 /** |
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|
437 * Numberic types |
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438 **/ |
0 | 439 |
302
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440 case EVR_SL: // signed long |
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441 { |
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442 Sint32 f; |
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443 if (dynamic_cast<DcmSignedLong&>(element).getSint32(f).good()) |
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444 return new DicomValue(boost::lexical_cast<std::string>(f), false); |
302
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445 else |
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446 return new DicomValue; |
302
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447 } |
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448 |
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449 case EVR_SS: // signed short |
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450 { |
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451 Sint16 f; |
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452 if (dynamic_cast<DcmSignedShort&>(element).getSint16(f).good()) |
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453 return new DicomValue(boost::lexical_cast<std::string>(f), false); |
302
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454 else |
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455 return new DicomValue; |
302
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456 } |
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457 |
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458 case EVR_UL: // unsigned long |
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459 { |
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460 Uint32 f; |
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461 if (dynamic_cast<DcmUnsignedLong&>(element).getUint32(f).good()) |
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462 return new DicomValue(boost::lexical_cast<std::string>(f), false); |
302
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463 else |
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464 return new DicomValue; |
302
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465 } |
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466 |
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467 case EVR_US: // unsigned short |
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468 { |
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469 Uint16 f; |
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470 if (dynamic_cast<DcmUnsignedShort&>(element).getUint16(f).good()) |
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471 return new DicomValue(boost::lexical_cast<std::string>(f), false); |
302
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472 else |
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473 return new DicomValue; |
302
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474 } |
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475 |
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476 case EVR_FL: // float single-precision |
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477 { |
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478 Float32 f; |
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479 if (dynamic_cast<DcmFloatingPointSingle&>(element).getFloat32(f).good()) |
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480 return new DicomValue(boost::lexical_cast<std::string>(f), false); |
302
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481 else |
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482 return new DicomValue; |
302
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483 } |
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484 |
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485 case EVR_FD: // float double-precision |
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486 { |
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487 Float64 f; |
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488 if (dynamic_cast<DcmFloatingPointDouble&>(element).getFloat64(f).good()) |
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489 return new DicomValue(boost::lexical_cast<std::string>(f), false); |
302
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490 else |
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491 return new DicomValue; |
1131 | 492 } |
493 | |
494 | |
495 /** | |
496 * Attribute tag. | |
497 **/ | |
498 | |
499 case EVR_AT: | |
500 { | |
1147 | 501 DcmTagKey tag; |
502 if (dynamic_cast<DcmAttributeTag&>(element).getTagVal(tag, 0).good()) | |
503 { | |
504 DicomTag t(tag.getGroup(), tag.getElement()); | |
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505 return new DicomValue(t.Format(), false); |
1147 | 506 } |
1131 | 507 else |
1147 | 508 { |
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509 return new DicomValue; |
1147 | 510 } |
302
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511 } |
0 | 512 |
513 | |
514 /** | |
302
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515 * Sequence types, should never occur at this point because of |
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516 * "element.isLeaf()". |
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517 **/ |
0 | 518 |
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519 case EVR_SQ: // sequence of items |
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520 return new DicomValue; |
0 | 521 |
522 | |
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523 /** |
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524 * Internal to DCMTK. |
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525 **/ |
0 | 526 |
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527 case EVR_xs: // SS or US depending on context |
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528 case EVR_lt: // US, SS or OW depending on context, used for LUT Data (thus the name) |
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529 case EVR_na: // na="not applicable", for data which has no VR |
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530 case EVR_up: // up="unsigned pointer", used internally for DICOMDIR suppor |
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531 case EVR_item: // used internally for items |
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532 case EVR_metainfo: // used internally for meta info datasets |
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533 case EVR_dataset: // used internally for datasets |
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534 case EVR_fileFormat: // used internally for DICOM files |
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535 case EVR_dicomDir: // used internally for DICOMDIR objects |
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536 case EVR_dirRecord: // used internally for DICOMDIR records |
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537 case EVR_pixelSQ: // used internally for pixel sequences in a compressed image |
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538 case EVR_pixelItem: // used internally for pixel items in a compressed image |
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539 case EVR_PixelData: // used internally for uncompressed pixeld data |
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540 case EVR_OverlayData: // used internally for overlay data |
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541 return new DicomValue; |
0 | 542 |
543 | |
302
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544 /** |
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545 * Default case. |
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546 **/ |
0 | 547 |
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548 default: |
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549 return new DicomValue; |
0 | 550 } |
551 } | |
552 catch (boost::bad_lexical_cast) | |
553 { | |
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554 return new DicomValue; |
0 | 555 } |
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556 catch (std::bad_cast) |
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557 { |
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558 return new DicomValue; |
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559 } |
0 | 560 } |
561 | |
562 | |
1687 | 563 static Json::Value& PrepareNode(Json::Value& parent, |
564 DcmElement& element, | |
565 DicomToJsonFormat format) | |
0 | 566 { |
1687 | 567 assert(parent.type() == Json::objectValue); |
0 | 568 |
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569 DicomTag tag(FromDcmtkBridge::GetTag(element)); |
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570 const std::string formattedTag = tag.Format(); |
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571 |
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572 if (format == DicomToJsonFormat_Short) |
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573 { |
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574 parent[formattedTag] = Json::nullValue; |
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575 return parent[formattedTag]; |
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576 } |
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577 |
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578 // This code gives access to the name of the private tags |
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579 DcmTag tagbis(element.getTag()); |
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580 const std::string tagName(tagbis.getTagName()); |
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581 |
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582 switch (format) |
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584 case DicomToJsonFormat_Human: |
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585 parent[tagName] = Json::nullValue; |
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586 return parent[tagName]; |
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587 |
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588 case DicomToJsonFormat_Full: |
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589 { |
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590 parent[formattedTag] = Json::objectValue; |
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591 Json::Value& node = parent[formattedTag]; |
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592 |
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593 if (element.isLeaf()) |
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594 { |
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595 node["Name"] = tagName; |
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596 |
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597 if (tagbis.getPrivateCreator() != NULL) |
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598 { |
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599 node["PrivateCreator"] = tagbis.getPrivateCreator(); |
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600 } |
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601 |
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602 return node; |
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603 } |
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604 else |
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605 { |
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606 node["Name"] = tagName; |
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607 node["Type"] = "Sequence"; |
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608 node["Value"] = Json::nullValue; |
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609 return node["Value"]; |
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610 } |
306
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611 } |
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612 |
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613 default: |
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614 throw OrthancException(ErrorCode_ParameterOutOfRange); |
1687 | 615 } |
616 } | |
617 | |
618 | |
619 static void LeafValueToJson(Json::Value& target, | |
620 const DicomValue& value, | |
621 DicomToJsonFormat format, | |
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622 DicomToJsonFlags flags, |
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623 unsigned int maxStringLength) |
1687 | 624 { |
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625 Json::Value* targetValue = NULL; |
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626 Json::Value* targetType = NULL; |
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627 |
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628 switch (format) |
1687 | 629 { |
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630 case DicomToJsonFormat_Short: |
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631 case DicomToJsonFormat_Human: |
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632 { |
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633 assert(target.type() == Json::nullValue); |
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634 targetValue = ⌖ |
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635 break; |
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636 } |
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637 |
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638 case DicomToJsonFormat_Full: |
0 | 639 { |
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640 assert(target.type() == Json::objectValue); |
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641 target["Value"] = Json::nullValue; |
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642 target["Type"] = Json::nullValue; |
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643 targetType = &target["Type"]; |
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644 targetValue = &target["Value"]; |
1688
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DicomToJsonFormat enumeration
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|
645 break; |
0 | 646 } |
1688
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DicomToJsonFormat enumeration
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|
647 |
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DicomToJsonFormat enumeration
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diff
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|
648 default: |
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DicomToJsonFormat enumeration
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649 throw OrthancException(ErrorCode_ParameterOutOfRange); |
1687 | 650 } |
1738
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|
651 |
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652 assert(targetValue != NULL); |
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653 assert(targetValue->type() == Json::nullValue); |
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|
654 assert(targetType == NULL || targetType->type() == Json::nullValue); |
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|
655 |
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|
656 if (value.IsNull()) |
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657 { |
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658 if (targetType != NULL) |
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|
659 { |
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660 *targetType = "Null"; |
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|
661 } |
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|
662 } |
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663 else if (value.IsBinary()) |
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|
664 { |
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|
665 if (flags & DicomToJsonFlags_ConvertBinaryToAscii) |
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DicomToJsonFlags_IncludeBinary
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|
666 { |
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DicomToJsonFlags_IncludeBinary
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diff
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|
667 *targetValue = Toolbox::ConvertToAscii(value.GetContent()); |
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DicomToJsonFlags_IncludeBinary
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|
668 } |
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DicomToJsonFlags_IncludeBinary
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diff
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|
669 else |
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DicomToJsonFlags_IncludeBinary
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|
670 { |
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|
671 std::string s; |
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|
672 value.FormatDataUriScheme(s); |
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673 *targetValue = s; |
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|
674 } |
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|
675 |
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|
676 if (targetType != NULL) |
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DicomToJsonFlags_IncludeBinary
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|
677 { |
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DicomToJsonFlags_IncludeBinary
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|
678 *targetType = "Binary"; |
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DicomToJsonFlags_IncludeBinary
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diff
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|
679 } |
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DicomToJsonFlags_IncludeBinary
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|
680 } |
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DicomToJsonFlags_IncludeBinary
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681 else if (maxStringLength == 0 || |
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DicomToJsonFlags_IncludeBinary
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|
682 value.GetContent().size() <= maxStringLength) |
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DicomToJsonFlags_IncludeBinary
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diff
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|
683 { |
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DicomToJsonFlags_IncludeBinary
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diff
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|
684 *targetValue = value.GetContent(); |
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DicomToJsonFlags_IncludeBinary
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1737
diff
changeset
|
685 |
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DicomToJsonFlags_IncludeBinary
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diff
changeset
|
686 if (targetType != NULL) |
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DicomToJsonFlags_IncludeBinary
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diff
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|
687 { |
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DicomToJsonFlags_IncludeBinary
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diff
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|
688 *targetType = "String"; |
15a788a63846
DicomToJsonFlags_IncludeBinary
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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diff
changeset
|
689 } |
15a788a63846
DicomToJsonFlags_IncludeBinary
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
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diff
changeset
|
690 } |
15a788a63846
DicomToJsonFlags_IncludeBinary
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1737
diff
changeset
|
691 else |
15a788a63846
DicomToJsonFlags_IncludeBinary
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
692 { |
15a788a63846
DicomToJsonFlags_IncludeBinary
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parents:
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diff
changeset
|
693 if (targetType != NULL) |
15a788a63846
DicomToJsonFlags_IncludeBinary
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diff
changeset
|
694 { |
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DicomToJsonFlags_IncludeBinary
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diff
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|
695 *targetType = "TooLong"; |
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DicomToJsonFlags_IncludeBinary
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diff
changeset
|
696 } |
15a788a63846
DicomToJsonFlags_IncludeBinary
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parents:
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diff
changeset
|
697 } |
1687 | 698 } |
35
f6d12037f886
full json vs. simplified json
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
2
diff
changeset
|
699 |
1687 | 700 |
701 static void DatasetToJson(Json::Value& parent, | |
702 DcmItem& item, | |
703 DicomToJsonFormat format, | |
1735
a001f6226c7c
primitives for flags in dicom-to-json conversions
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diff
changeset
|
704 DicomToJsonFlags flags, |
1687 | 705 unsigned int maxStringLength, |
706 Encoding encoding); | |
707 | |
708 | |
1690 | 709 void FromDcmtkBridge::ToJson(Json::Value& parent, |
710 DcmElement& element, | |
711 DicomToJsonFormat format, | |
1735
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primitives for flags in dicom-to-json conversions
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diff
changeset
|
712 DicomToJsonFlags flags, |
1690 | 713 unsigned int maxStringLength, |
714 Encoding encoding) | |
1687 | 715 { |
1691 | 716 if (parent.type() == Json::nullValue) |
717 { | |
718 parent = Json::objectValue; | |
719 } | |
720 | |
721 assert(parent.type() == Json::objectValue); | |
1687 | 722 Json::Value& target = PrepareNode(parent, element, format); |
723 | |
724 if (element.isLeaf()) | |
725 { | |
1736
b953c6eef28d
ToJson: IncludePrivateTags and IncludeUnknownTags
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1735
diff
changeset
|
726 std::auto_ptr<DicomValue> v(FromDcmtkBridge::ConvertLeafElement(element, flags, encoding)); |
1738
15a788a63846
DicomToJsonFlags_IncludeBinary
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diff
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|
727 LeafValueToJson(target, *v, format, flags, maxStringLength); |
0 | 728 } |
729 else | |
730 { | |
1688
27d70e9ee2e4
DicomToJsonFormat enumeration
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
731 assert(target.type() == Json::nullValue); |
27d70e9ee2e4
DicomToJsonFormat enumeration
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1687
diff
changeset
|
732 target = Json::arrayValue; |
0 | 733 |
734 // "All subclasses of DcmElement except for DcmSequenceOfItems | |
735 // are leaf nodes, while DcmSequenceOfItems, DcmItem, DcmDataset | |
1687 | 736 // etc. are not." The following dynamic_cast is thus OK. |
0 | 737 DcmSequenceOfItems& sequence = dynamic_cast<DcmSequenceOfItems&>(element); |
738 | |
739 for (unsigned long i = 0; i < sequence.card(); i++) | |
740 { | |
741 DcmItem* child = sequence.getItem(i); | |
1687 | 742 Json::Value& v = target.append(Json::objectValue); |
1735
a001f6226c7c
primitives for flags in dicom-to-json conversions
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diff
changeset
|
743 DatasetToJson(v, *child, format, flags, maxStringLength, encoding); |
1687 | 744 } |
0 | 745 } |
746 } | |
747 | |
748 | |
1687 | 749 static void DatasetToJson(Json::Value& parent, |
1686 | 750 DcmItem& item, |
751 DicomToJsonFormat format, | |
1735
a001f6226c7c
primitives for flags in dicom-to-json conversions
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diff
changeset
|
752 DicomToJsonFlags flags, |
1686 | 753 unsigned int maxStringLength, |
754 Encoding encoding) | |
755 { | |
1688
27d70e9ee2e4
DicomToJsonFormat enumeration
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parents:
1687
diff
changeset
|
756 assert(parent.type() == Json::objectValue); |
1686 | 757 |
758 for (unsigned long i = 0; i < item.card(); i++) | |
759 { | |
760 DcmElement* element = item.getElement(i); | |
1735
a001f6226c7c
primitives for flags in dicom-to-json conversions
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diff
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|
761 if (element == NULL) |
a001f6226c7c
primitives for flags in dicom-to-json conversions
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diff
changeset
|
762 { |
a001f6226c7c
primitives for flags in dicom-to-json conversions
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diff
changeset
|
763 throw OrthancException(ErrorCode_InternalError); |
a001f6226c7c
primitives for flags in dicom-to-json conversions
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diff
changeset
|
764 } |
a001f6226c7c
primitives for flags in dicom-to-json conversions
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
765 |
1818
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1792
diff
changeset
|
766 DicomTag tag(FromDcmtkBridge::Convert(element->getTag())); |
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
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1792
diff
changeset
|
767 |
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1792
diff
changeset
|
768 /*element->getTag().isPrivate()*/ |
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1792
diff
changeset
|
769 if (tag.IsPrivate() && |
1065401501fb
ParsedDicomFile::CreateFromJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1792
diff
changeset
|
770 !(flags & DicomToJsonFlags_IncludePrivateTags)) |
1736
b953c6eef28d
ToJson: IncludePrivateTags and IncludeUnknownTags
Sebastien Jodogne <s.jodogne@gmail.com>
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1735
diff
changeset
|
771 { |
b953c6eef28d
ToJson: IncludePrivateTags and IncludeUnknownTags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1735
diff
changeset
|
772 continue; |
b953c6eef28d
ToJson: IncludePrivateTags and IncludeUnknownTags
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parents:
1735
diff
changeset
|
773 } |
b953c6eef28d
ToJson: IncludePrivateTags and IncludeUnknownTags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1735
diff
changeset
|
774 |
b953c6eef28d
ToJson: IncludePrivateTags and IncludeUnknownTags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1735
diff
changeset
|
775 if (!(flags & DicomToJsonFlags_IncludeUnknownTags)) |
1735
a001f6226c7c
primitives for flags in dicom-to-json conversions
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1695
diff
changeset
|
776 { |
1736
b953c6eef28d
ToJson: IncludePrivateTags and IncludeUnknownTags
Sebastien Jodogne <s.jodogne@gmail.com>
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1735
diff
changeset
|
777 DictionaryLocker locker; |
b953c6eef28d
ToJson: IncludePrivateTags and IncludeUnknownTags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1735
diff
changeset
|
778 if (locker->findEntry(element->getTag(), NULL) == NULL) |
b953c6eef28d
ToJson: IncludePrivateTags and IncludeUnknownTags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1735
diff
changeset
|
779 { |
b953c6eef28d
ToJson: IncludePrivateTags and IncludeUnknownTags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1735
diff
changeset
|
780 continue; |
b953c6eef28d
ToJson: IncludePrivateTags and IncludeUnknownTags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1735
diff
changeset
|
781 } |
1735
a001f6226c7c
primitives for flags in dicom-to-json conversions
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1695
diff
changeset
|
782 } |
1736
b953c6eef28d
ToJson: IncludePrivateTags and IncludeUnknownTags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1735
diff
changeset
|
783 |
1739
df331354cea2
include binary in ToJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1738
diff
changeset
|
784 DcmEVR evr = element->getTag().getEVR(); |
df331354cea2
include binary in ToJson
Sebastien Jodogne <s.jodogne@gmail.com>
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1738
diff
changeset
|
785 if (evr == EVR_OB || |
df331354cea2
include binary in ToJson
Sebastien Jodogne <s.jodogne@gmail.com>
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1738
diff
changeset
|
786 evr == EVR_OF || |
df331354cea2
include binary in ToJson
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
787 evr == EVR_OW || |
df331354cea2
include binary in ToJson
Sebastien Jodogne <s.jodogne@gmail.com>
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1738
diff
changeset
|
788 evr == EVR_UN || |
df331354cea2
include binary in ToJson
Sebastien Jodogne <s.jodogne@gmail.com>
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diff
changeset
|
789 evr == EVR_ox) |
df331354cea2
include binary in ToJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1738
diff
changeset
|
790 { |
df331354cea2
include binary in ToJson
Sebastien Jodogne <s.jodogne@gmail.com>
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1738
diff
changeset
|
791 // This is a binary tag |
df331354cea2
include binary in ToJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1738
diff
changeset
|
792 if ((tag == DICOM_TAG_PIXEL_DATA && !(flags & DicomToJsonFlags_IncludePixelData)) || |
df331354cea2
include binary in ToJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1738
diff
changeset
|
793 (tag != DICOM_TAG_PIXEL_DATA && !(flags & DicomToJsonFlags_IncludeBinary))) |
df331354cea2
include binary in ToJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1738
diff
changeset
|
794 { |
df331354cea2
include binary in ToJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1738
diff
changeset
|
795 continue; |
df331354cea2
include binary in ToJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1738
diff
changeset
|
796 } |
df331354cea2
include binary in ToJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1738
diff
changeset
|
797 } |
df331354cea2
include binary in ToJson
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1738
diff
changeset
|
798 |
1736
b953c6eef28d
ToJson: IncludePrivateTags and IncludeUnknownTags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1735
diff
changeset
|
799 FromDcmtkBridge::ToJson(parent, *element, format, flags, maxStringLength, encoding); |
1686 | 800 } |
801 } | |
802 | |
803 | |
1687 | 804 void FromDcmtkBridge::ToJson(Json::Value& target, |
0 | 805 DcmDataset& dataset, |
1686 | 806 DicomToJsonFormat format, |
1735
a001f6226c7c
primitives for flags in dicom-to-json conversions
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1695
diff
changeset
|
807 DicomToJsonFlags flags, |
0 | 808 unsigned int maxStringLength) |
809 { | |
1688
27d70e9ee2e4
DicomToJsonFormat enumeration
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1687
diff
changeset
|
810 target = Json::objectValue; |
1735
a001f6226c7c
primitives for flags in dicom-to-json conversions
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1695
diff
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|
811 DatasetToJson(target, dataset, format, flags, maxStringLength, DetectEncoding(dataset)); |
0 | 812 } |
813 | |
814 | |
1831
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815 void FromDcmtkBridge::ToJson(Json::Value& target, |
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816 DcmMetaInfo& dataset, |
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817 DicomToJsonFormat format, |
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818 DicomToJsonFlags flags, |
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819 unsigned int maxStringLength) |
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820 { |
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821 target = Json::objectValue; |
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822 DatasetToJson(target, dataset, format, flags, maxStringLength, Encoding_Ascii); |
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823 } |
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824 |
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825 |
0 | 826 std::string FromDcmtkBridge::GetName(const DicomTag& t) |
827 { | |
106 | 828 // Some patches for important tags because of different DICOM |
829 // dictionaries between DCMTK versions | |
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830 std::string n = t.GetMainTagsName(); |
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831 if (n.size() != 0) |
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832 { |
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833 return n; |
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834 } |
106 | 835 // End of patches |
836 | |
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837 #if 0 |
0 | 838 DcmTagKey tag(t.GetGroup(), t.GetElement()); |
839 const DcmDataDictionary& dict = dcmDataDict.rdlock(); | |
840 const DcmDictEntry* entry = dict.findEntry(tag, NULL); | |
841 | |
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842 std::string s(DcmTag_ERROR_TagName); |
0 | 843 if (entry != NULL) |
844 { | |
845 s = std::string(entry->getTagName()); | |
846 } | |
847 | |
848 dcmDataDict.unlock(); | |
849 return s; | |
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850 #else |
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851 DcmTag tag(t.GetGroup(), t.GetElement()); |
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852 const char* name = tag.getTagName(); |
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853 if (name == NULL) |
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854 { |
306
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855 return DcmTag_ERROR_TagName; |
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856 } |
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857 else |
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858 { |
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859 return std::string(name); |
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860 } |
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861 #endif |
0 | 862 } |
863 | |
864 | |
304 | 865 DicomTag FromDcmtkBridge::ParseTag(const char* name) |
0 | 866 { |
304 | 867 if (strlen(name) == 9 && |
868 isxdigit(name[0]) && | |
869 isxdigit(name[1]) && | |
870 isxdigit(name[2]) && | |
871 isxdigit(name[3]) && | |
991
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872 (name[4] == '-' || name[4] == ',') && |
304 | 873 isxdigit(name[5]) && |
874 isxdigit(name[6]) && | |
875 isxdigit(name[7]) && | |
876 isxdigit(name[8])) | |
877 { | |
878 uint16_t group = GetTagValue(name); | |
879 uint16_t element = GetTagValue(name + 5); | |
880 return DicomTag(group, element); | |
881 } | |
882 | |
1861
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883 if (strlen(name) == 8 && |
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884 isxdigit(name[0]) && |
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885 isxdigit(name[1]) && |
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886 isxdigit(name[2]) && |
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887 isxdigit(name[3]) && |
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888 isxdigit(name[4]) && |
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889 isxdigit(name[5]) && |
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890 isxdigit(name[6]) && |
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891 isxdigit(name[7])) |
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892 { |
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893 uint16_t group = GetTagValue(name); |
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894 uint16_t element = GetTagValue(name + 4); |
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895 return DicomTag(group, element); |
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896 } |
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897 |
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898 #if 0 |
0 | 899 const DcmDataDictionary& dict = dcmDataDict.rdlock(); |
900 const DcmDictEntry* entry = dict.findEntry(name); | |
901 | |
902 if (entry == NULL) | |
903 { | |
904 dcmDataDict.unlock(); | |
1582
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905 throw OrthancException(ErrorCode_UnknownDicomTag); |
0 | 906 } |
907 else | |
908 { | |
909 DcmTagKey key = entry->getKey(); | |
910 DicomTag tag(key.getGroup(), key.getElement()); | |
911 dcmDataDict.unlock(); | |
912 return tag; | |
913 } | |
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914 #else |
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915 DcmTag tag; |
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916 if (DcmTag::findTagFromName(name, tag).good()) |
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917 { |
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918 return DicomTag(tag.getGTag(), tag.getETag()); |
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919 } |
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920 else |
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921 { |
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922 throw OrthancException(ErrorCode_UnknownDicomTag); |
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923 } |
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924 #endif |
0 | 925 } |
926 | |
927 | |
1655
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928 bool FromDcmtkBridge::IsUnknownTag(const DicomTag& tag) |
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929 { |
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930 DcmTag tmp(tag.GetGroup(), tag.GetElement()); |
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931 return tmp.isUnknownVR(); |
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932 } |
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933 |
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934 |
0 | 935 void FromDcmtkBridge::ToJson(Json::Value& result, |
1368 | 936 const DicomMap& values, |
937 bool simplify) | |
0 | 938 { |
939 if (result.type() != Json::objectValue) | |
940 { | |
62 | 941 throw OrthancException(ErrorCode_BadParameterType); |
0 | 942 } |
943 | |
944 result.clear(); | |
945 | |
946 for (DicomMap::Map::const_iterator | |
656 | 947 it = values.map_.begin(); it != values.map_.end(); ++it) |
0 | 948 { |
1368 | 949 if (simplify) |
950 { | |
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951 if (it->second->IsNull()) |
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952 { |
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953 result[GetName(it->first)] = Json::nullValue; |
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954 } |
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955 else |
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956 { |
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957 // TODO IsBinary |
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958 result[GetName(it->first)] = it->second->GetContent(); |
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959 } |
1368 | 960 } |
961 else | |
962 { | |
963 Json::Value value = Json::objectValue; | |
964 | |
965 value["Name"] = GetName(it->first); | |
966 | |
967 if (it->second->IsNull()) | |
968 { | |
969 value["Type"] = "Null"; | |
970 value["Value"] = Json::nullValue; | |
971 } | |
972 else | |
973 { | |
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974 // TODO IsBinary |
1368 | 975 value["Type"] = "String"; |
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976 value["Value"] = it->second->GetContent(); |
1368 | 977 } |
978 | |
979 result[it->first.Format()] = value; | |
980 } | |
0 | 981 } |
982 } | |
176 | 983 |
984 | |
788 | 985 std::string FromDcmtkBridge::GenerateUniqueIdentifier(ResourceType level) |
176 | 986 { |
987 char uid[100]; | |
988 | |
989 switch (level) | |
990 { | |
788 | 991 case ResourceType_Patient: |
311 | 992 // The "PatientID" field is of type LO (Long String), 64 |
993 // Bytes Maximum. An UUID is of length 36, thus it can be used | |
994 // as a random PatientID. | |
995 return Toolbox::GenerateUuid(); | |
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996 |
788 | 997 case ResourceType_Instance: |
302
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998 return dcmGenerateUniqueIdentifier(uid, SITE_INSTANCE_UID_ROOT); |
176 | 999 |
788 | 1000 case ResourceType_Series: |
302
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1001 return dcmGenerateUniqueIdentifier(uid, SITE_SERIES_UID_ROOT); |
176 | 1002 |
788 | 1003 case ResourceType_Study: |
302
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1004 return dcmGenerateUniqueIdentifier(uid, SITE_STUDY_UID_ROOT); |
176 | 1005 |
302
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1006 default: |
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1007 throw OrthancException(ErrorCode_ParameterOutOfRange); |
176 | 1008 } |
1009 } | |
1010 | |
291
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1011 bool FromDcmtkBridge::SaveToMemoryBuffer(std::string& buffer, |
1004
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1012 DcmDataset& dataSet) |
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1013 { |
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1014 // Determine the transfer syntax which shall be used to write the |
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1015 // information to the file. We always switch to the Little Endian |
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1016 // syntax, with explicit length. |
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1017 |
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1018 // http://support.dcmtk.org/docs/dcxfer_8h-source.html |
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1019 |
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1020 |
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1021 /** |
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1022 * Note that up to Orthanc 0.7.1 (inclusive), the |
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1023 * "EXS_LittleEndianExplicit" was always used to save the DICOM |
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1024 * dataset into memory. We now keep the original transfer syntax |
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1025 * (if available). |
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1026 **/ |
1004
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1027 E_TransferSyntax xfer = dataSet.getOriginalXfer(); |
661
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1028 if (xfer == EXS_Unknown) |
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1029 { |
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1030 // No information about the original transfer syntax: This is |
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1031 // most probably a DICOM dataset that was read from memory. |
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1032 xfer = EXS_LittleEndianExplicit; |
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1033 } |
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1034 |
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1035 E_EncodingType encodingType = /*opt_sequenceType*/ EET_ExplicitLength; |
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1036 |
661
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1037 // Create the meta-header information |
1004
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1038 DcmFileFormat ff(&dataSet); |
661
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1039 ff.validateMetaInfo(xfer); |
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1040 ff.removeInvalidGroups(); |
291
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1041 |
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1042 // Create a memory buffer with the proper size |
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1043 uint32_t s = ff.calcElementLength(xfer, encodingType); |
291
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1044 buffer.resize(s); |
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1045 DcmOutputBufferStream ob(&buffer[0], s); |
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1046 |
661
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1047 // Fill the memory buffer with the meta-header and the dataset |
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1048 ff.transferInit(); |
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1049 OFCondition c = ff.write(ob, xfer, encodingType, NULL, |
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1050 /*opt_groupLength*/ EGL_recalcGL, |
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1051 /*opt_paddingType*/ EPD_withoutPadding); |
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1052 ff.transferEnd(); |
291
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1053 |
661
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1054 // Handle errors |
291
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1055 if (c.good()) |
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1056 { |
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1057 return true; |
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1058 } |
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1059 else |
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1060 { |
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1061 buffer.clear(); |
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1062 return false; |
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1063 } |
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1064 } |
1360 | 1065 |
1066 | |
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1067 ValueRepresentation FromDcmtkBridge::GetValueRepresentation(const DicomTag& tag) |
1360 | 1068 { |
1069 DcmTag t(tag.GetGroup(), tag.GetElement()); | |
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1070 switch (t.getEVR()) |
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1071 { |
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1072 case EVR_PN: |
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1073 return ValueRepresentation_PatientName; |
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1074 |
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1075 case EVR_DA: |
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1076 return ValueRepresentation_Date; |
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1077 |
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1078 case EVR_DT: |
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1079 return ValueRepresentation_DateTime; |
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1080 |
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1081 case EVR_TM: |
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1082 return ValueRepresentation_Time; |
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1083 |
1792 | 1084 case EVR_SQ: |
1085 return ValueRepresentation_Sequence; | |
1086 | |
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1087 default: |
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1088 return ValueRepresentation_Other; |
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1089 } |
1360 | 1090 } |
1091 | |
1689 | 1092 |
1693
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1093 static bool IsBinaryTag(const DcmTag& key) |
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1094 { |
1818
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1095 return (key.isUnknownVR() || |
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1096 key.getEVR() == EVR_OB || |
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1097 key.getEVR() == EVR_OF || |
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1098 key.getEVR() == EVR_OW || |
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1099 key.getEVR() == EVR_UN || |
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1100 key.getEVR() == EVR_ox); |
1693
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1101 } |
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1102 |
1689 | 1103 |
1104 DcmElement* FromDcmtkBridge::CreateElementForTag(const DicomTag& tag) | |
1105 { | |
1106 DcmTag key(tag.GetGroup(), tag.GetElement()); | |
1107 | |
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1108 if (tag.IsPrivate() || |
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1109 IsBinaryTag(key)) |
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1110 { |
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1111 return new DcmOtherByteOtherWord(key); |
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1112 } |
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1113 |
1689 | 1114 switch (key.getEVR()) |
1115 { | |
1116 // http://support.dcmtk.org/docs/dcvr_8h-source.html | |
1117 | |
1118 /** | |
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1119 * Binary types, handled above |
1689 | 1120 **/ |
1121 | |
1122 case EVR_OB: // other byte | |
1123 case EVR_OF: // other float | |
1124 case EVR_OW: // other word | |
1125 case EVR_UN: // unknown value representation | |
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1126 case EVR_ox: // OB or OW depending on context |
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1127 throw OrthancException(ErrorCode_InternalError); |
1689 | 1128 |
1129 | |
1130 /** | |
1131 * String types. | |
1132 * http://support.dcmtk.org/docs/classDcmByteString.html | |
1133 **/ | |
1134 | |
1135 case EVR_AS: // age string | |
1136 return new DcmAgeString(key); | |
1137 | |
1138 case EVR_AE: // application entity title | |
1139 return new DcmApplicationEntity(key); | |
1140 | |
1141 case EVR_CS: // code string | |
1142 return new DcmCodeString(key); | |
1143 | |
1144 case EVR_DA: // date string | |
1145 return new DcmDate(key); | |
1146 | |
1147 case EVR_DT: // date time string | |
1148 return new DcmDateTime(key); | |
1149 | |
1150 case EVR_DS: // decimal string | |
1151 return new DcmDecimalString(key); | |
1152 | |
1153 case EVR_IS: // integer string | |
1154 return new DcmIntegerString(key); | |
1155 | |
1156 case EVR_TM: // time string | |
1157 return new DcmTime(key); | |
1158 | |
1159 case EVR_UI: // unique identifier | |
1160 return new DcmUniqueIdentifier(key); | |
1161 | |
1162 case EVR_ST: // short text | |
1163 return new DcmShortText(key); | |
1164 | |
1165 case EVR_LO: // long string | |
1166 return new DcmLongString(key); | |
1167 | |
1168 case EVR_LT: // long text | |
1169 return new DcmLongText(key); | |
1170 | |
1171 case EVR_UT: // unlimited text | |
1172 return new DcmUnlimitedText(key); | |
1173 | |
1174 case EVR_SH: // short string | |
1175 return new DcmShortString(key); | |
1176 | |
1177 case EVR_PN: // person name | |
1178 return new DcmPersonName(key); | |
1179 | |
1180 | |
1181 /** | |
1182 * Numerical types | |
1183 **/ | |
1184 | |
1185 case EVR_SL: // signed long | |
1186 return new DcmSignedLong(key); | |
1187 | |
1188 case EVR_SS: // signed short | |
1189 return new DcmSignedShort(key); | |
1190 | |
1191 case EVR_UL: // unsigned long | |
1192 return new DcmUnsignedLong(key); | |
1193 | |
1194 case EVR_US: // unsigned short | |
1195 return new DcmUnsignedShort(key); | |
1196 | |
1197 case EVR_FL: // float single-precision | |
1198 return new DcmFloatingPointSingle(key); | |
1199 | |
1200 case EVR_FD: // float double-precision | |
1201 return new DcmFloatingPointDouble(key); | |
1202 | |
1203 | |
1204 /** | |
1205 * Sequence types, should never occur at this point. | |
1206 **/ | |
1207 | |
1208 case EVR_SQ: // sequence of items | |
1209 throw OrthancException(ErrorCode_ParameterOutOfRange); | |
1210 | |
1211 | |
1212 /** | |
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1213 * TODO |
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1214 **/ |
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1215 |
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1216 case EVR_AT: // attribute tag |
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1217 throw OrthancException(ErrorCode_NotImplemented); |
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1218 |
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1219 |
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1220 /** |
1689 | 1221 * Internal to DCMTK. |
1222 **/ | |
1223 | |
1224 case EVR_xs: // SS or US depending on context | |
1225 case EVR_lt: // US, SS or OW depending on context, used for LUT Data (thus the name) | |
1226 case EVR_na: // na="not applicable", for data which has no VR | |
1227 case EVR_up: // up="unsigned pointer", used internally for DICOMDIR suppor | |
1228 case EVR_item: // used internally for items | |
1229 case EVR_metainfo: // used internally for meta info datasets | |
1230 case EVR_dataset: // used internally for datasets | |
1231 case EVR_fileFormat: // used internally for DICOM files | |
1232 case EVR_dicomDir: // used internally for DICOMDIR objects | |
1233 case EVR_dirRecord: // used internally for DICOMDIR records | |
1234 case EVR_pixelSQ: // used internally for pixel sequences in a compressed image | |
1235 case EVR_pixelItem: // used internally for pixel items in a compressed image | |
1236 case EVR_UNKNOWN: // used internally for elements with unknown VR (encoded with 4-byte length field in explicit VR) | |
1237 case EVR_PixelData: // used internally for uncompressed pixeld data | |
1238 case EVR_OverlayData: // used internally for overlay data | |
1239 case EVR_UNKNOWN2B: // used internally for elements with unknown VR with 2-byte length field in explicit VR | |
1240 default: | |
1241 break; | |
1242 } | |
1243 | |
1244 throw OrthancException(ErrorCode_InternalError); | |
1245 } | |
1246 | |
1247 | |
1248 | |
1249 void FromDcmtkBridge::FillElementWithString(DcmElement& element, | |
1250 const DicomTag& tag, | |
1695 | 1251 const std::string& utf8Value, |
1818
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1252 bool decodeDataUriScheme, |
1695 | 1253 Encoding dicomEncoding) |
1689 | 1254 { |
1255 std::string binary; | |
1695 | 1256 const std::string* decoded = &utf8Value; |
1689 | 1257 |
1818
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1258 if (decodeDataUriScheme && |
1695 | 1259 boost::starts_with(utf8Value, "data:application/octet-stream;base64,")) |
1689 | 1260 { |
1261 std::string mime; | |
1695 | 1262 Toolbox::DecodeDataUriScheme(mime, binary, utf8Value); |
1263 decoded = &binary; | |
1264 } | |
1265 else if (dicomEncoding != Encoding_Utf8) | |
1266 { | |
1267 binary = Toolbox::ConvertFromUtf8(utf8Value, dicomEncoding); | |
1689 | 1268 decoded = &binary; |
1269 } | |
1270 | |
1693
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1271 DcmTag key(tag.GetGroup(), tag.GetElement()); |
1689 | 1272 |
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1273 if (tag.IsPrivate() || |
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1274 IsBinaryTag(key)) |
1689 | 1275 { |
1276 if (element.putUint8Array((const Uint8*) decoded->c_str(), decoded->size()).good()) | |
1277 { | |
1278 return; | |
1279 } | |
1280 else | |
1281 { | |
1282 throw OrthancException(ErrorCode_InternalError); | |
1283 } | |
1284 } | |
1285 | |
1286 bool ok = false; | |
1287 | |
1288 try | |
1289 { | |
1290 switch (key.getEVR()) | |
1291 { | |
1292 // http://support.dcmtk.org/docs/dcvr_8h-source.html | |
1293 | |
1294 /** | |
1295 * TODO. | |
1296 **/ | |
1297 | |
1298 case EVR_OB: // other byte | |
1299 case EVR_OF: // other float | |
1300 case EVR_OW: // other word | |
1301 case EVR_AT: // attribute tag | |
1302 throw OrthancException(ErrorCode_NotImplemented); | |
1303 | |
1304 case EVR_UN: // unknown value representation | |
1305 throw OrthancException(ErrorCode_ParameterOutOfRange); | |
1306 | |
1307 | |
1308 /** | |
1309 * String types. | |
1310 **/ | |
1311 | |
1312 case EVR_DS: // decimal string | |
1313 case EVR_IS: // integer string | |
1314 case EVR_AS: // age string | |
1315 case EVR_DA: // date string | |
1316 case EVR_DT: // date time string | |
1317 case EVR_TM: // time string | |
1318 case EVR_AE: // application entity title | |
1319 case EVR_CS: // code string | |
1320 case EVR_SH: // short string | |
1321 case EVR_LO: // long string | |
1322 case EVR_ST: // short text | |
1323 case EVR_LT: // long text | |
1324 case EVR_UT: // unlimited text | |
1325 case EVR_PN: // person name | |
1326 case EVR_UI: // unique identifier | |
1327 { | |
1328 ok = element.putString(decoded->c_str()).good(); | |
1329 break; | |
1330 } | |
1331 | |
1332 | |
1333 /** | |
1334 * Numerical types | |
1335 **/ | |
1336 | |
1337 case EVR_SL: // signed long | |
1338 { | |
1339 ok = element.putSint32(boost::lexical_cast<Sint32>(*decoded)).good(); | |
1340 break; | |
1341 } | |
1342 | |
1343 case EVR_SS: // signed short | |
1344 { | |
1345 ok = element.putSint16(boost::lexical_cast<Sint16>(*decoded)).good(); | |
1346 break; | |
1347 } | |
1348 | |
1349 case EVR_UL: // unsigned long | |
1350 { | |
1351 ok = element.putUint32(boost::lexical_cast<Uint32>(*decoded)).good(); | |
1352 break; | |
1353 } | |
1354 | |
1355 case EVR_US: // unsigned short | |
1356 { | |
1357 ok = element.putUint16(boost::lexical_cast<Uint16>(*decoded)).good(); | |
1358 break; | |
1359 } | |
1360 | |
1361 case EVR_FL: // float single-precision | |
1362 { | |
1363 ok = element.putFloat32(boost::lexical_cast<float>(*decoded)).good(); | |
1364 break; | |
1365 } | |
1366 | |
1367 case EVR_FD: // float double-precision | |
1368 { | |
1369 ok = element.putFloat64(boost::lexical_cast<double>(*decoded)).good(); | |
1370 break; | |
1371 } | |
1372 | |
1373 | |
1374 /** | |
1375 * Sequence types, should never occur at this point. | |
1376 **/ | |
1377 | |
1378 case EVR_SQ: // sequence of items | |
1379 { | |
1380 ok = false; | |
1381 break; | |
1382 } | |
1383 | |
1384 | |
1385 /** | |
1386 * Internal to DCMTK. | |
1387 **/ | |
1388 | |
1389 case EVR_ox: // OB or OW depending on context | |
1390 case EVR_xs: // SS or US depending on context | |
1391 case EVR_lt: // US, SS or OW depending on context, used for LUT Data (thus the name) | |
1392 case EVR_na: // na="not applicable", for data which has no VR | |
1393 case EVR_up: // up="unsigned pointer", used internally for DICOMDIR suppor | |
1394 case EVR_item: // used internally for items | |
1395 case EVR_metainfo: // used internally for meta info datasets | |
1396 case EVR_dataset: // used internally for datasets | |
1397 case EVR_fileFormat: // used internally for DICOM files | |
1398 case EVR_dicomDir: // used internally for DICOMDIR objects | |
1399 case EVR_dirRecord: // used internally for DICOMDIR records | |
1400 case EVR_pixelSQ: // used internally for pixel sequences in a compressed image | |
1401 case EVR_pixelItem: // used internally for pixel items in a compressed image | |
1402 case EVR_UNKNOWN: // used internally for elements with unknown VR (encoded with 4-byte length field in explicit VR) | |
1403 case EVR_PixelData: // used internally for uncompressed pixeld data | |
1404 case EVR_OverlayData: // used internally for overlay data | |
1405 case EVR_UNKNOWN2B: // used internally for elements with unknown VR with 2-byte length field in explicit VR | |
1406 default: | |
1407 break; | |
1408 } | |
1409 } | |
1410 catch (boost::bad_lexical_cast&) | |
1411 { | |
1412 ok = false; | |
1413 } | |
1414 | |
1415 if (!ok) | |
1416 { | |
1417 throw OrthancException(ErrorCode_InternalError); | |
1418 } | |
1419 } | |
1420 | |
1421 | |
1693
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1422 DcmElement* FromDcmtkBridge::FromJson(const DicomTag& tag, |
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1423 const Json::Value& value, |
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1424 bool decodeDataUriScheme, |
1695 | 1425 Encoding dicomEncoding) |
1689 | 1426 { |
1427 std::auto_ptr<DcmElement> element; | |
1428 | |
1690 | 1429 switch (value.type()) |
1689 | 1430 { |
1690 | 1431 case Json::stringValue: |
1432 element.reset(CreateElementForTag(tag)); | |
1818
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1433 FillElementWithString(*element, tag, value.asString(), decodeDataUriScheme, dicomEncoding); |
1690 | 1434 break; |
1435 | |
1436 case Json::arrayValue: | |
1437 { | |
1438 DcmTag key(tag.GetGroup(), tag.GetElement()); | |
1439 if (key.getEVR() != EVR_SQ) | |
1440 { | |
1441 throw OrthancException(ErrorCode_BadParameterType); | |
1442 } | |
1443 | |
1444 DcmSequenceOfItems* sequence = new DcmSequenceOfItems(key, value.size()); | |
1445 element.reset(sequence); | |
1446 | |
1447 for (Json::Value::ArrayIndex i = 0; i < value.size(); i++) | |
1448 { | |
1449 std::auto_ptr<DcmItem> item(new DcmItem); | |
1450 | |
1451 Json::Value::Members members = value[i].getMemberNames(); | |
1452 for (Json::Value::ArrayIndex j = 0; j < members.size(); j++) | |
1453 { | |
1818
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1454 item->insert(FromJson(ParseTag(members[j]), value[i][members[j]], decodeDataUriScheme, dicomEncoding)); |
1690 | 1455 } |
1456 | |
1457 sequence->append(item.release()); | |
1458 } | |
1459 | |
1460 break; | |
1461 } | |
1462 | |
1463 default: | |
1464 throw OrthancException(ErrorCode_BadParameterType); | |
1689 | 1465 } |
1466 | |
1467 return element.release(); | |
1468 } | |
1765
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1469 |
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1470 |
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1471 DcmEVR FromDcmtkBridge::ParseValueRepresentation(const std::string& s) |
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1472 { |
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1473 if (s == "AE") |
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1474 return EVR_AE; |
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1475 |
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1476 if (s == "AS") |
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1477 return EVR_AS; |
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1478 |
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1479 if (s == "AT") |
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1480 return EVR_AT; |
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1481 |
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1482 if (s == "CS") |
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1483 return EVR_CS; |
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1484 |
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1485 if (s == "DA") |
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1486 return EVR_DA; |
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1487 |
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1488 if (s == "DS") |
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1489 return EVR_DS; |
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1490 |
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1491 if (s == "DT") |
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1492 return EVR_DT; |
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1493 |
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1494 if (s == "FD") |
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1495 return EVR_FD; |
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1496 |
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1497 if (s == "FL") |
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1498 return EVR_FL; |
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1499 |
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1500 if (s == "IS") |
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1501 return EVR_IS; |
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1502 |
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1503 if (s == "LO") |
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1504 return EVR_LO; |
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1505 |
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1506 if (s == "LT") |
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1507 return EVR_LT; |
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1508 |
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1509 if (s == "OB") |
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1510 return EVR_OB; |
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1511 |
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1512 if (s == "OF") |
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1513 return EVR_OF; |
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1514 |
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1515 if (s == "OW") |
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1516 return EVR_OW; |
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1517 |
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1518 if (s == "PN") |
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1519 return EVR_PN; |
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1520 |
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1521 if (s == "SH") |
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1522 return EVR_SH; |
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1523 |
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1524 if (s == "SL") |
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1525 return EVR_SL; |
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1526 |
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1527 if (s == "SQ") |
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1528 return EVR_SQ; |
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1529 |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1739
diff
changeset
|
1530 if (s == "SS") |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1739
diff
changeset
|
1531 return EVR_SS; |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1739
diff
changeset
|
1532 |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1739
diff
changeset
|
1533 if (s == "ST") |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1739
diff
changeset
|
1534 return EVR_ST; |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1739
diff
changeset
|
1535 |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1739
diff
changeset
|
1536 if (s == "TM") |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1739
diff
changeset
|
1537 return EVR_TM; |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1739
diff
changeset
|
1538 |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1739
diff
changeset
|
1539 if (s == "UI") |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1739
diff
changeset
|
1540 return EVR_UI; |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1739
diff
changeset
|
1541 |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1739
diff
changeset
|
1542 if (s == "UL") |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1739
diff
changeset
|
1543 return EVR_UL; |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1739
diff
changeset
|
1544 |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1739
diff
changeset
|
1545 if (s == "UN") |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1739
diff
changeset
|
1546 return EVR_UN; |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1739
diff
changeset
|
1547 |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1739
diff
changeset
|
1548 if (s == "US") |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1739
diff
changeset
|
1549 return EVR_US; |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1739
diff
changeset
|
1550 |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1739
diff
changeset
|
1551 if (s == "UT") |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1739
diff
changeset
|
1552 return EVR_UT; |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1739
diff
changeset
|
1553 |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1739
diff
changeset
|
1554 throw OrthancException(ErrorCode_ParameterOutOfRange); |
57b9e6890482
New configuration option: "Dictionary" to declare custom DICOM tags
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
1739
diff
changeset
|
1555 } |
0 | 1556 } |