Mercurial > hg > orthanc
annotate Core/DicomParsing/DcmtkTranscoder.cpp @ 3930:b99acc213937 transcoding
transcoder plugins and GDCM transcoding are working
| author | Sebastien Jodogne <s.jodogne@gmail.com> |
|---|---|
| date | Thu, 14 May 2020 19:20:40 +0200 |
| parents | 7dc5e7e0045d |
| children | 54dbebbcc032 |
| rev | line source |
|---|---|
| 3893 | 1 /** |
| 2 * Orthanc - A Lightweight, RESTful DICOM Store | |
| 3 * Copyright (C) 2012-2016 Sebastien Jodogne, Medical Physics | |
| 4 * Department, University Hospital of Liege, Belgium | |
| 5 * Copyright (C) 2017-2020 Osimis S.A., Belgium | |
| 6 * | |
| 7 * This program is free software: you can redistribute it and/or | |
| 8 * modify it under the terms of the GNU General Public License as | |
| 9 * published by the Free Software Foundation, either version 3 of the | |
| 10 * License, or (at your option) any later version. | |
| 11 * | |
| 12 * In addition, as a special exception, the copyright holders of this | |
| 13 * program give permission to link the code of its release with the | |
| 14 * OpenSSL project's "OpenSSL" library (or with modified versions of it | |
| 15 * that use the same license as the "OpenSSL" library), and distribute | |
| 16 * the linked executables. You must obey the GNU General Public License | |
| 17 * in all respects for all of the code used other than "OpenSSL". If you | |
| 18 * modify file(s) with this exception, you may extend this exception to | |
| 19 * your version of the file(s), but you are not obligated to do so. If | |
| 20 * you do not wish to do so, delete this exception statement from your | |
| 21 * version. If you delete this exception statement from all source files | |
| 22 * in the program, then also delete it here. | |
| 23 * | |
| 24 * This program is distributed in the hope that it will be useful, but | |
| 25 * WITHOUT ANY WARRANTY; without even the implied warranty of | |
| 26 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU | |
| 27 * General Public License for more details. | |
| 28 * | |
| 29 * You should have received a copy of the GNU General Public License | |
| 30 * along with this program. If not, see <http://www.gnu.org/licenses/>. | |
| 31 **/ | |
| 32 | |
| 33 | |
| 34 #include "../PrecompiledHeaders.h" | |
| 35 #include "DcmtkTranscoder.h" | |
| 36 | |
| 37 | |
| 38 #if !defined(ORTHANC_ENABLE_DCMTK_JPEG) | |
| 39 # error Macro ORTHANC_ENABLE_DCMTK_JPEG must be defined | |
| 40 #endif | |
| 41 | |
| 42 #if !defined(ORTHANC_ENABLE_DCMTK_JPEG_LOSSLESS) | |
| 43 # error Macro ORTHANC_ENABLE_DCMTK_JPEG_LOSSLESS must be defined | |
| 44 #endif | |
| 45 | |
| 46 | |
| 47 #include "FromDcmtkBridge.h" | |
| 48 #include "../OrthancException.h" | |
| 49 | |
| 50 #include <dcmtk/dcmdata/dcdeftag.h> | |
| 51 #include <dcmtk/dcmjpeg/djrploss.h> // for DJ_RPLossy | |
| 52 #include <dcmtk/dcmjpeg/djrplol.h> // for DJ_RPLossless | |
| 53 #include <dcmtk/dcmjpls/djrparam.h> // for DJLSRepresentationParameter | |
| 54 | |
| 55 | |
| 56 namespace Orthanc | |
| 57 { | |
| 58 static uint16_t GetBitsStored(DcmDataset& dataset) | |
| 59 { | |
| 60 uint16_t bitsStored; | |
| 61 if (dataset.findAndGetUint16(DCM_BitsStored, bitsStored).good()) | |
| 62 { | |
| 63 return bitsStored; | |
| 64 } | |
| 65 else | |
| 66 { | |
| 67 throw OrthancException(ErrorCode_BadFileFormat, | |
| 68 "Missing \"Bits Stored\" tag in DICOM instance"); | |
| 69 } | |
| 70 } | |
| 71 | |
| 72 | |
| 73 static std::string GetSopInstanceUid(DcmDataset& dataset) | |
| 74 { | |
| 75 const char* v = NULL; | |
| 76 | |
| 77 if (dataset.findAndGetString(DCM_SOPInstanceUID, v).good() && | |
| 78 v != NULL) | |
| 79 { | |
| 80 return std::string(v); | |
| 81 } | |
| 82 else | |
| 83 { | |
| 84 throw OrthancException(ErrorCode_BadFileFormat, "File without SOP instance UID"); | |
| 85 } | |
| 86 } | |
| 87 | |
| 88 | |
| 89 static void CheckSopInstanceUid(DcmFileFormat& dicom, | |
| 90 const std::string& sopInstanceUid, | |
| 91 bool mustEqual) | |
| 92 { | |
| 93 if (dicom.getDataset() == NULL) | |
| 94 { | |
| 95 throw OrthancException(ErrorCode_InternalError); | |
| 96 } | |
| 97 | |
| 98 bool ok; | |
| 99 | |
| 100 if (mustEqual) | |
| 101 { | |
| 102 ok = (GetSopInstanceUid(*dicom.getDataset()) == sopInstanceUid); | |
| 103 } | |
| 104 else | |
| 105 { | |
| 106 ok = (GetSopInstanceUid(*dicom.getDataset()) != sopInstanceUid); | |
| 107 } | |
| 108 | |
| 109 if (!ok) | |
| 110 { | |
| 111 throw OrthancException(ErrorCode_InternalError, | |
| 112 mustEqual ? "The SOP instance UID has changed unexpectedly during transcoding" : | |
| 113 "The SOP instance UID has not changed as expected during transcoding"); | |
| 114 } | |
| 115 } | |
| 116 | |
| 117 | |
| 118 void DcmtkTranscoder::SetLossyQuality(unsigned int quality) | |
| 119 { | |
| 120 if (quality <= 0 || | |
| 121 quality > 100) | |
| 122 { | |
| 123 throw OrthancException(ErrorCode_ParameterOutOfRange); | |
| 124 } | |
| 125 else | |
| 126 { | |
| 127 lossyQuality_ = quality; | |
| 128 } | |
| 129 } | |
| 130 | |
| 131 | |
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132 bool DcmtkTranscoder::InplaceTranscode(bool& hasSopInstanceUidChanged /* out */, |
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133 DcmFileFormat& dicom, |
| 3893 | 134 const std::set<DicomTransferSyntax>& allowedSyntaxes, |
| 135 bool allowNewSopInstanceUid) | |
| 136 { | |
| 137 if (dicom.getDataset() == NULL) | |
| 138 { | |
| 139 throw OrthancException(ErrorCode_InternalError); | |
| 140 } | |
| 141 | |
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142 hasSopInstanceUidChanged = false; |
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143 |
| 3893 | 144 DicomTransferSyntax syntax; |
| 145 if (!FromDcmtkBridge::LookupOrthancTransferSyntax(syntax, dicom)) | |
| 146 { | |
| 147 throw OrthancException(ErrorCode_BadFileFormat, | |
| 148 "Cannot determine the transfer syntax"); | |
| 149 } | |
| 150 | |
| 151 const uint16_t bitsStored = GetBitsStored(*dicom.getDataset()); | |
| 152 std::string sourceSopInstanceUid = GetSopInstanceUid(*dicom.getDataset()); | |
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153 |
| 3893 | 154 if (allowedSyntaxes.find(syntax) != allowedSyntaxes.end()) |
| 155 { | |
| 156 // No transcoding is needed | |
| 157 return true; | |
| 158 } | |
| 159 | |
| 160 if (allowedSyntaxes.find(DicomTransferSyntax_LittleEndianImplicit) != allowedSyntaxes.end() && | |
| 161 FromDcmtkBridge::Transcode(dicom, DicomTransferSyntax_LittleEndianImplicit, NULL)) | |
| 162 { | |
| 163 CheckSopInstanceUid(dicom, sourceSopInstanceUid, true); | |
| 164 return true; | |
| 165 } | |
| 166 | |
| 167 if (allowedSyntaxes.find(DicomTransferSyntax_LittleEndianExplicit) != allowedSyntaxes.end() && | |
| 168 FromDcmtkBridge::Transcode(dicom, DicomTransferSyntax_LittleEndianExplicit, NULL)) | |
| 169 { | |
| 170 CheckSopInstanceUid(dicom, sourceSopInstanceUid, true); | |
| 171 return true; | |
| 172 } | |
| 173 | |
| 174 if (allowedSyntaxes.find(DicomTransferSyntax_BigEndianExplicit) != allowedSyntaxes.end() && | |
| 175 FromDcmtkBridge::Transcode(dicom, DicomTransferSyntax_BigEndianExplicit, NULL)) | |
| 176 { | |
| 177 CheckSopInstanceUid(dicom, sourceSopInstanceUid, true); | |
| 178 return true; | |
| 179 } | |
| 180 | |
| 181 if (allowedSyntaxes.find(DicomTransferSyntax_DeflatedLittleEndianExplicit) != allowedSyntaxes.end() && | |
| 182 FromDcmtkBridge::Transcode(dicom, DicomTransferSyntax_DeflatedLittleEndianExplicit, NULL)) | |
| 183 { | |
| 184 CheckSopInstanceUid(dicom, sourceSopInstanceUid, true); | |
| 185 return true; | |
| 186 } | |
| 187 | |
| 188 #if ORTHANC_ENABLE_DCMTK_JPEG == 1 | |
| 189 if (allowedSyntaxes.find(DicomTransferSyntax_JPEGProcess1) != allowedSyntaxes.end() && | |
| 190 allowNewSopInstanceUid && | |
| 191 bitsStored == 8) | |
| 192 { | |
| 193 // Check out "dcmjpeg/apps/dcmcjpeg.cc" | |
| 194 DJ_RPLossy parameters(lossyQuality_); | |
| 195 | |
| 196 if (FromDcmtkBridge::Transcode(dicom, DicomTransferSyntax_JPEGProcess1, ¶meters)) | |
| 197 { | |
| 198 CheckSopInstanceUid(dicom, sourceSopInstanceUid, false); | |
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199 hasSopInstanceUidChanged = true; |
| 3893 | 200 return true; |
| 201 } | |
| 202 } | |
| 203 #endif | |
| 204 | |
| 205 #if ORTHANC_ENABLE_DCMTK_JPEG == 1 | |
| 206 if (allowedSyntaxes.find(DicomTransferSyntax_JPEGProcess2_4) != allowedSyntaxes.end() && | |
| 207 allowNewSopInstanceUid && | |
| 208 bitsStored <= 12) | |
| 209 { | |
| 210 // Check out "dcmjpeg/apps/dcmcjpeg.cc" | |
| 211 DJ_RPLossy parameters(lossyQuality_); | |
| 212 if (FromDcmtkBridge::Transcode(dicom, DicomTransferSyntax_JPEGProcess2_4, ¶meters)) | |
| 213 { | |
| 214 CheckSopInstanceUid(dicom, sourceSopInstanceUid, false); | |
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215 hasSopInstanceUidChanged = true; |
| 3893 | 216 return true; |
| 217 } | |
| 218 } | |
| 219 #endif | |
| 220 | |
| 221 #if ORTHANC_ENABLE_DCMTK_JPEG == 1 | |
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222 if (allowedSyntaxes.find(DicomTransferSyntax_JPEGProcess14) != allowedSyntaxes.end()) |
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223 { |
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224 // Check out "dcmjpeg/apps/dcmcjpeg.cc" |
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225 DJ_RPLossless parameters(6 /* opt_selection_value */, |
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226 0 /* opt_point_transform */); |
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227 if (FromDcmtkBridge::Transcode(dicom, DicomTransferSyntax_JPEGProcess14, ¶meters)) |
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228 { |
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229 CheckSopInstanceUid(dicom, sourceSopInstanceUid, true); |
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230 return true; |
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231 } |
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232 } |
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233 #endif |
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234 |
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235 #if ORTHANC_ENABLE_DCMTK_JPEG == 1 |
| 3893 | 236 if (allowedSyntaxes.find(DicomTransferSyntax_JPEGProcess14SV1) != allowedSyntaxes.end()) |
| 237 { | |
| 238 // Check out "dcmjpeg/apps/dcmcjpeg.cc" | |
| 239 DJ_RPLossless parameters(6 /* opt_selection_value */, | |
| 240 0 /* opt_point_transform */); | |
| 241 if (FromDcmtkBridge::Transcode(dicom, DicomTransferSyntax_JPEGProcess14SV1, ¶meters)) | |
| 242 { | |
| 243 CheckSopInstanceUid(dicom, sourceSopInstanceUid, true); | |
| 244 return true; | |
| 245 } | |
| 246 } | |
| 247 #endif | |
| 248 | |
| 249 #if ORTHANC_ENABLE_DCMTK_JPEG_LOSSLESS == 1 | |
| 250 if (allowedSyntaxes.find(DicomTransferSyntax_JPEGLSLossless) != allowedSyntaxes.end()) | |
| 251 { | |
| 252 // Check out "dcmjpls/apps/dcmcjpls.cc" | |
| 253 DJLSRepresentationParameter parameters(2 /* opt_nearlossless_deviation */, | |
| 254 OFTrue /* opt_useLosslessProcess */); | |
| 255 | |
| 256 /** | |
| 257 * WARNING: This call results in a segmentation fault if using | |
| 258 * the DCMTK package 3.6.2 from Ubuntu 18.04. | |
| 259 **/ | |
| 260 if (FromDcmtkBridge::Transcode(dicom, DicomTransferSyntax_JPEGLSLossless, ¶meters)) | |
| 261 { | |
| 262 CheckSopInstanceUid(dicom, sourceSopInstanceUid, true); | |
| 263 return true; | |
| 264 } | |
| 265 } | |
| 266 #endif | |
| 267 | |
| 268 #if ORTHANC_ENABLE_DCMTK_JPEG_LOSSLESS == 1 | |
| 269 if (allowNewSopInstanceUid && | |
| 270 allowedSyntaxes.find(DicomTransferSyntax_JPEGLSLossy) != allowedSyntaxes.end()) | |
| 271 { | |
| 272 // Check out "dcmjpls/apps/dcmcjpls.cc" | |
| 273 DJLSRepresentationParameter parameters(2 /* opt_nearlossless_deviation */, | |
| 274 OFFalse /* opt_useLosslessProcess */); | |
| 275 | |
| 276 /** | |
| 277 * WARNING: This call results in a segmentation fault if using | |
| 278 * the DCMTK package 3.6.2 from Ubuntu 18.04. | |
| 279 **/ | |
| 280 if (FromDcmtkBridge::Transcode(dicom, DicomTransferSyntax_JPEGLSLossy, ¶meters)) | |
| 281 { | |
| 282 CheckSopInstanceUid(dicom, sourceSopInstanceUid, false); | |
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283 hasSopInstanceUidChanged = true; |
| 3893 | 284 return true; |
| 285 } | |
| 286 } | |
| 287 #endif | |
| 288 | |
| 289 return false; | |
| 290 } | |
| 291 | |
| 292 | |
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293 bool DcmtkTranscoder::IsSupported(DicomTransferSyntax syntax) |
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294 { |
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295 if (syntax == DicomTransferSyntax_LittleEndianImplicit || |
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296 syntax == DicomTransferSyntax_LittleEndianExplicit || |
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297 syntax == DicomTransferSyntax_BigEndianExplicit || |
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298 syntax == DicomTransferSyntax_DeflatedLittleEndianExplicit) |
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299 { |
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300 return true; |
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301 } |
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302 |
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303 #if ORTHANC_ENABLE_DCMTK_JPEG == 1 |
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304 if (syntax == DicomTransferSyntax_JPEGProcess1 || |
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305 syntax == DicomTransferSyntax_JPEGProcess2_4 || |
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306 syntax == DicomTransferSyntax_JPEGProcess14 || |
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307 syntax == DicomTransferSyntax_JPEGProcess14SV1) |
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308 { |
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309 return true; |
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310 } |
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311 #endif |
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312 |
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313 #if ORTHANC_ENABLE_DCMTK_JPEG_LOSSLESS == 1 |
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314 if (syntax == DicomTransferSyntax_JPEGLSLossless || |
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315 syntax == DicomTransferSyntax_JPEGLSLossy) |
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316 { |
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317 return true; |
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318 } |
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319 #endif |
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320 |
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321 return false; |
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322 } |
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323 |
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324 |
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325 |
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326 bool DcmtkTranscoder::TranscodeParsedToBuffer( |
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327 std::string& target /* out */, |
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328 bool& hasSopInstanceUidChanged /* out */, |
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329 DcmFileFormat& dicom /* in, possibly modified */, |
| 3910 | 330 DicomTransferSyntax targetSyntax, |
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331 bool allowNewSopInstanceUid) |
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332 { |
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333 if (dicom.getDataset() == NULL) |
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334 { |
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335 throw OrthancException(ErrorCode_InternalError); |
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336 } |
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337 |
| 3910 | 338 std::set<DicomTransferSyntax> tmp; |
| 339 tmp.insert(targetSyntax); | |
| 340 | |
| 341 if (InplaceTranscode(hasSopInstanceUidChanged, dicom, tmp, allowNewSopInstanceUid)) | |
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342 { |
| 3910 | 343 DicomTransferSyntax targetSyntax2; |
| 344 if (FromDcmtkBridge::LookupOrthancTransferSyntax(targetSyntax2, dicom) && | |
| 345 targetSyntax == targetSyntax2 && | |
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346 dicom.getDataset() != NULL) |
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347 { |
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348 FromDcmtkBridge::SaveToMemoryBuffer(target, *dicom.getDataset()); |
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349 return true; |
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350 } |
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351 else |
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352 { |
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353 throw OrthancException(ErrorCode_InternalError); |
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354 } |
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355 } |
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356 else |
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357 { |
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358 return false; |
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359 } |
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360 } |
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361 |
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362 |
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363 IDicomTranscoder::TranscodedDicom* DcmtkTranscoder::TranscodeToParsed( |
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364 DcmFileFormat& dicom /* in, possibly modified */, |
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365 const void* buffer /* in, same DICOM file as "dicom" */, |
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366 size_t size, |
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367 const std::set<DicomTransferSyntax>& allowedSyntaxes, |
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368 bool allowNewSopInstanceUid) |
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369 { |
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370 DicomTransferSyntax sourceSyntax; |
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371 if (!FromDcmtkBridge::LookupOrthancTransferSyntax(sourceSyntax, dicom)) |
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372 { |
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373 LOG(ERROR) << "Unsupport transfer syntax for transcoding"; |
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374 return NULL; |
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375 } |
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376 |
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377 bool hasSopInstanceUidChanged; |
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378 |
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379 if (allowedSyntaxes.find(sourceSyntax) != allowedSyntaxes.end()) |
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380 { |
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381 // No transcoding is needed |
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382 return TranscodedDicom::CreateFromExternal(dicom, false /* no change in UID */); |
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383 } |
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384 else if (InplaceTranscode(hasSopInstanceUidChanged, dicom, |
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385 allowedSyntaxes, allowNewSopInstanceUid)) |
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386 { |
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387 return TranscodedDicom::CreateFromExternal(dicom, hasSopInstanceUidChanged); |
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388 } |
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389 else |
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390 { |
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391 // Cannot transcode |
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392 return NULL; |
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393 } |
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394 } |
| 3893 | 395 } |