Mercurial > hg > orthanc

annotate Core/DicomParsing/Internals/DicomFrameIndex.cpp @ 3640:94f4a18a79cc

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upgrade to year 2020
author Sebastien Jodogne <s.jodogne@gmail.com>
date Fri, 31 Jan 2020 17:14:59 +0100
parents 4e43e67f8ecf
children 113a7b994a12
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1 /**
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2 * Orthanc - A Lightweight, RESTful DICOM Store
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3 * Copyright (C) 2012-2016 Sebastien Jodogne, Medical Physics
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4 * Department, University Hospital of Liege, Belgium
3640
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5 * Copyright (C) 2017-2020 Osimis S.A., Belgium
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6 *
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7 * This program is free software: you can redistribute it and/or
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8 * modify it under the terms of the GNU General Public License as
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9 * published by the Free Software Foundation, either version 3 of the
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10 * License, or (at your option) any later version.
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11 *
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12 * In addition, as a special exception, the copyright holders of this
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13 * program give permission to link the code of its release with the
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14 * OpenSSL project's "OpenSSL" library (or with modified versions of it
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15 * that use the same license as the "OpenSSL" library), and distribute
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16 * the linked executables. You must obey the GNU General Public License
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17 * in all respects for all of the code used other than "OpenSSL". If you
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18 * modify file(s) with this exception, you may extend this exception to
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19 * your version of the file(s), but you are not obligated to do so. If
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20 * you do not wish to do so, delete this exception statement from your
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21 * version. If you delete this exception statement from all source files
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22 * in the program, then also delete it here.
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23 *
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24 * This program is distributed in the hope that it will be useful, but
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25 * WITHOUT ANY WARRANTY; without even the implied warranty of
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26 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU
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27 * General Public License for more details.
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28 *
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29 * You should have received a copy of the GNU General Public License
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30 * along with this program. If not, see <http://www.gnu.org/licenses/>.
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31 **/
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33
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34 #include "../../PrecompiledHeaders.h"
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35 #include "DicomFrameIndex.h"
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36
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37 #include "../../OrthancException.h"
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38 #include "../../DicomFormat/DicomImageInformation.h"
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39 #include "../FromDcmtkBridge.h"
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40 #include "../../Endianness.h"
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41 #include "DicomImageDecoder.h"
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42
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43 #include <boost/lexical_cast.hpp>
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44
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45 #include <dcmtk/dcmdata/dcdeftag.h>
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46 #include <dcmtk/dcmdata/dcpxitem.h>
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47 #include <dcmtk/dcmdata/dcpixseq.h>
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48
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49 namespace Orthanc
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50 {
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51 class DicomFrameIndex::FragmentIndex : public DicomFrameIndex::IIndex
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52 {
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53 private:
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54 DcmPixelSequence* pixelSequence_;
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55 std::vector<DcmPixelItem*> startFragment_;
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56 std::vector<unsigned int> countFragments_;
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57 std::vector<unsigned int> frameSize_;
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58
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59 void GetOffsetTable(std::vector<uint32_t>& table)
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60 {
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61 DcmPixelItem* item = NULL;
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62 if (!pixelSequence_->getItem(item, 0).good() ||
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63 item == NULL)
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64 {
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65 throw OrthancException(ErrorCode_BadFileFormat);
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66 }
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67
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68 uint32_t length = item->getLength();
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69 if (length == 0)
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70 {
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71 table.clear();
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72 return;
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73 }
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74
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75 if (length % 4 != 0)
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76 {
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77 // Error: Each fragment is index with 4 bytes (uint32_t)
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78 throw OrthancException(ErrorCode_BadFileFormat);
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79 }
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80
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81 uint8_t* content = NULL;
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82 if (!item->getUint8Array(content).good() ||
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83 content == NULL)
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84 {
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85 throw OrthancException(ErrorCode_InternalError);
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86 }
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87
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88 table.resize(length / 4);
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89
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90 // The offset table is always in little endian in the DICOM
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91 // file. Swap it to host endianness if needed.
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92 const uint32_t* offset = reinterpret_cast<const uint32_t*>(content);
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93 for (size_t i = 0; i < table.size(); i++, offset++)
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94 {
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95 table[i] = le32toh(*offset);
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96 }
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97 }
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98
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100 public:
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101 FragmentIndex(DcmPixelSequence* pixelSequence,
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102 unsigned int countFrames) :
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103 pixelSequence_(pixelSequence)
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104 {
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diff changeset
105 assert(pixelSequence != NULL);
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106
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diff changeset
107 startFragment_.resize(countFrames);
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Sebastien Jodogne <s.jodogne@gmail.com>
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diff changeset
108 countFragments_.resize(countFrames);
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Sebastien Jodogne <s.jodogne@gmail.com>
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diff changeset
109 frameSize_.resize(countFrames);
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diff changeset
110
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diff changeset
111 // The first fragment corresponds to the offset table
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diff changeset
112 unsigned int countFragments = static_cast<unsigned int>(pixelSequence_->card());
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diff changeset
113 if (countFragments < countFrames + 1)
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parents:
diff changeset
114 {
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diff changeset
115 throw OrthancException(ErrorCode_BadFileFormat);
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116 }
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diff changeset
117
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diff changeset
118 if (countFragments == countFrames + 1)
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parents:
diff changeset
119 {
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
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diff changeset
120 // Simple case: There is one fragment per frame.
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121
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diff changeset
122 DcmObject* fragment = pixelSequence_->nextInContainer(NULL); // Skip the offset table
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123 if (fragment == NULL)
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diff changeset
124 {
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diff changeset
125 throw OrthancException(ErrorCode_InternalError);
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Sebastien Jodogne <s.jodogne@gmail.com>
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diff changeset
126 }
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diff changeset
127
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diff changeset
128 for (unsigned int i = 0; i < countFrames; i++)
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diff changeset
129 {
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diff changeset
130 fragment = pixelSequence_->nextInContainer(fragment);
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131 startFragment_[i] = dynamic_cast<DcmPixelItem*>(fragment);
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132 frameSize_[i] = fragment->getLength();
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diff changeset
133 countFragments_[i] = 1;
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diff changeset
134 }
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Sebastien Jodogne <s.jodogne@gmail.com>
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diff changeset
135
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diff changeset
136 return;
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
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diff changeset
137 }
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
138
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diff changeset
139 // Parse the offset table
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Sebastien Jodogne <s.jodogne@gmail.com>
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140 std::vector<uint32_t> offsetOfFrame;
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Sebastien Jodogne <s.jodogne@gmail.com>
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diff changeset
141 GetOffsetTable(offsetOfFrame);
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142
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Sebastien Jodogne <s.jodogne@gmail.com>
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diff changeset
143 if (offsetOfFrame.size() != countFrames ||
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Sebastien Jodogne <s.jodogne@gmail.com>
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diff changeset
144 offsetOfFrame[0] != 0)
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diff changeset
145 {
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diff changeset
146 throw OrthancException(ErrorCode_BadFileFormat);
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147 }
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parents:
diff changeset
148
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parents:
diff changeset
149
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diff changeset
150 // Loop over the fragments (ignoring the offset table). This is
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diff changeset
151 // an alternative, faster implementation to DCMTK's
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152 // "DcmCodec::determineStartFragment()".
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diff changeset
153 DcmObject* fragment = pixelSequence_->nextInContainer(NULL);
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diff changeset
154 if (fragment == NULL)
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parents:
diff changeset
155 {
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
156 throw OrthancException(ErrorCode_InternalError);
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parents:
diff changeset
157 }
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
158
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parents:
diff changeset
159 fragment = pixelSequence_->nextInContainer(fragment); // Skip the offset table
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parents:
diff changeset
160 if (fragment == NULL)
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
161 {
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
162 throw OrthancException(ErrorCode_InternalError);
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
163 }
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
164
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parents:
diff changeset
165 uint32_t offset = 0;
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diff changeset
166 unsigned int currentFrame = 0;
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diff changeset
167 startFragment_[0] = dynamic_cast<DcmPixelItem*>(fragment);
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parents:
diff changeset
168
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parents:
diff changeset
169 unsigned int currentFragment = 1;
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parents:
diff changeset
170 while (fragment != NULL)
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
171 {
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
172 if (currentFrame + 1 < countFrames &&
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
173 offset == offsetOfFrame[currentFrame + 1])
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parents:
diff changeset
174 {
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
175 currentFrame += 1;
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parents:
diff changeset
176 startFragment_[currentFrame] = dynamic_cast<DcmPixelItem*>(fragment);
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parents:
diff changeset
177 }
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parents:
diff changeset
178
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parents:
diff changeset
179 frameSize_[currentFrame] += fragment->getLength();
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parents:
diff changeset
180 countFragments_[currentFrame]++;
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diff changeset
181
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parents:
diff changeset
182 // 8 bytes = overhead for the item tag and length field
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parents:
diff changeset
183 offset += fragment->getLength() + 8;
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parents:
diff changeset
184
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parents:
diff changeset
185 currentFragment++;
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parents:
diff changeset
186 fragment = pixelSequence_->nextInContainer(fragment);
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parents:
diff changeset
187 }
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
188
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
189 if (currentFragment != countFragments ||
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
190 currentFrame + 1 != countFrames ||
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
191 fragment != NULL)
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
192 {
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
193 throw OrthancException(ErrorCode_BadFileFormat);
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
194 }
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
195
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parents:
diff changeset
196 assert(startFragment_.size() == countFragments_.size() &&
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parents:
diff changeset
197 startFragment_.size() == frameSize_.size());
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parents:
diff changeset
198 }
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
199
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
200
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
201 virtual void GetRawFrame(std::string& frame,
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
202 unsigned int index) const
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parents:
diff changeset
203 {
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
204 if (index >= startFragment_.size())
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parents:
diff changeset
205 {
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
206 throw OrthancException(ErrorCode_ParameterOutOfRange);
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
207 }
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
208
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parents:
diff changeset
209 frame.resize(frameSize_[index]);
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parents:
diff changeset
210 if (frame.size() == 0)
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
211 {
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
212 return;
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parents:
diff changeset
213 }
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214
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215 uint8_t* target = reinterpret_cast<uint8_t*>(&frame[0]);
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216
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217 size_t offset = 0;
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218 DcmPixelItem* fragment = startFragment_[index];
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219 for (unsigned int i = 0; i < countFragments_[index]; i++)
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220 {
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221 uint8_t* content = NULL;
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diff changeset
222 if (!fragment->getUint8Array(content).good() ||
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diff changeset
223 content == NULL)
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224 {
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225 throw OrthancException(ErrorCode_InternalError);
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226 }
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227
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228 assert(offset + fragment->getLength() <= frame.size());
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229
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230 memcpy(target + offset, content, fragment->getLength());
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231 offset += fragment->getLength();
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232
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233 fragment = dynamic_cast<DcmPixelItem*>(pixelSequence_->nextInContainer(fragment));
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234 }
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235 }
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236 };
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237
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238
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239
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240 class DicomFrameIndex::UncompressedIndex : public DicomFrameIndex::IIndex
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241 {
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242 private:
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243 uint8_t* pixelData_;
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244 size_t frameSize_;
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245
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246 public:
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247 UncompressedIndex(DcmDataset& dataset,
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248 unsigned int countFrames,
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249 size_t frameSize) :
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250 pixelData_(NULL),
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251 frameSize_(frameSize)
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252 {
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253 size_t size = 0;
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254
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255 DcmElement* e;
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diff changeset
256 if (dataset.findAndGetElement(DCM_PixelData, e).good() &&
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257 e != NULL)
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258 {
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259 size = e->getLength();
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260
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261 if (size > 0)
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262 {
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263 pixelData_ = NULL;
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264 if (!e->getUint8Array(pixelData_).good() ||
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265 pixelData_ == NULL)
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266 {
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267 throw OrthancException(ErrorCode_BadFileFormat);
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268 }
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269 }
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270 }
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271
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272 if (size < frameSize_ * countFrames)
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273 {
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274 throw OrthancException(ErrorCode_BadFileFormat);
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275 }
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276 }
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277
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278 virtual void GetRawFrame(std::string& frame,
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279 unsigned int index) const
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280 {
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281 frame.resize(frameSize_);
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282 if (frameSize_ > 0)
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diff changeset
283 {
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284 memcpy(&frame[0], pixelData_ + index * frameSize_, frameSize_);
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285 }
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286 }
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287 };
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parents:
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288
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parents:
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289
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290 class DicomFrameIndex::PsmctRle1Index : public DicomFrameIndex::IIndex
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diff changeset
291 {
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diff changeset
292 private:
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diff changeset
293 std::string pixelData_;
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294 size_t frameSize_;
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295
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296 public:
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diff changeset
297 PsmctRle1Index(DcmDataset& dataset,
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298 unsigned int countFrames,
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diff changeset
299 size_t frameSize) :
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diff changeset
300 frameSize_(frameSize)
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parents:
diff changeset
301 {
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Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
302 if (!DicomImageDecoder::DecodePsmctRle1(pixelData_, dataset) ||
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parents:
diff changeset
303 pixelData_.size() < frameSize * countFrames)
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parents:
diff changeset
304 {
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parents:
diff changeset
305 throw OrthancException(ErrorCode_BadFileFormat);
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parents:
diff changeset
306 }
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parents:
diff changeset
307 }
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parents:
diff changeset
308
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diff changeset
309 virtual void GetRawFrame(std::string& frame,
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diff changeset
310 unsigned int index) const
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diff changeset
311 {
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diff changeset
312 frame.resize(frameSize_);
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diff changeset
313 if (frameSize_ > 0)
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diff changeset
314 {
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diff changeset
315 memcpy(&frame[0], reinterpret_cast<const uint8_t*>(&pixelData_[0]) + index * frameSize_, frameSize_);
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316 }
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317 }
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diff changeset
318 };
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319
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320
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parents:
diff changeset
321
1956
fc16ee04e71b refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1951
diff changeset
322 bool DicomFrameIndex::IsVideo(DcmFileFormat& dicom)
1950
533ff46e944b return a single raw frame from DICOM videos
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1929
diff changeset
323 {
1957
b10a165e0e36 backward compatibility with DCMTK 3.6.0
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1956
diff changeset
324 // Retrieve the transfer syntax from the DICOM header
b10a165e0e36 backward compatibility with DCMTK 3.6.0
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1956
diff changeset
325 const char* value = NULL;
b10a165e0e36 backward compatibility with DCMTK 3.6.0
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1956
diff changeset
326 if (!dicom.getMetaInfo()->findAndGetString(DCM_TransferSyntaxUID, value).good() ||
b10a165e0e36 backward compatibility with DCMTK 3.6.0
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1956
diff changeset
327 value == NULL)
b10a165e0e36 backward compatibility with DCMTK 3.6.0
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1956
diff changeset
328 {
b10a165e0e36 backward compatibility with DCMTK 3.6.0
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1956
diff changeset
329 return false;
b10a165e0e36 backward compatibility with DCMTK 3.6.0
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1956
diff changeset
330 }
b10a165e0e36 backward compatibility with DCMTK 3.6.0
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1956
diff changeset
331
b10a165e0e36 backward compatibility with DCMTK 3.6.0
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1956
diff changeset
332 const std::string transferSyntax(value);
b10a165e0e36 backward compatibility with DCMTK 3.6.0
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1956
diff changeset
333
b10a165e0e36 backward compatibility with DCMTK 3.6.0
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1956
diff changeset
334 // Video standards supported in DICOM 2016a
b10a165e0e36 backward compatibility with DCMTK 3.6.0
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1956
diff changeset
335 // http://dicom.nema.org/medical/dicom/2016a/output/html/part05.html
b10a165e0e36 backward compatibility with DCMTK 3.6.0
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1956
diff changeset
336 if (transferSyntax == "1.2.840.10008.1.2.4.100" || // MPEG2 MP@ML option of ISO/IEC MPEG2
b10a165e0e36 backward compatibility with DCMTK 3.6.0
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1956
diff changeset
337 transferSyntax == "1.2.840.10008.1.2.4.101" || // MPEG2 MP@HL option of ISO/IEC MPEG2
b10a165e0e36 backward compatibility with DCMTK 3.6.0
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1956
diff changeset
338 transferSyntax == "1.2.840.10008.1.2.4.102" || // MPEG-4 AVC/H.264 High Profile / Level 4.1 of ITU-T H.264
b10a165e0e36 backward compatibility with DCMTK 3.6.0
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1956
diff changeset
339 transferSyntax == "1.2.840.10008.1.2.4.103" || // MPEG-4 AVC/H.264 BD-compat High Profile / Level 4.1 of ITU-T H.264
b10a165e0e36 backward compatibility with DCMTK 3.6.0
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1956
diff changeset
340 transferSyntax == "1.2.840.10008.1.2.4.104" || // MPEG-4 AVC/H.264 High Profile / Level 4.2 of ITU-T H.264
b10a165e0e36 backward compatibility with DCMTK 3.6.0
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1956
diff changeset
341 transferSyntax == "1.2.840.10008.1.2.4.105" || // MPEG-4 AVC/H.264 High Profile / Level 4.2 of ITU-T H.264
b10a165e0e36 backward compatibility with DCMTK 3.6.0
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1956
diff changeset
342 transferSyntax == "1.2.840.10008.1.2.4.106") // MPEG-4 AVC/H.264 Stereo High Profile / Level 4.2 of the ITU-T H.264
1950
533ff46e944b return a single raw frame from DICOM videos
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1929
diff changeset
343 {
533ff46e944b return a single raw frame from DICOM videos
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1929
diff changeset
344 return true;
1957
b10a165e0e36 backward compatibility with DCMTK 3.6.0
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1956
diff changeset
345 }
1950
533ff46e944b return a single raw frame from DICOM videos
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1929
diff changeset
346
533ff46e944b return a single raw frame from DICOM videos
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1929
diff changeset
347 return false;
533ff46e944b return a single raw frame from DICOM videos
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1929
diff changeset
348 }
533ff46e944b return a single raw frame from DICOM videos
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1929
diff changeset
349
1924
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
350
1956
fc16ee04e71b refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1951
diff changeset
351 unsigned int DicomFrameIndex::GetFramesCount(DcmFileFormat& dicom)
1924
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
352 {
1950
533ff46e944b return a single raw frame from DICOM videos
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1929
diff changeset
353 // Assume 1 frame for video transfer syntaxes
1956
fc16ee04e71b refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1951
diff changeset
354 if (IsVideo(dicom))
1950
533ff46e944b return a single raw frame from DICOM videos
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1929
diff changeset
355 {
533ff46e944b return a single raw frame from DICOM videos
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1929
diff changeset
356 return 1;
533ff46e944b return a single raw frame from DICOM videos
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1929
diff changeset
357 }
533ff46e944b return a single raw frame from DICOM videos
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1929
diff changeset
358
1924
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
359 const char* tmp = NULL;
1956
fc16ee04e71b refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1951
diff changeset
360 if (!dicom.getDataset()->findAndGetString(DCM_NumberOfFrames, tmp).good() ||
1924
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
361 tmp == NULL)
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
362 {
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
363 return 1;
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
364 }
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
365
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
366 int count = -1;
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
367 try
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
368 {
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
369 count = boost::lexical_cast<int>(tmp);
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
370 }
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
371 catch (boost::bad_lexical_cast&)
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
372 {
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
373 }
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
374
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
375 if (count < 0)
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
376 {
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
377 throw OrthancException(ErrorCode_BadFileFormat);
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
378 }
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
379 else
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
380 {
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
381 return count;
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
382 }
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
383 }
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
384
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
385
1956
fc16ee04e71b refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1951
diff changeset
386 DicomFrameIndex::DicomFrameIndex(DcmFileFormat& dicom)
1924
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
387 {
1956
fc16ee04e71b refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1951
diff changeset
388 countFrames_ = GetFramesCount(dicom);
1924
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
389 if (countFrames_ == 0)
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
390 {
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
391 // The image has no frame. No index is to be built.
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
392 return;
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
393 }
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
394
1956
fc16ee04e71b refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1951
diff changeset
395 DcmDataset& dataset = *dicom.getDataset();
fc16ee04e71b refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1951
diff changeset
396
1924
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
397 // Test whether this image is composed of a sequence of fragments
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
398 DcmPixelSequence* pixelSequence = FromDcmtkBridge::GetPixelSequence(dataset);
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
399 if (pixelSequence != NULL)
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
400 {
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
401 index_.reset(new FragmentIndex(pixelSequence, countFrames_));
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
402 return;
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
403 }
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
404
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
405 // Extract information about the image structure
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
406 DicomMap tags;
2381
b8969010b534 uncoupling DCMTK primitives from Orthanc::Configuration
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2244
diff changeset
407 FromDcmtkBridge::ExtractDicomSummary(tags, dataset);
1924
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
408
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
409 DicomImageInformation information(tags);
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
410
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
411 // Access to the raw pixel data
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
412 if (DicomImageDecoder::IsPsmctRle1(dataset))
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
413 {
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
414 index_.reset(new PsmctRle1Index(dataset, countFrames_, information.GetFrameSize()));
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
415 }
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
416 else
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
417 {
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
418 index_.reset(new UncompressedIndex(dataset, countFrames_, information.GetFrameSize()));
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
419 }
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
420 }
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
421
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
422
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
423 void DicomFrameIndex::GetRawFrame(std::string& frame,
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
424 unsigned int index) const
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
425 {
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
426 if (index >= countFrames_)
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
427 {
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
428 throw OrthancException(ErrorCode_ParameterOutOfRange);
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
429 }
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
430 else if (index_.get() != NULL)
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
431 {
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
432 return index_->GetRawFrame(frame, index);
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
433 }
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
434 else
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
435 {
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
436 frame.clear();
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
437 }
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
438 }
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
439 }