annotate OrthancFramework/Sources/DicomParsing/Internals/DicomImageDecoder.cpp @ 5129:16138d6d568d

fix decoding of RLE images for which the "Planar Configuration" tag (0028,0006) equals 1
author Sebastien Jodogne <s.jodogne@gmail.com>
date Thu, 22 Dec 2022 15:28:14 +0100
parents 5e7404f23fa8
children 0ea402b4d901
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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
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5 * Copyright (C) 2017-2022 Osimis S.A., Belgium
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6 * Copyright (C) 2021-2022 Sebastien Jodogne, ICTEAM UCLouvain, Belgium
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7 *
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8 * This program is free software: you can redistribute it and/or
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9 * modify it under the terms of the GNU Lesser General Public License
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10 * as published by the Free Software Foundation, either version 3 of
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11 * the License, or (at your option) any later version.
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12 *
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13 * This program is distributed in the hope that it will be useful, but
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14 * WITHOUT ANY WARRANTY; without even the implied warranty of
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15 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU
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16 * Lesser General Public License for more details.
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17 *
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18 * You should have received a copy of the GNU Lesser General Public
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19 * License along with this program. If not, see
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20 * <http://www.gnu.org/licenses/>.
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21 **/
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22
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23
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24 #include "../../PrecompiledHeaders.h"
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25 #include "DicomImageDecoder.h"
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26
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27 #include "../ParsedDicomFile.h"
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30 /*=========================================================================
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31
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32 This file is based on portions of the following project
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33 (cf. function "DecodePsmctRle1()"):
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34
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35 Program: GDCM (Grassroots DICOM). A DICOM library
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36 Module: http://gdcm.sourceforge.net/Copyright.html
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37
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38 Copyright (c) 2006-2011 Mathieu Malaterre
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39 Copyright (c) 1993-2005 CREATIS
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40 (CREATIS = Centre de Recherche et d'Applications en Traitement de l'Image)
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41 All rights reserved.
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42
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43 Redistribution and use in source and binary forms, with or without
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44 modification, are permitted provided that the following conditions are met:
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45
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46 * Redistributions of source code must retain the above copyright notice,
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47 this list of conditions and the following disclaimer.
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48
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49 * Redistributions in binary form must reproduce the above copyright notice,
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50 this list of conditions and the following disclaimer in the documentation
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51 and/or other materials provided with the distribution.
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52
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53 * Neither name of Mathieu Malaterre, or CREATIS, nor the names of any
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54 contributors (CNRS, INSERM, UCB, Universite Lyon I), may be used to
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55 endorse or promote products derived from this software without specific
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56 prior written permission.
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57
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58 THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS ``AS IS''
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59 AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE
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60 IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE
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61 ARE DISCLAIMED. IN NO EVENT SHALL THE AUTHORS OR CONTRIBUTORS BE LIABLE FOR
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62 ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL
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63 DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR
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64 SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER
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65 CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY,
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66 OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE
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67 OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
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68
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69 =========================================================================*/
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70
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71
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72 #include "../../Logging.h"
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73 #include "../../OrthancException.h"
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74 #include "../../Images/Image.h"
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75 #include "../../Images/ImageProcessing.h"
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76 #include "../../DicomFormat/DicomIntegerPixelAccessor.h"
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77 #include "../ToDcmtkBridge.h"
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78 #include "../FromDcmtkBridge.h"
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79
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80 #if ORTHANC_ENABLE_PNG == 1
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81 # include "../../Images/PngWriter.h"
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82 #endif
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83
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84 #if ORTHANC_ENABLE_JPEG == 1
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85 # include "../../Images/JpegWriter.h"
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86 #endif
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87 #include "../../Images/PamWriter.h"
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88
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89 #include <boost/lexical_cast.hpp>
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90
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91 #include <dcmtk/dcmdata/dcdeftag.h>
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92 #include <dcmtk/dcmdata/dcrleccd.h>
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93 #include <dcmtk/dcmdata/dcrlecp.h>
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94 #include <dcmtk/dcmdata/dcrlerp.h>
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95 #include <dcmtk/dcmdata/dcswap.h>
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96
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97 #if ORTHANC_ENABLE_DCMTK_JPEG_LOSSLESS == 1
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98 # include <dcmtk/dcmjpeg/djrplol.h>
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99 # include <dcmtk/dcmjpls/djcodecd.h>
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100 # include <dcmtk/dcmjpls/djcparam.h>
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101 # include <dcmtk/dcmjpls/djrparam.h>
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102 #endif
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103
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104 #if ORTHANC_ENABLE_DCMTK_JPEG == 1
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105 # include <dcmtk/dcmjpeg/djcodecd.h>
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106 # include <dcmtk/dcmjpeg/djcparam.h>
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107 # include <dcmtk/dcmjpeg/djdecbas.h>
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108 # include <dcmtk/dcmjpeg/djdecext.h>
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109 # include <dcmtk/dcmjpeg/djdeclol.h>
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110 # include <dcmtk/dcmjpeg/djdecpro.h>
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111 # include <dcmtk/dcmjpeg/djdecsps.h>
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112 # include <dcmtk/dcmjpeg/djdecsv1.h>
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113 # include <dcmtk/dcmjpeg/djrploss.h>
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114 #endif
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115
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116 #if DCMTK_VERSION_NUMBER <= 360
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117 # define EXS_JPEGProcess1 EXS_JPEGProcess1TransferSyntax
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118 # define EXS_JPEGProcess2_4 EXS_JPEGProcess2_4TransferSyntax
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119 # define EXS_JPEGProcess6_8 EXS_JPEGProcess6_8TransferSyntax
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120 # define EXS_JPEGProcess10_12 EXS_JPEGProcess10_12TransferSyntax
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121 # define EXS_JPEGProcess14 EXS_JPEGProcess14TransferSyntax
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122 # define EXS_JPEGProcess14SV1 EXS_JPEGProcess14SV1TransferSyntax
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123 #endif
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124
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125 namespace Orthanc
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126 {
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127 static const Endianness ENDIANNESS = Toolbox::DetectEndianness();
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128 static const DicomTag DICOM_TAG_CONTENT(0x07a1, 0x100a);
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129 static const DicomTag DICOM_TAG_COMPRESSION_TYPE(0x07a1, 0x1011);
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130
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131
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132 bool DicomImageDecoder::IsPsmctRle1(DcmDataset& dataset)
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133 {
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134 DcmElement* e;
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135 char* c;
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136
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137 // Check whether the DICOM instance contains an image encoded with
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138 // the PMSCT_RLE1 scheme.
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139 if (!dataset.findAndGetElement(ToDcmtkBridge::Convert(DICOM_TAG_COMPRESSION_TYPE), e).good() ||
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140 !dataset.tagExistsWithValue(ToDcmtkBridge::Convert(DICOM_TAG_CONTENT)) || // New in Orthanc 1.7.4
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141 e == NULL ||
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142 !e->isaString() ||
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143 !e->getString(c).good() ||
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144 c == NULL ||
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145 strcmp("PMSCT_RLE1", c))
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146 {
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147 return false;
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148 }
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149 else
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150 {
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151 return true;
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152 }
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153 }
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154
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155
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156 bool DicomImageDecoder::DecodePsmctRle1(std::string& output,
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157 DcmDataset& dataset)
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158 {
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159 // Check whether the DICOM instance contains an image encoded with
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160 // the PMSCT_RLE1 scheme.
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161 if (!IsPsmctRle1(dataset))
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162 {
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163 return false;
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164 }
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165
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166 // OK, this is a custom RLE encoding from Philips. Get the pixel
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167 // data from the appropriate private DICOM tag.
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168 Uint8* pixData = NULL;
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169 DcmElement* e;
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170 if (!dataset.findAndGetElement(ToDcmtkBridge::Convert(DICOM_TAG_CONTENT), e).good() ||
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171 e == NULL ||
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172 e->getUint8Array(pixData) != EC_Normal)
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173 {
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174 return false;
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175 }
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176
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177 // The "unsigned" below IS VERY IMPORTANT
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178 const uint8_t* inbuffer = reinterpret_cast<const uint8_t*>(pixData);
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179 const size_t length = e->getLength();
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180
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181 /**
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182 * The code below is an adaptation of a sample code for GDCM by
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183 * Mathieu Malaterre (under a BSD license).
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184 * http://gdcm.sourceforge.net/html/rle2img_8cxx-example.html
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185 **/
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186
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187 // RLE pass
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188 std::vector<uint8_t> temp;
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189 temp.reserve(length);
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190 for (size_t i = 0; i < length; i++)
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191 {
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192 if (inbuffer[i] == 0xa5)
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193 {
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194 temp.push_back(inbuffer[i+2]);
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195 for (uint8_t repeat = inbuffer[i + 1]; repeat != 0; repeat--)
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196 {
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197 temp.push_back(inbuffer[i+2]);
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198 }
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199 i += 2;
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200 }
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201 else
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202 {
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203 temp.push_back(inbuffer[i]);
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204 }
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205 }
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206
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207 // Delta encoding pass
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208 uint16_t delta = 0;
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209 output.clear();
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210 output.reserve(temp.size());
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211 for (size_t i = 0; i < temp.size(); i++)
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212 {
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213 uint16_t value;
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214
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215 if (temp[i] == 0x5a)
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216 {
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217 uint16_t v1 = temp[i + 1];
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218 uint16_t v2 = temp[i + 2];
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219 value = (v2 << 8) + v1;
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220 i += 2;
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221 }
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222 else
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223 {
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224 value = delta + (int8_t) temp[i];
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225 }
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226
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227 output.push_back(value & 0xff);
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228 output.push_back(value >> 8);
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229 delta = value;
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230 }
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231
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232 if (output.size() % 2)
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233 {
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234 output.resize(output.size() - 1);
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235 }
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236
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237 return true;
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238 }
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239
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240
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241 class DicomImageDecoder::ImageSource
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242 {
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243 private:
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244 std::string psmct_;
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245 std::unique_ptr<DicomIntegerPixelAccessor> slowAccessor_;
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246
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247 public:
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248 void Setup(DcmDataset& dataset,
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249 unsigned int frame)
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250 {
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251 psmct_.clear();
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252 slowAccessor_.reset(NULL);
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253
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254 // See also: http://support.dcmtk.org/wiki/dcmtk/howto/accessing-compressed-data
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255
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256 DicomMap m;
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257 std::set<DicomTag> ignoreTagLength;
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258 FromDcmtkBridge::ExtractDicomSummary(m, dataset, DicomImageInformation::GetUsefulTagLength(), ignoreTagLength);
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259
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260 /**
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261 * Create an accessor to the raw values of the DICOM image.
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262 **/
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263
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264 DcmElement* e;
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265 if (dataset.findAndGetElement(ToDcmtkBridge::Convert(DICOM_TAG_PIXEL_DATA), e).good() &&
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266 e != NULL)
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267 {
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268 Uint8* pixData = NULL;
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269 if (e->getUint8Array(pixData) == EC_Normal)
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270 {
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271 slowAccessor_.reset(new DicomIntegerPixelAccessor(m, pixData, e->getLength()));
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272 }
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273 }
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274 else if (DecodePsmctRle1(psmct_, dataset))
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275 {
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276 LOG(INFO) << "The PMSCT_RLE1 decoding has succeeded";
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277 Uint8* pixData = NULL;
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278 if (psmct_.size() > 0)
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279 {
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280 pixData = reinterpret_cast<Uint8*>(&psmct_[0]);
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281 }
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282
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283 slowAccessor_.reset(new DicomIntegerPixelAccessor(m, pixData, psmct_.size()));
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284 }
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285
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286 if (slowAccessor_.get() == NULL)
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287 {
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288 throw OrthancException(ErrorCode_BadFileFormat);
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289 }
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290
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291 slowAccessor_->SetCurrentFrame(frame);
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292 }
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293
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294 unsigned int GetWidth() const
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295 {
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296 assert(slowAccessor_.get() != NULL);
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297 return slowAccessor_->GetInformation().GetWidth();
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298 }
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299
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300 unsigned int GetHeight() const
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301 {
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302 assert(slowAccessor_.get() != NULL);
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303 return slowAccessor_->GetInformation().GetHeight();
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304 }
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305
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306 unsigned int GetChannelCount() const
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307 {
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308 assert(slowAccessor_.get() != NULL);
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309 return slowAccessor_->GetInformation().GetChannelCount();
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310 }
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311
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312 const DicomIntegerPixelAccessor& GetAccessor() const
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313 {
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314 assert(slowAccessor_.get() != NULL);
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315 return *slowAccessor_;
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316 }
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317
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318 unsigned int GetSize() const
942
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319 {
1190
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320 assert(slowAccessor_.get() != NULL);
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321 return slowAccessor_->GetSize();
942
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322 }
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323 };
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324
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325
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diff changeset
326 ImageAccessor* DicomImageDecoder::CreateImage(DcmDataset& dataset,
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327 bool ignorePhotometricInterpretation)
845
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328 {
854
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329 DicomMap m;
4137
6774605d4341 keep only one signature for FromDcmtkBridge::ExtractDicomSummary()
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diff changeset
330 std::set<DicomTag> ignoreTagLength;
4312
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diff changeset
331 FromDcmtkBridge::ExtractDicomSummary(m, dataset, DicomImageInformation::GetUsefulTagLength(), ignoreTagLength);
845
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332
854
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333 DicomImageInformation info(m);
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334 PixelFormat format;
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335
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336 if (!info.ExtractPixelFormat(format, ignorePhotometricInterpretation))
845
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337 {
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338 LOG(WARNING) << "Unsupported DICOM image: " << info.GetBitsStored()
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339 << "bpp, " << info.GetChannelCount() << " channels, "
860
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340 << (info.IsSigned() ? "signed" : "unsigned")
1206
f5b0207967bc Fix issue 19 (YBR_FULL are decoded incorrectly)
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1190
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341 << (info.IsPlanar() ? ", planar, " : ", non-planar, ")
f5b0207967bc Fix issue 19 (YBR_FULL are decoded incorrectly)
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1190
diff changeset
342 << EnumerationToString(info.GetPhotometricInterpretation())
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343 << " photometric interpretation";
845
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344 throw OrthancException(ErrorCode_NotImplemented);
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345 }
874
87791ebc1f50 download matlab images
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346
2107
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diff changeset
347 return new Image(format, info.GetWidth(), info.GetHeight(), false);
845
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348 }
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349
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350
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diff changeset
351 template <typename PixelType>
4201
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diff changeset
352 static void CopyPixels(ImageAccessor& target,
847
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diff changeset
353 const DicomIntegerPixelAccessor& source)
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diff changeset
354 {
3525
8c66c9c2257b fix ImageProcessing::ShiftScale() on float images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 3060
diff changeset
355 // WARNING - "::min()" should be replaced by "::lowest()" if
8c66c9c2257b fix ImageProcessing::ShiftScale() on float images
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diff changeset
356 // dealing with float or double (which is not the case so far)
847
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357 const PixelType minValue = std::numeric_limits<PixelType>::min();
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358 const PixelType maxValue = std::numeric_limits<PixelType>::max();
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diff changeset
359
4278
9279de56a405 avoid multiple calls to GetWidth() and GetHeight() on pixel loops
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diff changeset
360 const unsigned int height = source.GetInformation().GetHeight();
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diff changeset
361 const unsigned int width = source.GetInformation().GetWidth();
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diff changeset
362 const unsigned int channels = source.GetInformation().GetChannelCount();
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diff changeset
363
9279de56a405 avoid multiple calls to GetWidth() and GetHeight() on pixel loops
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parents: 4273
diff changeset
364 for (unsigned int y = 0; y < height; y++)
847
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diff changeset
365 {
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diff changeset
366 PixelType* pixel = reinterpret_cast<PixelType*>(target.GetRow(y));
4278
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diff changeset
367 for (unsigned int x = 0; x < width; x++)
847
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diff changeset
368 {
4278
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parents: 4273
diff changeset
369 for (unsigned int c = 0; c < channels; c++, pixel++)
847
03ea55da7429 fully functional JPEG-LS conversion
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diff changeset
370 {
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parents: 846
diff changeset
371 int32_t v = source.GetValue(x, y, c);
03ea55da7429 fully functional JPEG-LS conversion
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parents: 846
diff changeset
372 if (v < static_cast<int32_t>(minValue))
03ea55da7429 fully functional JPEG-LS conversion
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diff changeset
373 {
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diff changeset
374 *pixel = minValue;
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diff changeset
375 }
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parents: 846
diff changeset
376 else if (v > static_cast<int32_t>(maxValue))
03ea55da7429 fully functional JPEG-LS conversion
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parents: 846
diff changeset
377 {
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parents: 846
diff changeset
378 *pixel = maxValue;
03ea55da7429 fully functional JPEG-LS conversion
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diff changeset
379 }
03ea55da7429 fully functional JPEG-LS conversion
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parents: 846
diff changeset
380 else
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parents: 846
diff changeset
381 {
03ea55da7429 fully functional JPEG-LS conversion
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parents: 846
diff changeset
382 *pixel = static_cast<PixelType>(v);
03ea55da7429 fully functional JPEG-LS conversion
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parents: 846
diff changeset
383 }
03ea55da7429 fully functional JPEG-LS conversion
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 846
diff changeset
384 }
03ea55da7429 fully functional JPEG-LS conversion
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 846
diff changeset
385 }
03ea55da7429 fully functional JPEG-LS conversion
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 846
diff changeset
386 }
03ea55da7429 fully functional JPEG-LS conversion
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parents: 846
diff changeset
387 }
03ea55da7429 fully functional JPEG-LS conversion
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 846
diff changeset
388
03ea55da7429 fully functional JPEG-LS conversion
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 846
diff changeset
389
3712
2a170a8f1faf replacing std::auto_ptr by std::unique_ptr
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 3640
diff changeset
390 static ImageAccessor* DecodeLookupTable(std::unique_ptr<ImageAccessor>& target,
2423
5a7c5c541a1d Built-in decoding of palette images
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diff changeset
391 const DicomImageInformation& info,
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diff changeset
392 DcmDataset& dataset,
5a7c5c541a1d Built-in decoding of palette images
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parents: 2415
diff changeset
393 const uint8_t* pixelData,
5a7c5c541a1d Built-in decoding of palette images
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parents: 2415
diff changeset
394 unsigned long pixelLength)
5a7c5c541a1d Built-in decoding of palette images
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parents: 2415
diff changeset
395 {
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
396 LOG(INFO) << "Decoding a lookup table";
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
397
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
398 OFString r, g, b;
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
399 PixelFormat format;
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
400 const uint16_t* lutRed = NULL;
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
401 const uint16_t* lutGreen = NULL;
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
402 const uint16_t* lutBlue = NULL;
5a7c5c541a1d Built-in decoding of palette images
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parents: 2415
diff changeset
403 unsigned long rc = 0;
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
404 unsigned long gc = 0;
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
405 unsigned long bc = 0;
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
406
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
407 if (pixelData == NULL &&
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
408 !dataset.findAndGetUint8Array(DCM_PixelData, pixelData, &pixelLength).good())
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
409 {
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
410 throw OrthancException(ErrorCode_NotImplemented);
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
411 }
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
412
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
413 if (info.IsPlanar() ||
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
414 info.GetNumberOfFrames() != 1 ||
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
415 !info.ExtractPixelFormat(format, false) ||
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
416 !dataset.findAndGetOFStringArray(DCM_BluePaletteColorLookupTableDescriptor, b).good() ||
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
417 !dataset.findAndGetOFStringArray(DCM_GreenPaletteColorLookupTableDescriptor, g).good() ||
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
418 !dataset.findAndGetOFStringArray(DCM_RedPaletteColorLookupTableDescriptor, r).good() ||
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
419 !dataset.findAndGetUint16Array(DCM_BluePaletteColorLookupTableData, lutBlue, &bc).good() ||
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
420 !dataset.findAndGetUint16Array(DCM_GreenPaletteColorLookupTableData, lutGreen, &gc).good() ||
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
421 !dataset.findAndGetUint16Array(DCM_RedPaletteColorLookupTableData, lutRed, &rc).good() ||
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
422 r != g ||
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
423 r != b ||
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
424 g != b ||
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
425 lutRed == NULL ||
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
426 lutGreen == NULL ||
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
427 lutBlue == NULL ||
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
428 pixelData == NULL)
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
429 {
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
430 throw OrthancException(ErrorCode_NotImplemented);
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
431 }
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
432
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
433 switch (format)
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
434 {
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
435 case PixelFormat_RGB24:
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
436 {
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
437 if (r != "256\\0\\16" ||
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
438 rc != 256 ||
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
439 gc != 256 ||
4975
5e7404f23fa8 Improved decoding of US Images with Implicit VR
Alain Mazy <am@osimis.io>
parents: 4902
diff changeset
440 bc != 256)
2423
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
441 {
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
442 throw OrthancException(ErrorCode_NotImplemented);
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
443 }
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
444
4975
5e7404f23fa8 Improved decoding of US Images with Implicit VR
Alain Mazy <am@osimis.io>
parents: 4902
diff changeset
445 if (pixelLength != target->GetWidth() * target->GetHeight())
5e7404f23fa8 Improved decoding of US Images with Implicit VR
Alain Mazy <am@osimis.io>
parents: 4902
diff changeset
446 {
5e7404f23fa8 Improved decoding of US Images with Implicit VR
Alain Mazy <am@osimis.io>
parents: 4902
diff changeset
447 DcmElement *elem;
5e7404f23fa8 Improved decoding of US Images with Implicit VR
Alain Mazy <am@osimis.io>
parents: 4902
diff changeset
448 Uint16 bitsAllocated = 0;
5e7404f23fa8 Improved decoding of US Images with Implicit VR
Alain Mazy <am@osimis.io>
parents: 4902
diff changeset
449
5e7404f23fa8 Improved decoding of US Images with Implicit VR
Alain Mazy <am@osimis.io>
parents: 4902
diff changeset
450 if (!dataset.findAndGetUint16(DCM_BitsAllocated, bitsAllocated).good())
5e7404f23fa8 Improved decoding of US Images with Implicit VR
Alain Mazy <am@osimis.io>
parents: 4902
diff changeset
451 {
5e7404f23fa8 Improved decoding of US Images with Implicit VR
Alain Mazy <am@osimis.io>
parents: 4902
diff changeset
452 throw OrthancException(ErrorCode_NotImplemented);
5e7404f23fa8 Improved decoding of US Images with Implicit VR
Alain Mazy <am@osimis.io>
parents: 4902
diff changeset
453 }
5e7404f23fa8 Improved decoding of US Images with Implicit VR
Alain Mazy <am@osimis.io>
parents: 4902
diff changeset
454
5e7404f23fa8 Improved decoding of US Images with Implicit VR
Alain Mazy <am@osimis.io>
parents: 4902
diff changeset
455 if (!dataset.findAndGetElement(DCM_PixelData, elem).good())
5e7404f23fa8 Improved decoding of US Images with Implicit VR
Alain Mazy <am@osimis.io>
parents: 4902
diff changeset
456 {
5e7404f23fa8 Improved decoding of US Images with Implicit VR
Alain Mazy <am@osimis.io>
parents: 4902
diff changeset
457 throw OrthancException(ErrorCode_NotImplemented);
5e7404f23fa8 Improved decoding of US Images with Implicit VR
Alain Mazy <am@osimis.io>
parents: 4902
diff changeset
458 }
5e7404f23fa8 Improved decoding of US Images with Implicit VR
Alain Mazy <am@osimis.io>
parents: 4902
diff changeset
459
5e7404f23fa8 Improved decoding of US Images with Implicit VR
Alain Mazy <am@osimis.io>
parents: 4902
diff changeset
460 // In implicit VR files, pixelLength is expressed in words (OW) although pixels can actually be 8 bits
5e7404f23fa8 Improved decoding of US Images with Implicit VR
Alain Mazy <am@osimis.io>
parents: 4902
diff changeset
461 // -> pixelLength is wrong by a factor of two and the image can still be decoded!
5e7404f23fa8 Improved decoding of US Images with Implicit VR
Alain Mazy <am@osimis.io>
parents: 4902
diff changeset
462 // seen in some Philips ClearVue 650 images (using 8 bits LUT)
5e7404f23fa8 Improved decoding of US Images with Implicit VR
Alain Mazy <am@osimis.io>
parents: 4902
diff changeset
463 if (!(elem->getVR() == EVR_OW && bitsAllocated == 8 && (2*pixelLength == target->GetWidth() * target->GetHeight())))
5e7404f23fa8 Improved decoding of US Images with Implicit VR
Alain Mazy <am@osimis.io>
parents: 4902
diff changeset
464 {
5e7404f23fa8 Improved decoding of US Images with Implicit VR
Alain Mazy <am@osimis.io>
parents: 4902
diff changeset
465 throw OrthancException(ErrorCode_NotImplemented);
5e7404f23fa8 Improved decoding of US Images with Implicit VR
Alain Mazy <am@osimis.io>
parents: 4902
diff changeset
466 }
5e7404f23fa8 Improved decoding of US Images with Implicit VR
Alain Mazy <am@osimis.io>
parents: 4902
diff changeset
467 }
5e7404f23fa8 Improved decoding of US Images with Implicit VR
Alain Mazy <am@osimis.io>
parents: 4902
diff changeset
468
2423
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
469 const uint8_t* source = reinterpret_cast<const uint8_t*>(pixelData);
4278
9279de56a405 avoid multiple calls to GetWidth() and GetHeight() on pixel loops
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4273
diff changeset
470 const unsigned int width = target->GetWidth();
9279de56a405 avoid multiple calls to GetWidth() and GetHeight() on pixel loops
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4273
diff changeset
471 const unsigned int height = target->GetHeight();
2423
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
472
4278
9279de56a405 avoid multiple calls to GetWidth() and GetHeight() on pixel loops
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4273
diff changeset
473 for (unsigned int y = 0; y < height; y++)
2423
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
474 {
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
475 uint8_t* p = reinterpret_cast<uint8_t*>(target->GetRow(y));
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
476
4278
9279de56a405 avoid multiple calls to GetWidth() and GetHeight() on pixel loops
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4273
diff changeset
477 for (unsigned int x = 0; x < width; x++)
2423
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
478 {
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
479 p[0] = lutRed[*source] >> 8;
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
480 p[1] = lutGreen[*source] >> 8;
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
481 p[2] = lutBlue[*source] >> 8;
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
482 source++;
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
483 p += 3;
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
484 }
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
485 }
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
486
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
487 return target.release();
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
488 }
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
489
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
490 case PixelFormat_RGB48:
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
491 {
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
492 if (r != "0\\0\\16" ||
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
493 rc != 65536 ||
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
494 gc != 65536 ||
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
495 bc != 65536 ||
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
496 pixelLength != 2 * target->GetWidth() * target->GetHeight())
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
497 {
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
498 throw OrthancException(ErrorCode_NotImplemented);
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
499 }
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
500
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
501 const uint16_t* source = reinterpret_cast<const uint16_t*>(pixelData);
4278
9279de56a405 avoid multiple calls to GetWidth() and GetHeight() on pixel loops
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4273
diff changeset
502 const unsigned int width = target->GetWidth();
9279de56a405 avoid multiple calls to GetWidth() and GetHeight() on pixel loops
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4273
diff changeset
503 const unsigned int height = target->GetHeight();
2423
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
504
4278
9279de56a405 avoid multiple calls to GetWidth() and GetHeight() on pixel loops
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4273
diff changeset
505 for (unsigned int y = 0; y < height; y++)
2423
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
506 {
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
507 uint16_t* p = reinterpret_cast<uint16_t*>(target->GetRow(y));
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
508
4278
9279de56a405 avoid multiple calls to GetWidth() and GetHeight() on pixel loops
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4273
diff changeset
509 for (unsigned int x = 0; x < width; x++)
2423
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
510 {
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
511 p[0] = lutRed[*source];
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
512 p[1] = lutGreen[*source];
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
513 p[2] = lutBlue[*source];
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
514 source++;
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
515 p += 3;
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
516 }
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
517 }
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
518
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
519 return target.release();
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
520 }
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
521
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
522 default:
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
523 break;
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
524 }
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
525
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
526 throw OrthancException(ErrorCode_InternalError);
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
527 }
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
528
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
529
1826
ac5b0b4e2434 refactoring of DicomImageDecoder
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1824
diff changeset
530 ImageAccessor* DicomImageDecoder::DecodeUncompressedImage(DcmDataset& dataset,
1905
8b1baa2315b8 Huge speedup if decoding the family of JPEG transfer syntaxes
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1904
diff changeset
531 unsigned int frame)
847
03ea55da7429 fully functional JPEG-LS conversion
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 846
diff changeset
532 {
03ea55da7429 fully functional JPEG-LS conversion
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 846
diff changeset
533 /**
2423
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
534 * Create the target image.
847
03ea55da7429 fully functional JPEG-LS conversion
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 846
diff changeset
535 **/
03ea55da7429 fully functional JPEG-LS conversion
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 846
diff changeset
536
3712
2a170a8f1faf replacing std::auto_ptr by std::unique_ptr
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 3640
diff changeset
537 std::unique_ptr<ImageAccessor> target(CreateImage(dataset, false));
847
03ea55da7429 fully functional JPEG-LS conversion
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 846
diff changeset
538
2423
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
539 ImageSource source;
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
540 source.Setup(dataset, frame);
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
541
1826
ac5b0b4e2434 refactoring of DicomImageDecoder
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1824
diff changeset
542 if (source.GetWidth() != target->GetWidth() ||
ac5b0b4e2434 refactoring of DicomImageDecoder
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1824
diff changeset
543 source.GetHeight() != target->GetHeight())
847
03ea55da7429 fully functional JPEG-LS conversion
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 846
diff changeset
544 {
03ea55da7429 fully functional JPEG-LS conversion
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 846
diff changeset
545 throw OrthancException(ErrorCode_InternalError);
03ea55da7429 fully functional JPEG-LS conversion
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 846
diff changeset
546 }
03ea55da7429 fully functional JPEG-LS conversion
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 846
diff changeset
547
2423
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
548
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
549 /**
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
550 * Deal with lookup tables
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
551 **/
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
552
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
553 const DicomImageInformation& info = source.GetAccessor().GetInformation();
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
554
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
555 if (info.GetPhotometricInterpretation() == PhotometricInterpretation_Palette)
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
556 {
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
557 return DecodeLookupTable(target, info, dataset, NULL, 0);
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
558 }
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
559
847
03ea55da7429 fully functional JPEG-LS conversion
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 846
diff changeset
560
03ea55da7429 fully functional JPEG-LS conversion
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 846
diff changeset
561 /**
854
ff530685e46a fast version of image copy
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 853
diff changeset
562 * If the format of the DICOM buffer is natively supported, use a
ff530685e46a fast version of image copy
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 853
diff changeset
563 * direct access to copy its values.
ff530685e46a fast version of image copy
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 853
diff changeset
564 **/
ff530685e46a fast version of image copy
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 853
diff changeset
565
ff530685e46a fast version of image copy
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 853
diff changeset
566 bool fastVersionSuccess = false;
ff530685e46a fast version of image copy
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 853
diff changeset
567 PixelFormat sourceFormat;
863
3c0d0836f704 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 861
diff changeset
568 if (!info.IsPlanar() &&
4902
df86d2505df8 Orthanc 1.9.8 is now known as Orthanc 1.10.0
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4870
diff changeset
569 info.GetBitsStored() != 1 && // Black-and-white image, notably DICOM SEG (new in Orthanc 1.10.0)
1905
8b1baa2315b8 Huge speedup if decoding the family of JPEG transfer syntaxes
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1904
diff changeset
570 info.ExtractPixelFormat(sourceFormat, false))
854
ff530685e46a fast version of image copy
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 853
diff changeset
571 {
ff530685e46a fast version of image copy
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 853
diff changeset
572 try
ff530685e46a fast version of image copy
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 853
diff changeset
573 {
1190
851a55d183c9 fix issue 22
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1015
diff changeset
574 size_t frameSize = info.GetHeight() * info.GetWidth() * GetBytesPerPixel(sourceFormat);
851a55d183c9 fix issue 22
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1015
diff changeset
575 if ((frame + 1) * frameSize <= source.GetSize())
851a55d183c9 fix issue 22
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1015
diff changeset
576 {
851a55d183c9 fix issue 22
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1015
diff changeset
577 const uint8_t* buffer = reinterpret_cast<const uint8_t*>(source.GetAccessor().GetPixelData());
854
ff530685e46a fast version of image copy
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 853
diff changeset
578
1190
851a55d183c9 fix issue 22
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1015
diff changeset
579 ImageAccessor sourceImage;
851a55d183c9 fix issue 22
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1015
diff changeset
580 sourceImage.AssignReadOnly(sourceFormat,
851a55d183c9 fix issue 22
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1015
diff changeset
581 info.GetWidth(),
851a55d183c9 fix issue 22
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1015
diff changeset
582 info.GetHeight(),
851a55d183c9 fix issue 22
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1015
diff changeset
583 info.GetWidth() * GetBytesPerPixel(sourceFormat),
851a55d183c9 fix issue 22
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1015
diff changeset
584 buffer + frame * frameSize);
851a55d183c9 fix issue 22
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1015
diff changeset
585
4529
5774fe497ff2 fix decoding of images on big-endian architectures
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4437
diff changeset
586 switch (ENDIANNESS)
5774fe497ff2 fix decoding of images on big-endian architectures
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4437
diff changeset
587 {
5774fe497ff2 fix decoding of images on big-endian architectures
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4437
diff changeset
588 case Endianness_Little:
5774fe497ff2 fix decoding of images on big-endian architectures
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4437
diff changeset
589 ImageProcessing::Convert(*target, sourceImage);
5774fe497ff2 fix decoding of images on big-endian architectures
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4437
diff changeset
590 break;
5774fe497ff2 fix decoding of images on big-endian architectures
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4437
diff changeset
591
5774fe497ff2 fix decoding of images on big-endian architectures
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4437
diff changeset
592 case Endianness_Big:
5774fe497ff2 fix decoding of images on big-endian architectures
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4437
diff changeset
593 {
5774fe497ff2 fix decoding of images on big-endian architectures
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4437
diff changeset
594 // We cannot do byte swapping directly on the constant DcmDataset
5774fe497ff2 fix decoding of images on big-endian architectures
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4437
diff changeset
595 std::unique_ptr<ImageAccessor> copy(Image::Clone(sourceImage));
5774fe497ff2 fix decoding of images on big-endian architectures
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4437
diff changeset
596 ImageProcessing::SwapEndianness(*copy);
5774fe497ff2 fix decoding of images on big-endian architectures
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4437
diff changeset
597 ImageProcessing::Convert(*target, *copy);
5774fe497ff2 fix decoding of images on big-endian architectures
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4437
diff changeset
598 break;
5774fe497ff2 fix decoding of images on big-endian architectures
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4437
diff changeset
599 }
5774fe497ff2 fix decoding of images on big-endian architectures
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4437
diff changeset
600
5774fe497ff2 fix decoding of images on big-endian architectures
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4437
diff changeset
601 default:
5774fe497ff2 fix decoding of images on big-endian architectures
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4437
diff changeset
602 throw OrthancException(ErrorCode_InternalError);
5774fe497ff2 fix decoding of images on big-endian architectures
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4437
diff changeset
603 }
5774fe497ff2 fix decoding of images on big-endian architectures
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4437
diff changeset
604
1826
ac5b0b4e2434 refactoring of DicomImageDecoder
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1824
diff changeset
605 ImageProcessing::ShiftRight(*target, info.GetShift());
1190
851a55d183c9 fix issue 22
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1015
diff changeset
606 fastVersionSuccess = true;
851a55d183c9 fix issue 22
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1015
diff changeset
607 }
854
ff530685e46a fast version of image copy
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 853
diff changeset
608 }
ff530685e46a fast version of image copy
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 853
diff changeset
609 catch (OrthancException&)
ff530685e46a fast version of image copy
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 853
diff changeset
610 {
859
610a9a1ed855 ImageProcessing::Convert
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 858
diff changeset
611 // Unsupported conversion, use the slow version
854
ff530685e46a fast version of image copy
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 853
diff changeset
612 }
ff530685e46a fast version of image copy
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 853
diff changeset
613 }
ff530685e46a fast version of image copy
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 853
diff changeset
614
ff530685e46a fast version of image copy
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 853
diff changeset
615 /**
859
610a9a1ed855 ImageProcessing::Convert
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 858
diff changeset
616 * Slow version : loop over the DICOM buffer, storing its value
610a9a1ed855 ImageProcessing::Convert
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 858
diff changeset
617 * into the target image.
847
03ea55da7429 fully functional JPEG-LS conversion
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 846
diff changeset
618 **/
03ea55da7429 fully functional JPEG-LS conversion
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 846
diff changeset
619
854
ff530685e46a fast version of image copy
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 853
diff changeset
620 if (!fastVersionSuccess)
847
03ea55da7429 fully functional JPEG-LS conversion
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 846
diff changeset
621 {
1826
ac5b0b4e2434 refactoring of DicomImageDecoder
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1824
diff changeset
622 switch (target->GetFormat())
854
ff530685e46a fast version of image copy
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 853
diff changeset
623 {
ff530685e46a fast version of image copy
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 853
diff changeset
624 case PixelFormat_RGB24:
ff530685e46a fast version of image copy
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 853
diff changeset
625 case PixelFormat_RGBA32:
ff530685e46a fast version of image copy
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 853
diff changeset
626 case PixelFormat_Grayscale8:
1826
ac5b0b4e2434 refactoring of DicomImageDecoder
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1824
diff changeset
627 CopyPixels<uint8_t>(*target, source.GetAccessor());
863
3c0d0836f704 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 861
diff changeset
628 break;
860
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 859
diff changeset
629
854
ff530685e46a fast version of image copy
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 853
diff changeset
630 case PixelFormat_Grayscale16:
1826
ac5b0b4e2434 refactoring of DicomImageDecoder
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1824
diff changeset
631 CopyPixels<uint16_t>(*target, source.GetAccessor());
863
3c0d0836f704 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 861
diff changeset
632 break;
847
03ea55da7429 fully functional JPEG-LS conversion
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 846
diff changeset
633
854
ff530685e46a fast version of image copy
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 853
diff changeset
634 case PixelFormat_SignedGrayscale16:
1826
ac5b0b4e2434 refactoring of DicomImageDecoder
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1824
diff changeset
635 CopyPixels<int16_t>(*target, source.GetAccessor());
863
3c0d0836f704 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 861
diff changeset
636 break;
847
03ea55da7429 fully functional JPEG-LS conversion
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 846
diff changeset
637
854
ff530685e46a fast version of image copy
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 853
diff changeset
638 default:
863
3c0d0836f704 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 861
diff changeset
639 throw OrthancException(ErrorCode_InternalError);
854
ff530685e46a fast version of image copy
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 853
diff changeset
640 }
847
03ea55da7429 fully functional JPEG-LS conversion
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 846
diff changeset
641 }
1826
ac5b0b4e2434 refactoring of DicomImageDecoder
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1824
diff changeset
642
ac5b0b4e2434 refactoring of DicomImageDecoder
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1824
diff changeset
643 return target.release();
847
03ea55da7429 fully functional JPEG-LS conversion
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 846
diff changeset
644 }
03ea55da7429 fully functional JPEG-LS conversion
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 846
diff changeset
645
03ea55da7429 fully functional JPEG-LS conversion
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 846
diff changeset
646
5129
16138d6d568d fix decoding of RLE images for which the "Planar Configuration" tag (0028,0006) equals 1
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4975
diff changeset
647 static ImageAccessor* DecodePlanarConfiguration(const ImageAccessor& source)
16138d6d568d fix decoding of RLE images for which the "Planar Configuration" tag (0028,0006) equals 1
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4975
diff changeset
648 {
16138d6d568d fix decoding of RLE images for which the "Planar Configuration" tag (0028,0006) equals 1
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4975
diff changeset
649 /**
16138d6d568d fix decoding of RLE images for which the "Planar Configuration" tag (0028,0006) equals 1
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4975
diff changeset
650 * This function will interleave the RGB channels, if the source
16138d6d568d fix decoding of RLE images for which the "Planar Configuration" tag (0028,0006) equals 1
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4975
diff changeset
651 * DICOM image has the "Planar Configuration" (0028,0006) tag that
16138d6d568d fix decoding of RLE images for which the "Planar Configuration" tag (0028,0006) equals 1
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4975
diff changeset
652 * equals 1. This process was not applied to images using the RLE
16138d6d568d fix decoding of RLE images for which the "Planar Configuration" tag (0028,0006) equals 1
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4975
diff changeset
653 * codec, which led to the following issue:
16138d6d568d fix decoding of RLE images for which the "Planar Configuration" tag (0028,0006) equals 1
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4975
diff changeset
654 * https://groups.google.com/g/orthanc-users/c/CSVWfRasSR0/m/y1XDRXVnAgAJ
16138d6d568d fix decoding of RLE images for which the "Planar Configuration" tag (0028,0006) equals 1
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4975
diff changeset
655 **/
16138d6d568d fix decoding of RLE images for which the "Planar Configuration" tag (0028,0006) equals 1
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4975
diff changeset
656
16138d6d568d fix decoding of RLE images for which the "Planar Configuration" tag (0028,0006) equals 1
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4975
diff changeset
657 const unsigned int height = source.GetHeight();
16138d6d568d fix decoding of RLE images for which the "Planar Configuration" tag (0028,0006) equals 1
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4975
diff changeset
658 const unsigned int width = source.GetWidth();
16138d6d568d fix decoding of RLE images for which the "Planar Configuration" tag (0028,0006) equals 1
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4975
diff changeset
659 const size_t size = static_cast<size_t>(height) * static_cast<size_t>(width);
16138d6d568d fix decoding of RLE images for which the "Planar Configuration" tag (0028,0006) equals 1
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4975
diff changeset
660
16138d6d568d fix decoding of RLE images for which the "Planar Configuration" tag (0028,0006) equals 1
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4975
diff changeset
661 if (source.GetFormat() != PixelFormat_RGB24 ||
16138d6d568d fix decoding of RLE images for which the "Planar Configuration" tag (0028,0006) equals 1
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4975
diff changeset
662 3 * width != source.GetPitch())
16138d6d568d fix decoding of RLE images for which the "Planar Configuration" tag (0028,0006) equals 1
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4975
diff changeset
663 {
16138d6d568d fix decoding of RLE images for which the "Planar Configuration" tag (0028,0006) equals 1
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4975
diff changeset
664 throw OrthancException(ErrorCode_NotImplemented);
16138d6d568d fix decoding of RLE images for which the "Planar Configuration" tag (0028,0006) equals 1
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4975
diff changeset
665 }
16138d6d568d fix decoding of RLE images for which the "Planar Configuration" tag (0028,0006) equals 1
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4975
diff changeset
666
16138d6d568d fix decoding of RLE images for which the "Planar Configuration" tag (0028,0006) equals 1
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4975
diff changeset
667 std::unique_ptr<ImageAccessor> target(new Image(PixelFormat_RGB24, width, height, false));
16138d6d568d fix decoding of RLE images for which the "Planar Configuration" tag (0028,0006) equals 1
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4975
diff changeset
668
16138d6d568d fix decoding of RLE images for which the "Planar Configuration" tag (0028,0006) equals 1
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4975
diff changeset
669 const uint8_t* red = reinterpret_cast<const uint8_t*>(source.GetConstBuffer());
16138d6d568d fix decoding of RLE images for which the "Planar Configuration" tag (0028,0006) equals 1
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4975
diff changeset
670 const uint8_t* green = red + size;
16138d6d568d fix decoding of RLE images for which the "Planar Configuration" tag (0028,0006) equals 1
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4975
diff changeset
671 const uint8_t* blue = red + 2 * size;
16138d6d568d fix decoding of RLE images for which the "Planar Configuration" tag (0028,0006) equals 1
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4975
diff changeset
672
16138d6d568d fix decoding of RLE images for which the "Planar Configuration" tag (0028,0006) equals 1
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4975
diff changeset
673 for (unsigned int y = 0; y < height; y++)
16138d6d568d fix decoding of RLE images for which the "Planar Configuration" tag (0028,0006) equals 1
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4975
diff changeset
674 {
16138d6d568d fix decoding of RLE images for which the "Planar Configuration" tag (0028,0006) equals 1
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4975
diff changeset
675 uint8_t* interleaved = reinterpret_cast<uint8_t*>(target->GetRow(y));
16138d6d568d fix decoding of RLE images for which the "Planar Configuration" tag (0028,0006) equals 1
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4975
diff changeset
676 for (unsigned int x = 0; x < width; x++)
16138d6d568d fix decoding of RLE images for which the "Planar Configuration" tag (0028,0006) equals 1
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4975
diff changeset
677 {
16138d6d568d fix decoding of RLE images for which the "Planar Configuration" tag (0028,0006) equals 1
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4975
diff changeset
678 interleaved[0] = *red;
16138d6d568d fix decoding of RLE images for which the "Planar Configuration" tag (0028,0006) equals 1
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4975
diff changeset
679 interleaved[1] = *green;
16138d6d568d fix decoding of RLE images for which the "Planar Configuration" tag (0028,0006) equals 1
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4975
diff changeset
680 interleaved[2] = *blue;
16138d6d568d fix decoding of RLE images for which the "Planar Configuration" tag (0028,0006) equals 1
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4975
diff changeset
681 interleaved += 3;
16138d6d568d fix decoding of RLE images for which the "Planar Configuration" tag (0028,0006) equals 1
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4975
diff changeset
682 red++;
16138d6d568d fix decoding of RLE images for which the "Planar Configuration" tag (0028,0006) equals 1
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4975
diff changeset
683 green++;
16138d6d568d fix decoding of RLE images for which the "Planar Configuration" tag (0028,0006) equals 1
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4975
diff changeset
684 blue++;
16138d6d568d fix decoding of RLE images for which the "Planar Configuration" tag (0028,0006) equals 1
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4975
diff changeset
685 }
16138d6d568d fix decoding of RLE images for which the "Planar Configuration" tag (0028,0006) equals 1
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4975
diff changeset
686 }
16138d6d568d fix decoding of RLE images for which the "Planar Configuration" tag (0028,0006) equals 1
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4975
diff changeset
687
16138d6d568d fix decoding of RLE images for which the "Planar Configuration" tag (0028,0006) equals 1
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4975
diff changeset
688 return target.release();
16138d6d568d fix decoding of RLE images for which the "Planar Configuration" tag (0028,0006) equals 1
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4975
diff changeset
689 }
16138d6d568d fix decoding of RLE images for which the "Planar Configuration" tag (0028,0006) equals 1
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4975
diff changeset
690
16138d6d568d fix decoding of RLE images for which the "Planar Configuration" tag (0028,0006) equals 1
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4975
diff changeset
691
2423
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
692 ImageAccessor* DicomImageDecoder::ApplyCodec
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
693 (const DcmCodec& codec,
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
694 const DcmCodecParameter& parameters,
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
695 const DcmRepresentationParameter& representationParameter,
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
696 DcmDataset& dataset,
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
697 unsigned int frame)
1903
554ec8422ec5 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1902
diff changeset
698 {
1924
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1905
diff changeset
699 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: 1905
diff changeset
700 if (pixelSequence == NULL)
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1905
diff changeset
701 {
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1905
diff changeset
702 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: 1905
diff changeset
703 }
6c73df12ca51 New URI: "/instances/.../frames/.../raw" to access the raw frames (bypass image decoding)
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1905
diff changeset
704
2423
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
705 DicomMap m;
4137
6774605d4341 keep only one signature for FromDcmtkBridge::ExtractDicomSummary()
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4136
diff changeset
706 std::set<DicomTag> ignoreTagLength;
4312
6d49e3b6ff77 fix abi of DicomImageInformation
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4311
diff changeset
707 FromDcmtkBridge::ExtractDicomSummary(m, dataset, DicomImageInformation::GetUsefulTagLength(), ignoreTagLength);
2423
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
708 DicomImageInformation info(m);
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
709
3712
2a170a8f1faf replacing std::auto_ptr by std::unique_ptr
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 3640
diff changeset
710 std::unique_ptr<ImageAccessor> target(CreateImage(dataset, true));
845
48016722c770 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
711
48016722c770 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
712 Uint32 startFragment = 0; // Default
48016722c770 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
713 OFString decompressedColorModel; // Out
2423
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
714
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
715 OFCondition c;
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
716
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
717 if (info.GetPhotometricInterpretation() == PhotometricInterpretation_Palette &&
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
718 info.GetChannelCount() == 1)
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
719 {
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
720 std::string uncompressed;
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
721 uncompressed.resize(info.GetWidth() * info.GetHeight() * info.GetBytesPerValue());
845
48016722c770 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
722
2423
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
723 if (uncompressed.size() == 0 ||
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
724 !codec.decodeFrame(&representationParameter,
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
725 pixelSequence, &parameters,
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
726 &dataset, frame, startFragment, &uncompressed[0],
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
727 uncompressed.size(), decompressedColorModel).good())
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
728 {
2954
d924f9bb61cc taking advantage of details in OrthancException
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2699
diff changeset
729 throw OrthancException(ErrorCode_BadFileFormat,
d924f9bb61cc taking advantage of details in OrthancException
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2699
diff changeset
730 "Cannot decode a palette image");
2423
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
731 }
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
732
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
733 return DecodeLookupTable(target, info, dataset,
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
734 reinterpret_cast<const uint8_t*>(uncompressed.c_str()),
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
735 uncompressed.size());
845
48016722c770 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
736 }
1903
554ec8422ec5 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1902
diff changeset
737 else
554ec8422ec5 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1902
diff changeset
738 {
2423
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
739 if (!codec.decodeFrame(&representationParameter,
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
740 pixelSequence, &parameters,
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
741 &dataset, frame, startFragment, target->GetBuffer(),
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
742 target->GetSize(), decompressedColorModel).good())
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
743 {
2954
d924f9bb61cc taking advantage of details in OrthancException
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2699
diff changeset
744 throw OrthancException(ErrorCode_BadFileFormat,
d924f9bb61cc taking advantage of details in OrthancException
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2699
diff changeset
745 "Cannot decode a non-palette image");
2423
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
746 }
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
747
5129
16138d6d568d fix decoding of RLE images for which the "Planar Configuration" tag (0028,0006) equals 1
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4975
diff changeset
748 if (target->GetFormat() == PixelFormat_RGB24 &&
16138d6d568d fix decoding of RLE images for which the "Planar Configuration" tag (0028,0006) equals 1
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4975
diff changeset
749 Orthanc::Toolbox::StripSpaces(decompressedColorModel.c_str()) == "RGB" &&
16138d6d568d fix decoding of RLE images for which the "Planar Configuration" tag (0028,0006) equals 1
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4975
diff changeset
750 info.IsPlanar())
16138d6d568d fix decoding of RLE images for which the "Planar Configuration" tag (0028,0006) equals 1
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4975
diff changeset
751 {
16138d6d568d fix decoding of RLE images for which the "Planar Configuration" tag (0028,0006) equals 1
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4975
diff changeset
752 return DecodePlanarConfiguration(*target);
16138d6d568d fix decoding of RLE images for which the "Planar Configuration" tag (0028,0006) equals 1
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4975
diff changeset
753 }
16138d6d568d fix decoding of RLE images for which the "Planar Configuration" tag (0028,0006) equals 1
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4975
diff changeset
754 else
16138d6d568d fix decoding of RLE images for which the "Planar Configuration" tag (0028,0006) equals 1
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4975
diff changeset
755 {
16138d6d568d fix decoding of RLE images for which the "Planar Configuration" tag (0028,0006) equals 1
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4975
diff changeset
756 return target.release();
16138d6d568d fix decoding of RLE images for which the "Planar Configuration" tag (0028,0006) equals 1
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4975
diff changeset
757 }
1903
554ec8422ec5 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1902
diff changeset
758 }
845
48016722c770 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
759 }
847
03ea55da7429 fully functional JPEG-LS conversion
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 846
diff changeset
760
859
610a9a1ed855 ImageProcessing::Convert
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 858
diff changeset
761
4529
5774fe497ff2 fix decoding of images on big-endian architectures
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4437
diff changeset
762 static void UndoBigEndianSwapping(ImageAccessor& decoded)
5774fe497ff2 fix decoding of images on big-endian architectures
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4437
diff changeset
763 {
5774fe497ff2 fix decoding of images on big-endian architectures
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4437
diff changeset
764 if (ENDIANNESS == Endianness_Big &&
5774fe497ff2 fix decoding of images on big-endian architectures
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4437
diff changeset
765 decoded.GetFormat() == PixelFormat_Grayscale8)
5774fe497ff2 fix decoding of images on big-endian architectures
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4437
diff changeset
766 {
5774fe497ff2 fix decoding of images on big-endian architectures
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4437
diff changeset
767 /**
5774fe497ff2 fix decoding of images on big-endian architectures
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4437
diff changeset
768 * Undo the call to "swapIfNecessary()" that is done in
5774fe497ff2 fix decoding of images on big-endian architectures
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4437
diff changeset
769 * "dcmjpeg/libsrc/djcodecd.cc" and "dcmjpls/libsrc/djcodecd.cc"
5774fe497ff2 fix decoding of images on big-endian architectures
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4437
diff changeset
770 * if "jpeg->bytesPerSample() == 1", presumably because DCMTK
5774fe497ff2 fix decoding of images on big-endian architectures
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4437
diff changeset
771 * plans for DICOM-to-DICOM conversion
5774fe497ff2 fix decoding of images on big-endian architectures
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4437
diff changeset
772 **/
5774fe497ff2 fix decoding of images on big-endian architectures
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4437
diff changeset
773 if (decoded.GetPitch() % 2 == 0)
5774fe497ff2 fix decoding of images on big-endian architectures
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4437
diff changeset
774 {
5774fe497ff2 fix decoding of images on big-endian architectures
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4437
diff changeset
775 swapBytes(decoded.GetBuffer(), decoded.GetPitch() * decoded.GetHeight(), sizeof(uint16_t));
5774fe497ff2 fix decoding of images on big-endian architectures
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4437
diff changeset
776 }
5774fe497ff2 fix decoding of images on big-endian architectures
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4437
diff changeset
777 else
5774fe497ff2 fix decoding of images on big-endian architectures
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4437
diff changeset
778 {
5774fe497ff2 fix decoding of images on big-endian architectures
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4437
diff changeset
779 throw OrthancException(ErrorCode_InternalError, "Cannot swap the bytes of an image that has an odd width");
5774fe497ff2 fix decoding of images on big-endian architectures
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4437
diff changeset
780 }
5774fe497ff2 fix decoding of images on big-endian architectures
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4437
diff changeset
781 }
5774fe497ff2 fix decoding of images on big-endian architectures
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4437
diff changeset
782 }
5774fe497ff2 fix decoding of images on big-endian architectures
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4437
diff changeset
783
5774fe497ff2 fix decoding of images on big-endian architectures
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4437
diff changeset
784
3744
accf1b60b108 accessing raw pixel data
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 3712
diff changeset
785 ImageAccessor* DicomImageDecoder::Decode(DcmDataset& dataset,
accf1b60b108 accessing raw pixel data
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 3712
diff changeset
786 unsigned int frame)
accf1b60b108 accessing raw pixel data
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 3712
diff changeset
787 {
3883
795c9ca5eb91 DANGEROUS changeset: replaced "getOriginalXfer()" by "getCurrentXfer()" throughout Orthanc
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 3744
diff changeset
788 E_TransferSyntax syntax = dataset.getCurrentXfer();
1824
b530c3dfe2a6 refactoring image decoding
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1612
diff changeset
789
1903
554ec8422ec5 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1902
diff changeset
790 /**
554ec8422ec5 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1902
diff changeset
791 * Deal with uncompressed, raw images.
554ec8422ec5 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1902
diff changeset
792 * http://support.dcmtk.org/docs/dcxfer_8h-source.html
554ec8422ec5 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1902
diff changeset
793 **/
1904
4be8accf8768 clarifications
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1903
diff changeset
794 if (syntax == EXS_Unknown ||
4be8accf8768 clarifications
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1903
diff changeset
795 syntax == EXS_LittleEndianImplicit ||
4be8accf8768 clarifications
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1903
diff changeset
796 syntax == EXS_BigEndianImplicit ||
4be8accf8768 clarifications
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1903
diff changeset
797 syntax == EXS_LittleEndianExplicit ||
4be8accf8768 clarifications
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1903
diff changeset
798 syntax == EXS_BigEndianExplicit)
847
03ea55da7429 fully functional JPEG-LS conversion
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 846
diff changeset
799 {
1826
ac5b0b4e2434 refactoring of DicomImageDecoder
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1824
diff changeset
800 return DecodeUncompressedImage(dataset, frame);
847
03ea55da7429 fully functional JPEG-LS conversion
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 846
diff changeset
801 }
03ea55da7429 fully functional JPEG-LS conversion
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 846
diff changeset
802
1904
4be8accf8768 clarifications
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1903
diff changeset
803
2380
96b3ec054b69 reorganization in macros
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2281
diff changeset
804 #if ORTHANC_ENABLE_DCMTK_JPEG_LOSSLESS == 1
1904
4be8accf8768 clarifications
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1903
diff changeset
805 /**
4be8accf8768 clarifications
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1903
diff changeset
806 * Deal with JPEG-LS images.
4be8accf8768 clarifications
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1903
diff changeset
807 **/
4be8accf8768 clarifications
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1903
diff changeset
808
4be8accf8768 clarifications
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1903
diff changeset
809 if (syntax == EXS_JPEGLSLossless ||
4be8accf8768 clarifications
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1903
diff changeset
810 syntax == EXS_JPEGLSLossy)
847
03ea55da7429 fully functional JPEG-LS conversion
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 846
diff changeset
811 {
2430
a6fab385b89e fix for dcmtk 3.6.0
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2423
diff changeset
812 // The (2, OFTrue) are the default parameters as found in DCMTK 3.6.2
a6fab385b89e fix for dcmtk 3.6.0
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2423
diff changeset
813 // http://support.dcmtk.org/docs/classDJLSRepresentationParameter.html
a6fab385b89e fix for dcmtk 3.6.0
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2423
diff changeset
814 DJLSRepresentationParameter representationParameter(2, OFTrue);
a6fab385b89e fix for dcmtk 3.6.0
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2423
diff changeset
815
1904
4be8accf8768 clarifications
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1903
diff changeset
816 DJLSCodecParameter parameters;
3712
2a170a8f1faf replacing std::auto_ptr by std::unique_ptr
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 3640
diff changeset
817 std::unique_ptr<DJLSDecoderBase> decoder;
1903
554ec8422ec5 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1902
diff changeset
818
1904
4be8accf8768 clarifications
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1903
diff changeset
819 switch (syntax)
4be8accf8768 clarifications
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1903
diff changeset
820 {
4be8accf8768 clarifications
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1903
diff changeset
821 case EXS_JPEGLSLossless:
1905
8b1baa2315b8 Huge speedup if decoding the family of JPEG transfer syntaxes
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1904
diff changeset
822 LOG(INFO) << "Decoding a JPEG-LS lossless DICOM image";
1904
4be8accf8768 clarifications
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1903
diff changeset
823 decoder.reset(new DJLSLosslessDecoder);
4be8accf8768 clarifications
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1903
diff changeset
824 break;
4be8accf8768 clarifications
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1903
diff changeset
825
4be8accf8768 clarifications
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1903
diff changeset
826 case EXS_JPEGLSLossy:
1905
8b1baa2315b8 Huge speedup if decoding the family of JPEG transfer syntaxes
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1904
diff changeset
827 LOG(INFO) << "Decoding a JPEG-LS near-lossless DICOM image";
1904
4be8accf8768 clarifications
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1903
diff changeset
828 decoder.reset(new DJLSNearLosslessDecoder);
4be8accf8768 clarifications
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1903
diff changeset
829 break;
1903
554ec8422ec5 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1902
diff changeset
830
1904
4be8accf8768 clarifications
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1903
diff changeset
831 default:
4be8accf8768 clarifications
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1903
diff changeset
832 throw OrthancException(ErrorCode_InternalError);
4be8accf8768 clarifications
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1903
diff changeset
833 }
4be8accf8768 clarifications
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1903
diff changeset
834
4529
5774fe497ff2 fix decoding of images on big-endian architectures
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4437
diff changeset
835 std::unique_ptr<ImageAccessor> result(ApplyCodec(*decoder, parameters, representationParameter, dataset, frame));
5774fe497ff2 fix decoding of images on big-endian architectures
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4437
diff changeset
836 UndoBigEndianSwapping(*result); // New in Orthanc 1.9.1 to decode on big-endian architectures
5774fe497ff2 fix decoding of images on big-endian architectures
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4437
diff changeset
837 return result.release();
847
03ea55da7429 fully functional JPEG-LS conversion
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 846
diff changeset
838 }
03ea55da7429 fully functional JPEG-LS conversion
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 846
diff changeset
839 #endif
03ea55da7429 fully functional JPEG-LS conversion
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 846
diff changeset
840
852
5944b8b80842 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 851
diff changeset
841
2380
96b3ec054b69 reorganization in macros
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2281
diff changeset
842 #if ORTHANC_ENABLE_DCMTK_JPEG == 1
1905
8b1baa2315b8 Huge speedup if decoding the family of JPEG transfer syntaxes
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1904
diff changeset
843 /**
8b1baa2315b8 Huge speedup if decoding the family of JPEG transfer syntaxes
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1904
diff changeset
844 * Deal with JPEG images.
8b1baa2315b8 Huge speedup if decoding the family of JPEG transfer syntaxes
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1904
diff changeset
845 **/
8b1baa2315b8 Huge speedup if decoding the family of JPEG transfer syntaxes
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1904
diff changeset
846
1944
1a5e070a21c3 fix compilation against DCMTK 3.6.1
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1929
diff changeset
847 if (syntax == EXS_JPEGProcess1 || // DJDecoderBaseline
1a5e070a21c3 fix compilation against DCMTK 3.6.1
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1929
diff changeset
848 syntax == EXS_JPEGProcess2_4 || // DJDecoderExtended
1a5e070a21c3 fix compilation against DCMTK 3.6.1
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1929
diff changeset
849 syntax == EXS_JPEGProcess6_8 || // DJDecoderSpectralSelection (retired)
1a5e070a21c3 fix compilation against DCMTK 3.6.1
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1929
diff changeset
850 syntax == EXS_JPEGProcess10_12 || // DJDecoderProgressive (retired)
1a5e070a21c3 fix compilation against DCMTK 3.6.1
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1929
diff changeset
851 syntax == EXS_JPEGProcess14 || // DJDecoderLossless
1a5e070a21c3 fix compilation against DCMTK 3.6.1
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1929
diff changeset
852 syntax == EXS_JPEGProcess14SV1) // DJDecoderP14SV1
1905
8b1baa2315b8 Huge speedup if decoding the family of JPEG transfer syntaxes
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1904
diff changeset
853 {
8b1baa2315b8 Huge speedup if decoding the family of JPEG transfer syntaxes
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1904
diff changeset
854 // http://support.dcmtk.org/docs-snapshot/djutils_8h.html#a2a9695e5b6b0f5c45a64c7f072c1eb9d
8b1baa2315b8 Huge speedup if decoding the family of JPEG transfer syntaxes
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1904
diff changeset
855 DJCodecParameter parameters(
8b1baa2315b8 Huge speedup if decoding the family of JPEG transfer syntaxes
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1904
diff changeset
856 ECC_lossyYCbCr, // Mode for color conversion for compression, Unused for decompression
8b1baa2315b8 Huge speedup if decoding the family of JPEG transfer syntaxes
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1904
diff changeset
857 EDC_photometricInterpretation, // Perform color space conversion from YCbCr to RGB if DICOM photometric interpretation indicates YCbCr
8b1baa2315b8 Huge speedup if decoding the family of JPEG transfer syntaxes
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1904
diff changeset
858 EUC_default, // Mode for UID creation, unused for decompression
8b1baa2315b8 Huge speedup if decoding the family of JPEG transfer syntaxes
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1904
diff changeset
859 EPC_default); // Automatically determine whether color-by-plane is required from the SOP Class UID and decompressed photometric interpretation
2423
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
860 DJ_RPLossy representationParameter;
3712
2a170a8f1faf replacing std::auto_ptr by std::unique_ptr
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 3640
diff changeset
861 std::unique_ptr<DJCodecDecoder> decoder;
1905
8b1baa2315b8 Huge speedup if decoding the family of JPEG transfer syntaxes
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1904
diff changeset
862
8b1baa2315b8 Huge speedup if decoding the family of JPEG transfer syntaxes
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1904
diff changeset
863 switch (syntax)
8b1baa2315b8 Huge speedup if decoding the family of JPEG transfer syntaxes
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1904
diff changeset
864 {
1944
1a5e070a21c3 fix compilation against DCMTK 3.6.1
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1929
diff changeset
865 case EXS_JPEGProcess1:
1905
8b1baa2315b8 Huge speedup if decoding the family of JPEG transfer syntaxes
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1904
diff changeset
866 LOG(INFO) << "Decoding a JPEG baseline (process 1) DICOM image";
8b1baa2315b8 Huge speedup if decoding the family of JPEG transfer syntaxes
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1904
diff changeset
867 decoder.reset(new DJDecoderBaseline);
8b1baa2315b8 Huge speedup if decoding the family of JPEG transfer syntaxes
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1904
diff changeset
868 break;
8b1baa2315b8 Huge speedup if decoding the family of JPEG transfer syntaxes
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1904
diff changeset
869
1944
1a5e070a21c3 fix compilation against DCMTK 3.6.1
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1929
diff changeset
870 case EXS_JPEGProcess2_4 :
1905
8b1baa2315b8 Huge speedup if decoding the family of JPEG transfer syntaxes
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1904
diff changeset
871 LOG(INFO) << "Decoding a JPEG baseline (processes 2 and 4) DICOM image";
8b1baa2315b8 Huge speedup if decoding the family of JPEG transfer syntaxes
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1904
diff changeset
872 decoder.reset(new DJDecoderExtended);
8b1baa2315b8 Huge speedup if decoding the family of JPEG transfer syntaxes
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1904
diff changeset
873 break;
8b1baa2315b8 Huge speedup if decoding the family of JPEG transfer syntaxes
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1904
diff changeset
874
1944
1a5e070a21c3 fix compilation against DCMTK 3.6.1
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1929
diff changeset
875 case EXS_JPEGProcess6_8: // Retired
1905
8b1baa2315b8 Huge speedup if decoding the family of JPEG transfer syntaxes
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1904
diff changeset
876 LOG(INFO) << "Decoding a JPEG spectral section, nonhierarchical (processes 6 and 8) DICOM image";
8b1baa2315b8 Huge speedup if decoding the family of JPEG transfer syntaxes
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1904
diff changeset
877 decoder.reset(new DJDecoderSpectralSelection);
8b1baa2315b8 Huge speedup if decoding the family of JPEG transfer syntaxes
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1904
diff changeset
878 break;
8b1baa2315b8 Huge speedup if decoding the family of JPEG transfer syntaxes
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1904
diff changeset
879
1944
1a5e070a21c3 fix compilation against DCMTK 3.6.1
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1929
diff changeset
880 case EXS_JPEGProcess10_12: // Retired
1905
8b1baa2315b8 Huge speedup if decoding the family of JPEG transfer syntaxes
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1904
diff changeset
881 LOG(INFO) << "Decoding a JPEG full progression, nonhierarchical (processes 10 and 12) DICOM image";
8b1baa2315b8 Huge speedup if decoding the family of JPEG transfer syntaxes
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1904
diff changeset
882 decoder.reset(new DJDecoderProgressive);
8b1baa2315b8 Huge speedup if decoding the family of JPEG transfer syntaxes
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1904
diff changeset
883 break;
8b1baa2315b8 Huge speedup if decoding the family of JPEG transfer syntaxes
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1904
diff changeset
884
1944
1a5e070a21c3 fix compilation against DCMTK 3.6.1
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1929
diff changeset
885 case EXS_JPEGProcess14:
1905
8b1baa2315b8 Huge speedup if decoding the family of JPEG transfer syntaxes
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1904
diff changeset
886 LOG(INFO) << "Decoding a JPEG lossless, nonhierarchical (process 14) DICOM image";
8b1baa2315b8 Huge speedup if decoding the family of JPEG transfer syntaxes
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1904
diff changeset
887 decoder.reset(new DJDecoderLossless);
8b1baa2315b8 Huge speedup if decoding the family of JPEG transfer syntaxes
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1904
diff changeset
888 break;
8b1baa2315b8 Huge speedup if decoding the family of JPEG transfer syntaxes
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1904
diff changeset
889
1944
1a5e070a21c3 fix compilation against DCMTK 3.6.1
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1929
diff changeset
890 case EXS_JPEGProcess14SV1:
1905
8b1baa2315b8 Huge speedup if decoding the family of JPEG transfer syntaxes
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1904
diff changeset
891 LOG(INFO) << "Decoding a JPEG lossless, nonhierarchical, first-order prediction (process 14 selection value 1) DICOM image";
8b1baa2315b8 Huge speedup if decoding the family of JPEG transfer syntaxes
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1904
diff changeset
892 decoder.reset(new DJDecoderP14SV1);
8b1baa2315b8 Huge speedup if decoding the family of JPEG transfer syntaxes
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1904
diff changeset
893 break;
8b1baa2315b8 Huge speedup if decoding the family of JPEG transfer syntaxes
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1904
diff changeset
894
8b1baa2315b8 Huge speedup if decoding the family of JPEG transfer syntaxes
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1904
diff changeset
895 default:
8b1baa2315b8 Huge speedup if decoding the family of JPEG transfer syntaxes
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1904
diff changeset
896 throw OrthancException(ErrorCode_InternalError);
8b1baa2315b8 Huge speedup if decoding the family of JPEG transfer syntaxes
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1904
diff changeset
897 }
4529
5774fe497ff2 fix decoding of images on big-endian architectures
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4437
diff changeset
898
5774fe497ff2 fix decoding of images on big-endian architectures
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4437
diff changeset
899 std::unique_ptr<ImageAccessor> result(ApplyCodec(*decoder, parameters, representationParameter, dataset, frame));
5774fe497ff2 fix decoding of images on big-endian architectures
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4437
diff changeset
900 UndoBigEndianSwapping(*result); // New in Orthanc 1.9.1 to decode on big-endian architectures
5774fe497ff2 fix decoding of images on big-endian architectures
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4437
diff changeset
901 return result.release();
1905
8b1baa2315b8 Huge speedup if decoding the family of JPEG transfer syntaxes
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1904
diff changeset
902 }
852
5944b8b80842 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 851
diff changeset
903 #endif
5944b8b80842 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 851
diff changeset
904
1904
4be8accf8768 clarifications
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1903
diff changeset
905
1905
8b1baa2315b8 Huge speedup if decoding the family of JPEG transfer syntaxes
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1904
diff changeset
906 if (syntax == EXS_RLELossless)
8b1baa2315b8 Huge speedup if decoding the family of JPEG transfer syntaxes
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1904
diff changeset
907 {
8b1baa2315b8 Huge speedup if decoding the family of JPEG transfer syntaxes
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1904
diff changeset
908 LOG(INFO) << "Decoding a RLE lossless DICOM image";
8b1baa2315b8 Huge speedup if decoding the family of JPEG transfer syntaxes
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1904
diff changeset
909 DcmRLECodecParameter parameters;
8b1baa2315b8 Huge speedup if decoding the family of JPEG transfer syntaxes
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1904
diff changeset
910 DcmRLECodecDecoder decoder;
2423
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
911 DcmRLERepresentationParameter representationParameter;
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
912 return ApplyCodec(decoder, parameters, representationParameter, dataset, frame);
1905
8b1baa2315b8 Huge speedup if decoding the family of JPEG transfer syntaxes
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1904
diff changeset
913 }
1904
4be8accf8768 clarifications
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1903
diff changeset
914
4be8accf8768 clarifications
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1903
diff changeset
915
847
03ea55da7429 fully functional JPEG-LS conversion
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 846
diff changeset
916 /**
03ea55da7429 fully functional JPEG-LS conversion
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 846
diff changeset
917 * This DICOM image format is not natively supported by
1905
8b1baa2315b8 Huge speedup if decoding the family of JPEG transfer syntaxes
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1904
diff changeset
918 * Orthanc. As a last resort, try and decode it through DCMTK by
8b1baa2315b8 Huge speedup if decoding the family of JPEG transfer syntaxes
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1904
diff changeset
919 * converting its transfer syntax to Little Endian. This will
8b1baa2315b8 Huge speedup if decoding the family of JPEG transfer syntaxes
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1904
diff changeset
920 * result in higher memory consumption. This is actually the
8b1baa2315b8 Huge speedup if decoding the family of JPEG transfer syntaxes
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1904
diff changeset
921 * second example of the following page:
847
03ea55da7429 fully functional JPEG-LS conversion
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 846
diff changeset
922 * http://support.dcmtk.org/docs/mod_dcmjpeg.html#Examples
03ea55da7429 fully functional JPEG-LS conversion
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 846
diff changeset
923 **/
03ea55da7429 fully functional JPEG-LS conversion
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 846
diff changeset
924
03ea55da7429 fully functional JPEG-LS conversion
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 846
diff changeset
925 {
3932
bf46e10de8ae clarifying debug message
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 3883
diff changeset
926 LOG(INFO) << "Trying to decode a compressed image by transcoding it to Little Endian Explicit";
847
03ea55da7429 fully functional JPEG-LS conversion
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 846
diff changeset
927
3712
2a170a8f1faf replacing std::auto_ptr by std::unique_ptr
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 3640
diff changeset
928 std::unique_ptr<DcmDataset> converted(dynamic_cast<DcmDataset*>(dataset.clone()));
847
03ea55da7429 fully functional JPEG-LS conversion
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 846
diff changeset
929 converted->chooseRepresentation(EXS_LittleEndianExplicit, NULL);
03ea55da7429 fully functional JPEG-LS conversion
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 846
diff changeset
930
03ea55da7429 fully functional JPEG-LS conversion
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 846
diff changeset
931 if (converted->canWriteXfer(EXS_LittleEndianExplicit))
03ea55da7429 fully functional JPEG-LS conversion
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 846
diff changeset
932 {
1903
554ec8422ec5 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1902
diff changeset
933 return DecodeUncompressedImage(*converted, frame);
847
03ea55da7429 fully functional JPEG-LS conversion
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 846
diff changeset
934 }
03ea55da7429 fully functional JPEG-LS conversion
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 846
diff changeset
935 }
03ea55da7429 fully functional JPEG-LS conversion
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 846
diff changeset
936
3932
bf46e10de8ae clarifying debug message
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 3883
diff changeset
937 DicomTransferSyntax s;
bf46e10de8ae clarifying debug message
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 3883
diff changeset
938 if (FromDcmtkBridge::LookupOrthancTransferSyntax(s, dataset.getCurrentXfer()))
bf46e10de8ae clarifying debug message
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 3883
diff changeset
939 {
bf46e10de8ae clarifying debug message
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 3883
diff changeset
940 throw OrthancException(ErrorCode_NotImplemented,
bf46e10de8ae clarifying debug message
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 3883
diff changeset
941 "The built-in DCMTK decoder cannot decode some DICOM instance "
bf46e10de8ae clarifying debug message
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 3883
diff changeset
942 "whose transfer syntax is: " + std::string(GetTransferSyntaxUid(s)));
bf46e10de8ae clarifying debug message
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 3883
diff changeset
943 }
bf46e10de8ae clarifying debug message
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 3883
diff changeset
944 else
bf46e10de8ae clarifying debug message
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 3883
diff changeset
945 {
bf46e10de8ae clarifying debug message
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 3883
diff changeset
946 throw OrthancException(ErrorCode_NotImplemented,
bf46e10de8ae clarifying debug message
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 3883
diff changeset
947 "The built-in DCMTK decoder cannot decode some DICOM instance");
bf46e10de8ae clarifying debug message
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 3883
diff changeset
948 }
847
03ea55da7429 fully functional JPEG-LS conversion
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 846
diff changeset
949 }
859
610a9a1ed855 ImageProcessing::Convert
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 858
diff changeset
950
610a9a1ed855 ImageProcessing::Convert
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 858
diff changeset
951
1015
f009f7c75069 fix integration tests
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 942
diff changeset
952 static bool IsColorImage(PixelFormat format)
f009f7c75069 fix integration tests
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 942
diff changeset
953 {
f009f7c75069 fix integration tests
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 942
diff changeset
954 return (format == PixelFormat_RGB24 ||
f009f7c75069 fix integration tests
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 942
diff changeset
955 format == PixelFormat_RGBA32);
f009f7c75069 fix integration tests
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 942
diff changeset
956 }
f009f7c75069 fix integration tests
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 942
diff changeset
957
f009f7c75069 fix integration tests
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 942
diff changeset
958
3712
2a170a8f1faf replacing std::auto_ptr by std::unique_ptr
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 3640
diff changeset
959 bool DicomImageDecoder::TruncateDecodedImage(std::unique_ptr<ImageAccessor>& image,
1824
b530c3dfe2a6 refactoring image decoding
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1612
diff changeset
960 PixelFormat format,
b530c3dfe2a6 refactoring image decoding
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1612
diff changeset
961 bool allowColorConversion)
859
610a9a1ed855 ImageProcessing::Convert
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 858
diff changeset
962 {
1015
f009f7c75069 fix integration tests
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 942
diff changeset
963 // If specified, prevent the conversion between color and
f009f7c75069 fix integration tests
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 942
diff changeset
964 // grayscale images
1826
ac5b0b4e2434 refactoring of DicomImageDecoder
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1824
diff changeset
965 bool isSourceColor = IsColorImage(image->GetFormat());
1015
f009f7c75069 fix integration tests
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 942
diff changeset
966 bool isTargetColor = IsColorImage(format);
f009f7c75069 fix integration tests
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 942
diff changeset
967
f009f7c75069 fix integration tests
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 942
diff changeset
968 if (!allowColorConversion)
f009f7c75069 fix integration tests
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 942
diff changeset
969 {
f009f7c75069 fix integration tests
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 942
diff changeset
970 if (isSourceColor ^ isTargetColor)
f009f7c75069 fix integration tests
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 942
diff changeset
971 {
f009f7c75069 fix integration tests
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 942
diff changeset
972 return false;
f009f7c75069 fix integration tests
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 942
diff changeset
973 }
f009f7c75069 fix integration tests
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 942
diff changeset
974 }
f009f7c75069 fix integration tests
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 942
diff changeset
975
1826
ac5b0b4e2434 refactoring of DicomImageDecoder
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1824
diff changeset
976 if (image->GetFormat() != format)
863
3c0d0836f704 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 861
diff changeset
977 {
1826
ac5b0b4e2434 refactoring of DicomImageDecoder
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1824
diff changeset
978 // A conversion is required
3712
2a170a8f1faf replacing std::auto_ptr by std::unique_ptr
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 3640
diff changeset
979 std::unique_ptr<ImageAccessor> target
2423
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
980 (new Image(format, image->GetWidth(), image->GetHeight(), false));
1826
ac5b0b4e2434 refactoring of DicomImageDecoder
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1824
diff changeset
981 ImageProcessing::Convert(*target, *image);
3712
2a170a8f1faf replacing std::auto_ptr by std::unique_ptr
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 3640
diff changeset
982
2a170a8f1faf replacing std::auto_ptr by std::unique_ptr
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 3640
diff changeset
983 #if __cplusplus < 201103L
2a170a8f1faf replacing std::auto_ptr by std::unique_ptr
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 3640
diff changeset
984 image.reset(target.release());
2a170a8f1faf replacing std::auto_ptr by std::unique_ptr
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 3640
diff changeset
985 #else
2a170a8f1faf replacing std::auto_ptr by std::unique_ptr
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 3640
diff changeset
986 image = std::move(target);
2a170a8f1faf replacing std::auto_ptr by std::unique_ptr
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 3640
diff changeset
987 #endif
863
3c0d0836f704 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 861
diff changeset
988 }
859
610a9a1ed855 ImageProcessing::Convert
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 858
diff changeset
989
863
3c0d0836f704 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 861
diff changeset
990 return true;
3c0d0836f704 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 861
diff changeset
991 }
3c0d0836f704 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 861
diff changeset
992
3c0d0836f704 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 861
diff changeset
993
3712
2a170a8f1faf replacing std::auto_ptr by std::unique_ptr
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 3640
diff changeset
994 bool DicomImageDecoder::PreviewDecodedImage(std::unique_ptr<ImageAccessor>& image)
863
3c0d0836f704 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 861
diff changeset
995 {
1826
ac5b0b4e2434 refactoring of DicomImageDecoder
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1824
diff changeset
996 switch (image->GetFormat())
861
a546b05a43da fix PngWriter
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 860
diff changeset
997 {
863
3c0d0836f704 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 861
diff changeset
998 case PixelFormat_RGB24:
859
610a9a1ed855 ImageProcessing::Convert
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 858
diff changeset
999 {
1826
ac5b0b4e2434 refactoring of DicomImageDecoder
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1824
diff changeset
1000 // Directly return color images without modification (RGB)
859
610a9a1ed855 ImageProcessing::Convert
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 858
diff changeset
1001 return true;
610a9a1ed855 ImageProcessing::Convert
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 858
diff changeset
1002 }
610a9a1ed855 ImageProcessing::Convert
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 858
diff changeset
1003
2423
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
1004 case PixelFormat_RGB48:
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
1005 {
3712
2a170a8f1faf replacing std::auto_ptr by std::unique_ptr
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 3640
diff changeset
1006 std::unique_ptr<ImageAccessor> target
2423
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
1007 (new Image(PixelFormat_RGB24, image->GetWidth(), image->GetHeight(), false));
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
1008 ImageProcessing::Convert(*target, *image);
3712
2a170a8f1faf replacing std::auto_ptr by std::unique_ptr
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 3640
diff changeset
1009
2a170a8f1faf replacing std::auto_ptr by std::unique_ptr
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 3640
diff changeset
1010 #if __cplusplus < 201103L
2a170a8f1faf replacing std::auto_ptr by std::unique_ptr
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 3640
diff changeset
1011 image.reset(target.release());
2a170a8f1faf replacing std::auto_ptr by std::unique_ptr
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 3640
diff changeset
1012 #else
2a170a8f1faf replacing std::auto_ptr by std::unique_ptr
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 3640
diff changeset
1013 image = std::move(target);
2a170a8f1faf replacing std::auto_ptr by std::unique_ptr
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 3640
diff changeset
1014 #endif
2a170a8f1faf replacing std::auto_ptr by std::unique_ptr
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 3640
diff changeset
1015
2423
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
1016 return true;
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
1017 }
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
1018
863
3c0d0836f704 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 861
diff changeset
1019 case PixelFormat_Grayscale8:
3c0d0836f704 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 861
diff changeset
1020 case PixelFormat_Grayscale16:
3c0d0836f704 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 861
diff changeset
1021 case PixelFormat_SignedGrayscale16:
3c0d0836f704 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 861
diff changeset
1022 {
3c0d0836f704 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 861
diff changeset
1023 // Grayscale image: Stretch its dynamics to the [0,255] range
1826
ac5b0b4e2434 refactoring of DicomImageDecoder
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1824
diff changeset
1024 int64_t a, b;
2415
7e217a1cc63f PixelFormat_Float32
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2382
diff changeset
1025 ImageProcessing::GetMinMaxIntegerValue(a, b, *image);
863
3c0d0836f704 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 861
diff changeset
1026
3c0d0836f704 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 861
diff changeset
1027 if (a == b)
3c0d0836f704 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 861
diff changeset
1028 {
1826
ac5b0b4e2434 refactoring of DicomImageDecoder
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1824
diff changeset
1029 ImageProcessing::Set(*image, 0);
863
3c0d0836f704 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 861
diff changeset
1030 }
3c0d0836f704 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 861
diff changeset
1031 else
3c0d0836f704 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 861
diff changeset
1032 {
2423
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
1033 ImageProcessing::ShiftScale(*image, static_cast<float>(-a),
2488
345725b9350c back to rounding to fix integration tests
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2447
diff changeset
1034 255.0f / static_cast<float>(b - a),
345725b9350c back to rounding to fix integration tests
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2447
diff changeset
1035 true /* TODO - Consider using "false" to speed up */);
1826
ac5b0b4e2434 refactoring of DicomImageDecoder
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1824
diff changeset
1036 }
863
3c0d0836f704 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 861
diff changeset
1037
1826
ac5b0b4e2434 refactoring of DicomImageDecoder
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1824
diff changeset
1038 // If the source image is not grayscale 8bpp, convert it
ac5b0b4e2434 refactoring of DicomImageDecoder
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1824
diff changeset
1039 if (image->GetFormat() != PixelFormat_Grayscale8)
ac5b0b4e2434 refactoring of DicomImageDecoder
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1824
diff changeset
1040 {
3712
2a170a8f1faf replacing std::auto_ptr by std::unique_ptr
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 3640
diff changeset
1041 std::unique_ptr<ImageAccessor> target
2423
5a7c5c541a1d Built-in decoding of palette images
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2415
diff changeset
1042 (new Image(PixelFormat_Grayscale8, image->GetWidth(), image->GetHeight(), false));
1826
ac5b0b4e2434 refactoring of DicomImageDecoder
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1824
diff changeset
1043 ImageProcessing::Convert(*target, *image);
3712
2a170a8f1faf replacing std::auto_ptr by std::unique_ptr
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 3640
diff changeset
1044
2a170a8f1faf replacing std::auto_ptr by std::unique_ptr
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 3640
diff changeset
1045 #if __cplusplus < 201103L
2a170a8f1faf replacing std::auto_ptr by std::unique_ptr
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 3640
diff changeset
1046 image.reset(target.release());
2a170a8f1faf replacing std::auto_ptr by std::unique_ptr
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 3640
diff changeset
1047 #else
2a170a8f1faf replacing std::auto_ptr by std::unique_ptr
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 3640
diff changeset
1048 image = std::move(target);
2a170a8f1faf replacing std::auto_ptr by std::unique_ptr
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 3640
diff changeset
1049 #endif
863
3c0d0836f704 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 861
diff changeset
1050 }
3c0d0836f704 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 861
diff changeset
1051
3c0d0836f704 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 861
diff changeset
1052 return true;
3c0d0836f704 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 861
diff changeset
1053 }
3c0d0836f704 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 861
diff changeset
1054
859
610a9a1ed855 ImageProcessing::Convert
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 858
diff changeset
1055 default:
610a9a1ed855 ImageProcessing::Convert
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 858
diff changeset
1056 throw OrthancException(ErrorCode_NotImplemented);
610a9a1ed855 ImageProcessing::Convert
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 858
diff changeset
1057 }
610a9a1ed855 ImageProcessing::Convert
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 858
diff changeset
1058 }
1902
8b0ee8d5e6d0 Refactoring leading to speedups with custom image decoders
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
1059
8b0ee8d5e6d0 Refactoring leading to speedups with custom image decoders
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
1060
3712
2a170a8f1faf replacing std::auto_ptr by std::unique_ptr
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 3640
diff changeset
1061 void DicomImageDecoder::ApplyExtractionMode(std::unique_ptr<ImageAccessor>& image,
2281
e002430baa41 Fix issue #44 (Bad interpretation of photometric interpretation MONOCHROME1)
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2244
diff changeset
1062 ImageExtractionMode mode,
e002430baa41 Fix issue #44 (Bad interpretation of photometric interpretation MONOCHROME1)
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2244
diff changeset
1063 bool invert)
1902
8b0ee8d5e6d0 Refactoring leading to speedups with custom image decoders
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
1064 {
8b0ee8d5e6d0 Refactoring leading to speedups with custom image decoders
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
1065 if (image.get() == NULL)
8b0ee8d5e6d0 Refactoring leading to speedups with custom image decoders
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
1066 {
8b0ee8d5e6d0 Refactoring leading to speedups with custom image decoders
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
1067 throw OrthancException(ErrorCode_ParameterOutOfRange);
8b0ee8d5e6d0 Refactoring leading to speedups with custom image decoders
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
1068 }
8b0ee8d5e6d0 Refactoring leading to speedups with custom image decoders
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
1069
8b0ee8d5e6d0 Refactoring leading to speedups with custom image decoders
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
1070 bool ok = false;
8b0ee8d5e6d0 Refactoring leading to speedups with custom image decoders
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
1071
8b0ee8d5e6d0 Refactoring leading to speedups with custom image decoders
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
1072 switch (mode)
8b0ee8d5e6d0 Refactoring leading to speedups with custom image decoders
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
1073 {
8b0ee8d5e6d0 Refactoring leading to speedups with custom image decoders
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
1074 case ImageExtractionMode_UInt8:
8b0ee8d5e6d0 Refactoring leading to speedups with custom image decoders
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
1075 ok = TruncateDecodedImage(image, PixelFormat_Grayscale8, false);
8b0ee8d5e6d0 Refactoring leading to speedups with custom image decoders
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
1076 break;
8b0ee8d5e6d0 Refactoring leading to speedups with custom image decoders
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
1077
8b0ee8d5e6d0 Refactoring leading to speedups with custom image decoders
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
1078 case ImageExtractionMode_UInt16:
8b0ee8d5e6d0 Refactoring leading to speedups with custom image decoders
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
1079 ok = TruncateDecodedImage(image, PixelFormat_Grayscale16, false);
8b0ee8d5e6d0 Refactoring leading to speedups with custom image decoders
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
1080 break;
8b0ee8d5e6d0 Refactoring leading to speedups with custom image decoders
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
1081
8b0ee8d5e6d0 Refactoring leading to speedups with custom image decoders
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
1082 case ImageExtractionMode_Int16:
8b0ee8d5e6d0 Refactoring leading to speedups with custom image decoders
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
1083 ok = TruncateDecodedImage(image, PixelFormat_SignedGrayscale16, false);
8b0ee8d5e6d0 Refactoring leading to speedups with custom image decoders
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
1084 break;
8b0ee8d5e6d0 Refactoring leading to speedups with custom image decoders
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
1085
8b0ee8d5e6d0 Refactoring leading to speedups with custom image decoders
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
1086 case ImageExtractionMode_Preview:
8b0ee8d5e6d0 Refactoring leading to speedups with custom image decoders
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
1087 ok = PreviewDecodedImage(image);
8b0ee8d5e6d0 Refactoring leading to speedups with custom image decoders
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
1088 break;
8b0ee8d5e6d0 Refactoring leading to speedups with custom image decoders
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
1089
8b0ee8d5e6d0 Refactoring leading to speedups with custom image decoders
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
1090 default:
8b0ee8d5e6d0 Refactoring leading to speedups with custom image decoders
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
1091 throw OrthancException(ErrorCode_ParameterOutOfRange);
8b0ee8d5e6d0 Refactoring leading to speedups with custom image decoders
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
1092 }
8b0ee8d5e6d0 Refactoring leading to speedups with custom image decoders
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
1093
8b0ee8d5e6d0 Refactoring leading to speedups with custom image decoders
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
1094 if (ok)
8b0ee8d5e6d0 Refactoring leading to speedups with custom image decoders
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
1095 {
8b0ee8d5e6d0 Refactoring leading to speedups with custom image decoders
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
1096 assert(image.get() != NULL);
2281
e002430baa41 Fix issue #44 (Bad interpretation of photometric interpretation MONOCHROME1)
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2244
diff changeset
1097
e002430baa41 Fix issue #44 (Bad interpretation of photometric interpretation MONOCHROME1)
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2244
diff changeset
1098 if (invert)
e002430baa41 Fix issue #44 (Bad interpretation of photometric interpretation MONOCHROME1)
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2244
diff changeset
1099 {
4297
785a2713323e abi continued
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4278
diff changeset
1100 ImageProcessing::Invert(*image);
2281
e002430baa41 Fix issue #44 (Bad interpretation of photometric interpretation MONOCHROME1)
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2244
diff changeset
1101 }
1902
8b0ee8d5e6d0 Refactoring leading to speedups with custom image decoders
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
1102 }
8b0ee8d5e6d0 Refactoring leading to speedups with custom image decoders
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
1103 else
8b0ee8d5e6d0 Refactoring leading to speedups with custom image decoders
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
1104 {
8b0ee8d5e6d0 Refactoring leading to speedups with custom image decoders
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
1105 throw OrthancException(ErrorCode_NotImplemented);
8b0ee8d5e6d0 Refactoring leading to speedups with custom image decoders
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
1106 }
8b0ee8d5e6d0 Refactoring leading to speedups with custom image decoders
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
1107 }
8b0ee8d5e6d0 Refactoring leading to speedups with custom image decoders
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
1108
8b0ee8d5e6d0 Refactoring leading to speedups with custom image decoders
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
1109
2699
52217dc47a4e new image/pam MIME TYPE supported in /instances/../frames/../image-uint8... routes
am@osimis.io
parents: 2488
diff changeset
1110 void DicomImageDecoder::ExtractPamImage(std::string& result,
3712
2a170a8f1faf replacing std::auto_ptr by std::unique_ptr
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 3640
diff changeset
1111 std::unique_ptr<ImageAccessor>& image,
2699
52217dc47a4e new image/pam MIME TYPE supported in /instances/../frames/../image-uint8... routes
am@osimis.io
parents: 2488
diff changeset
1112 ImageExtractionMode mode,
52217dc47a4e new image/pam MIME TYPE supported in /instances/../frames/../image-uint8... routes
am@osimis.io
parents: 2488
diff changeset
1113 bool invert)
52217dc47a4e new image/pam MIME TYPE supported in /instances/../frames/../image-uint8... routes
am@osimis.io
parents: 2488
diff changeset
1114 {
52217dc47a4e new image/pam MIME TYPE supported in /instances/../frames/../image-uint8... routes
am@osimis.io
parents: 2488
diff changeset
1115 ApplyExtractionMode(image, mode, invert);
52217dc47a4e new image/pam MIME TYPE supported in /instances/../frames/../image-uint8... routes
am@osimis.io
parents: 2488
diff changeset
1116
52217dc47a4e new image/pam MIME TYPE supported in /instances/../frames/../image-uint8... routes
am@osimis.io
parents: 2488
diff changeset
1117 PamWriter writer;
4311
cb9aef006229 turning IImageWriter into a pure interface
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4297
diff changeset
1118 IImageWriter::WriteToMemory(writer, result, *image);
2699
52217dc47a4e new image/pam MIME TYPE supported in /instances/../frames/../image-uint8... routes
am@osimis.io
parents: 2488
diff changeset
1119 }
52217dc47a4e new image/pam MIME TYPE supported in /instances/../frames/../image-uint8... routes
am@osimis.io
parents: 2488
diff changeset
1120
2380
96b3ec054b69 reorganization in macros
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2281
diff changeset
1121 #if ORTHANC_ENABLE_PNG == 1
1902
8b0ee8d5e6d0 Refactoring leading to speedups with custom image decoders
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
1122 void DicomImageDecoder::ExtractPngImage(std::string& result,
3712
2a170a8f1faf replacing std::auto_ptr by std::unique_ptr
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 3640
diff changeset
1123 std::unique_ptr<ImageAccessor>& image,
2281
e002430baa41 Fix issue #44 (Bad interpretation of photometric interpretation MONOCHROME1)
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2244
diff changeset
1124 ImageExtractionMode mode,
e002430baa41 Fix issue #44 (Bad interpretation of photometric interpretation MONOCHROME1)
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2244
diff changeset
1125 bool invert)
1902
8b0ee8d5e6d0 Refactoring leading to speedups with custom image decoders
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
1126 {
2281
e002430baa41 Fix issue #44 (Bad interpretation of photometric interpretation MONOCHROME1)
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2244
diff changeset
1127 ApplyExtractionMode(image, mode, invert);
1902
8b0ee8d5e6d0 Refactoring leading to speedups with custom image decoders
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
1128
8b0ee8d5e6d0 Refactoring leading to speedups with custom image decoders
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
1129 PngWriter writer;
4311
cb9aef006229 turning IImageWriter into a pure interface
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4297
diff changeset
1130 IImageWriter::WriteToMemory(writer, result, *image);
1902
8b0ee8d5e6d0 Refactoring leading to speedups with custom image decoders
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
1131 }
2380
96b3ec054b69 reorganization in macros
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2281
diff changeset
1132 #endif
1902
8b0ee8d5e6d0 Refactoring leading to speedups with custom image decoders
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
1133
8b0ee8d5e6d0 Refactoring leading to speedups with custom image decoders
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
1134
2380
96b3ec054b69 reorganization in macros
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2281
diff changeset
1135 #if ORTHANC_ENABLE_JPEG == 1
1902
8b0ee8d5e6d0 Refactoring leading to speedups with custom image decoders
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
1136 void DicomImageDecoder::ExtractJpegImage(std::string& result,
3712
2a170a8f1faf replacing std::auto_ptr by std::unique_ptr
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 3640
diff changeset
1137 std::unique_ptr<ImageAccessor>& image,
1902
8b0ee8d5e6d0 Refactoring leading to speedups with custom image decoders
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
1138 ImageExtractionMode mode,
2281
e002430baa41 Fix issue #44 (Bad interpretation of photometric interpretation MONOCHROME1)
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2244
diff changeset
1139 bool invert,
1902
8b0ee8d5e6d0 Refactoring leading to speedups with custom image decoders
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
1140 uint8_t quality)
8b0ee8d5e6d0 Refactoring leading to speedups with custom image decoders
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
1141 {
8b0ee8d5e6d0 Refactoring leading to speedups with custom image decoders
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
1142 if (mode != ImageExtractionMode_UInt8 &&
8b0ee8d5e6d0 Refactoring leading to speedups with custom image decoders
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
1143 mode != ImageExtractionMode_Preview)
8b0ee8d5e6d0 Refactoring leading to speedups with custom image decoders
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
1144 {
8b0ee8d5e6d0 Refactoring leading to speedups with custom image decoders
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
1145 throw OrthancException(ErrorCode_ParameterOutOfRange);
8b0ee8d5e6d0 Refactoring leading to speedups with custom image decoders
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
1146 }
8b0ee8d5e6d0 Refactoring leading to speedups with custom image decoders
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
1147
2281
e002430baa41 Fix issue #44 (Bad interpretation of photometric interpretation MONOCHROME1)
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2244
diff changeset
1148 ApplyExtractionMode(image, mode, invert);
1902
8b0ee8d5e6d0 Refactoring leading to speedups with custom image decoders
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
1149
8b0ee8d5e6d0 Refactoring leading to speedups with custom image decoders
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
1150 JpegWriter writer;
8b0ee8d5e6d0 Refactoring leading to speedups with custom image decoders
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
1151 writer.SetQuality(quality);
4311
cb9aef006229 turning IImageWriter into a pure interface
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4297
diff changeset
1152 IImageWriter::WriteToMemory(writer, result, *image);
1902
8b0ee8d5e6d0 Refactoring leading to speedups with custom image decoders
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 1900
diff changeset
1153 }
2380
96b3ec054b69 reorganization in macros
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 2281
diff changeset
1154 #endif
4273
0034f855c023 tuning log categories from command-line, and binary compat with orthanc framework 1.7.2
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4203
diff changeset
1155
0034f855c023 tuning log categories from command-line, and binary compat with orthanc framework 1.7.2
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4203
diff changeset
1156
0034f855c023 tuning log categories from command-line, and binary compat with orthanc framework 1.7.2
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4203
diff changeset
1157 #if ORTHANC_BUILDING_FRAMEWORK_LIBRARY == 1
0034f855c023 tuning log categories from command-line, and binary compat with orthanc framework 1.7.2
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4203
diff changeset
1158 ImageAccessor *DicomImageDecoder::Decode(ParsedDicomFile& dataset,
0034f855c023 tuning log categories from command-line, and binary compat with orthanc framework 1.7.2
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4203
diff changeset
1159 unsigned int frame)
0034f855c023 tuning log categories from command-line, and binary compat with orthanc framework 1.7.2
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4203
diff changeset
1160 {
0034f855c023 tuning log categories from command-line, and binary compat with orthanc framework 1.7.2
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4203
diff changeset
1161 return Decode(*dataset.GetDcmtkObject().getDataset(), frame);
0034f855c023 tuning log categories from command-line, and binary compat with orthanc framework 1.7.2
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4203
diff changeset
1162 }
0034f855c023 tuning log categories from command-line, and binary compat with orthanc framework 1.7.2
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 4203
diff changeset
1163 #endif
845
48016722c770 refactoring
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
1164 }