annotate Plugin/ParsedDicomImage.cpp @ 85:581937911d14

merge
author Sebastien Jodogne <s.jodogne@gmail.com>
date Tue, 13 Oct 2015 17:51:49 +0200
parents abdde1dfb3eb
children 02ccb1677e91
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
0
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
1 /**
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
2 * Orthanc - A Lightweight, RESTful DICOM Store
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
3 * Copyright (C) 2012-2015 Sebastien Jodogne, Medical Physics
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
4 * Department, University Hospital of Liege, Belgium
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
5 *
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
6 * This program is free software: you can redistribute it and/or
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
7 * modify it under the terms of the GNU Affero General Public License
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
8 * as published by the Free Software Foundation, either version 3 of
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
9 * the License, or (at your option) any later version.
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
10 *
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
11 * This program is distributed in the hope that it will be useful, but
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
12 * WITHOUT ANY WARRANTY; without even the implied warranty of
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
13 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
14 * Affero General Public License for more details.
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
15 *
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
16 * You should have received a copy of the GNU Affero General Public License
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
17 * along with this program. If not, see <http://www.gnu.org/licenses/>.
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
18 **/
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
19
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
20
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
21 #include "ParsedDicomImage.h"
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
22
26
a6492d20b2a8 modularization
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 18
diff changeset
23 #include "../Orthanc/Core/OrthancException.h"
a6492d20b2a8 modularization
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 18
diff changeset
24 #include "../Orthanc/Core/Toolbox.h"
79
abdde1dfb3eb use sdk 0.9.4
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 31
diff changeset
25 #include "../Orthanc/Core/Images/ImageProcessing.h"
abdde1dfb3eb use sdk 0.9.4
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 31
diff changeset
26 #include "../Orthanc/Core/Images/ImageBuffer.h"
0
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
27 #include "ViewerToolbox.h"
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
28
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
29 #include <gdcmImageReader.h>
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
30 #include <gdcmImageChangePlanarConfiguration.h>
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
31 #include <gdcmImageChangePhotometricInterpretation.h>
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
32 #include <boost/lexical_cast.hpp>
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
33 #include <boost/math/special_functions/round.hpp>
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
34
26
a6492d20b2a8 modularization
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 18
diff changeset
35 #include "../Orthanc/Resources/ThirdParty/base64/base64.h"
0
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
36
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
37
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
38 namespace OrthancPlugins
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
39 {
31
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
40 class ParsedDicomImage::PImpl
0
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
41 {
31
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
42 private:
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
43 OrthancPluginContext* context_;
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
44 std::string instanceId_;
0
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
45 gdcm::ImageReader reader_;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
46 std::auto_ptr<gdcm::ImageChangePhotometricInterpretation> photometric_;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
47 std::auto_ptr<gdcm::ImageChangePlanarConfiguration> interleaved_;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
48 std::string decoded_;
79
abdde1dfb3eb use sdk 0.9.4
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 31
diff changeset
49 std::auto_ptr<ImageReader> png_;
31
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
50 bool isDecoded_;
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
51
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
52 bool DecodeUsingGdcm()
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
53 {
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
54 // Change photometric interpretation, if required
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
55 {
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
56 const gdcm::Image& image = GetImage();
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
57 if (image.GetPixelFormat().GetSamplesPerPixel() == 1)
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
58 {
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
59 if (image.GetPhotometricInterpretation() != gdcm::PhotometricInterpretation::MONOCHROME1 &&
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
60 image.GetPhotometricInterpretation() != gdcm::PhotometricInterpretation::MONOCHROME2)
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
61 {
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
62 photometric_.reset(new gdcm::ImageChangePhotometricInterpretation());
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
63 photometric_->SetInput(image);
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
64 photometric_->SetPhotometricInterpretation(gdcm::PhotometricInterpretation::MONOCHROME2);
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
65 if (!photometric_->Change() ||
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
66 GetImage().GetPhotometricInterpretation() != gdcm::PhotometricInterpretation::MONOCHROME2)
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
67 {
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
68 OrthancPluginLogWarning(context_, "GDCM cannot change the photometric interpretation");
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
69 return false;
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
70 }
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
71 }
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
72 }
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
73 else
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
74 {
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
75 if (image.GetPixelFormat().GetSamplesPerPixel() == 3 &&
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
76 image.GetPhotometricInterpretation() != gdcm::PhotometricInterpretation::RGB)
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
77 {
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
78 photometric_.reset(new gdcm::ImageChangePhotometricInterpretation());
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
79 photometric_->SetInput(image);
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
80 photometric_->SetPhotometricInterpretation(gdcm::PhotometricInterpretation::RGB);
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
81 if (!photometric_->Change() ||
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
82 GetImage().GetPhotometricInterpretation() != gdcm::PhotometricInterpretation::RGB)
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
83 {
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
84 OrthancPluginLogWarning(context_, "GDCM cannot change the photometric interpretation");
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
85 return false;
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
86 }
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
87 }
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
88 }
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
89 }
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
90
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
91 // Possibly convert planar configuration to interleaved
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
92 {
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
93 const gdcm::Image& image = GetImage();
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
94 if (image.GetPlanarConfiguration() != 0 &&
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
95 image.GetPixelFormat().GetSamplesPerPixel() != 1)
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
96 {
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
97 interleaved_.reset(new gdcm::ImageChangePlanarConfiguration());
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
98 interleaved_->SetInput(image);
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
99 if (!interleaved_->Change() ||
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
100 GetImage().GetPlanarConfiguration() != 0)
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
101 {
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
102 OrthancPluginLogWarning(context_, "GDCM cannot change the planar configuration to interleaved");
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
103 return false;
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
104 }
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
105 }
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
106 }
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
107
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
108 // Decode the image to the memory buffer
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
109 {
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
110 const gdcm::Image& image = GetImage();
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
111 decoded_.resize(image.GetBufferLength());
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
112
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
113 if (decoded_.size() > 0)
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
114 {
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
115 image.GetBuffer(&decoded_[0]);
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
116 }
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
117 }
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
118
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
119 return true;
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
120 }
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
121
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
122
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
123 bool DecodeUsingOrthanc()
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
124 {
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
125 /**
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
126 * This is a DICOM image that cannot be properly decoded by
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
127 * GDCM. Let's give a try with the Orthanc built-in decoder.
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
128 **/
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
129 std::string file = "/instances/" + instanceId_;
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
130
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
131 const gdcm::Image& image = GetImage();
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
132 if (image.GetPixelFormat().GetSamplesPerPixel() == 3 ||
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
133 image.GetPixelFormat().GetSamplesPerPixel() == 4)
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
134 {
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
135 file += "/preview";
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
136 }
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
137 else
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
138 {
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
139 file += "/image-uint16";
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
140 }
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
141
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
142 std::string png;
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
143 if (!GetStringFromOrthanc(png, context_, file))
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
144 {
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
145 return false;
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
146 }
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
147 else
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
148 {
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
149 try
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
150 {
79
abdde1dfb3eb use sdk 0.9.4
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 31
diff changeset
151 png_.reset(new ImageReader(context_, png, OrthancPluginImageFormat_Png));
31
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
152 return true;
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
153 }
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
154 catch (Orthanc::OrthancException&)
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
155 {
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
156 return false;
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
157 }
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
158 }
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
159 }
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
160
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
161
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
162 bool Decode()
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
163 {
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
164 if (isDecoded_)
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
165 {
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
166 return true;
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
167 }
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
168
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
169 if (DecodeUsingGdcm())
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
170 {
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
171 isDecoded_ = true;
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
172 return true;
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
173 }
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
174
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
175 // GDCM cannot decode this image, try and use Orthanc built-in functions
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
176 photometric_.reset();
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
177 interleaved_.reset();
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
178 decoded_.clear();
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
179
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
180 if (DecodeUsingOrthanc())
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
181 {
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
182 isDecoded_ = true;
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
183 return true;
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
184 }
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
185 else
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
186 {
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
187 return false;
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
188 }
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
189 }
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
190
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
191
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
192 public:
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
193 PImpl(OrthancPluginContext* context,
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
194 const std::string& instanceId) :
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
195 context_(context),
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
196 instanceId_(instanceId),
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
197 isDecoded_(false)
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
198 {
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
199 }
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
200
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
201
79
abdde1dfb3eb use sdk 0.9.4
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 31
diff changeset
202 OrthancPluginContext* GetContext()
abdde1dfb3eb use sdk 0.9.4
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 31
diff changeset
203 {
abdde1dfb3eb use sdk 0.9.4
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 31
diff changeset
204 return context_;
abdde1dfb3eb use sdk 0.9.4
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 31
diff changeset
205 }
abdde1dfb3eb use sdk 0.9.4
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 31
diff changeset
206
abdde1dfb3eb use sdk 0.9.4
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 31
diff changeset
207
31
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
208 const gdcm::DataSet& GetDataSet() const
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
209 {
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
210 return reader_.GetFile().GetDataSet();
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
211 }
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
212
0
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
213
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
214 const gdcm::Image& GetImage() const
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
215 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
216 if (interleaved_.get() != NULL)
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
217 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
218 return interleaved_->GetOutput();
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
219 }
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
220
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
221 if (photometric_.get() != NULL)
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
222 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
223 return photometric_->GetOutput();
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
224 }
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
225
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
226 return reader_.GetImage();
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
227 }
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
228
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
229
31
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
230 void Parse(const std::string& dicom)
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
231 {
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
232 // Prepare a memory stream over the DICOM instance
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
233 std::stringstream stream(dicom);
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
234
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
235 // Parse the DICOM instance using GDCM
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
236 reader_.SetStream(stream);
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
237 if (!reader_.Read())
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
238 {
79
abdde1dfb3eb use sdk 0.9.4
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 31
diff changeset
239 OrthancPluginLogError(context_, "GDCM cannot extract an image from this DICOM instance");
abdde1dfb3eb use sdk 0.9.4
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 31
diff changeset
240 throw Orthanc::OrthancException(Orthanc::ErrorCode_IncompatibleImageFormat);
31
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
241 }
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
242 }
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
243
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
244
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
245 bool GetAccessor(Orthanc::ImageAccessor& accessor)
0
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
246 {
31
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
247 if (!Decode())
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
248 {
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
249 return false;
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
250 }
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
251
79
abdde1dfb3eb use sdk 0.9.4
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 31
diff changeset
252 if (png_.get() != NULL)
31
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
253 {
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
254 // The image was decoded using Orthanc's built-in REST API
79
abdde1dfb3eb use sdk 0.9.4
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 31
diff changeset
255 accessor = png_->GetAccessor();
31
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
256 return true;
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
257 }
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
258
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
259 const gdcm::Image& image = GetImage();
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
260
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
261 size_t size = decoded_.size();
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
262 void* buffer = (size ? &decoded_[0] : NULL);
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
263 unsigned int height = image.GetRows();
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
264 unsigned int width = image.GetColumns();
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
265
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
266 if (image.GetPixelFormat().GetSamplesPerPixel() == 1 &&
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
267 (image.GetPhotometricInterpretation() == gdcm::PhotometricInterpretation::MONOCHROME1 ||
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
268 image.GetPhotometricInterpretation() == gdcm::PhotometricInterpretation::MONOCHROME2))
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
269 {
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
270 switch (image.GetPixelFormat())
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
271 {
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
272 case gdcm::PixelFormat::UINT16:
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
273 accessor.AssignWritable(Orthanc::PixelFormat_Grayscale16, width, height, 2 * width, buffer);
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
274 return true;
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
275
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
276 case gdcm::PixelFormat::INT16:
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
277 accessor.AssignWritable(Orthanc::PixelFormat_SignedGrayscale16, width, height, 2 * width, buffer);
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
278 return true;
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
279
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
280 case gdcm::PixelFormat::UINT8:
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
281 accessor.AssignWritable(Orthanc::PixelFormat_Grayscale8, width, height, width, buffer);
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
282 return true;
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
283
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
284 default:
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
285 return false;
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
286 }
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
287 }
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
288 else if (image.GetPixelFormat().GetSamplesPerPixel() == 3 &&
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
289 image.GetPhotometricInterpretation() == gdcm::PhotometricInterpretation::RGB)
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
290 {
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
291 switch (image.GetPixelFormat())
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
292 {
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
293 case gdcm::PixelFormat::UINT8:
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
294 accessor.AssignWritable(Orthanc::PixelFormat_RGB24, width, height, 3 * width, buffer);
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
295 return true;
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
296
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
297 default:
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
298 return false;
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
299 }
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
300 }
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
301
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
302 return false;
0
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
303 }
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
304 };
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
305
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
306
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
307 template <typename TargetType, typename SourceType>
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
308 static void ChangeDynamics(Orthanc::ImageAccessor& target,
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
309 const Orthanc::ImageAccessor& source,
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
310 SourceType source1, TargetType target1,
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
311 SourceType source2, TargetType target2)
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
312 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
313 if (source.GetWidth() != target.GetWidth() ||
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
314 source.GetHeight() != target.GetHeight())
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
315 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
316 throw Orthanc::OrthancException(Orthanc::ErrorCode_IncompatibleImageSize);
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
317 }
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
318
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
319 float scale = static_cast<float>(target2 - target1) / static_cast<float>(source2 - source1);
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
320 float offset = static_cast<float>(target1) - scale * static_cast<float>(source1);
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
321
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
322 const float minValue = static_cast<float>(std::numeric_limits<TargetType>::min());
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
323 const float maxValue = static_cast<float>(std::numeric_limits<TargetType>::max());
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
324
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
325 for (unsigned int y = 0; y < source.GetHeight(); y++)
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
326 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
327 const SourceType* p = reinterpret_cast<const SourceType*>(source.GetConstRow(y));
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
328 TargetType* q = reinterpret_cast<TargetType*>(target.GetRow(y));
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
329
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
330 for (unsigned int x = 0; x < source.GetWidth(); x++, p++, q++)
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
331 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
332 float v = (scale * static_cast<float>(*p)) + offset;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
333
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
334 if (v > maxValue)
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
335 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
336 *q = std::numeric_limits<TargetType>::max();
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
337 }
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
338 else if (v < minValue)
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
339 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
340 *q = std::numeric_limits<TargetType>::min();
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
341 }
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
342 else
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
343 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
344 *q = static_cast<TargetType>(boost::math::iround(v));
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
345 }
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
346 }
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
347 }
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
348 }
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
349
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
350
31
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
351 ParsedDicomImage::ParsedDicomImage(OrthancPluginContext* context,
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
352 const std::string& instanceId) :
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
353 pimpl_(new PImpl(context, instanceId))
0
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
354 {
31
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
355 std::string file = "/instances/" + instanceId + "/file";
0
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
356
31
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
357 std::string dicom;
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
358 if (!GetStringFromOrthanc(dicom, context, file))
0
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
359 {
31
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
360 throw Orthanc::OrthancException(Orthanc::ErrorCode_UnknownResource);
0
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
361 }
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
362
31
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
363 pimpl_->Parse(dicom);
0
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
364 }
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
365
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
366
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
367 bool ParsedDicomImage::GetTag(std::string& result,
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
368 uint16_t group,
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
369 uint16_t element,
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
370 bool stripSpaces)
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
371 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
372 const gdcm::Tag tag(group, element);
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
373
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
374 if (pimpl_->GetDataSet().FindDataElement(tag))
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
375 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
376 const gdcm::ByteValue* value = pimpl_->GetDataSet().GetDataElement(tag).GetByteValue();
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
377 if (value)
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
378 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
379 result = std::string(value->GetPointer(), value->GetLength());
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
380
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
381 if (stripSpaces)
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
382 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
383 result = Orthanc::Toolbox::StripSpaces(result);
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
384 }
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
385
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
386 return true;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
387 }
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
388 }
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
389
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
390 return false;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
391 }
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
392
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
393
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
394 bool ParsedDicomImage::GetCornerstoneMetadata(Json::Value& json)
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
395 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
396 using namespace Orthanc;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
397
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
398 ImageAccessor accessor;
31
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
399 if (!pimpl_->GetAccessor(accessor))
0
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
400 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
401 return false;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
402 }
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
403
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
404 float windowCenter, windowWidth;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
405
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
406 switch (accessor.GetFormat())
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
407 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
408 case PixelFormat_Grayscale8:
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
409 case PixelFormat_Grayscale16:
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
410 case PixelFormat_SignedGrayscale16:
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
411 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
412 int64_t a, b;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
413 Orthanc::ImageProcessing::GetMinMaxValue(a, b, accessor);
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
414 json["minPixelValue"] = (a < 0 ? static_cast<int32_t>(a) : 0);
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
415 json["maxPixelValue"] = (b > 0 ? static_cast<int32_t>(b) : 1);
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
416 json["color"] = false;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
417
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
418 windowCenter = static_cast<float>(a + b) / 2.0f;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
419
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
420 if (a == b)
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
421 {
1
828c61fc8253 default window width set to 256
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 0
diff changeset
422 windowWidth = 256.0f; // Arbitrary value
0
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
423 }
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
424 else
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
425 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
426 windowWidth = static_cast<float>(b - a) / 2.0f;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
427 }
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
428
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
429 break;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
430 }
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
431
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
432 case PixelFormat_RGB24:
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
433 json["minPixelValue"] = 0;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
434 json["maxPixelValue"] = 255;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
435 json["color"] = true;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
436 windowCenter = 127.5f;
1
828c61fc8253 default window width set to 256
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 0
diff changeset
437 windowWidth = 256.0f;
0
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
438 break;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
439
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
440 default:
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
441 return false;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
442 }
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
443
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
444 const gdcm::Image& image = pimpl_->GetImage();
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
445 json["slope"] = image.GetSlope();
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
446 json["intercept"] = image.GetIntercept();
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
447 json["rows"] = image.GetRows();
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
448 json["columns"] = image.GetColumns();
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
449 json["height"] = image.GetRows();
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
450 json["width"] = image.GetColumns();
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
451 json["columnPixelSpacing"] = image.GetSpacing(1);
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
452 json["rowPixelSpacing"] = image.GetSpacing(0);
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
453
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
454 json["windowCenter"] = windowCenter * image.GetSlope() + image.GetIntercept();
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
455 json["windowWidth"] = windowWidth * image.GetSlope();
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
456
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
457 try
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
458 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
459 std::string width, center;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
460 if (GetTag(center, 0x0028, 0x1050 /*DICOM_TAG_WINDOW_CENTER*/) &&
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
461 GetTag(width, 0x0028, 0x1051 /*DICOM_TAG_WINDOW_WIDTH*/))
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
462 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
463 float a = boost::lexical_cast<float>(width);
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
464 float b = boost::lexical_cast<float>(center);
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
465 json["windowWidth"] = a;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
466 json["windowCenter"] = b;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
467 }
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
468 }
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
469 catch (boost::bad_lexical_cast&)
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
470 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
471 }
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
472
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
473 return true;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
474 }
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
475
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
476
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
477 bool ParsedDicomImage::EncodeUsingDeflate(Json::Value& result,
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
478 uint8_t compressionLevel /* between 0 and 9 */)
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
479 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
480 using namespace Orthanc;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
481
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
482 ImageAccessor accessor;
31
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
483 if (!pimpl_->GetAccessor(accessor))
0
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
484 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
485 return false;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
486 }
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
487
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
488 result = Json::objectValue;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
489 result["Orthanc"] = Json::objectValue;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
490 if (!GetCornerstoneMetadata(result))
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
491 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
492 return false;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
493 }
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
494
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
495 ImageBuffer buffer;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
496 buffer.SetMinimalPitchForced(true);
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
497
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
498 ImageAccessor converted;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
499
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
500
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
501 switch (accessor.GetFormat())
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
502 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
503 case Orthanc::PixelFormat_RGB24:
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
504 converted = accessor;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
505 break;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
506
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
507 case Orthanc::PixelFormat_Grayscale8:
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
508 case Orthanc::PixelFormat_Grayscale16:
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
509 buffer.SetFormat(Orthanc::PixelFormat_SignedGrayscale16);
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
510 buffer.SetWidth(accessor.GetWidth());
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
511 buffer.SetHeight(accessor.GetHeight());
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
512 converted = buffer.GetAccessor();
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
513 ImageProcessing::Convert(converted, accessor);
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
514 break;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
515
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
516 case Orthanc::PixelFormat_SignedGrayscale16:
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
517 converted = accessor;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
518 break;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
519
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
520 default:
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
521 // Unsupported pixel format
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
522 return false;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
523 }
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
524
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
525 // Sanity check: The pitch must be minimal
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
526 assert(converted.GetSize() == converted.GetWidth() * converted.GetHeight() *
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
527 GetBytesPerPixel(converted.GetFormat()));
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
528 result["Orthanc"]["Compression"] = "Deflate";
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
529 result["sizeInBytes"] = converted.GetSize();
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
530
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
531 std::string z;
79
abdde1dfb3eb use sdk 0.9.4
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 31
diff changeset
532 CompressUsingDeflate(z, pimpl_->GetContext(), converted.GetConstBuffer(), converted.GetSize());
0
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
533
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
534 result["Orthanc"]["PixelData"] = base64_encode(z);
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
535
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
536 return true;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
537 }
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
538
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
539
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
540
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
541 bool ParsedDicomImage::EncodeUsingJpeg(Json::Value& result,
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
542 uint8_t quality /* between 0 and 100 */)
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
543 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
544 using namespace Orthanc;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
545
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
546 ImageAccessor accessor;
31
111689a2c177 fix issue 29
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 26
diff changeset
547 if (!pimpl_->GetAccessor(accessor))
0
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
548 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
549 return false;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
550 }
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
551
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
552 result = Json::objectValue;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
553 result["Orthanc"] = Json::objectValue;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
554 GetCornerstoneMetadata(result);
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
555
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
556 ImageBuffer buffer;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
557 buffer.SetMinimalPitchForced(true);
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
558
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
559 ImageAccessor converted;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
560
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
561 if (accessor.GetFormat() == Orthanc::PixelFormat_Grayscale8 ||
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
562 accessor.GetFormat() == Orthanc::PixelFormat_RGB24)
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
563 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
564 result["Orthanc"]["Stretched"] = false;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
565 converted = accessor;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
566 }
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
567 else if (accessor.GetFormat() == Orthanc::PixelFormat_Grayscale16 ||
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
568 accessor.GetFormat() == Orthanc::PixelFormat_SignedGrayscale16)
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
569 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
570 result["Orthanc"]["Stretched"] = true;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
571 buffer.SetFormat(Orthanc::PixelFormat_Grayscale8);
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
572 buffer.SetWidth(accessor.GetWidth());
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
573 buffer.SetHeight(accessor.GetHeight());
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
574 converted = buffer.GetAccessor();
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
575
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
576 int64_t a, b;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
577 Orthanc::ImageProcessing::GetMinMaxValue(a, b, accessor);
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
578 result["Orthanc"]["StretchLow"] = static_cast<int32_t>(a);
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
579 result["Orthanc"]["StretchHigh"] = static_cast<int32_t>(b);
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
580
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
581 if (accessor.GetFormat() == Orthanc::PixelFormat_Grayscale16)
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
582 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
583 ChangeDynamics<uint8_t, uint16_t>(converted, accessor, a, 0, b, 255);
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
584 }
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
585 else
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
586 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
587 ChangeDynamics<uint8_t, int16_t>(converted, accessor, a, 0, b, 255);
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
588 }
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
589 }
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
590 else
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
591 {
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
592 return false;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
593 }
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
594
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
595 result["Orthanc"]["Compression"] = "Jpeg";
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
596 result["sizeInBytes"] = converted.GetSize();
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
597
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
598 std::string jpeg;
79
abdde1dfb3eb use sdk 0.9.4
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 31
diff changeset
599 WriteJpegToMemory(jpeg, pimpl_->GetContext(), converted, quality);
abdde1dfb3eb use sdk 0.9.4
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 31
diff changeset
600
0
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
601 result["Orthanc"]["PixelData"] = base64_encode(jpeg);
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
602 return true;
02f7a0400a91 initial commit
Sebastien Jodogne <s.jodogne@gmail.com>
parents:
diff changeset
603 }
26
a6492d20b2a8 modularization
Sebastien Jodogne <s.jodogne@gmail.com>
parents: 18
diff changeset
604 }